Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 142 of 145
Found at i:47149361 original size:102 final size:98
Alignment explanation
Indices: 47149222--47149418 Score: 270
Period size: 98 Copynumber: 2.0 Consensus size: 98
47149212 AAATGTGAAG
* * * *
47149222 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTTGTGGTTGCTAAGTGCTGATCCCACCGTAT-TT
1 GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGG-T--T--GTGCTGATCCCACCATATCTT
*
47149286 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCTAA
61 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAA
* * *
47149324 GGGGTTACTATGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATTCCACCATATCTTTGAAT
1 GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAAT
47149389 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
47149419 GAATCACTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
97 16 0.19
98 35 0.41
99 1 0.01
101 1 0.01
102 33 0.38
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (98 bp):
GGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGTGCTGATCCCACCATATCTTTAAAT
GTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAA
Found at i:47149708 original size:23 final size:23
Alignment explanation
Indices: 47149677--47149729 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
47149667 GTGGAAAATG
*
47149677 AATTAGAGGTTGAATAATATATGA
1 AATT-GAGGTTGAATAATACATGA
47149701 AATTGAGGTTGAATAATACATGA
1 AATTGAGGTTGAATAATACATGA
47149724 AATTGA
1 AATTGA
47149730 AGCTGAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (23 bp):
AATTGAGGTTGAATAATACATGA
Found at i:47149736 original size:23 final size:23
Alignment explanation
Indices: 47149687--47149737 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
47149677 AATTAGAGGT
* * *
47149687 TGAATAATATATGAAATTGAGGT
1 TGAATAATACATGAAATTGAAGC
47149710 TGAATAATACATGAAATTGAAGC
1 TGAATAATACATGAAATTGAAGC
47149733 TGAAT
1 TGAAT
47149738 GAGTCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (23 bp):
TGAATAATACATGAAATTGAAGC
Found at i:47150728 original size:18 final size:18
Alignment explanation
Indices: 47150705--47150743 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47150695 TACAATTGAG
* *
47150705 AATGAAAATAACACAATT
1 AATGAAAATAAAAAAATT
*
47150723 AATGAATATAAAAAAATT
1 AATGAAAATAAAAAAATT
47150741 AAT
1 AAT
47150744 ATACTATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATGAAAATAAAAAAATT
Found at i:47154105 original size:22 final size:24
Alignment explanation
Indices: 47154080--47154136 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
47154070 TGTTCTCAAT
47154080 TAATTTATATATT-TAATATCA-G
1 TAATTTATATATTATAATATCACG
* *
47154102 TAATTT-TTTATTATAATATTACG
1 TAATTTATATATTATAATATCACG
47154125 TAATTATATATA
1 TAATT-TATATA
47154137 ATTTGAAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 6 0.21
24 1 0.04
25 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATTTATATATTATAATATCACG
Found at i:47156883 original size:21 final size:21
Alignment explanation
Indices: 47156857--47156898 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47156847 CCCATCCTAA
*
47156857 CAACACCTCTAATATTTTTGT
1 CAACACCTCTAATATTATTGT
47156878 CAACACCTCTAATATTATTGT
1 CAACACCTCTAATATTATTGT
47156899 TTTGTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (21 bp):
CAACACCTCTAATATTATTGT
Found at i:47164089 original size:20 final size:18
Alignment explanation
Indices: 47164041--47164089 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 18
47164031 CATAACTCAA
47164041 TCCATAATTTCATTCCATT
1 TCCAT-ATTTCATTCCATT
47164060 TCACATATTTCACTTCCATT
1 TC-CATATTTCA-TTCCATT
47164080 TCCATCATTT
1 TCCAT-ATTT
47164090 ACCATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (18 bp):
TCCATATTTCATTCCATT
Found at i:47167213 original size:11 final size:11
Alignment explanation
Indices: 47167197--47167223 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47167187 CAATTAGGAT
47167197 ATACAGAACAA
1 ATACAGAACAA
47167208 ATACAGAACAA
1 ATACAGAACAA
47167219 ATACA
1 ATACA
47167224 AAGGATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.11
Consensus pattern (11 bp):
ATACAGAACAA
Found at i:47176683 original size:22 final size:22
Alignment explanation
Indices: 47176658--47176703 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47176648 AACTATCAAT
47176658 AGCTCCTCCCAACATTTAAATA
1 AGCTCCTCCCAACATTTAAATA
47176680 AGCTCCTCCCAACATTTAAATA
1 AGCTCCTCCCAACATTTAAATA
47176702 AG
1 AG
47176704 AGGATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (22 bp):
AGCTCCTCCCAACATTTAAATA
Found at i:47181188 original size:24 final size:26
Alignment explanation
Indices: 47181135--47181182 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47181125 CAATTGAAAT
*
47181135 AAAAATAAATAAAAAGGTAAATTAAG
1 AAAAATAAATAAAAAGCTAAATTAAG
*
47181161 AAAAATAAA-AAAAA-CTTAATTA
1 AAAAATAAATAAAAAGCTAAATTA
47181183 CAAAAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 5 0.25
26 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (26 bp):
AAAAATAAATAAAAAGCTAAATTAAG
Found at i:47181581 original size:59 final size:59
Alignment explanation
Indices: 47181490--47181628 Score: 239
Period size: 59 Copynumber: 2.4 Consensus size: 59
47181480 ATTACAAAAT
47181490 CATAT-AT-TCTAAGATTGCAT-TATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
* *
47181546 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGTATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
47181605 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
47181629 CCTCAAAAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
56 5 0.06
57 2 0.03
58 13 0.17
59 58 0.74
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTATATATCATATCTAAGATTG
Found at i:47181623 original size:19 final size:19
Alignment explanation
Indices: 47181497--47181629 Score: 203
Period size: 19 Copynumber: 6.8 Consensus size: 19
47181487 AATCATATAT
47181497 TCTAAGATTGCATTATCATA
1 TCTAAGATTGCA-TATCATA
**
47181517 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
47181536 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
47181555 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
47181576 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
47181595 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
47181614 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47181630 CTCAAAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 75 0.73
20 10 0.10
21 18 0.17
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47181938 original size:43 final size:44
Alignment explanation
Indices: 47181833--47182027 Score: 112
Period size: 44 Copynumber: 4.4 Consensus size: 44
47181823 TGAGCTAGTG
47181833 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAGACTTACAAT
1 CTTCAATCTATTCCACTGCAAC-GCAGGGAGATAAGACTTACAAT
* * * * *
47181878 CTTCAACCTATTACACTGCTGAC-CAGGGAGATAGGA-TTACTGA-
1 CTTCAATCTATTCCACTGC-AACGCAGGGAGATAAGACTTAC-AAT
* * * * * * *
47181921 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAA-AATCCACCAT
1 CTTCAATCTATTCCACTGCAA-CGCAGGGAGATAAGACT-TACAAT
* * * ** ** *
47181966 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA-TCTAAAAT
1 CTTCAATCTATTCCACTGCAACGCAGGGAGATAAGACT-TACAAT
*
47182010 CTTCAATATATTCCACTG
1 CTTCAATCTATTCCACTG
47182028 TTGTCCAGGG
Statistics
Matches: 111, Mismatches: 31, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
42 1 0.01
43 21 0.19
44 53 0.48
45 34 0.31
46 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
CTTCAATCTATTCCACTGCAACGCAGGGAGATAAGACTTACAAT
Found at i:47182099 original size:132 final size:132
Alignment explanation
Indices: 47181858--47182529 Score: 1073
Period size: 132 Copynumber: 5.1 Consensus size: 132
47181848 CTGCAACTGC
* * * * * * *
47181858 AGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGG
* * * *
47181921 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
47181986 GCTT
129 GCTT
* *
47181990 AGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * * *
47182055 TTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGTCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
47182120 TT
131 TT
** *
47182122 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTGTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
47182187 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
47182252 TT
131 TT
*
47182254 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA-T-CTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
47182317 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
47182382 TT
131 TT
*
47182384 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
47182449 TCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCTACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
47182514 TT
131 TT
47182516 AGGGAGATAAGATC
1 AGGGAGATAAGATC
47182530 GGTTTTAACC
Statistics
Matches: 505, Mismatches: 31, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
130 127 0.25
131 2 0.00
132 371 0.73
133 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:47182151 original size:44 final size:44
Alignment explanation
Indices: 47182096--47182420 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 44
47182086 AAAATCCGTC
*
47182096 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** *
47182140 ATCTTCAATCTATTCCACTGTTG-TGTAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCT-TAGGGAGA-TAAG-ATCTGA-A
* * * ** * * * **
47182183 AGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* *
47182228 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** **
47182272 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAATCTG--
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGAA
* * * ** * * * **
47182314 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* *
47182358 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
*
47182402 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
47182421 GTTGTCCAGG
Statistics
Matches: 199, Mismatches: 60, Indels: 44
0.66 0.20 0.15
Matches are distributed among these distances:
40 1 0.01
41 15 0.08
42 14 0.07
43 25 0.13
44 110 0.55
45 32 0.16
46 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:47182434 original size:262 final size:263
Alignment explanation
Indices: 47181858--47182529 Score: 1064
Period size: 262 Copynumber: 2.6 Consensus size: 263
47181848 CTGCAACTGC
* * * * * *
47181858 AGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTG-
* * * *
47181921 CTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
63 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
*
47181986 GCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGTCCAGGGAAGTAGAATTACT
128 GCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACT
* * *
47182051 GGCTTTAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGTCATCTTCGATCTACTCCACTA
193 GGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTA
47182116 CTGCTT
258 CTGCTT
**
47182122 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTGTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACT-GCT
47182187 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
65 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
* *
47182252 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA-T-CTGG
130 TTAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACTGG
* *
47182315 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
195 CTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACT
47182380 GCTT
260 GCTT
*
47182384 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACT-GCT
* *
47182449 TCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCTACTACTGC
65 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
47182514 TTAGGGAGATAAGATC
130 TTAGGGAGATAAGATC
47182530 GGTTTTAACC
Statistics
Matches: 379, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
262 208 0.55
263 1 0.00
264 164 0.43
265 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (263 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGCTT
CAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTAAAATCTTCAATATATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
TTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
CTT
Found at i:47182590 original size:44 final size:44
Alignment explanation
Indices: 47182542--47182828 Score: 220
Period size: 44 Copynumber: 6.7 Consensus size: 44
47182532 TTTTAACCCA
*
47182542 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * ** *
47182586 CTCCACTGCAACTTCAGAGAGATAAGA-T-TCGCCATCTTGGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* * *
47182631 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTGC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATTGGCTTTAATCTG
** * * *
47182675 CTCCACTGCAACTTCAGGGAGATAAGACCA---GATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
** * * *
47182716 CT-CTTTGCAACTTCAGAGAGATAAG---ATCGGCTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * *
47182756 CTCCACTGCAACTTCAAGGAGATAGGATCATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
*
47182800 CTCCACTGCAACTTTAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
47182829 TGCCATCTTC
Statistics
Matches: 187, Mismatches: 38, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
37 1 0.01
40 30 0.16
41 25 0.13
42 3 0.02
43 2 0.01
44 93 0.50
45 30 0.16
47 1 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:47182657 original size:262 final size:262
Alignment explanation
Indices: 47181833--47182657 Score: 927
Period size: 262 Copynumber: 3.1 Consensus size: 262
47181823 TGAGCTAGTG
* * * * * * * *
47181833 CTTCAATCTATTCCACTGCAACTGCAGGGAGATAAGA-CTTACAATCTTCAACCTATTACACTGC
1 CTTCGATCTACTCCACTACAACT-TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGT
* * * * *
47181897 TGACCAGGG-AGATAGGATTACTGACTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATCC
64 TGTCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCC
* * * *
47181961 ACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATATATTCCAC
128 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--AGATCTTCAATCTATTCCAC
** * *
47182026 TGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCACA-AGGAGGTAAAA
191 TGTACTCCAGGGAAGTAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGA-GAGGTAAAA
*
47182090 TCCGTCAT
255 TCCGCCAT
**
47182098 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
** *
47182163 TGTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
*
47182228 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGT
131 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--AGATCTTCAATCTATTCCACTG-
* * * *
47182293 TGC-CCAGGGAAGTA-GA--ATCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
193 TACTCCAGGGAAGTAGGATTAT-TGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATC
47182354 CGCCAT
257 CGCCAT
* **
47182360 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
* *
47182425 TCCAGGGAAGTAGAATTACTGGTTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCC
66 TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
* * * * * * *
47182490 ATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATC-GGT-TTTAACCCACTCCACTGCAA
131 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCAGATCTTCAATCTATTCCACTG-TA
* * * * ** * * *
47182553 CTTCAGGG-AGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCG
195 CTCCAGGGAAG-TAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCG
47182617 CCAT
259 CCAT
* * *
47182621 CTTGGGTCTAC-CTCACTGCAACTTCA-GGAGGATAAGA
1 CTTCGATCTACTC-CACTACAACTT-AGGGA-GATAAGA
47182658 CTTGTTTGCT
Statistics
Matches: 483, Mismatches: 64, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
258 16 0.03
259 8 0.02
260 3 0.01
261 57 0.12
262 216 0.45
263 1 0.00
264 158 0.33
265 24 0.05
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (262 bp):
CTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCAGATCTTCAATCTATTCCACTGTAC
TCCAGGGAAGTAGGATTATTGGCTTTAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCGCC
AT
Found at i:47185525 original size:26 final size:25
Alignment explanation
Indices: 47185469--47185516 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
47185459 GAAGAAAATC
47185469 CAAAAGAATGAAAGAACAATTATTT
1 CAAAAGAATGAAAGAACAATTATTT
47185494 CAAAAAGAATGAAA-AA-AATTATT
1 C-AAAAGAATGAAAGAACAATTATT
47185517 GGCTCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.23
Consensus pattern (25 bp):
CAAAAGAATGAAAGAACAATTATTT
Found at i:47190026 original size:19 final size:19
Alignment explanation
Indices: 47190002--47190114 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
47189992 AATCATATAT
47190002 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
47190021 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
47190040 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
47190061 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
47190080 TCTAGGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
47190099 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
47190115 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 64 0.77
21 19 0.23
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47190069 original size:59 final size:59
Alignment explanation
Indices: 47190002--47190113 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
47189992 AATCATATAT
*
47190002 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
* *
47190061 TCTAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTGTATAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATAT
47190114 CCTCAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (59 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:47193987 original size:19 final size:19
Alignment explanation
Indices: 47193963--47194000 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47193953 GATTTATGGT
47193963 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
47193982 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
47194001 TGAAAACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
GTTGACACCATTTTTTGGA
Found at i:47194702 original size:52 final size:52
Alignment explanation
Indices: 47194641--47194744 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
47194631 AAAAGGGACC
47194641 AATCAATGACATACAAAGTGACAAGTACATAGGCAAATAAAATTGAATCATT
1 AATCAATGACATACAAAGTGACAAGTACATAGGCAAATAAAATTGAATCATT
47194693 AATCAATGACATACAAAGTGACAAGTACATAGGCAAATAAAATTGAATCATT
1 AATCAATGACATACAAAGTGACAAGTACATAGGCAAATAAAATTGAATCATT
47194745 CTTTCTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (52 bp):
AATCAATGACATACAAAGTGACAAGTACATAGGCAAATAAAATTGAATCATT
Found at i:47195027 original size:2 final size:2
Alignment explanation
Indices: 47195020--47195094 Score: 77
Period size: 2 Copynumber: 38.5 Consensus size: 2
47195010 TGTATGCATG
** *
47195020 TA TA TA TA TA TA TA TA TA TA TA -A GG TA TA TA AA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47195060 TA -A GTA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
47195095 GACAAAATGT
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
1 4 0.06
2 56 0.90
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:47195225 original size:3 final size:3
Alignment explanation
Indices: 47195162--47195213 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
47195152 TAAGTAAATC
* * *
47195162 ATA ACA ATA ATA ATA ATA ACA ATA ATA ATGA A-A CTA ACTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA
47195208 ATA ATA
1 ATA ATA
47195214 TGATTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.85
4 5 0.12
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:47195300 original size:23 final size:23
Alignment explanation
Indices: 47195248--47195300 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
47195238 AAATAAACAA
*
47195248 AATATAATAACAAGAATAATATG
1 AATATAATAACAAGAATAATAAG
* * *
47195271 AAGATAATAGC-ATAATAATAAAG
1 AATATAATAACAAGAATAAT-AAG
47195294 AATATAA
1 AATATAA
47195301 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (23 bp):
AATATAATAACAAGAATAATAAG
Found at i:47196940 original size:127 final size:127
Alignment explanation
Indices: 47196702--47197053 Score: 375
Period size: 127 Copynumber: 2.7 Consensus size: 127
47196692 GTAACTTCAG
* * * *
47196702 GGAGATAAGACTGGATGCGATCTGCTCTACTAATT-CTTAGAGATATAAGATCTACAATCTTCAA
1 GGAGATAAAACTCGATGCGATCTGCTCCACT-ATTGCTTAGAGAGATAAGATCTACAATCTTCAA
* * ** ***
47196766 CCTACTCCACTGTTGCTCAGGGAGATAGGATTAGTTTCTTTTGTCTGCTCCACTACTGCTTAA
65 CCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAA
*
47196829 GGAGATAAAACTTGATGCGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAAC
1 GGAGATAAAACTCGATGCGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAAC
* * *
47196894 CTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTTA
66 CTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAA
* * * * * * * *
47196956 GAAGATAAGATTCTCCGTCTCCGATCTACTCCACTACTGCTTAG-GAAGATAGGATCTACCATCT
1 GGAGATAA-A-ACT-CG-ATGCGATCTGCTCCACTATTGCTTAGAG-AGATAAGATCTACAATCT
** * * * *
47197020 TTGACTTGCTCCACTACTGCTTAGGGAGATAGGA
61 TCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
47197054 TCTACCATCT
Statistics
Matches: 190, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
126 3 0.02
127 116 0.61
128 1 0.01
129 2 0.01
130 2 0.01
131 66 0.35
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (127 bp):
GGAGATAAAACTCGATGCGATCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAAC
CTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAA
Found at i:47196962 original size:87 final size:87
Alignment explanation
Indices: 47196848--47197443 Score: 609
Period size: 87 Copynumber: 6.8 Consensus size: 87
47196838 ACTTGATGCG
* * * * * * * *
47196848 ATCTGCTCCACTATTGCTTA-GAGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
1 ATCTGCTTCACTACTGCTTAGGA-AGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTA
47196912 GGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGTGGCTTAA
* * *
47196935 ATCTGCTTCACTACTGCTTTA-GAAGATAAGATTCT-CCGTCTCCGATCTACTCCACTACTGCTT
1 ATCTGCTTCACTACTGC-TTAGGAAGATAAGA-TCTACCATCTTCGATCTGCTCCACTACTGCTT
* ***** **
47196998 AGGAAGATAGGATCTACCATCTTTG
64 AGGGAGATAGGA-CTGGTGGCTTAA
* * * *
47197023 A-CTTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTA
1 ATC-TGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTA
47197087 GGGAGA-ATGGACTGGTGGCTTAA
65 GGGAGATA-GGACTGGTGGCTTAA
* * * *
47197110 ATCTACTTTACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGATCTGCTCCACTACTGCTTA
* ***** **
47197174 GGGCGATAGGATCTACCATCTTTG
65 GGGAGATAGGA-CTGGTGGCTTAA
* * * * * *
47197198 ACCTGCTCCACTACTGCTTAGGGAGATAATATTTACCATCTTCGACCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAG
47197263 GGAGA-ATGGACTGGTGGCTTAA
66 GGAGATA-GGACTGGTGGCTTAA
* * *
47197285 ATCTACTTTACTACTGCTTAGGAAGATAAGAT-T-CGTCATCTTCGATCTACTCCACTACTGCTT
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTAC--CATCTTCGATCTGCTCCACTACTGCTT
47197348 AGGGAGATAGGACTGGTGGCTTAA
64 AGGGAGATAGGACTGGTGGCTTAA
*
47197372 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGATCTGCTCCACTACTGCTTA
47197436 GGGAGATA
65 GGGAGATA
47197444 AGATTTACCA
Statistics
Matches: 414, Mismatches: 77, Indels: 36
0.79 0.15 0.07
Matches are distributed among these distances:
85 1 0.00
86 2 0.00
87 272 0.66
88 137 0.33
89 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGACTGGTGGCTTAA
Found at i:47197032 original size:44 final size:45
Alignment explanation
Indices: 47196849--47197530 Score: 423
Period size: 44 Copynumber: 15.6 Consensus size: 45
47196839 CTTGATGCGA
* * * * *
47196849 TCTGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
* * * ***** * *
47196894 -CTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTT-AAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
* * * * *
47196936 TCTGCTTCACTACTGCTTTA-GAAGATAAGATTCT-CCGTCTCCGA-
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGA-TCTACCATCTTCGAC
* * *
47196980 TCTACTCCACTACTGCTTAGGAAGATAGGATCTACCATCTTTGAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
47197025 T-TGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
***** * *
47197069 -CTGCTCCACTACTGCTTAGGGAGA-ATGGA-CTGGTGGCTT-AAA
1 TCTGCTCCACTACTGCTTAGGGAGATA-GGATCTACCATCTTCGAC
* ** * * * *
47197111 TCTACTTTACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA-
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGAC
* *
47197155 TCTGCTCCACTACTGCTTAGGGCGATAGGATCTACCATCTTTGAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
** *
47197200 -CTGCTCCACTACTGCTTAGGGAGATAATATTTACCATCTTCGAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
***** * *
47197244 -CTGCTCCACTACTGCTTAGGGAGA-ATGGA-CTGGTGGCTT-AAA
1 TCTGCTCCACTACTGCTTAGGGAGATA-GGATCTACCATCTTCGAC
* ** * *
47197286 TCTACTTTACTACTGCTTAGGAAGATAAGAT-T-CGTCATCTTCGA-
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAC--CATCTTCGAC
* ***** * *
47197330 TCTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTT-AAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
* * * *
47197373 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGA-
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGAC
* *
47197417 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTACCATCTTCGAC
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
****
47197462 -CTGCTCCACTACTGCTTAGGGAGATAGGAT-TGGTTTCTTCTG--
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC-GAC
*
47197504 TCTGCTCCACTACTGTTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
47197531 AGACTTGGTG
Statistics
Matches: 494, Mismatches: 109, Indels: 70
0.73 0.16 0.10
Matches are distributed among these distances:
42 5 0.01
43 149 0.30
44 331 0.67
45 9 0.02
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
Found at i:47197101 original size:175 final size:175
Alignment explanation
Indices: 47196851--47197441 Score: 825
Period size: 175 Copynumber: 3.4 Consensus size: 175
47196841 TGATGCGATC
* * * * * * *
47196851 TGCTCCACTATTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
* * *
47196916 G-ATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTTA-GAAGATAAGATTCTCCGTCTCCG
66 GAAT-GGACTGGTGGCTTAAATCTACTTTACTACTGC-TTAGGAAGATAAGATTCTCCGTCTTCG
*
47196979 ATCTACTCCACTACTGCTTAGGAAGATAGGATCTACCATCTTTGACT
129 ATCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACT
*
47197026 TGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
*
47197091 GAATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGAT
66 GAATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCTCCGTCTTCGAT
* * *
47197156 CTGCTCCACTACTGCTTAGGGCGATAGGATCTACCATCTTTGACC
131 CTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACT
* *
47197201 TGCTCCACTACTGCTTAGGGAGATAATATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
*
47197266 GAATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCGT-CATCTTCGA
66 GAATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTC-TCCGTCTTCGA
***** * *
47197330 TCTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGC-TTAAAT
130 TCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACT
* * * *
47197374 CTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 -TGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTAGG
47197438 GAGA
64 GAGA
47197442 TAAGATTTAC
Statistics
Matches: 375, Mismatches: 36, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
173 4 0.01
174 66 0.18
175 303 0.81
176 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (175 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGA
GAATGGACTGGTGGCTTAAATCTACTTTACTACTGCTTAGGAAGATAAGATTCTCCGTCTTCGAT
CTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACT
Found at i:47197486 original size:131 final size:131
Alignment explanation
Indices: 47196979--47197533 Score: 566
Period size: 131 Copynumber: 4.2 Consensus size: 131
47196969 TCCGTCTCCG
* * * *
47196979 ATCTACTCCACTACTGCTTAGGAAGATAGGA-TCTACCATCTTTGA-CTTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATTC-ACCGTCTTCGATC-TGCTCCACTACTGCTT
*
47197042 AGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGA-ATGGACTGGTGGC
64 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATA-GGACTGGTGGC
47197106 TTAA
128 TTAA
* ** *
47197110 ATCTACTTTACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * * ** * *****
47197175 GGCGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAATATTTACCATCTT
66 GGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTT
**
47197240 CG
130 AA
* * * * *** * ** * **
47197242 ACCTGCTCCACTACTGCTTAGGGAGA-ATGGACT-GGTGGCTTAAATCTACTTTACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATA-AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
47197305 GGAAGATAAGAT-T-CGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGC
65 GGGAGATAAGATCTAC--CATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGC
47197368 TTAA
128 TTAA
*
47197372 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * ** *
47197437 GGAGATAAGATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTTTCTTC
66 GGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
*
47197502 T
131 A
* * *
47197503 GTCTGCTCCACTACTGTTTAGGGAGATAAGA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGA
47197534 CTTGGTGCGA
Statistics
Matches: 338, Mismatches: 75, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
129 1 0.00
130 31 0.09
131 272 0.80
132 33 0.10
133 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
A
Found at i:47197621 original size:125 final size:125
Alignment explanation
Indices: 47197477--47197796 Score: 561
Period size: 125 Copynumber: 2.6 Consensus size: 125
47197467 CCACTACTGC
*
47197477 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGGTGC
1 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGC
*
47197542 GATCTCTACTGTAACTTCAGAGAGATAATATAT-TTGGTTTTAATCCTCTCCACTGCAACT
66 GATCTCTACTGTAACTTCAAAGAGATAATATATGTT-GTTTTAATCCTCTCCACTGCAACT
* *
47197602 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATAC
1 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGC
* *
47197667 GATCTCTACTGTAACTTTAAAGAGATAATATCTGTTGTTTTAATCCTCTCCACTGCAACT
66 GATCTCTACTGTAACTTCAAAGAGATAATATATGTTGTTTTAATCCTCTCCACTGCAACT
*
47197727 TCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGC
1 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGC
47197792 GATCT
66 GATCT
47197797 GCTCTGCTAC
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 183 0.99
126 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (125 bp):
TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGC
GATCTCTACTGTAACTTCAAAGAGATAATATATGTTGTTTTAATCCTCTCCACTGCAACT
Found at i:47197953 original size:43 final size:43
Alignment explanation
Indices: 47197905--47198126 Score: 129
Period size: 43 Copynumber: 5.2 Consensus size: 43
47197895 TAACACAGGA
47197905 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
1 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
* * * * *
47197948 AGGCAAGA-CT-TTGT-TTTCGATCTGCTTCGCTGTTAACTC-A-GG
1 AGGCAAGATCTGTT-TCTTT-AACCAGCTTCACTG-CAAC-CGATGG
* * * *
47197990 AATGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGG
1 -AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
* * * * * * *
47198034 AGGTAAGA-CT-TTGT-TTTCGATCTGCTTCACTGTTAA-CGCAAGA
1 AGGCAAGATCTGTT-TCTTT-AACCAGCTTCACTG-CAACCG-ATGG
* * *
47198077 AGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
47198120 AGGCAAG
1 AGGCAAG
47198127 GCTTTGTTTT
Statistics
Matches: 127, Mismatches: 34, Indels: 36
0.64 0.17 0.18
Matches are distributed among these distances:
41 9 0.07
42 29 0.23
43 51 0.40
44 30 0.24
45 8 0.06
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
AGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGG
Found at i:47197991 original size:86 final size:86
Alignment explanation
Indices: 47197891--47198228 Score: 523
Period size: 86 Copynumber: 3.9 Consensus size: 86
47197881 GTCTGCTCTG
* * *
47197891 CTGTTAACACAGGAAGGCAAGATCTGTTTCTTTAACCAGCTTCACTGCAACCGATGGAGGCAAGA
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
*
47197956 CTTTGTTTTCGATCTGCTTCG
66 CTTTGTTTTCGATCTGCTTCA
* * * *
47197977 CTGTTAACTCAGGAATGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGGAGGTAAGA
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
47198042 CTTTGTTTTCGATCTGCTTCA
66 CTTTGTTTTCGATCTGCTTCA
* * *
47198063 CTGTTAACGCAAGAAGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGG
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
47198128 CTTTGTTTTCGATCTGCTTCA
66 CTTTGTTTTCGATCTGCTTCA
* * * * * *
47198149 CTGTTAACGCAGGAAGGCAATATCTGCTTCTTTAACTAGCTCTACTACAACCGATGAAGGCAAGG
1 CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
47198214 CTTTGTTTTCGATCT
66 CTTTGTTTTCGATCT
47198229 TTACTGATCT
Statistics
Matches: 231, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 231 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (86 bp):
CTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGA
CTTTGTTTTCGATCTGCTTCA
Found at i:47198168 original size:43 final size:42
Alignment explanation
Indices: 47197948--47198168 Score: 103
Period size: 43 Copynumber: 5.1 Consensus size: 42
47197938 CAACCGATGG
* *
47197948 AGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACTCAGGA
1 AGGCAAG-CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
* * * ** * * * *
47197991 ATGCAAGATCTGCTTCTTTAACCAGCTCCACTG-CAACTG-ATGG-
1 AGGCAAGCTTTG-TT-TTCGATCTGCTTCACTGTTAAC-GCA-GGA
* *
47198034 AGGTAAGACTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGA
1 AGGCAAG-CTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
* * * ** * * * *
47198077 AGGTAAGATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAGCTTTG-TT-TTCGATCTGCTTCACTGTTAACGC-A-GGA
47198120 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
1 AGGCAA-GCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
47198163 AGGCAA
1 AGGCAA
47198169 TATCTGCTTC
Statistics
Matches: 122, Mismatches: 40, Indels: 32
0.63 0.21 0.16
Matches are distributed among these distances:
42 35 0.29
43 53 0.43
44 34 0.28
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
AGGCAAGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
Found at i:47200331 original size:15 final size:16
Alignment explanation
Indices: 47200311--47200345 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
47200301 CTCCTTTTTC
47200311 TTTTCTTTTTCTCTT-
1 TTTTCTTTTTCTCTTA
47200326 TTTTCTTTTTCTCTTA
1 TTTTCTTTTTCTCTTA
47200342 TTTT
1 TTTT
47200346 TGAATTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTCTCTTA
Found at i:47202887 original size:33 final size:33
Alignment explanation
Indices: 47202850--47202915 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47202840 CGAAACATGT
47202850 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
1 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
47202883 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
1 TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
47202916 GTACCTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.64, C:0.12, G:0.15, T:0.09
Consensus pattern (33 bp):
TAGTACAAAGCAAAAGCAAACAAGAAAAATAGA
Found at i:47203462 original size:19 final size:19
Alignment explanation
Indices: 47203438--47203475 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47203428 TCGCCAAGCT
47203438 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
47203457 GTTGACACCATTTTTTGGA
1 GTTGACACCATTTTTTGGA
47203476 TGAAAACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
GTTGACACCATTTTTTGGA
Found at i:47204372 original size:3 final size:3
Alignment explanation
Indices: 47204314--47204360 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
47204304 TATATATATA
* *
47204314 AAT AAT AAT AAT AAC AAT AAT AAT GAA- ACT AACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT
47204360 A
1 A
47204361 TGATTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 1 0.03
3 31 0.84
4 5 0.14
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:47204447 original size:23 final size:23
Alignment explanation
Indices: 47204395--47204447 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
47204385 AAATAAACAA
*
47204395 AATATAATAACAAGAATAATATG
1 AATATAATAACAAGAATAATAAG
* * *
47204418 AAGATAATAGC-ATAATAATAAAG
1 AATATAATAACAAGAATAAT-AAG
47204441 AATATAA
1 AATATAA
47204448 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (23 bp):
AATATAATAACAAGAATAATAAG
Found at i:47204936 original size:11 final size:11
Alignment explanation
Indices: 47204920--47204950 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
47204910 CCGATTGAAG
47204920 GCTCCGCCGTA
1 GCTCCGCCGTA
47204931 GCTCCGCCGTA
1 GCTCCGCCGTA
47204942 GCTCCGCCG
1 GCTCCGCCG
47204951 CAAGCGGCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.06, C:0.48, G:0.29, T:0.16
Consensus pattern (11 bp):
GCTCCGCCGTA
Found at i:47212129 original size:24 final size:24
Alignment explanation
Indices: 47212093--47212145 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
47212083 TATTTTATCG
* * *
47212093 TTATTTTTGTTATTAGTAGCAATA
1 TTATTTATATTATTAATAGCAATA
* *
47212117 TTATTTATATTATTAATAGTATTA
1 TTATTTATATTATTAATAGCAATA
47212141 TTATT
1 TTATT
47212146 AATGTCAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (24 bp):
TTATTTATATTATTAATAGCAATA
Found at i:47212191 original size:3 final size:3
Alignment explanation
Indices: 47212176--47212223 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
47212166 ATTATTACCT
*
47212176 TTA TTA CTT- TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47212221 TTA
1 TTA
47212224 CTATGTACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47212460 original size:26 final size:28
Alignment explanation
Indices: 47212431--47212489 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
47212421 TGTAAATACT
47212431 TATATTTTCATATCTT-ATAA-TTTATA
1 TATATTTTCATATCTTCATAATTTTATA
* * *
47212457 TATATTTTTATATTTTCATAATTTTATG
1 TATATTTTCATATCTTCATAATTTTATA
47212485 TATAT
1 TATAT
47212490 ACATACATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.50
27 4 0.14
28 10 0.36
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TATATTTTCATATCTTCATAATTTTATA
Found at i:47212989 original size:109 final size:107
Alignment explanation
Indices: 47212762--47213289 Score: 731
Period size: 108 Copynumber: 4.9 Consensus size: 107
47212752 AAATTTTTCT
* *
47212762 AAATAAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGA-GAAACGTGCCCTAAGGTGCTGGGTGTCGATT
* * * *
47212827 TTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTTCA
65 TTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* *
47212870 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTGCTGGGTGTCGA-T
47212935 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
64 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * * *
47212979 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGTGTGTCGATT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTGCTGGGTGTCGATT
47213044 TT-TCTGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
65 TTCTC-GTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * * * *
47213087 AAATAAGGTAATATGTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGA-TT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTGTCGATTT
* *
47213151 TCTCGTTCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCA
66 TCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTT-A
* * * *
47213195 AAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGA-TT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTGTCGATTT
* * *
47213259 TCTCGTTCCACCAAATGACTTAAGA-CCTTTT
66 TCTCGTTCAACCAAATGGCTTAATATCCTTTT
47213290 GTACCAATTT
Statistics
Matches: 388, Mismatches: 26, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
106 29 0.07
107 42 0.11
108 215 0.55
109 102 0.26
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (107 bp):
AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTGTCGATTT
TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
Found at i:47213845 original size:38 final size:38
Alignment explanation
Indices: 47213794--47213920 Score: 254
Period size: 38 Copynumber: 3.3 Consensus size: 38
47213784 TAATAGAAGT
47213794 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
47213832 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
47213870 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
1 TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
47213908 TATGTGAATTTAT
1 TATGTGAATTTAT
47213921 CCAAGGAGAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (38 bp):
TATGTGAATTTATAAATTCATTTAATAAAATATTAAAA
Found at i:47219246 original size:23 final size:25
Alignment explanation
Indices: 47219220--47219268 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
47219210 TATAAATCAA
*
47219220 AAAATTATCTC-TAGA-AATTTTCT
1 AAAATAATCTCTTAGAGAATTTTCT
47219243 AAAATAATCTCTTTAGAGAATTTTCT
1 AAAATAATCTC-TTAGAGAATTTTCT
47219269 CTTTACAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (25 bp):
AAAATAATCTCTTAGAGAATTTTCT
Found at i:47219560 original size:29 final size:28
Alignment explanation
Indices: 47219528--47219605 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 28
47219518 TTGGCCCATG
47219528 AACTTTTCTAAATTACATTTCAAACCCTA
1 AACTTTTCTAAATTACATTT-AAACCCTA
* * * *
47219557 AACTTTCTCAAAATTTCACTTTGACCCCTA
1 AACTTT-TCTAAATTACA-TTTAAACCCTA
47219587 AA-TTTTCTAGAAATTACAT
1 AACTTTTCT--AAATTACAT
47219606 GTTGGCCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.05
29 10 0.26
30 24 0.62
31 3 0.08
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (28 bp):
AACTTTTCTAAATTACATTTAAACCCTA
Found at i:47220074 original size:12 final size:13
Alignment explanation
Indices: 47220058--47220089 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
47220048 AAAAAAAGCA
47220058 AAGAAGAAAGAAG
1 AAGAAGAAAGAAG
47220071 -AGAAGAAAGAAG
1 AAGAAGAAAGAAG
47220083 AAGAAGA
1 AAGAAGA
47220090 GATGAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:47220216 original size:12 final size:11
Alignment explanation
Indices: 47220201--47220283 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 11
47220191 GAGGAAGAAG
47220201 AAGAAAAATAGA
1 AAGAAAAA-AGA
47220213 AAGAAAAAAGA
1 AAGAAAAAAGA
*
47220224 AA-AAATAAG-
1 AAGAAAAAAGA
*
47220233 AAGAAAAGA-A
1 AAGAAAAAAGA
47220243 AAG-AAAAA-A
1 AAGAAAAAAGA
*
47220252 AAGAAAAAGGA
1 AAGAAAAAAGA
*
47220263 AA-AAAATAATA
1 AAGAAAA-AAGA
47220274 AAGAATAAAA
1 AAGAA-AAAA
47220284 AACAGCAGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
9 10 0.18
10 21 0.37
11 12 0.21
12 12 0.21
13 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:47220224 original size:7 final size:7
Alignment explanation
Indices: 47220212--47220267 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
47220202 AGAAAAATAG
47220212 AAAGAAA
1 AAAGAAA
47220219 AAAGAAAAA
1 AAAG--AAA
47220228 ATAAGAAGA
1 A-AAGAA-A
47220237 AAAGAAA
1 AAAGAAA
47220244 AGAA-AAA
1 A-AAGAAA
47220251 AAAGAAA
1 AAAGAAA
*
47220258 AAGGAAA
1 AAAGAAA
47220265 AAA
1 AAA
47220268 ATAATAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
6 2 0.05
7 21 0.51
8 9 0.22
9 6 0.15
10 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:47220226 original size:18 final size:18
Alignment explanation
Indices: 47220194--47220258 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
47220184 TTCCAAAGAG
*
47220194 GAAGAAGAAGAAAAATAGAAA
1 GAAGAA-AAGAAAAA-A-TAA
47220215 GAA-AAAAGAAAAAATAA
1 GAAGAAAAGAAAAAATAA
*
47220232 GAAGAAAAGAAAAGAAAAA
1 GAAGAAAAGAAAA-AATAA
*
47220251 AAAGAAAA
1 GAAGAAAA
47220259 AGGAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 19 0.49
20 2 0.05
21 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
GAAGAAAAGAAAAAATAA
Found at i:47220229 original size:20 final size:19
Alignment explanation
Indices: 47220204--47220267 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
47220194 GAAGAAGAAG
47220204 AAAAATAGAAAGAAAAAAGA
1 AAAAATA-AAAGAAAAAAGA
47220224 AAAAATAAGAAGAAAAGAA-A
1 AAAAATAA-AAGAAAA-AAGA
*
47220244 AGAAAA-AAAAGAAAAAGGA
1 A-AAAATAAAAGAAAAAAGA
47220263 AAAAA
1 AAAAA
47220268 ATAATAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 18 0.46
21 6 0.15
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAATAAAAGAAAAAAGA
Found at i:47220236 original size:13 final size:12
Alignment explanation
Indices: 47220195--47220268 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 12
47220185 TCCAAAGAGG
*
47220195 AAGAAGAAGAAA
1 AAGAAGAAAAAA
* *
47220207 AA-TAGAAAGAA
1 AAGAAGAAAAAA
47220218 AA-AAGAAAAAA
1 AAGAAGAAAAAA
47220229 TAAGAAGAAAAGAA
1 -AAGAAGAAAA-AA
47220243 AAGAA-AAAAAA
1 AAGAAGAAAAAA
*
47220254 GAAAAAGGAAAAAA
1 -AAGAA-GAAAAAA
47220268 A
1 A
47220269 TAATAAAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 17 0.34
12 12 0.24
13 13 0.26
14 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:47220240 original size:25 final size:23
Alignment explanation
Indices: 47220212--47220267 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
47220202 AGAAAAATAG
47220212 AAAGAAAAAAGAAAAAATAAGAAGA
1 AAAGAAAAAAGAAAAAA-AAGAA-A
47220237 AAAG--AAAAGAAAAAAAAGAAA
1 AAAGAAAAAAGAAAAAAAAGAAA
*
47220258 AAGGAAAAAA
1 AAAGAAAAAA
47220268 ATAATAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 5 0.18
23 15 0.54
25 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAGAAAAAAGAAAAAAAAGAAA
Found at i:47220268 original size:10 final size:9
Alignment explanation
Indices: 47220212--47220259 Score: 53
Period size: 9 Copynumber: 5.0 Consensus size: 9
47220202 AGAAAAATAG
47220212 AAAGAAAAA
1 AAAGAAAAA
47220221 AGAA-AAAATA
1 A-AAGAAAA-A
47220231 AGAAGAAAAGA
1 A-AAGAAAA-A
47220242 AAAGAAAAA
1 AAAGAAAAA
47220251 AAAGAAAAA
1 AAAGAAAAA
47220260 GGAAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 15 0.43
10 14 0.40
11 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:47220268 original size:29 final size:28
Alignment explanation
Indices: 47220194--47220268 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
47220184 TTCCAAAGAG
* *
47220194 GAAGAAGAAGAAAAATAGAAAGAAAAAA
1 GAAGAAAAAGAAAAAAAGAAAGAAAAAA
* *
47220222 GAAAAAATAAGAAGAAAAGAAAAGAAAAAA
1 GAAGAAA-AAGAAAAAAAG-AAAGAAAAAA
47220252 -AAGAAAAAGGAAAAAAA
1 GAAGAAAAA-GAAAAAAA
47220269 TAATAAAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.18
29 21 0.55
30 10 0.26
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (28 bp):
GAAGAAAAAGAAAAAAAGAAAGAAAAAA
Found at i:47220276 original size:16 final size:15
Alignment explanation
Indices: 47220198--47220285 Score: 63
Period size: 15 Copynumber: 5.7 Consensus size: 15
47220188 AAAGAGGAAG
* * *
47220198 AAGAAGAAAAATAGA
1 AAGAAAAAAAAGAAA
*
47220213 AAGAAAAAAGAAAAAA
1 AAGAAAAAA-AAGAAA
*
47220229 TAAG-AAGAAAAG-AA
1 -AAGAAAAAAAAGAAA
47220243 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAGAAA
* *
47220258 AAGGAAAAAAATAATA
1 AAGAAAAAAAAGAA-A
47220274 AAGAATAAAAAA
1 AAGAA-AAAAAA
47220286 CAGCAGCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
15 24 0.41
16 13 0.22
17 9 0.16
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AAGAAAAAAAAGAAA
Found at i:47220432 original size:20 final size:20
Alignment explanation
Indices: 47220409--47220479 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
47220399 GCAGGTTAGC
47220409 TCCAGCAGCCCCAGGCCCAT
1 TCCAGCAGCCCCAGGCCCAT
* * *
47220429 TCCAGCAGCAGGCCAGCACCCAG
1 TCCAGCAGC--CCCAG-GCCCAT
* *
47220452 TCCAGCAGTCCCAGGCCCGT
1 TCCAGCAGCCCCAGGCCCAT
47220472 TCCAGCAG
1 TCCAGCAG
47220480 TAGGCCAGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 20 0.50
21 4 0.10
22 4 0.10
23 12 0.30
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.10
Consensus pattern (20 bp):
TCCAGCAGCCCCAGGCCCAT
Found at i:47220550 original size:14 final size:13
Alignment explanation
Indices: 47220527--47220588 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
47220517 TGCAAAAATA
*
47220527 AAAAATAAAAGAGG
1 AAAAAGAAAA-AGG
47220541 AAAAAG-AAAA-G
1 AAAAAGAAAAAGG
47220552 AAAAAGAAAAAAGG
1 AAAAAG-AAAAAGG
47220566 AAAAAAGAGAAAA-G
1 -AAAAAGA-AAAAGG
47220580 AAAAA-AAAA
1 AAAAAGAAAA
47220589 CAAAAAGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 10 0.24
12 2 0.05
13 12 0.29
14 8 0.19
15 10 0.24
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:47220564 original size:7 final size:7
Alignment explanation
Indices: 47220520--47220585 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
47220510 CCCAATCTGC
*
47220520 AAAAATA
1 AAAAAGA
*
47220527 AAAAATA
1 AAAAAGA
* *
47220534 AAAGAGG
1 AAAAAGA
47220541 AAAAAG-
1 AAAAAGA
47220547 -AAAAG-
1 AAAAAGA
47220552 AAAAAGA
1 AAAAAGA
47220559 AAAAAGGA
1 AAAAA-GA
47220567 AAAAAGA
1 AAAAAGA
*
47220574 GAAAAGA
1 AAAAAGA
47220581 AAAAA
1 AAAAA
47220586 AAACAAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
5 5 0.10
6 5 0.10
7 33 0.66
8 7 0.14
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:47220572 original size:15 final size:15
Alignment explanation
Indices: 47220552--47220596 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
47220542 AAAAGAAAAG
47220552 AAAAAGAAAAAAGGA
1 AAAAAGAAAAAAGGA
* *
47220567 AAAAAGAGAAAAGAA
1 AAAAAGAAAAAAGGA
*
47220582 AAAAAAACAAAAAGG
1 AAAAAGA-AAAAAGG
47220597 CCCGAGGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGGA
Found at i:47220593 original size:23 final size:21
Alignment explanation
Indices: 47220541--47220595 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
47220531 ATAAAAGAGG
*
47220541 AAAAAGAAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAAAGAAAA
**
47220562 AAGGAAAAAAGAGAAAAGAAAA
1 AAAAAAAAAAGA-AAAAGAAAA
47220584 AAAAACAAAAAG
1 AAAAA-AAAAAG
47220596 GCCCGAGGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.33
22 12 0.44
23 6 0.22
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAGAAAA
Found at i:47220894 original size:20 final size:20
Alignment explanation
Indices: 47220871--47220909 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
47220861 GAAAATATTC
47220871 AAAAATTCTCGTGTTTTAAA
1 AAAAATTCTCGTGTTTTAAA
47220891 AAAAATTCTCGTGTTTTAA
1 AAAAATTCTCGTGTTTTAA
47220910 TAGGATCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTTAAA
Found at i:47221060 original size:17 final size:17
Alignment explanation
Indices: 47221040--47221072 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47221030 CCGTGTTCAA
47221040 AAATTTCGAGTTTTAAG
1 AAATTTCGAGTTTTAAG
*
47221057 AAATTTTGAGTTTTAA
1 AAATTTCGAGTTTTAA
47221073 AAAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (17 bp):
AAATTTCGAGTTTTAAG
Found at i:47221164 original size:19 final size:19
Alignment explanation
Indices: 47221142--47221217 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
47221132 ACACGTGCTT
47221142 AAAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
47221161 AAAAAATGTTCCGTG-TTTC
1 AAAAAAT-TTTCGTGTTTTC
47221180 ---AAATTTTCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
* *
47221195 TAAAAATTTCTCGT-ATTTC
1 AAAAAATTT-TCGTGTTTTC
47221214 AAAA
1 AAAA
47221218 TTTTTGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
15 6 0.13
16 7 0.15
18 9 0.20
19 18 0.39
20 6 0.13
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAAAATTTTCGTGTTTTC
Found at i:47221214 original size:34 final size:36
Alignment explanation
Indices: 47221144--47221221 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 36
47221134 ACGTGCTTAA
*
47221144 AAAATTTTCGTGTTTTCAAAAAATGTTCCGTGTTTC
1 AAAATTTTCGTGTTTTCAAAAAATGTTCCGTATTTC
*
47221180 -AAATTTTCGTGTTTT-TAAAAAT-TTCTCGTATTTC
1 AAAATTTTCGTGTTTTCAAAAAATGTTC-CGTATTTC
47221214 AAAATTTT
1 AAAATTTT
47221222 TGACTTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 3 0.08
34 13 0.34
35 22 0.58
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (36 bp):
AAAATTTTCGTGTTTTCAAAAAATGTTCCGTATTTC
Found at i:47221327 original size:17 final size:16
Alignment explanation
Indices: 47221305--47221370 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
47221295 TTTTTTAAGA
47221305 AAAATTTTCGTGTTTC
1 AAAATTTTCGTGTTTC
*
47221321 TAAAATTCTTGCGT-TTTA
1 -AAAATT-TT-CGTGTTTC
**
47221339 AAAAAATTCGTGCTTTC
1 AAAATTTTCGTG-TTTC
47221356 AAAATTTTTCGTGTT
1 AAAA-TTTTCGTGTT
47221371 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 19 0.50
18 11 0.29
19 3 0.08
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
AAAATTTTCGTGTTTC
Found at i:47221349 original size:34 final size:34
Alignment explanation
Indices: 47221297--47221423 Score: 116
Period size: 34 Copynumber: 3.6 Consensus size: 34
47221287 TTCGTGTTTT
47221297 TTTTAAGAAAAATTTTCGTGTTTCTAAAATTCTTGCG
1 TTTTAA-AAAAA-TTTCGTGTTTC-AAAATTCTTGCG
*
47221334 TTTTAAAAAAA-TTCGTGCTTTCAAAATT-TTTCG
1 TTTTAAAAAAATTTCGTG-TTTCAAAATTCTTGCG
* * * *
47221367 TGTTATATAAAAAA-TTCATATTTCAAAATTCTCGTG
1 T-TT-TA-AAAAAATTTCGTGTTTCAAAATTCTTGCG
*
47221403 TTTAAAAAAAATTTCGTGTTT
1 TTTTAAAAAAATTTCGTGTTT
47221424 AATCGGATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
33 11 0.15
34 22 0.29
35 18 0.24
36 18 0.24
37 6 0.08
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (34 bp):
TTTTAAAAAAATTTCGTGTTTCAAAATTCTTGCG
Found at i:47221359 original size:18 final size:19
Alignment explanation
Indices: 47221322--47221359 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47221312 TCGTGTTTCT
* *
47221322 AAAATTCTTGCGTTTTAAA
1 AAAATTCGTGCGTTTCAAA
47221341 AAAATTCGTGC-TTTCAAA
1 AAAATTCGTGCGTTTCAAA
47221359 A
1 A
47221360 TTTTTCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAATTCGTGCGTTTCAAA
Found at i:47222504 original size:12 final size:13
Alignment explanation
Indices: 47222483--47222510 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47222473 AAGTTGGGGC
47222483 AAAACAAAAAAAA
1 AAAACAAAAAAAA
47222496 AAAACAAAAAAAA
1 AAAACAAAAAAAA
47222509 AA
1 AA
47222511 TGTAGGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAA
Found at i:47234146 original size:80 final size:79
Alignment explanation
Indices: 47233800--47234495 Score: 771
Period size: 79 Copynumber: 8.8 Consensus size: 79
47233790 TAAAAAAAAT
* * *
47233800 AAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGTGTCACATGCCGAGGTATTTCTTTTAAA
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--T-TTTTCAA
*
47233865 TTTCTG-TTTTTT--AA
63 TTTTTGTTTTTTTCAAA
* * * *
47233879 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTCAACTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT
*
47233941 CTGTT-TTTTTTTAAAAA
65 -T-TTGTTTTTTT-CAAA
* * *
47233958 AAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGGTCAC--GCTGAGGTA-TTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
* ***
47234020 ATGTTTTTCAAAAAAAA
66 TTGTTTTT---TTCAAA
* *
47234037 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACATGCCGAGGTATTTTTTAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
47234102 TTGTTTTTTTCGAAA
66 TTGTTTTTTTC-AAA
*
47234117 AAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-TTTTTCAATT
47234182 TTTGTTTTTTTCAAA
65 TTTGTTTTTTTCAAA
47234197 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT
*
47234262 TCGTTTTTTTTTTCAAA
65 T--TTGTTTTTTTCAAA
*
47234279 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCCCGGGTCACATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
47234344 TCTG--TTTTTCAAA
66 T-TGTTTTTTTCAAA
* * * * ** *
47234357 AAATTAACTCATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC--GCTGAGGTA-TTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
* ****
47234419 ATGTTTTCAAAAAAA
66 TTGTTTT-TTTCAAA
* * * * *
47234434 AAATTAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCA-A-GCTGATGTATTTTT-AATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
47234496 CTATTTTTCA
Statistics
Matches: 539, Mismatches: 53, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
73 5 0.01
74 4 0.01
75 11 0.02
76 18 0.03
77 65 0.12
78 51 0.09
79 148 0.27
80 115 0.21
81 32 0.06
82 90 0.17
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (79 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTT
TTGTTTTTTTCAAA
Found at i:47234221 original size:160 final size:160
Alignment explanation
Indices: 47233655--47234503 Score: 884
Period size: 160 Copynumber: 5.3 Consensus size: 160
47233645 GTGTGTTACA
* *
47233655 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTG-ATTTTC-AAAAATCAACT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTA-TT-TTTTCAATTTCTGTTTTTTCAAAAAATCAACT
* * * * *
47233718 CATATTGCGAGAAGTGAGTTAAGCCTCGGGTCACATACCGAGGTATTTCTTTTAAATTTCTGTTT
64 CATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--T-TTTTCAA--T-T-TTT
* *
47233783 TGTTTTTTAAAAAAAATAAATCAACTCATAATCCGAGAGGTG
122 TGTTTTTT--TAAAAA-AAATCAACTCATAATGCGAGAGGTG
* *
47233825 AGTTGAGCCTCGTGTCACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTT--AAAAATCAACT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTA-TT-TTTTCAATTTCTGTTTTTTCAAAAAATCAACT
* * * * *
47233888 CATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTCAACTTCTGTT-TTT
64 CATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA-TT-TTTTGTTT
47233949 TTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
127 TTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
* * * *
47233983 AGTTGAACCTCAGGTCAC--GCTGAGGTA--TTTTCAATTTATG-TTTTTCAAAAAAAAAAATCA
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTTTC-----AAAAAATCA
* *
47234043 ACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACATGCCGAGGTATTTTTTAA-TTTTTGTT
61 ACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTT
** *
47234107 TTTTTCGAAAAAATCAACTCATAATGTGAGAGGTG
126 TTTTTAAAAAAAATCAACTCATAATGCGAGAGGTG
*
47234142 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTTTGTTTTTTTCAAAAAATCAACTC
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTG-TTTTTTCAAAAAATCAACTC
47234207 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTCGTT-TTTT
65 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTT--TTGTTTT
**
47234271 TTTTCAAAAAATCAACTCATAATGCGAGAGGTG
128 TTTAAAAAAAATCAACTCATAATGCGAGAGGTG
* *
47234304 AGTTGAGCCCCGGGTCACATGCCGAGGTA-TTTTTCAATTTTCTG-TTTTTCAAAAAATTAACTC
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAA-TTTCTGTTTTTTCAAAAAATCAACTC
* * * ** * * **
47234367 ATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC--GCTGAGGTA-TTTTCAA-TTTATGTTTTCA
65 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTTTTTT
* * *
47234428 AAAAAAAAATTAACTCATAATCCGAGAGGTG
130 TAAAAAAAATCAACTCATAATGCGAGAGGTG
* * * *
47234459 AGTTGAGCCTCGAGTCA-A-GCTGATGTA-TTTTT-AATTTCTATTTTT
1 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTT
47234504 CAAGGGTCAA
Statistics
Matches: 596, Mismatches: 59, Indels: 66
0.83 0.08 0.09
Matches are distributed among these distances:
151 10 0.02
152 17 0.03
153 12 0.02
154 2 0.00
155 45 0.08
156 11 0.02
157 7 0.01
158 92 0.15
159 56 0.09
160 117 0.20
161 30 0.05
162 71 0.12
163 15 0.03
164 5 0.01
165 6 0.01
168 7 0.01
170 89 0.15
171 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (160 bp):
AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCA
TAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATTTTTTGTTTTTTT
AAAAAAAATCAACTCATAATGCGAGAGGTG
Found at i:47234455 original size:77 final size:77
Alignment explanation
Indices: 47234270--47234467 Score: 224
Period size: 78 Copynumber: 2.6 Consensus size: 77
47234260 TTTCGTTTTT
* * *
47234270 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCCCGGGTCACATGCCGAGGTATT
1 TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACA-GCCGAGGTATT
*
47234335 TTTCAATTTTCTG
65 TTTCAATTTTATG
* * ** *
47234348 TTTTTCAAAAAATTAACTCATAATGTGAGAGGTGAGTTAAGTCTTAGGTCAC-GCTGAGGTA-TT
1 TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACAGCCGAGGTATTT
47234411 TTCAA-TTTATG
66 TTCAATTTTATG
* *
47234422 -TTTTCAAAAAAAAAATTAACTCATAATCCGAGAGGTGAGTTGAGCC
1 TTTTTC----AAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCC
47234468 TCGAGTCAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
73 5 0.05
74 5 0.05
75 7 0.07
76 8 0.08
77 33 0.32
78 45 0.44
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTTTCAAAAAATTAACTCATAATGCGAGAGGTGAGTTAAGCCCCAGGTCACAGCCGAGGTATTT
TTCAATTTTATG
Found at i:47234905 original size:29 final size:29
Alignment explanation
Indices: 47234858--47234987 Score: 129
Period size: 29 Copynumber: 4.4 Consensus size: 29
47234848 ACAAAAAATA
*** *
47234858 TAAATTACATTTTGGCCCCTGAACTTTTC
1 TAAATTACATTTCAACCCCTAAACTTTTC
*
47234887 TAAATTACATTTCAACCCCTAAACTATTC
1 TAAATTACATTTCAACCCCTAAACTTTTC
*
47234916 TAAATTACATTTCAACCTCTAAACTTTCTC
1 TAAATTACATTTCAACCCCTAAACTTT-TC
* * *
47234946 AAAATTTCACTTT-GACCCCTAAA-TTTTC
1 TAAATTACA-TTTCAACCCCTAAACTTTTC
47234974 TAGAAATTACATTT
1 T--AAATTACATTT
47234988 TAGCCCTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.02
29 55 0.65
30 24 0.29
31 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAATTACATTTCAACCCCTAAACTTTTC
Found at i:47235001 original size:29 final size:29
Alignment explanation
Indices: 47234859--47235017 Score: 96
Period size: 29 Copynumber: 5.4 Consensus size: 29
47234849 CAAAAAATAT
* *
47234859 AAATTACATTTTGGCCCCTGAACTTTT-CT-
1 AAATTACATTTTAG-CCCT-AAATTTTCCTA
* * *
47234888 AAATTACATTTCAACCCCTAAACTATT-CT-
1 AAATTACATTT-TAGCCCTAAA-TTTTCCTA
* * *
47234917 AAATTACATTTCAACCTCTAAACTTT-CTCA
1 AAATTACATTTTAGCC-CTAAATTTTCCT-A
* * *
47234947 AAATTTCACTTTGACCCCTAAATTTT-CTA
1 AAATTACA-TTTTAGCCCTAAATTTTCCTA
*
47234976 GAAATTACATTTTAGCCCTATATTTTCCTA
1 -AAATTACATTTTAGCCCTAAATTTTCCTA
47235006 AAATTACATTTT
1 AAATTACATTTT
47235018 TACCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
28 9 0.09
29 63 0.60
30 27 0.26
31 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
AAATTACATTTTAGCCCTAAATTTTCCTA
Found at i:47235453 original size:12 final size:13
Alignment explanation
Indices: 47235437--47235468 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
47235427 AAAAAAAGCA
47235437 AAGAAGAAAGAAG
1 AAGAAGAAAGAAG
47235450 -AGAAGAAAGAAG
1 AAGAAGAAAGAAG
47235462 AAGAAGA
1 AAGAAGA
47235469 GATGAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:47235610 original size:32 final size:32
Alignment explanation
Indices: 47235574--47235638 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
47235564 TCCAAAGAGG
*
47235574 AATAAGAAGAA-A-AATAGAAAGAAAAAAGAAAA
1 AATAAGAAGAAGAGAAAAG-AA-AAAAAAGAAAA
47235606 AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
1 AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
47235638 A
1 A
47235639 GGAAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 23 0.77
33 3 0.10
34 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (32 bp):
AATAAGAAGAAGAGAAAAGAAAAAAAAGAAAA
Found at i:47235623 original size:23 final size:23
Alignment explanation
Indices: 47235591--47235658 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
47235581 AGAAAAATAG
*
47235591 AAAGAAAAAAGAAAAAATAAGAA
1 AAAGAGAAAAGAAAAAATAAGAA
*
47235614 GAAGAGAAAAGAAAAAA-AAGAA
1 AAAGAGAAAAGAAAAAATAAGAA
*
47235636 AAAG-GAAAA-AAAGAATAA-AA
1 AAAGAGAAAAGAAAAAATAAGAA
47235656 AAA
1 AAA
47235659 CAGCAGCAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.25
21 7 0.17
22 8 0.20
23 15 0.38
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (23 bp):
AAAGAGAAAAGAAAAAATAAGAA
Found at i:47235634 original size:16 final size:15
Alignment explanation
Indices: 47235577--47235650 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
47235567 AAAGAGGAAT
* * *
47235577 AAGAAGAAAAATAGA
1 AAGAAAAAAAAGAAA
*
47235592 AAGAAAAAAGA-AAA
1 AAGAAAAAAAAGAAA
* * *
47235606 AATAAGAAGAAGAGAA
1 AAGAAAAAAAAGA-AA
47235622 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAGAAA
*
47235637 AAGGAAAAAAAGAA
1 AAGAAAAAAAAGAA
47235651 TAAAAAAACA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.20
15 25 0.54
16 12 0.26
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAAAGAAA
Found at i:47235650 original size:29 final size:30
Alignment explanation
Indices: 47235574--47235658 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 30
47235564 TCCAAAGAGG
*
47235574 AATAAGAAGAAAAATAGAAAGAAAAAAGAAAA
1 AATAAGAA-AAAAAGA-AAAGAAAAAAGAAAA
* *
47235606 AATAAGAAGAAGAGAAAAGAAAAAA-AAGAA
1 AATAAGAAAAAAAGAAAAGAAAAAAGAA-AA
* *
47235636 AA-AGGAAAAAAAGAATA-AAAAAA
1 AATAAGAAAAAAAGAAAAGAAAAAA
47235659 CAGCAGCAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.13
29 13 0.29
30 14 0.31
31 4 0.09
32 8 0.18
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (30 bp):
AATAAGAAAAAAAGAAAAGAAAAAAGAAAA
Found at i:47235871 original size:43 final size:43
Alignment explanation
Indices: 47235777--47235859 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
47235767 CTCCAGCAGG
* ** *
47235777 CCCAGGCCCGTTCCAGCAGCAGGCTAGCACCCAGTCCATCAGT
1 CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAACAGT
*
47235820 CCCAGGCCCGTTCCAGCAGCAGGCCAGCAGCCAACCCAAC
1 CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAAC
47235860 GCCCAGCGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.45, G:0.23, T:0.10
Consensus pattern (43 bp):
CCCAGGCCCGTTCCAGCAGCAGGCCAGCACCCAACCCAACAGT
Found at i:47235908 original size:14 final size:13
Alignment explanation
Indices: 47235885--47235945 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
47235875 CTGCAAAAAT
*
47235885 AAAAA-AAAGAGG
1 AAAAAGAAAAAGG
47235897 AAAAAG-AAAA-G
1 AAAAAGAAAAAGG
47235908 AAAAAGAAAAAAGG
1 AAAAAG-AAAAAGG
47235922 AAAAAAGAGAAAA-G
1 -AAAAAGA-AAAAGG
47235936 -AAAAGAAAAA
1 AAAAAGAAAAA
47235946 ACAAAAAGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 11 0.26
12 14 0.33
13 4 0.10
14 3 0.07
15 10 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:47235920 original size:7 final size:7
Alignment explanation
Indices: 47235903--47235952 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
47235893 GAGGAAAAAG
47235903 AAAAG-A
1 AAAAGAA
47235909 AAAAGAA
1 AAAAGAA
47235916 AAAAGGAA
1 AAAA-GAA
*
47235924 AAAAGAG
1 AAAAGAA
47235931 AAAAG--
1 AAAAGAA
47235936 AAAAGAA
1 AAAAGAA
*
47235943 AAAACAA
1 AAAAGAA
47235950 AAA
1 AAA
47235953 GGCCCGAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.13
6 5 0.13
7 21 0.55
8 7 0.18
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:47235928 original size:15 final size:14
Alignment explanation
Indices: 47235903--47235952 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
47235893 GAGGAAAAAG
47235903 AAAAG-AAAAAGAA
1 AAAAGAAAAAAGAA
*
47235916 AAAAGGAAAAAAGAG
1 AAAA-GAAAAAAGAA
47235931 AAAAG--AAAAGAA
1 AAAAGAAAAAAGAA
*
47235943 AAAACAAAAA
1 AAAAGAAAAA
47235953 GGCCCGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
12 10 0.33
13 4 0.13
14 5 0.17
15 11 0.37
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:47236289 original size:22 final size:22
Alignment explanation
Indices: 47236262--47236303 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
47236252 TGAAAATATT
47236262 AAAAAATTCTCGTGTTTTAAAA
1 AAAAAATTCTCGTGTTTTAAAA
47236284 AAAAAATTCTCGTGTTTTAA
1 AAAAAATTCTCGTGTTTTAA
47236304 TAGGATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAAAATTCTCGTGTTTTAAAA
Found at i:47236619 original size:35 final size:35
Alignment explanation
Indices: 47236548--47236621 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
47236538 CTTAAAATTT
*
47236548 TTTTCGTGTTTTCAAAAAATGTTCCGTGTTTCAAA
1 TTTTCGTGTTTTCAAAAAATGTTCCGTATTTCAAA
* *
47236583 TTTTCGTGTTTT-TAGAAAT-TTCTCGTATTTCAAAA
1 TTTTCGTGTTTTCAAAAAATGTTC-CGTATTTC-AAA
47236618 TTTT
1 TTTT
47236622 TGACTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.09
34 12 0.35
35 19 0.56
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (35 bp):
TTTTCGTGTTTTCAAAAAATGTTCCGTATTTCAAA
Found at i:47236727 original size:17 final size:16
Alignment explanation
Indices: 47236705--47236770 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
47236695 TTTTTTAAGA
47236705 AAAATTTTCGTGTTTC
1 AAAATTTTCGTGTTTC
*
47236721 TAAAATTCTTGCGT-TTTA
1 -AAAATT-TT-CGTGTTTC
**
47236739 AAAAAATTCGTGCTTTC
1 AAAATTTTCGTG-TTTC
47236756 AAAATTTTTCGTGTT
1 AAAA-TTTTCGTGTT
47236771 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 19 0.50
18 11 0.29
19 3 0.08
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
AAAATTTTCGTGTTTC
Found at i:47236749 original size:34 final size:34
Alignment explanation
Indices: 47236715--47236823 Score: 114
Period size: 34 Copynumber: 3.1 Consensus size: 34
47236705 AAAATTTTCG
*
47236715 TGTTTCTAAAATTCTTGCGTTT-TAAAAAAATTCG
1 TGTTTC-AAAATTCTTGCGTTTATAAAAAAATTCA
*
47236749 TGCTTTCAAAATT-TTTCGTGTTATATAAAAAATTCA
1 TG-TTTCAAAATTCTTGCGT-TTATA-AAAAAATTCA
* * * *
47236785 TATTTCAAAATTCTCGTGTTTAAAAAAAAATTCA
1 TGTTTCAAAATTCTTGCGTTTATAAAAAAATTCA
47236819 TGTTT
1 TGTTT
47236824 TAATCGGATC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
33 5 0.08
34 24 0.39
35 20 0.32
36 13 0.21
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (34 bp):
TGTTTCAAAATTCTTGCGTTTATAAAAAAATTCA
Found at i:47236759 original size:18 final size:19
Alignment explanation
Indices: 47236722--47236759 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47236712 TCGTGTTTCT
* *
47236722 AAAATTCTTGCGTTTTAAA
1 AAAATTCGTGCGTTTCAAA
47236741 AAAATTCGTGC-TTTCAAA
1 AAAATTCGTGCGTTTCAAA
47236759 A
1 A
47236760 TTTTTCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAATTCGTGCGTTTCAAA
Found at i:47244789 original size:6 final size:6
Alignment explanation
Indices: 47244778--47244807 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
47244768 TGAGCTTTTT
47244778 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA
47244808 GCAGCAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:47250577 original size:4 final size:4
Alignment explanation
Indices: 47250568--47250595 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47250558 AATGAAAATG
47250568 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
47250596 ATGAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:47250602 original size:9 final size:9
Alignment explanation
Indices: 47250569--47250606 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
47250559 ATGAAAATGT
47250569 AAATAAAT-
1 AAATAAATA
47250577 AAATAAAT-
1 AAATAAATA
47250585 AAATAAATA
1 AAATAAATA
*
47250594 AAATGAATA
1 AAATAAATA
47250603 AAAT
1 AAAT
47250607 TATAAAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:47250913 original size:13 final size:13
Alignment explanation
Indices: 47250895--47250919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47250885 AAAATGAGTA
47250895 AATAATAATAATC
1 AATAATAATAATC
47250908 AATAATAATAAT
1 AATAATAATAAT
47250920 ACAAGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATC
Found at i:47250996 original size:17 final size:17
Alignment explanation
Indices: 47250965--47250997 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47250955 ATAAAATAGA
47250965 AATACAATAACAATAAT
1 AATACAATAACAATAAT
47250982 AATACAA-AACTAATAA
1 AATACAATAAC-AATAA
47250998 CATAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (17 bp):
AATACAATAACAATAAT
Found at i:47252607 original size:88 final size:88
Alignment explanation
Indices: 47252499--47252691 Score: 296
Period size: 88 Copynumber: 2.2 Consensus size: 88
47252489 GACCTACTCT
* * *
47252499 ACTACTGCTTAGGCAGATAGGACTAACGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAG
1 ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
* * **
47252564 CTTCACCATTTTTTATATGCTCC
66 ATTCACCATCTTCAATATGCTCC
*
47252587 ACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
1 ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
* *
47252652 ATTCACTATCTTCAATCTGCTCC
66 ATTCACCATCTTCAATATGCTCC
47252675 ACTACTGCTTAGGGAGA
1 ACTACTGCTTAGGGAGA
47252692 CAGAATCTGC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (88 bp):
ACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTATATTGGGAAGATAAG
ATTCACCATCTTCAATATGCTCC
Found at i:47252825 original size:46 final size:46
Alignment explanation
Indices: 47252775--47252865 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
47252765 ACTGTATTGG
*
47252775 GAAGACAACAT-TCACCATCTTCGATC-TCTTCCGTTGCCAAATACAT
1 GAAGACAACATCT-ACCATCTTCGATCTTC-TCCGCTGCCAAATACAT
* * * *
47252821 GAAGATAAGATCTGCTATCTTCGATCTTCTCCGCTGCCAAATACA
1 GAAGACAACATCTACCATCTTCGATCTTCTCCGCTGCCAAATACA
47252866 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 35 0.92
47 3 0.08
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (46 bp):
GAAGACAACATCTACCATCTTCGATCTTCTCCGCTGCCAAATACAT
Found at i:47254403 original size:46 final size:46
Alignment explanation
Indices: 47253498--47254402 Score: 1355
Period size: 46 Copynumber: 19.7 Consensus size: 46
47253488 NNNNNNNNNN
* * *
47253498 CCTCTGCTG-CAATTACAGGAAGACAAGATCTGCTATCCTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
47253543 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* *
47253589 CCTCTGCTGCCAATTACAGGAAGACAAGATCTGCTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
*
47253635 CCTCCGCTGCCAAATACAGGAAGATAAGATCTGCTATCCTT-GATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTAT-CTTCGATCC
* *
47253681 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCCTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * *
47253727 TCTCCGCTGCCAAATACATGAAGACAAGATCTGGTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * *
47253773 CCTCCGCTGCCAATTACAGGAAGACAAGATCTGCTATCCTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
** * * * * *
47253819 CCTTTGCTGCCAAATACATGAACATAAGATCTGCTATCTTTGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* *
47253865 TCTCCGCTGCCAAATACAGGAAAACAAGATCTGCTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * * *
47253911 CCTCTGTTGCCAAATACAGGAAGACAGGATCTGCTATCTTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
47253957 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * *
47254003 CCTCCACTGCCAATTACAGGAAGACAAGATCTGCTGTCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
47254049 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * * * *
47254095 CCTCCGCTGTCAAATATAGTAAGACAAGATTTGCTATCTTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * *
47254141 TCTCCGCTGCCAAATGCAGGAAGACAAGATCTGCTATCTTCCATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* *
47254187 CCTCCGCTGCCAAATACAGGAAGACAGGATCTGCTATCTTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* *
47254233 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGTTCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* *
47254279 CCTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
*
47254325 CCTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCC
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
* * *
47254371 CCTCCGTTGCTAAATGCAGGAAGACAAGATCT
1 CCTCCGCTGCCAAATACAGGAAGACAAGATCT
47254403 ATAACTTCGT
Statistics
Matches: 775, Mismatches: 82, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
45 10 0.01
46 762 0.98
47 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (46 bp):
CCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCC
Found at i:47254950 original size:46 final size:46
Alignment explanation
Indices: 47254878--47255354 Score: 738
Period size: 46 Copynumber: 10.4 Consensus size: 46
47254868 NNNNNNNNNN
*
47254878 ATCTGCTATCTTCGATCCCCTCCGCTGCCAATTACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* ** * * *
47254924 ATCTGCTATCCTCGATCTTCTTCGCTGCCAAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* ** * *
47254970 ATCTGCTATCTTTGATCTTCTCTGCTGCCAAATACAGGAAAACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
*
47255016 ATCTGCTATCTTCGATCCCCTCTGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
47255062 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
47255108 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* *
47255154 ATCTGCTATCTTCGATCCCCTCCGCTGGCAATTACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* *
47255200 ATCTGCTAACTTCGATCCCCTCCGCTGCCAATTACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* ** *
47255246 ATCTGCTATCCTCGATCTTCTCCGCTGCCAAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
* *
47255292 ATCTGGTATCTTCGATCCCCTCCGCTGCCAATTACAGGAAGACAAG
1 ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
*
47255338 ATCTGCTATCCTCGATC
1 ATCTGCTATCTTCGATC
47255355 TNNNNNNNNN
Statistics
Matches: 394, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 394 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAG
Found at i:47256424 original size:9 final size:9
Alignment explanation
Indices: 47256410--47256454 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
47256400 TTTGACTTTG
47256410 ATTTTTTTT
1 ATTTTTTTT
47256419 ATTTTTTTGT
1 ATTTTTTT-T
*
47256429 -TTTTTTTG
1 ATTTTTTTT
*
47256437 ATTTTTTTG
1 ATTTTTTTT
47256446 ATTTTTTTT
1 ATTTTTTTT
47256455 TAGTCTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 31 0.97
10 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:47256432 original size:18 final size:18
Alignment explanation
Indices: 47256406--47256456 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
47256396 AATTTTTGAC
*
47256406 TTTGATTTTTTTTATTTT
1 TTTGTTTTTTTTTATTTT
*
47256424 TTTGTTTTTTTTGATTTT
1 TTTGTTTTTTTTTATTTT
47256442 TTTGATTTTTTTTTA
1 TTTG-TTTTTTTTTA
47256457 GTCTGAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTTTTATTTT
Found at i:47259466 original size:19 final size:17
Alignment explanation
Indices: 47259444--47259486 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
47259434 GTGAAATTTG
47259444 ATGCATGCAATGAAATGCA
1 ATGCATGC-ATGAAATG-A
47259463 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
47259482 ATGCA
1 ATGCA
47259487 AAAAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:47261708 original size:13 final size:13
Alignment explanation
Indices: 47261690--47261714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47261680 AAAATGAGTA
47261690 AATAATAATAATC
1 AATAATAATAATC
47261703 AATAATAATAAT
1 AATAATAATAAT
47261715 ACAAGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATC
Found at i:47262567 original size:20 final size:19
Alignment explanation
Indices: 47262530--47262571 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47262520 CGATATTTTG
*
47262530 AAATAAACAAAACAATAAA
1 AAATAAACAAAAAAATAAA
*
47262549 AAATAAATAAAAAATATAAA
1 AAATAAACAAAAAA-ATAAA
47262569 AAA
1 AAA
47262572 ATGATAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAACAAAAAAATAAA
Found at i:47268737 original size:114 final size:114
Alignment explanation
Indices: 47268459--47269122 Score: 906
Period size: 114 Copynumber: 5.8 Consensus size: 114
47268449 CCCAGAAAGT
* *
47268459 GCCGC-AAAATACCTAAGCCCAAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTT
1 GCCGCAAAAATACCTAAGCCC-AACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTT
* * * ***
47268523 TAAGGAAGCGCCGCTAATGTTCA-GGCTTTAGCGGCGTTTTTGATAAAGC
65 TAAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* * *
47268572 TCCACAAAAA-ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCTTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
47268636 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* *
47268685 GCCGCAAAAATACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGTGGCATTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
*
47268750 AAGTAAGCGCCGCTAATGCTCAGGGCTTTATCGGCGTTTTT-GGGAAGGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAA-GC
* * * * *
47268799 ACCGCAAAAATACCTAAGCCCAACGACACCGTTTACTGAGCTTTTGGGGATTTAGTAGCGTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* *
47268864 AAGTAAGCGCCGCTAATGCTCAAGGCTTTATCGGCGTTTTT-GGGAAGGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAA-GC
* * * * *
47268913 TCCGCAAAAATACCTAAGCCCAACGATGCTGTTTACTGAGCTTTCGGGGATTTAGTGGAGTTTTT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* * * *
47268978 ATGTAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTGGGAAAGC
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
* * * **
47269027 GCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTCGT
1 GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
* ** * *
47269092 ATGTAAGCGCTACTAATACTCAGGGATTTAA
66 AAGTAAGCGCCGCTAATGCTCAGGGCTTTAA
47269123 AATAATTTAA
Statistics
Matches: 494, Mismatches: 52, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
112 61 0.12
113 48 0.10
114 381 0.77
115 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (114 bp):
GCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTT
AAGTAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGGGGAAGC
Found at i:47270579 original size:4 final size:4
Alignment explanation
Indices: 47270570--47270780 Score: 422
Period size: 4 Copynumber: 52.8 Consensus size: 4
47270560 AACTGCATAA
47270570 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
47270618 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
47270666 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
47270714 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
47270762 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
47270781 TTCTGTCGAA
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 207 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:47270811 original size:10 final size:10
Alignment explanation
Indices: 47270796--47270820 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47270786 TCGAAAATTG
47270796 CAAAATTGTT
1 CAAAATTGTT
47270806 CAAAATTGTT
1 CAAAATTGTT
47270816 CAAAA
1 CAAAA
47270821 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:47276887 original size:21 final size:21
Alignment explanation
Indices: 47276843--47276887 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47276833 GTACAACTTA
*
47276843 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* * *
47276864 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
47276885 AAG
1 AAG
47276888 TAGCGAGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:47277431 original size:43 final size:42
Alignment explanation
Indices: 47277247--47277560 Score: 298
Period size: 43 Copynumber: 7.4 Consensus size: 42
47277237 AATCCCAAAA
* * *
47277247 TTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTTT-TACAAGCGCCGCTAAAGAACATGATC-T
* ** *
47277290 TTCGCGGCGTTCGTGATGA-AAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTT--TTTTTACAAGCGCCGCTAAAGAACATGATCT
* *
47277333 ATAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTTA-CAAGCGCCGCTAAAGAACATGATCT
* *
47277376 ATAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACATTATCT
1 TTAGCGGCGTTTTTTTA-CAAGCGCCGCTAAAGAACATGATCT
* * * *
47277419 TTAGCAGAGTTTTTCTT-TAAGCGCCGCTAAAGAACATTATCT
1 TTAGCGGCGTTTTT-TTACAAGCGCCGCTAAAGAACATGATCT
* * ** * *
47277461 TTAGCGGTGATTTTTTGTAACCGCCGCTAAAGATA-ATGTTCT
1 TTAGCGGCGTTTTTTTACAAGCGCCGCTAAAGA-ACATGATCT
*
47277503 TTAGCGGCATCTTTTTTTA-AA-CGCCGCTAAAGAACATGATCT
1 TTAGCGGC--GTTTTTTTACAAGCGCCGCTAAAGAACATGATCT
47277545 TTAGCGGCGTTTTTTT
1 TTAGCGGCGTTTTTTT
47277561 CTGTAAACGC
Statistics
Matches: 230, Mismatches: 30, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
40 7 0.03
41 6 0.03
42 88 0.38
43 117 0.51
44 10 0.04
45 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTACAAGCGCCGCTAAAGAACATGATCT
Found at i:47277528 original size:84 final size:84
Alignment explanation
Indices: 47277312--47277560 Score: 274
Period size: 84 Copynumber: 2.9 Consensus size: 84
47277302 GTGATGAAAG
* * * *
47277312 CGCCGCTAAAGAACATGATCTATAGCGGC-GTTTTTTTACCAAGCGCCGCTAAAGAACATGACCT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTA--AA-CGCCGCTAAAGAACATGATCT
* *
47277376 ATAGCGGCGTTTTTTTACCAAG
63 TTAGCGGCGTTTTTTTACCAAC
* * *
47277398 CGCCGCTAAAGAACAT-TATCTTTAGCAG-AGTTTTTCTTTAAGCGCCGCTAAAGAACATTATCT
1 CGCCGCTAAAGAACATGT-TCTTTAGCGGCA-TTTTT-TTTAAACGCCGCTAAAGAACATGATCT
* * **
47277461 TTAGCGGTGATTTTTT-GTAAC
63 TTAGCGGCGTTTTTTTACCAAC
47277482 CGCCGCTAAAGATA-ATGTTCTTTAGCGGCATCTTTTTTTAAACGCCGCTAAAGAACATGATCTT
1 CGCCGCTAAAGA-ACATGTTCTTTAGCGGCAT-TTTTTTTAAACGCCGCTAAAGAACATGATCTT
47277546 TAGCGGCGTTTTTTT
64 TAGCGGCGTTTTTTT
47277561 CTGTAAACGC
Statistics
Matches: 137, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
84 65 0.47
85 39 0.28
86 25 0.18
87 4 0.03
88 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTAAACGCCGCTAAAGAACATGATCTTTA
GCGGCGTTTTTTTACCAAC
Found at i:47280122 original size:9 final size:9
Alignment explanation
Indices: 47280108--47280144 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47280098 TATAGTTTAA
47280108 TATTCGAAT
1 TATTCGAAT
47280117 TATTCGAAT
1 TATTCGAAT
*
47280126 TATTCGAGT
1 TATTCGAAT
47280135 TATTCGAAT
1 TATTCGAAT
47280144 T
1 T
47280145 CGAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47280182 original size:9 final size:9
Alignment explanation
Indices: 47280165--47280204 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
47280155 TCGAGTTGAT
47280165 TCGAATAAC
1 TCGAATAAC
*
47280174 TCGATTAAC
1 TCGAATAAC
47280183 TCGAATAAC
1 TCGAATAAC
*
47280192 TTGAATAAC
1 TCGAATAAC
47280201 TCGA
1 TCGA
47280205 TTCGTTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47280611 original size:25 final size:25
Alignment explanation
Indices: 47280583--47280631 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47280573 ATTTTTCTGG
47280583 TGAGTTTTTGAT-AATTTAAACTGAT
1 TGAGTTTTTGATAAATTT-AACTGAT
*
47280608 TGAGTTTTTGGTAAATTTAACTGA
1 TGAGTTTTTGATAAATTTAACTGA
47280632 ATTTAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TGAGTTTTTGATAAATTTAACTGAT
Found at i:47284807 original size:14 final size:14
Alignment explanation
Indices: 47284724--47284817 Score: 66
Period size: 14 Copynumber: 6.6 Consensus size: 14
47284714 TCAGGTACAA
*
47284724 GTTT-GGGTTTAGG
1 GTTTAGGGTTTAAG
* *
47284737 GTTTAGTGTTTATG
1 GTTTAGGGTTTAAG
*
47284751 ATTTTAGGGTTTAAG
1 -GTTTAGGGTTTAAG
*
47284766 GTTTTAAGGTTTAGAG
1 G-TTTAGGGTTTA-AG
* ** *
47284782 TTTTA-GAATTAAT
1 GTTTAGGGTTTAAG
47284795 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
47284809 GTTTAGGGT
1 GTTTAGGGT
47284818 AAATAATTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 9
0.72 0.18 0.11
Matches are distributed among these distances:
13 9 0.15
14 25 0.41
15 25 0.41
16 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:47285251 original size:7 final size:7
Alignment explanation
Indices: 47285239--47285300 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
47285229 CCTTGAATCC
47285239 TAAACCT
1 TAAACCT
*
47285246 TAAACCA
1 TAAACCT
47285253 TAAA-CT
1 TAAACCT
47285259 CTAAACCT
1 -TAAACCT
*
47285267 TAAATCT
1 TAAACCT
* *
47285274 AAAATCT
1 TAAACCT
*
47285281 TAAACCC
1 TAAACCT
*
47285288 TAAACCC
1 TAAACCT
47285295 TAAACC
1 TAAACC
47285301 ATAAGCTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 1 0.02
7 43 0.93
8 2 0.04
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:47285262 original size:21 final size:20
Alignment explanation
Indices: 47285238--47285299 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
47285228 ACCTTGAATC
47285238 CTAAACCTTAAACCATAAACT
1 CTAAACCTTAAACC-TAAACT
* *
47285259 CTAAACCTTAAATCTAAAAT
1 CTAAACCTTAAACCTAAACT
*
47285279 CTTAAACCCTAAACCCTAAAC
1 C-TAAACCTTAAA-CCTAAAC
47285300 CATAAGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 6 0.18
21 23 0.68
22 5 0.15
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAAACCTTAAACCTAAACT
Found at i:47285267 original size:35 final size:35
Alignment explanation
Indices: 47285227--47285300 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
47285217 TCAAAATTAT
* *
47285227 AACCTTGAATCCT-AAACCTTAAACCATAAACTCTA
1 AACCTTAAAT-CTAAAACCTTAAACCATAAACCCTA
* *
47285262 AACCTTAAATCTAAAATCTTAAACCCTAAACCCTA
1 AACCTTAAATCTAAAACCTTAAACCATAAACCCTA
47285297 AACC
1 AACC
47285301 ATAAGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.24
Consensus pattern (35 bp):
AACCTTAAATCTAAAACCTTAAACCATAAACCCTA
Found at i:47285694 original size:61 final size:61
Alignment explanation
Indices: 47285619--47285756 Score: 258
Period size: 61 Copynumber: 2.3 Consensus size: 61
47285609 ATAAACCATA
*
47285619 AACCATAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
1 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
47285680 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
1 AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
*
47285741 AACCCTAAACCTTAAA
1 AACCCTAAACCCTAAA
47285757 TCTAAAATCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (61 bp):
AACCCTAAACCCTAAAACCTTAAACACAAACTTAAACTCAAACCCATAACATTGAATCTTG
Found at i:47285758 original size:21 final size:20
Alignment explanation
Indices: 47285637--47285759 Score: 65
Period size: 21 Copynumber: 6.1 Consensus size: 20
47285627 ACCCTAAAAC
*
47285637 CTTAAACACAAA-CTTAAA-
1 CTTAAACCCAAACCTTAAAT
* * *
47285655 CTCAAACCCATAACATTGAAT
1 CTTAAACCCA-AACCTTAAAT
* * *
47285676 CTTGAACCCTAAACCCTAAAAC
1 CTTAAACCC-AAA-CCTTAAAT
*
47285698 CTTAAACACAAA-CTTAAA-
1 CTTAAACCCAAACCTTAAAT
* * *
47285716 CTCAAACCCATAACATTGAAT
1 CTTAAACCCA-AACCTTAAAT
*
47285737 CTTGAACCCTAAACCTTAAAT
1 CTTAAACCC-AAACCTTAAAT
47285758 CT
1 CT
47285760 AAAATCTTGA
Statistics
Matches: 75, Mismatches: 21, Indels: 15
0.68 0.19 0.14
Matches are distributed among these distances:
18 16 0.21
19 9 0.12
20 8 0.11
21 29 0.39
22 13 0.17
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.24
Consensus pattern (20 bp):
CTTAAACCCAAACCTTAAAT
Found at i:47285765 original size:28 final size:29
Alignment explanation
Indices: 47285734--47285791 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
47285724 CATAACATTG
*
47285734 AATCTTGAACCCTAAACCTTAAA-TCTAA
1 AATCTTGAACCCTAAACCCTAAACTCTAA
*
47285762 AATCTTGAACCTTAAACCCTAAACTCTAA
1 AATCTTGAACCCTAAACCCTAAACTCTAA
47285791 A
1 A
47285792 CCCTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (29 bp):
AATCTTGAACCCTAAACCCTAAACTCTAA
Done.