Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:775466 original size:31 final size:31
Alignment explanation
Indices: 775408--775523 Score: 94
Period size: 31 Copynumber: 3.7 Consensus size: 31
775398 CTTAAAAGGG
* * *
775408 TGCCACAGAGTTGTGGGCTTT-GAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAG-GAAGAGAT
*
775439 TGCCACTGAGTCGTGGACTTTAGGAAGAAAAT
1 TGCCACTGAGTCGTGGACTTTAGGAAG-AGAT
* *
775471 GATGCCACTGAGTCGTGGAC-TTAGAAAAAGGA-
1 --TGCCACTGAGTCGTGGACTTTAGGAAGA-GAT
* *
775503 TGCCATTGAGTTGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
775524 GAAAAGAGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
30 16 0.23
31 24 0.34
32 5 0.07
33 7 0.10
34 18 0.26
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAGGAAGAGAT
Found at i:775506 original size:30 final size:30
Alignment explanation
Indices: 775372--775528 Score: 117
Period size: 30 Copynumber: 5.2 Consensus size: 30
775362 GATTTTAAAA
* *
775372 AGAAAAAAG-TGCCACGGAGTTGTGGACTT
1 AGAAAAAGGATGCCACTGAGTTGTGGACTT
* * *
775401 ---AAAAGGGTGCCACAGAGTTGTGGGCTT
1 AGAAAAAGGATGCCACTGAGTTGTGGACTT
* * *
775428 TG-AGAAGAGATTGCCACTGAGTCGTGGACTTT
1 AGAAAAAG-GA-TGCCACTGAGTTGTGGAC-TT
* *
775460 AGGAAGAAAATGATGCCACTGAGTCGTGGACTT
1 A-G-A-AAAAGGATGCCACTGAGTTGTGGACTT
*
775493 AGAAAAAGGATGCCATTGAGTTGTGGACTT
1 AGAAAAAGGATGCCACTGAGTTGTGGACTT
*
775523 TGAAAA
1 AGAAAA
775529 GAGAGATTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
26 5 0.05
27 18 0.17
29 4 0.04
30 30 0.29
31 16 0.16
32 3 0.03
33 4 0.04
34 18 0.17
35 2 0.02
36 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (30 bp):
AGAAAAAGGATGCCACTGAGTTGTGGACTT
Found at i:783770 original size:20 final size:20
Alignment explanation
Indices: 783717--783771 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
783707 AATTTTCCAG
**
783717 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
783737 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
783757 ATGTATCGATACATT
1 ATGTATCGATACATT
783772 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:788003 original size:17 final size:17
Alignment explanation
Indices: 787978--788042 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
787968 ATAAAATATA
787978 TAAATTTTAATTTAATT
1 TAAATTTTAATTTAATT
787995 TAAAATTTATAA-TT-ATT
1 T-AAATTT-TAATTTAATT
* * *
788012 T-GAGTTTAATTAAATT
1 TAAATTTTAATTTAATT
*
788028 TTAATTTTAATTTAA
1 TAAATTTTAATTTAA
788043 GATAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 4 0.11
17 15 0.41
18 8 0.22
19 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAAATTTTAATTTAATT
Found at i:788258 original size:13 final size:13
Alignment explanation
Indices: 788240--788265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
788230 AGATCAATCG
788240 AATTTTAATTTTA
1 AATTTTAATTTTA
788253 AATTTTAATTTTA
1 AATTTTAATTTTA
788266 CTTTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTTTAATTTTA
Found at i:788903 original size:23 final size:23
Alignment explanation
Indices: 788872--788918 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
788862 TACAATAAAA
* *
788872 TTTATATTTTAATTACTTCAAAT
1 TTTAAATTTAAATTACTTCAAAT
* *
788895 TTTAAATTTAAATTATTTTAAAT
1 TTTAAATTTAAATTACTTCAAAT
788918 T
1 T
788919 CAGATGATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAATTTAAATTACTTCAAAT
Found at i:789253 original size:22 final size:21
Alignment explanation
Indices: 789226--789266 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
789216 TATTAAAAAT
* *
789226 TATTTTTATATTAATATTTATA
1 TATTTTCAAATTAA-ATTTATA
789248 TATTTTCAAATTAAATTTA
1 TATTTTCAAATTAAATTTA
789267 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTCAAATTAAATTTATA
Found at i:789680 original size:3 final size:3
Alignment explanation
Indices: 789672--789713 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
789662 TTTAGTTAAC
789672 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
789714 AATTAAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:791517 original size:2 final size:2
Alignment explanation
Indices: 791510--791544 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
791500 CTTCTATGGT
791510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
791545 GTTTATATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:793002 original size:19 final size:18
Alignment explanation
Indices: 792978--793013 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
792968 AAATTTAAAA
792978 ATTTATATATTTATATTAT
1 ATTTATATATTT-TATTAT
792997 ATTTATATATTTTATTA
1 ATTTATATATTTTATTA
793014 CATTATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:795605 original size:41 final size:41
Alignment explanation
Indices: 795534--795612 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
795524 AAAATATTTA
* * * *
795534 AAAATATATCATTTTTATAATATTTTAAAGTTTTTTAATAT
1 AAAATATATCATTTTTATAAAAATTAAAAGTTATTTAATAT
*
795575 AAAATAT-TTATTTTTATTAAAAATTAAAAGTTATTTAA
1 AAAATATATCATTTTTA-TAAAAATTAAAAGTTATTTAA
795613 AAATTAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (41 bp):
AAAATATATCATTTTTATAAAAATTAAAAGTTATTTAATAT
Found at i:796182 original size:16 final size:16
Alignment explanation
Indices: 796161--796203 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
796151 ATGTCAAAAT
*
796161 TAAAATATTAATACAA
1 TAAAATATTAAGACAA
* *
796177 TAAAATCTTAAGATAA
1 TAAAATATTAAGACAA
*
796193 TAAAATTTTAA
1 TAAAATATTAA
796204 ACGTACTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAAATATTAAGACAA
Found at i:798718 original size:21 final size:21
Alignment explanation
Indices: 798693--798744 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
798683 TTGTATAAAT
798693 TTTGTATTAAAGGGAAGAACA
1 TTTGTATTAAAGGGAAGAACA
*
798714 TTTGTATTAAAGGGAAGAACG
1 TTTGTATTAAAGGGAAGAACA
798735 TTTGTATTAA
1 TTTGTATTAA
798745 GGGGGAGAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (21 bp):
TTTGTATTAAAGGGAAGAACA
Found at i:799411 original size:13 final size:13
Alignment explanation
Indices: 799393--799418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
799383 TCCTTTTTTG
799393 TGTATCGATACAT
1 TGTATCGATACAT
799406 TGTATCGATACAT
1 TGTATCGATACAT
799419 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:802222 original size:13 final size:13
Alignment explanation
Indices: 802204--802229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
802194 CAATTTTTTG
802204 TGTATCGATACAT
1 TGTATCGATACAT
802217 TGTATCGATACAT
1 TGTATCGATACAT
802230 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:802244 original size:32 final size:33
Alignment explanation
Indices: 802184--802247 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
802174 TACAAGCCAA
** *
802184 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
802217 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
802248 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:803217 original size:22 final size:23
Alignment explanation
Indices: 803190--803233 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
803180 AAATTTTATT
*
803190 TTTTAAATATT-TTCTTGTGAAA
1 TTTTAAAAATTATTCTTGTGAAA
*
803212 TTTTAAAAATTATTTTTGTGAA
1 TTTTAAAAATTATTCTTGTGAA
803234 TGATATCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTAAAAATTATTCTTGTGAAA
Found at i:803991 original size:168 final size:166
Alignment explanation
Indices: 803812--804267 Score: 515
Period size: 168 Copynumber: 2.7 Consensus size: 166
803802 AAATTTTTGG
* * *
803812 GAGGATTTTTCTTAGTTTTAAATTTTTTAAATTCATCAAATATTATTAATTAATTCATATTAAAT
1 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
*
803877 CTGTTTTTAAAAATTTATTCATTTTGATAAATTTTTGAATTTTTTCCTTGAAACTCCCCCT-TGT
66 CTGTTTTTAAAAATTTATTCATTTTCAT-AATTTTTGAATTTTTTCCTTGAAA-TCCCCCTATGT
* * **
803941 TCTGAAATATAGAATTTTCTACTCTGTAAATGTTTTT-GA
129 TC-AAAATACAGAATTTTCTACTCCATAAAT-TTTTTCGA
* * * *
803980 -AGGGATTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAAAATTATTATTTAACTCACATTAAA
1 GA-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
* * * * *** *
804044 TCCGTTTTTAAAAATTTATTCATCTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTCCTATTT
65 TCTGTTTTTAAAAATTTATTCATTTTCAT-AATTTTTGAATTTTTTCCTTGAAATCCCCCTATGT
* * *
804109 TCAAAATACGGAGTTTTCTACTCCATAAATTTTTTCGG
129 TCAAAATACAGAATTTTCTACTCCATAAATTTTTTCGA
* * * * *
804147 GAGGCTTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATACTATTATTTGATTCATATTAAAA
1 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
* * * * * *
804212 CAT-TTTTGAAAAATTAATTTATTTTCATGATTTTTGGATTTTTTCTTTGAAATCCC
66 C-TGTTTTTAAAAATTTATTCATTTTCATAATTTTTGAATTTTTTCCTTGAAATCCC
804268 TTTTTCTTGA
Statistics
Matches: 237, Mismatches: 46, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
166 25 0.11
167 104 0.44
168 108 0.46
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (166 bp):
GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
CTGTTTTTAAAAATTTATTCATTTTCATAATTTTTGAATTTTTTCCTTGAAATCCCCCTATGTTC
AAAATACAGAATTTTCTACTCCATAAATTTTTTCGA
Found at i:804196 original size:167 final size:166
Alignment explanation
Indices: 803750--804256 Score: 554
Period size: 167 Copynumber: 3.0 Consensus size: 166
803740 GAGTTAGTGA
* * * * * * *
803750 TTTTCCTTCGAAATTTCTCCTATTTTCAAATTACGGGGTTTCCTTCTTCGTAAAATTTTTGGGAG
1 TTTTCCTTCAAAATTT-TCCTATTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTGGGAG
* * * *
803815 GATTTTTCTTAGTTTTAAATTTTTTAAATTCATCAAATATTATTAATTAATTCATATTAAATCTG
65 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCCG
* *
803880 TTTTTAAAAATTTATTCATTTTGATAAATTTTTGAATT
130 TTTTTAAAAATTTATTCATTTTCAT-GATTTTTGAATT
* * *** * * ** * * *
803918 TTTTCCTTGAAACTCCCCCT-TGTTCTGAAATATAGAATTTTCTACTCTGTAAATGTTTTT-GAA
1 TTTTCCTTCAAAATTTTCCTATTTTC-AAAATACGGAGTTTTCTACTCCGTAAAT-TTTTTGGGA
* * * *
803981 GGGATTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAAAATTATTATTTAACTCACATTAAATC
64 -GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATC
*
804046 CGTTTTTAAAAATTTATTCATCTTCATGAGTTTTTGAATT
128 CGTTTTTAAAAATTTATTCATTTTCATGA-TTTTTGAATT
*
804086 TTTTCCTT-AAAATTTTCCTATTTTCAAAATACGGAGTTTTCTACTCCATAAATTTTTTCGGGAG
1 TTTTCCTTCAAAATTTTCCTATTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTT-GGGAG
* * * * * *
804150 GCTTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATACTATTATTTGATTCATATTAAA-ACA
65 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCCG
* * *
804214 TTTTTGAAAAATTAATTTATTTTCATGATTTTTGGATT
130 TTTTT-AAAAATTTATTCATTTTCATGATTTTTGAATT
804252 TTTTC
1 TTTTC
804257 TTTGAAATCC
Statistics
Matches: 275, Mismatches: 56, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
166 29 0.11
167 125 0.45
168 121 0.44
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (166 bp):
TTTTCCTTCAAAATTTTCCTATTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTGGGAGG
ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCCGT
TTTTAAAAATTTATTCATTTTCATGATTTTTGAATT
Found at i:804563 original size:10 final size:10
Alignment explanation
Indices: 804550--804576 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
804540 TGATTTTTGA
804550 TAATTTGATT
1 TAATTTGATT
804560 TAATTTGATT
1 TAATTTGATT
804570 TAATTTG
1 TAATTTG
804577 TTTTTCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (10 bp):
TAATTTGATT
Found at i:804881 original size:23 final size:21
Alignment explanation
Indices: 804835--804881 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
804825 TCATTGCTCT
* *
804835 TATAAATAAAATATGATATAA
1 TATAAAAAAAATATGACATAA
804856 TATAAAAAATAATATGAACATAA
1 TATAAAAAA-AATATG-ACATAA
804879 TAT
1 TAT
804882 GAATAGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 6 0.27
23 8 0.36
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
TATAAAAAAAATATGACATAA
Found at i:805249 original size:16 final size:18
Alignment explanation
Indices: 805217--805250 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
805207 ATGAATCTTT
805217 AAATCTTATTATGAAACA
1 AAATCTTATTATGAAACA
805235 AAAT-TTATT-TGAAACA
1 AAATCTTATTATGAAACA
805251 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
AAATCTTATTATGAAACA
Found at i:805586 original size:19 final size:20
Alignment explanation
Indices: 805564--805607 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
805554 ATAAAATATT
805564 AATATTA-CTTGA-AAATAAA
1 AATATTATCTT-ATAAATAAA
*
805583 AATATTATCTTATAAATCAA
1 AATATTATCTTATAAATAAA
805603 AATAT
1 AATAT
805608 GCAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATTATCTTATAAATAAA
Found at i:807514 original size:13 final size:13
Alignment explanation
Indices: 807495--807532 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
807485 TATTGGTGAG
807495 AAAGAAGGAAGAA
1 AAAGAAGGAAGAA
*
807508 GAAGAAGGAAGGAA
1 AAAGAAGGAA-GAA
807522 AAAGAA-GAAGA
1 AAAGAAGGAAGA
807533 GGAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 12 0.55
14 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (13 bp):
AAAGAAGGAAGAA
Found at i:807518 original size:17 final size:17
Alignment explanation
Indices: 807493--807531 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
807483 GTTATTGGTG
* *
807493 AGAAAGAAGGAAGAAGA
1 AGAAGGAAGGAAAAAGA
807510 AGAAGGAAGGAAAAAGA
1 AGAAGGAAGGAAAAAGA
807527 AGAAG
1 AGAAG
807532 AGGAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGGAAGGAAAAAGA
Found at i:810808 original size:22 final size:22
Alignment explanation
Indices: 810781--810875 Score: 133
Period size: 22 Copynumber: 4.5 Consensus size: 22
810771 GTGAACAGTG
810781 TGAACAGTGATGTATAGATACA
1 TGAACAGTGATGTATAGATACA
*
810803 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATAGATACA
*
810825 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATAGATACA
* *
810846 TGAACAGTGATGAATAG-T-GA
1 TGAACAGTGATGTATAGATACA
810866 TGAACAGTGA
1 TGAACAGTGA
810876 AAATGAGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.16
21 22 0.32
22 35 0.51
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (22 bp):
TGAACAGTGATGTATAGATACA
Found at i:810834 original size:21 final size:22
Alignment explanation
Indices: 810781--810857 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
810771 GTGAACAGTG
*
810781 TGAACAGTGATGTATAGATACA
1 TGAACAGTGATGTATCGATACA
810803 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
810825 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
810846 TGAACAGTGATG
1 TGAACAGTGATG
810858 AATAGTGATG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
21 21 0.40
22 32 0.60
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:810864 original size:10 final size:10
Alignment explanation
Indices: 810845--810875 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
810835 GTATCGATAC
810845 ATGAACAGTG
1 ATGAACAGTG
*
810855 ATGAATAGTG
1 ATGAACAGTG
810865 ATGAACAGTG
1 ATGAACAGTG
810875 A
1 A
810876 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:810964 original size:53 final size:53
Alignment explanation
Indices: 810899--811035 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
810889 CTACTACCAA
810899 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * *
810952 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
811005 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
811036 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:811141 original size:21 final size:21
Alignment explanation
Indices: 811115--811155 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
811105 GTCAACCTTG
811115 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
811136 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
811156 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:815949 original size:53 final size:53
Alignment explanation
Indices: 815885--816021 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
815875 CTACTACCAA
*
815885 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACTAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * *
815938 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
815991 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
816022 TATGCAATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:816737 original size:5 final size:5
Alignment explanation
Indices: 816727--816753 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
816717 TCGTCTTTTA
816727 TTTGT TTTGT TTTGT TTTGT TTTGT TT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TT
816754 CTTGCATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:819448 original size:21 final size:22
Alignment explanation
Indices: 819424--819491 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
819414 GCAAAAGCAC
819424 AAAAAATG-AAAAGAAAAATAA
1 AAAAAATGAAAAAGAAAAATAA
** * *
819445 AAAATGTGCAAAAGTAAAAT--
1 AAAAAATGAAAAAGAAAAATAA
*
819465 AAAAAATGAAACAACAAAAATAA
1 AAAAAATGAAA-AAGAAAAATAA
819488 AAAA
1 AAAA
819492 CAAGGACATG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 8 0.23
21 13 0.37
22 10 0.29
23 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAAATGAAAAAGAAAAATAA
Found at i:820755 original size:30 final size:29
Alignment explanation
Indices: 820680--820755 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 29
820670 CACAAGTTAT
*
820680 TGGCAACCCCTTTTAAAGCCCATAAGTCGG
1 TGGCAA-CCCGTTTAAAGCCCATAAGTCGG
* *
820710 TGGCAAACCCTTTTAAAGCCCATACAAGTTGG
1 TGGC-AACCCGTTTAAAGCCCAT--AAGTCGG
*
820742 TGGC-ACTCGTTTAA
1 TGGCAACCCGTTTAA
820756 TCCTCAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 28 0.70
31 2 0.05
32 10 0.25
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (29 bp):
TGGCAACCCGTTTAAAGCCCATAAGTCGG
Found at i:820785 original size:62 final size:62
Alignment explanation
Indices: 820719--821757 Score: 1185
Period size: 62 Copynumber: 17.0 Consensus size: 62
820709 GTGGCAAACC
* * * * * *
820719 CTTTTAAAGCCCATACAAGTTGGTGGCACTCGTTTAATCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* *
820781 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * *
820843 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGTAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
820905 TTTTTAAAGCCCACACAAGTT-GTGGCACCCGTTCAGCCCCCAAAGAGCAGGATGCTTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* *
820966 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCTTCAAAGAGCAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
821028 CTTTTAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTTAAAGAGTAGGACGTCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * *
821090 CTTTTAAAGCCCACATAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGCAGGAAGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
821152 CTTTTAAAGCCCACACAAGTTGGTGGTAGCCATTCAGTCCTCAAAGAGCAAGACGCCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * * *
821214 CTTTTAAAGCCCACACAAGTTGGTGGCAGCCATTTAGTCCTCAAAGAGCAAGACACCTTTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
821276 CTTTTAAAGCCCACACAAGTTGGTGGCAGCCATTCAGTCCTCAAAGAGCAAGACGCCATTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* ** *
821338 CTTTTAAAGCCCATACAAGTTGGTGGCACATGTTCAGTCCTCAAAGAGCA-GACGCCTATTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
** * * * * *
821399 -TTAAAAAGCCCACACAAGTTTGTGGTACCCGTTCAGTCTTTAAAGAGCAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
** * * * * *
821460 -TTAAAAAAACCCACACAAGTTGGTGGCACCCATTCAGTTCTCAAAGAGTAGGATGCC--TTT
1 CTT-TTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * *
821520 -TTTAAAAGCCTACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAAAGCAAGACAACC---TT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGAC-GCCTTTTT
* * * *
821579 -TTTAAAAGCCCACACAAGTTGGTGGCACTCGTTCAGTCCTCAAAGAGCAGGAC-AC--ATT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * ** * * * *
821637 -TTTAAAAGCCCACATAAGTTGGTGGCACCTATTTAGTCCTTAAAGAGCAGGATGTC-TTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
* * * * * *
821697 -TTTAAAAGCCCATACAAGTTTGTGGCACCCGTTTAGTCCTCAAAGAGTAGGACACCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
821758 TAAGAGCATG
Statistics
Matches: 863, Mismatches: 106, Indels: 17
0.88 0.11 0.02
Matches are distributed among these distances:
57 1 0.00
58 48 0.06
59 94 0.11
60 95 0.11
61 78 0.09
62 547 0.63
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (62 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTT
Found at i:821837 original size:80 final size:80
Alignment explanation
Indices: 821692--821840 Score: 244
Period size: 80 Copynumber: 1.9 Consensus size: 80
821682 AGCAGGATGT
* * *
821692 CTTTTTTTAAAAGCCCATACAAGTTTGTGGCACCCGTTTAGTCCTCAAAGAGTAGGACACCTTTT
1 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGACACCTTTT
821757 TTAAGAGCATGACGC
66 TTAAGAGCATGACGC
* * *
821772 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCTTTTT
1 CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGACACCTTTT
821837 TTAA
66 TTAA
821841 AGCCCACATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (80 bp):
CTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCAGGACACCTTTT
TTAAGAGCATGACGC
Found at i:821988 original size:62 final size:62
Alignment explanation
Indices: 821868--822045 Score: 187
Period size: 62 Copynumber: 2.9 Consensus size: 62
821858 GGCACCATTA
* * ** * ***
821868 TCAAAGCCCGCACGAGTTGGCGGCACCCTAGTCAAAGCCTACATGAGTTGGAAACACCCTAG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCTACACAAGTCGGTGGCACCCTAG
* * * *
821930 TCAAATCCCCCAGGAGTTGGCGGCACCCTAGTCAAATCCTACACAAGTCAGTGGCACCCTTG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCTACACAAGTCGGTGGCACCCTAG
* * * * *
821992 TCAAAGCCCGCACAAATTGGCGGCA-CTTAAGTCAAATCCCACACAAGTCGGTGG
1 TCAAAGCCCCCACGAGTTGGCGGCACCCT-AGTCAAATCCTACACAAGTCGGTGG
822046 TGCCCCTTTT
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 2 0.02
62 93 0.98
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.17
Consensus pattern (62 bp):
TCAAAGCCCCCACGAGTTGGCGGCACCCTAGTCAAATCCTACACAAGTCGGTGGCACCCTAG
Found at i:822017 original size:31 final size:31
Alignment explanation
Indices: 821839--822039 Score: 145
Period size: 31 Copynumber: 6.5 Consensus size: 31
821829 CGCTTTTTTT
* * *
821839 AAAGCCCACATAAGTTGACGGCACCATTA-TC
1 AAAGCCCACACAAGTTGGCGGCACC-CTAGTC
* *
821870 AAAGCCCGCACGAGTTGGCGGCACCCTAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* ** ***
821901 AAAGCCTACATGAGTTGGAAACACCCTAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* * **
821932 AAATCCCCCAGGAGTTGGCGGCACCCTAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* * ** * *
821963 AAATCCTACACAAGTCAGTGGCACCCTTGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* * *
821994 AAAGCCCGCACAAATTGGCGGCA-CTTAAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCT-AGTC
*
822025 AAATCCCACACAAGT
1 AAAGCCCACACAAGT
822040 CGGTGGTGCC
Statistics
Matches: 130, Mismatches: 38, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
30 4 0.03
31 126 0.97
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGGCGGCACCCTAGTC
Found at i:822103 original size:32 final size:31
Alignment explanation
Indices: 822065--822216 Score: 94
Period size: 32 Copynumber: 4.8 Consensus size: 31
822055 TAAAAAACCT
* * * *
822065 ACATAAGTTGGTGGCATCTTTTTTTAAAGCTC
1 ACATAAGTTGGTGGCAAC-CTCTTCAAAGCTC
*
822097 ACATAAGTCGGTGGCAACC-CTCTCTAAAG-TCC
1 ACATAAGTTGGTGGCAACCTCT-TC-AAAGCT-C
*
822129 ACATAAGTTGGTGGCAACACCCTTCAAAGC-C
1 ACATAAGTTGGTGGCAAC-CTCTTCAAAGCTC
* * * * * *
822160 TACACAAGTTCGTGGCATCTTTTTCAAAGCCC
1 -ACATAAGTTGGTGGCAACCTCTTCAAAGCTC
* *
822192 ACACAAGTTGGTGGTAACCTTCTTC
1 ACATAAGTTGGTGGCAACC-TCTTC
822217 TGAAGACCAC
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
30 1 0.01
31 26 0.28
32 62 0.66
33 3 0.03
34 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
ACATAAGTTGGTGGCAACCTCTTCAAAGCTC
Found at i:822240 original size:96 final size:96
Alignment explanation
Indices: 822062--822240 Score: 218
Period size: 96 Copynumber: 1.9 Consensus size: 96
822052 TTTTAAAAAA
* * * * * *
822062 CCTACATAAGTTGGTGGCATCTTTTTTTAAAGCTCACATAAGTCGGTGGCAACCCTCTCTAAAGT
1 CCTACACAAGTTCGTGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGA
* *
822127 CCACATAAGTTGGTGGCAACACCCTTCAAAG
66 CCACATAAGTCGATGGCAACACCCTTCAAAG
* * * *
822158 CCTACACAAGTTCGTGGCATC-TTTTTCAAAGCCCACACAAGTTGGTGGTAACCTTCTTCTGAAG
1 CCTACACAAGTTCGTGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAG
822222 ACCACA-ATAGTCGATGGCA
65 ACCACATA-AGTCGATGGCA
822241 TTTCCTTCTA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
95 30 0.43
96 39 0.57
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (96 bp):
CCTACACAAGTTCGTGGCATCTTTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGA
CCACATAAGTCGATGGCAACACCCTTCAAAG
Found at i:823340 original size:14 final size:14
Alignment explanation
Indices: 823321--823356 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
823311 ATTGGTGAGA
*
823321 AAGAAGGAAGGAAG
1 AAGAAGAAAGGAAG
823335 AAGAAGAAAGGAAG
1 AAGAAGAAAGGAAG
823349 AAGAAGAA
1 AAGAAGAA
823357 GATGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAGGAAG
Found at i:823351 original size:17 final size:18
Alignment explanation
Indices: 823324--823358 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
823314 GGTGAGAAAG
823324 AAGGAAGGAAGAAGAAGA
1 AAGGAAGGAAGAAGAAGA
823342 AAGGAA-GAAGAAGAAGA
1 AAGGAAGGAAGAAGAAGA
823359 TGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
AAGGAAGGAAGAAGAAGA
Found at i:826013 original size:12 final size:12
Alignment explanation
Indices: 825996--826023 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
825986 GTAAAAATAA
825996 AAAATTAAAATT
1 AAAATTAAAATT
826008 AAAATTAAAATT
1 AAAATTAAAATT
826020 AAAA
1 AAAA
826024 AAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:826034 original size:18 final size:18
Alignment explanation
Indices: 825988--826035 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
825978 AGTAATAAGT
825988 AAAAATAA-AAAATTAAA
1 AAAAATAATAAAATTAAA
826005 ATTAAAAT--TAAAATTAAA
1 A--AAAATAATAAAATTAAA
826023 AAAAATAATAAAA
1 AAAAATAATAAAA
826036 ATGAAGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 15 0.58
19 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATAATAAAATTAAA
Found at i:826051 original size:13 final size:14
Alignment explanation
Indices: 826035--826134 Score: 50
Period size: 14 Copynumber: 8.2 Consensus size: 14
826025 AAATAATAAA
826035 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
826048 AATGATGGGCATGG
1 AATGATAGGCATGG
*
826062 AAT-ATA---A--A
1 AATGATAGGCATGG
826070 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
826083 AATGATGGGCATGG
1 AATGATAGGCATGG
*
826097 AAT-ATA---A--A
1 AATGATAGGCATGG
826105 AATGA-AGGCATGG
1 AATGATAGGCATGG
*
826118 AATGATGGGCATGG
1 AATGATAGGCATGG
826132 AAT
1 AAT
826135 ATAAAAATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 29
0.62 0.09 0.29
Matches are distributed among these distances:
8 8 0.13
9 2 0.03
10 2 0.03
11 2 0.03
13 19 0.30
14 30 0.48
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (14 bp):
AATGATAGGCATGG
Found at i:826072 original size:35 final size:35
Alignment explanation
Indices: 826030--826199 Score: 331
Period size: 35 Copynumber: 4.9 Consensus size: 35
826020 AAAAAAAATA
826030 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
826065 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
826100 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
826135 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
826170 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
826200 AAAAAATGAA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 133 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:826080 original size:21 final size:20
Alignment explanation
Indices: 826055--826190 Score: 83
Period size: 21 Copynumber: 7.5 Consensus size: 20
826045 TGGAATGATG
826055 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
*
826076 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
826090 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
*
826111 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
826125 GGCATGGAATATAAAAATGGA
1 GGCATGGAATATAAAAAT-GA
*
826146 GGCATGG-A-AT---GATG-
1 GGCATGGAATATAAAAATGA
826160 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATG-A
826181 GGCATGGAAT
1 GGCATGGAAT
826191 GATGGGCATA
Statistics
Matches: 88, Mismatches: 6, Indels: 42
0.65 0.04 0.31
Matches are distributed among these distances:
14 21 0.24
15 4 0.05
16 14 0.16
19 14 0.16
20 4 0.05
21 31 0.35
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.20
Consensus pattern (20 bp):
GGCATGGAATATAAAAATGA
Found at i:827721 original size:79 final size:79
Alignment explanation
Indices: 827590--828198 Score: 858
Period size: 79 Copynumber: 7.8 Consensus size: 79
827580 TTTAATTTTC
* * * *
827590 TCAATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCGAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
827655 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
827669 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGG-T
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
827733 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* *
827747 TGAATTTTTTCATAATCGGGGATACTCCAACCGCGTTATTTTCGAGGGGATACTCCAACCCC-G-
1 TCAA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGT
* *
827810 ---ATTTTTATAACA
65 TTTATTTCTAAAACA
* * *
827822 TCAATTTTTCATAATCGGGGATACTCTAACCCCATTATTTTCGAGGGGATACTCCAATCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
827887 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* *
827901 TCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
* *
827966 TTATCTCTAGAACA
66 TTATTTCTAAAACA
* * *
827980 TCAA-TTTTCATAATCGGGGATACTCTAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
828044 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
828058 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
828123 TTATTTCAAAAACA
66 TTATTTCTAAAACA
* * * * * * *
828137 CCAATTTTTCACAATCGAGGATACTTCAAGCTCGTTA-TTTC-ATTAGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGA--GGGGATACTCCAACCCCG
828199 TTACCTCCGA
Statistics
Matches: 475, Mismatches: 46, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
74 53 0.11
75 13 0.03
77 1 0.00
78 92 0.19
79 316 0.67
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:828047 original size:157 final size:157
Alignment explanation
Indices: 827590--828200 Score: 880
Period size: 157 Copynumber: 3.9 Consensus size: 157
827580 TTTAATTTTC
* * *
827590 TCAATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCGAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
827655 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
66 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATA
* *
827720 CTCCAACCCTGGTTTATCTCTAAAACA
131 CTCCAACCCCGTTTTATCTCTAAAACA
* * *
827747 TGAATTTTTTCATAATCGGGGATACTCCAACCGCGTTATTTTCGAGGGGATACTCCAACCCC-G-
1 TCAA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGT
* * *
827810 ---ATTTTTATAACATCAATTTTTCATAATCGGGGATACTCTAACCCCATTATTTTCGAGGGGAT
65 TTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGAT
*
827872 ACTCCAATCCCGGTTTTATCTCTAAAACA
130 ACTCCAA-CCCCGTTTTATCTCTAAAACA
*
827901 TCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
* * *
827966 TTATCTCTAGAACATCAA-TTTTCATAATCGGGGATACTCTAACCCCGTTATTTTTGAGGGGATA
66 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATA
*
828030 CTCCAACCCCGATTTTATTTCTAAAACA
131 CTCCAACCCCG-TTTTATCTCTAAAACA
828058 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
* * * * * * *
828123 TTATTTCAAAAACACCAATTTTTCACAATCGAGGATACT-TCAAGCTCGTTA-TTTC-ATTAGGG
66 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT-AACCCCGTTATTTTCGA--GGGG
828185 ATACTCCAACCCCGTT
128 ATACTCCAACCCCGTT
828201 ACCTCCGAGG
Statistics
Matches: 409, Mismatches: 33, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
153 120 0.29
154 23 0.06
156 5 0.01
157 153 0.37
158 108 0.26
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (157 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATA
CTCCAACCCCGTTTTATCTCTAAAACA
Found at i:828194 original size:107 final size:106
Alignment explanation
Indices: 828075--828445 Score: 337
Period size: 107 Copynumber: 3.5 Consensus size: 106
828065 TTCATAATCG
* **
828075 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCA
1 GGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCA
* *
828140 ATTTTTCACAATCGAGGATACTTCAAGCTCGTTATTTCATT
66 ATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATT
* ** * * **
828181 AGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATT
1 -GGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACACC
* * * * *
828246 GATTTGTCATAATCGGGGATACTCCAACCTCGGT-TTT-ATT
65 AATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATT
** *** ** * * * *
828286 ----T-CTAAAACATTAATT-TTTCACAATCGGGGATACTCTAACCCTGGTTTTATTTTAAAAAC
1 GGGATACTCCAAC-CCCATTACCTC-CGA--GGGGATACTCCAACCCCGGTTTTATTTCAAAAAC
* * *
828345 ACCAATCTTTCACAATTGAGGATACTCCAACCTCGTTATTTCATCG
62 ACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCAT-T
828391 GGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTT-TTTC
1 GGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGG-TTTTATTTC
828446 CAGAATATTG
Statistics
Matches: 198, Mismatches: 52, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
99 7 0.04
100 5 0.03
102 55 0.28
103 3 0.02
104 2 0.01
105 3 0.02
106 3 0.02
107 103 0.52
108 4 0.02
109 6 0.03
110 7 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (106 bp):
GGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCA
ATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATT
Found at i:828267 original size:51 final size:51
Alignment explanation
Indices: 828209--828376 Score: 158
Period size: 51 Copynumber: 3.3 Consensus size: 51
828199 TTACCTCCGA
* * *
828209 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTGTCATAATC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTGTCACAATC
* ** * *
828260 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTGTCACAATC
* * ** ** ** *
828311 GGGGATACTCTAACCCTGGTTTTATTTTAAAAACACCAATCTT-TCACAATT
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAAT-TTGTCACAATC
*
828362 GAGGATACTCCAACC
1 GGGGATACTCCAACC
828377 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 96 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTGTCACAATC
Found at i:828360 original size:209 final size:209
Alignment explanation
Indices: 828102--828483 Score: 629
Period size: 209 Copynumber: 1.8 Consensus size: 209
828092 TTATTTCCGA
* * *
828102 GGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATTTTTCACAATCGAGGATACTTCAAG
1 GGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAAC
* *
828167 CTCGTTATTTCATTAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTT
66 CTCGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTT
*
828232 ATTTCCAAAATATTGATTTGTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATT
131 ATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATT
828297 AATTTTTCACAATC
196 AATTTTTCACAATC
* * * *
828311 GGGGATACTCTAACCCTGGTTTTATTTTAAAAACACCAATCTTTCACAATTGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAAC
* *
828376 CTCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTT
66 CTCGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTT
* * *
828441 TTTTCCAGAATATTGATTTCTCATAATTGGGGATACTCCAACC
131 ATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
828484 CTGTTATTTC
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
209 158 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (209 bp):
GGGGATACTCCAACCCCGGTTTTATTTCAAAAACACCAATCTTTCACAATCGAGGATACTCCAAC
CTCGTTATTTCATCAGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACTTT
ATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATT
AATTTTTCACAATC
Found at i:828569 original size:79 final size:79
Alignment explanation
Indices: 828389--828570 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
828379 GTTATTTCAT
* ** * *
828389 CGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTTTTTCCAGAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATTTTTTTCCACAATAT
* * *
828454 TGATTTCTCATAAT
66 GGATTTCTCACAAC
* * * *
828468 TGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCTAATCCC-GATTTTATTTCC-CAATC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATTTT-TTTCCACAAT-
*
828531 ATGGATTTTTCACAAC
64 ATGGATTTCTCACAAC
828547 CGGGGATACTCCAACCCCGTTATT
1 CGGGGATACTCCAACCCCGTTATT
828571 ATCTCCAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 8 0.09
79 78 0.91
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGATTTTTTTCCACAATAT
GGATTTCTCACAAC
Found at i:837373 original size:75 final size:78
Alignment explanation
Indices: 837241--837757 Score: 722
Period size: 75 Copynumber: 6.8 Consensus size: 78
837231 TTTAATTTTC
* * *
837241 TCAATTTTTCACAATCGGAGATACTCCAACCCCGTTA-TTCG-GGGGATACTCGAACCCC-GTTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTT
*
837303 TATTTCTAAAACA
66 TATCTCTAAAACA
*
837316 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTCCGAGGGGATA-TCC-ACCCCGGTTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTT
837379 TATCTC-AAAACA
66 TATCTCTAAAACA
*
837391 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAA-CCC-GTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTC-GAGGGGATACTCCAACCCCGGTT
837454 TTAT-TCTAAAACA
65 TTATCTCTAAAACA
* * * *
837467 TCAA-TTTTCATAATCGAGGATACTCCAACCCCGTTATTTTGAAGGGATACTCCAAGCCCGGTTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTT
837531 TATCTCTAAAACA
66 TATCTCTAAAACA
*
837544 TCAATTTTTCATAATTGGGGATACT-CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTT
837608 TTATCTCTAAAACA
65 TTATCTCTAAAACA
837622 TCAATTTTTCATAATC-GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTT
* *
837686 TTATTTCAAAAACA
65 TTATCTCTAAAACA
* * * * *
837700 GCAA-TTTTCA-CATCGAGGATACTCCAACCTCGTTATTTC-ATCGAGGATACTCCAACCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCGA--GGGGATACTCCAACCC
837758 GTTACCTCCG
Statistics
Matches: 402, Mismatches: 24, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
74 13 0.03
75 126 0.31
76 54 0.13
77 83 0.21
78 126 0.31
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (78 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTT
TATCTCTAAAACA
Found at i:837605 original size:78 final size:79
Alignment explanation
Indices: 837241--837757 Score: 723
Period size: 78 Copynumber: 6.8 Consensus size: 79
837231 TTTAATTTTC
* * *
837241 TCAATTTTTCACAATCGGAGATACTCCAACCCCGTTA--TTCG-GGGGATACTCGAACCCC-GTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
837302 TTATTTCTAAAACA
66 TTATCTCTAAAACA
*
837316 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTCCGAGGGGATA-TCC-ACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
837378 TTATCTC-AAAACA
66 TTATCTCTAAAACA
*
837391 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGATACTTCAA-CCC-GT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGT
837453 TTTAT-TCTAAAACA
65 TTTATCTCTAAAACA
* * *
837467 TCAA-TTTTCATAATCGAGGATACTCCAACCCCGTTATTTT-GAAGGGATACTCCAAGCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
837530 TTATCTCTAAAACA
66 TTATCTCTAAAACA
*
837544 TCAATTTTTCATAATTGGGGATACT-CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
837608 TTATCTCTAAAACA
66 TTATCTCTAAAACA
837622 TCAATTTTTCATAATC-GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
* *
837686 TTATTTCAAAAACA
66 TTATCTCTAAAACA
* * * *
837700 GCAA-TTTTCA-CATCGAGGATACTCCAACCTCGTTATTTCATCGA--GGATACTCCAACCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT--TCGAGGGGATACTCCAACCC
837758 GTTACCTCCG
Statistics
Matches: 404, Mismatches: 21, Indels: 32
0.88 0.05 0.07
Matches are distributed among these distances:
74 13 0.03
75 122 0.30
76 53 0.13
77 89 0.22
78 123 0.30
79 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATCTCTAAAACA
Found at i:837824 original size:104 final size:103
Alignment explanation
Indices: 837635--838007 Score: 266
Period size: 104 Copynumber: 3.6 Consensus size: 103
837625 ATTTTTCATA
** * * *
837635 ATCGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAACA
1 ATCGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTTCAAAAACA
*
837700 GCAATTTTCACATCGAGGATACTCCAACCTCGTTATTTC
66 G-AATTTTCAAATCGAGGATACTCCAACCTCGTTATTTC
* *
837739 ATCGAGGATACTCCAA-CCCGTTACCTCCGAGGGGA-ACTCCAACCACGGCTTTATTTCCAAAAT
1 ATCG-GGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTTCAAAAAC
* * *
837802 ATG-ATTTCTCATAATCGGGGATACTCCAACCCCGGTTTATTTT
65 A-GAATTT-TCA-AATCGAGGATACTCCAACCTC-G-TTATTTC
* *** * * * * * * ** *
837845 TTCAAAATGCT--AA----TTTTCC-ACAATCGGGGATACTCTAACC-CGATTTTATTTTAAAAA
1 ATCGGGATACTCCAACCCCGTTACCTCCGA--GGGGATACTCCAACCACGGCTTTATTTCAAAAA
* ** *
837902 CACCAATCTTTCACAATTAAGGATACTCAAACCTCGTTATTTC
64 CA-GAAT-TTTCA-AATCGAGGATACTCCAACCTCGTTATTTC
* * *
837945 ATCGGGGATACTCCAACCCCATTACCTCCGA-GGGATACTCCAACCCCGGCTTTATTTCCAAAA
1 ATC-GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTTCAAAAA
838008 TATTCATTTC
Statistics
Matches: 200, Mismatches: 49, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
99 2 0.01
100 12 0.06
101 24 0.12
102 33 0.17
103 34 0.17
104 39 0.19
105 29 0.14
106 21 0.10
107 4 0.02
108 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (103 bp):
ATCGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTTCAAAAACA
GAATTTTCAAATCGAGGATACTCCAACCTCGTTATTTC
Found at i:1163447 original size:15 final size:14
Alignment explanation
Indices: 1163425--1163465 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
1163415 AAAAAAGAGC
1163425 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
1163439 AAAACAAAAAAACAA
1 AAAA-AAAAAAACAA
1163454 AACAAAGAAAAA
1 AA-AAA-AAAAA
1163466 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:1164532 original size:55 final size:55
Alignment explanation
Indices: 1164442--1165290 Score: 1295
Period size: 55 Copynumber: 15.4 Consensus size: 55
1164432 CTCCTTCCGC
*
1164442 CTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1164496 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* *
1164551 TTTTCCAGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1164606 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1164661 CCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* *
1164716 TTTTCCACTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1164771 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1164826 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1164881 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* * *
1164936 TTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCG
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1164991 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1165046 CCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCG
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* * *
1165102 CCTTCTAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1165157 CCTTT-CAGTCCCCGAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
1165212 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1165267 TTTTTCAGTCCTCAAAGAGCAGGA
1 CTTTCCAGTCCTCAAAGAGCAGGA
1165291 TGCTTTTTAT
Statistics
Matches: 742, Mismatches: 37, Indels: 31
0.92 0.05 0.04
Matches are distributed among these distances:
54 19 0.03
55 654 0.88
56 69 0.09
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
CTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1164689 original size:26 final size:26
Alignment explanation
Indices: 1164604--1164854 Score: 80
Period size: 26 Copynumber: 9.2 Consensus size: 26
1164594 AAGTTGGTGG
*
1164604 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
1164630 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
1164659 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * **
1164685 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCACA-AAG-AGCAGGA
* * *
1164714 CA-TTTTCCACTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * * **
1164740 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
1164769 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
1164795 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
1164824 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
1164850 CACCT
1 CACCT
1164855 CTTAAAGCCC
Statistics
Matches: 153, Mismatches: 51, Indels: 42
0.62 0.21 0.17
Matches are distributed among these distances:
25 12 0.08
26 37 0.24
27 28 0.18
28 34 0.22
29 30 0.20
30 12 0.08
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:1165075 original size:27 final size:27
Alignment explanation
Indices: 1164993--1165075 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
1164983 TGGTGGCGCC
1164993 TTCCAGTCCTCAAAGAGCAGGACACCT
1 TTCCAGTCCTCAAAGAGCAGGACACCT
* * * * * **
1165020 CTCAAAGCCCACACAAGTTGGTGG-CACCT
1 TTC-CAGTCCTCA-AAG-AGCAGGACACCT
1165049 TTCCAGTCCTCAAAGAGCAGGACACCT
1 TTCCAGTCCTCAAAGAGCAGGACACCT
1165076 CTTAAAGCCC
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
26 3 0.08
27 10 0.26
28 12 0.32
29 10 0.26
30 3 0.08
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (27 bp):
TTCCAGTCCTCAAAGAGCAGGACACCT
Found at i:1165740 original size:13 final size:13
Alignment explanation
Indices: 1165722--1165747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1165712 GATAAAGTGT
1165722 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1165735 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1165748 AAAAAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:1165785 original size:21 final size:21
Alignment explanation
Indices: 1165759--1165815 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1165749 AAAAATTCCA
1165759 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1165780 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1165801 AATGTATCGATACAT
1 AATGTATCGATACAT
1165816 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1165895 original size:19 final size:19
Alignment explanation
Indices: 1165871--1165938 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1165861 AATTCAACAA
1165871 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1165890 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1165905 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1165922 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1165939 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1165910 original size:13 final size:13
Alignment explanation
Indices: 1165892--1165916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1165882 ACATAAGTTT
1165892 TGTATCGATACAA
1 TGTATCGATACAA
1165905 TGTATCGATACA
1 TGTATCGATACA
1165917 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1165914 original size:32 final size:32
Alignment explanation
Indices: 1165873--1165935 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1165863 TTCAACAATT
*
1165873 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1165905 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1165936 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1165996 original size:13 final size:13
Alignment explanation
Indices: 1165978--1166003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1165968 CATTTTTCTG
1165978 TGTATCGATACAT
1 TGTATCGATACAT
1165991 TGTATCGATACAT
1 TGTATCGATACAT
1166004 GGGTCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1166000 original size:33 final size:33
Alignment explanation
Indices: 1165958--1166024 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1165948 GCCAAGGAAA
***
1165958 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGGTCTGTGTATCGATACAT
*
1165991 TGTATCGATACATGGGTCTTTGTATCGATACAT
1 TGTATCGATACATGGGTCTGTGTATCGATACAT
1166024 T
1 T
1166025 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGGTCTGTGTATCGATACAT
Found at i:1168537 original size:28 final size:27
Alignment explanation
Indices: 1168470--1168542 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1168460 CTTCACAATC
* *
1168470 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1168497 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1168525 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1168543 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1168587 original size:51 final size:51
Alignment explanation
Indices: 1168525--1168695 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1168515 TTATTTCTGA
* * *
1168525 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1168576 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1168629 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1168681 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1168696 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1168714 original size:28 final size:28
Alignment explanation
Indices: 1168678--1168759 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1168668 ATTTTTCACA
*
1168678 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1168706 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1168734 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1168760 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1173874 original size:20 final size:20
Alignment explanation
Indices: 1173814--1173886 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1173804 TTACCCAAAA
* *
1173814 GTATCAATAAATTTTTCAAT
1 GTATCGATACATTTTTCAAT
* * ***
1173834 GTATCGATAGATGTAAGAAT
1 GTATCGATACATTTTTCAAT
1173854 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
*
1173874 GTATTGATACATT
1 GTATCGATACATT
1173887 ATGTTTTTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:1181791 original size:15 final size:15
Alignment explanation
Indices: 1181771--1181816 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1181761 TCCGTCAAAC
1181771 CCACCACAACATCAT
1 CCACCACAACATCAT
1181786 CCACCATCTAAC-T-AT
1 CCACCA-C-AACATCAT
*
1181801 CCACCACAAAATCAT
1 CCACCACAACATCAT
1181816 C
1 C
1181817 GAAACACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
13 2 0.08
14 2 0.08
15 17 0.65
16 2 0.08
17 3 0.12
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (15 bp):
CCACCACAACATCAT
Found at i:1187796 original size:15 final size:15
Alignment explanation
Indices: 1187778--1187881 Score: 85
Period size: 14 Copynumber: 7.0 Consensus size: 15
1187768 GCGTCCTTTT
1187778 CAAAAAGAAAAAAAA
1 CAAAAAGAAAAAAAA
1187793 C--AAAGCAAAAAAAA
1 CAAAAAG-AAAAAAAA
*
1187807 C-AAGAGAAAAAAAA
1 CAAAAAGAAAAAAAA
*
1187821 C--AAAGCAAAAAAA
1 CAAAAAGAAAAAAAA
*
1187834 CAAAACAAAAAAAAAAA
1 C-AAA-AAGAAAAAAAA
1187851 CAAAAA-ACAAAAAAA
1 CAAAAAGA-AAAAAAA
*
1187866 CAAAAACCAAAAAAAA
1 CAAAAA-GAAAAAAAA
1187882 ATAACACAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
13 15 0.20
14 19 0.25
15 19 0.25
16 11 0.15
17 11 0.15
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (15 bp):
CAAAAAGAAAAAAAA
Found at i:1187802 original size:13 final size:13
Alignment explanation
Indices: 1187781--1187861 Score: 94
Period size: 13 Copynumber: 6.2 Consensus size: 13
1187771 TCCTTTTCAA
*
1187781 AAAGAAAAAAAAC
1 AAAGCAAAAAAAC
1187794 AAAGCAAAAAAAAC
1 AAAGC-AAAAAAAC
*
1187808 AAGAGAAAAAAAAC
1 AA-AGCAAAAAAAC
1187822 AAAGCAAAAAAAC
1 AAAGCAAAAAAAC
*
1187835 AAAACAAAAAAA-
1 AAAGCAAAAAAAC
*
1187847 AAAAC-AAAAAAC
1 AAAGCAAAAAAAC
1187859 AAA
1 AAA
1187862 AAAACAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
11 6 0.10
12 8 0.13
13 25 0.41
14 20 0.33
15 2 0.03
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAGCAAAAAAAC
Found at i:1187804 original size:14 final size:14
Alignment explanation
Indices: 1187781--1187871 Score: 102
Period size: 14 Copynumber: 6.7 Consensus size: 14
1187771 TCCTTTTCAA
1187781 AAAG-AAAAAAAAC
1 AAAGCAAAAAAAAC
1187794 AAAGCAAAAAAAAC
1 AAAGCAAAAAAAAC
1187808 AAGAG-AAAAAAAAC
1 AA-AGCAAAAAAAAC
1187822 AAAGC-AAAAAAAC
1 AAAGCAAAAAAAAC
*
1187835 AAAACAAAAAAAA-
1 AAAGCAAAAAAAAC
*
1187848 AAA-CAAAAAACAAA
1 AAAGCAAAAAA-AAC
*
1187862 AAAACAAAAA
1 AAAGCAAAAA
1187872 CCAAAAAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 12
0.84 0.01 0.14
Matches are distributed among these distances:
12 7 0.10
13 23 0.33
14 32 0.46
15 8 0.11
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAGCAAAAAAAAC
Found at i:1187822 original size:28 final size:28
Alignment explanation
Indices: 1187780--1187871 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 28
1187770 GTCCTTTTCA
1187780 AAAAGAAAAAAAACAAAGCAAAAAAAAC
1 AAAAGAAAAAAAACAAAGCAAAAAAAAC
*
1187808 AAGAGAAAAAAAACAAAGC-AAAAAAAC
1 AAAAGAAAAAAAACAAAGCAAAAAAAAC
* *
1187835 AAAACAAAAAAAA-AAA-CAAAAAACAAA
1 AAAAGAAAAAAAACAAAGCAAAAAA-AAC
*
1187862 AAAACAAAAA
1 AAAAGAAAAA
1187872 CCAAAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
25 1 0.02
26 8 0.14
27 31 0.53
28 18 0.31
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (28 bp):
AAAAGAAAAAAAACAAAGCAAAAAAAAC
Found at i:1187862 original size:13 final size:13
Alignment explanation
Indices: 1187787--1187892 Score: 71
Period size: 12 Copynumber: 7.9 Consensus size: 13
1187777 TCAAAAAGAA
1187787 AAAAAACAAAGCAA-
1 AAAAAACAAA--AAC
1187801 AAAAAACAAGAGAA-
1 AAAAAACAA-A-AAC
*
1187815 AAAAAAC-AAAGC
1 AAAAAACAAAAAC
1187827 AAAAAA-ACAAAAC
1 AAAAAACA-AAAAC
1187840 AAAAAA-AAAAAC
1 AAAAAACAAAAAC
1187852 AAAAAACAAAAAAAC
1 AAAAAAC--AAAAAC
*
1187867 AAAAACCAAAAA-
1 AAAAAACAAAAAC
1187879 AAAATAACACAAAA
1 AAAA-AACA-AAAA
1187893 AGGGAGGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.01
12 22 0.28
13 20 0.26
14 22 0.28
15 13 0.17
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:1187872 original size:14 final size:14
Alignment explanation
Indices: 1187786--1187893 Score: 72
Period size: 14 Copynumber: 7.9 Consensus size: 14
1187776 TTCAAAAAGA
*
1187786 AAAAAAAC-AAAGC
1 AAAAAAACAAAAAC
*
1187799 AAAAAAAACAAGAGA-
1 -AAAAAAACAA-AAAC
*
1187814 AAAAAAAC-AAAGC
1 AAAAAAACAAAAAC
1187827 AAAAAAAC-AAAAC
1 AAAAAAACAAAAAC
1187840 -AAAAAA-AAAAAC
1 AAAAAAACAAAAAC
1187852 -AAAAAACAAAAA-
1 AAAAAAACAAAAAC
1187864 AACAAAAACCAAAAA-
1 AA-AAAAA-CAAAAAC
1187879 AAAATAACACAAAAA
1 AAAA-AA-ACAAAAA
1187894 GGGAGGGGTC
Statistics
Matches: 79, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
12 18 0.23
13 19 0.24
14 23 0.29
15 17 0.22
16 2 0.03
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:1187890 original size:22 final size:22
Alignment explanation
Indices: 1187778--1187893 Score: 78
Period size: 22 Copynumber: 5.3 Consensus size: 22
1187768 GCGTCCTTTT
* **
1187778 CAAAAAGAAAAAAAACAAAGCAA
1 CAAAAA-ACAAAAAACAAAAAAA
* *
1187801 -AAAAAACAAGAGA-AAAAAAA
1 CAAAAAACAAAAAACAAAAAAA
**
1187821 CAAAGCA-AAAAAACAAAACAAAA
1 CAAAAAACAAAAAAC-AAA-AAAA
*
1187844 AAAAAAACAAAAAACAAAAAAA
1 CAAAAAACAAAAAACAAAAAAA
* *
1187866 CAAAAACCAAAAAA-AAATAACA
1 CAAAAAACAAAAAACAAA-AAAA
1187888 CAAAAA
1 CAAAAA
1187894 GGGAGGGGTC
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
20 9 0.12
21 12 0.17
22 33 0.46
23 11 0.15
24 7 0.10
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (22 bp):
CAAAAAACAAAAAACAAAAAAA
Found at i:1187891 original size:15 final size:15
Alignment explanation
Indices: 1187778--1187893 Score: 78
Period size: 16 Copynumber: 7.4 Consensus size: 15
1187768 GCGTCCTTTT
1187778 CAAAAAGAAAAAAA-A
1 CAAAAA-AAAAAAACA
*
1187793 CAAAGCAAAAAAAACA
1 CAAA-AAAAAAAAACA
1187809 -AGAGAAAAAAAACAA-A
1 CA-A-AAAAAAAA-AACA
*
1187825 GCAAAAAAACAAAACAA
1 -CAAAAAAAAAAAAC-A
* *
1187842 AAAAAAAAACAAAAAA
1 CAAAAAAAA-AAAACA
1187858 CAAAAAAACAAAAAC-
1 CAAAAAAA-AAAAACA
*
1187873 CAAAAAAAAATAACA
1 CAAAAAAAAAAAACA
1187888 CAAAAA
1 CAAAAA
1187894 GGGAGGGGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
14 5 0.06
15 28 0.35
16 36 0.45
17 10 0.12
18 1 0.01
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (15 bp):
CAAAAAAAAAAAACA
Found at i:1187893 original size:1 final size:1
Alignment explanation
Indices: 1187779--1187882 Score: 55
Period size: 1 Copynumber: 104.0 Consensus size: 1
1187769 CGTCCTTTTC
* * ** * * * * ** * *
1187779 AAAAAGAAAAAAAACAAAGCAAAAAAAACAAGAGAAAAAAAACAAAGCAAAAAAACAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * **
1187844 AAAAAAACAAAAAACAAAAAAACAAAAACCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1187883 TAACACAAAA
Statistics
Matches: 73, Mismatches: 30, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.84, C:0.12, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:1189244 original size:28 final size:28
Alignment explanation
Indices: 1189168--1189854 Score: 688
Period size: 28 Copynumber: 24.6 Consensus size: 28
1189158 CAATACGGCC
*
1189168 TCTTTTCAAAGCCCACAAGTCAATGGACA
1 TCTTTTCAAAGCCCACAAGTCAGTGG-CA
* * *
1189197 -CATTCTCAAAGCCCATAAGTCAATGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
1189225 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189253 CCTTCT-AAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1189280 CCTTTTCAAAGCCCATAAGTCAATTGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1189308 CCTTCTCAAAGCCCACATGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1189336 TCTTTTCAAAGCCCATAAATCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1189364 CCTTCTCAAAGCCCACATGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
1189392 TCCTTCTCAAAGCCCACAAGTCAGTGGCA
1 T-CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1189421 CCTTTTTAAAGCCCATAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
1189449 CCTTCTCAAAGCCTACATGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189477 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189505 CCTTCTCAAAGCCCACATA-TCAGTGGCA
1 TCTTTTCAAAGCCCACA-AGTCAGTGGCA
* **
1189533 TCCTTTCAAAGCCCACAAGTCAGCAGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * **
1189561 TCCTTTCAAAGCCTACAAGTTGGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1189589 CCTTCTCAAAGCCCACATGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
1189617 TCCTTTCAAATCCCACAAGTTAGCGGAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189645 TC-TTTCAAAGCCCATATGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189672 TCTTTTCAAAGCCCATAAGTCCGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189700 --TTCTC-AAGCCCATAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189725 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189753 -CATTTTTAAAGCCCACATGTCAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
*
1189781 TCCTTTTCAAAGCCCACAAGTCAATGGCA
1 T-CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189810 TTTTTTCAAAGCCCACAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
1189838 TCCTTTCAGAGCCCACA
1 TCTTTTCAAAGCCCACA
1189855 CAGGTCGATG
Statistics
Matches: 546, Mismatches: 99, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
25 19 0.03
26 4 0.01
27 52 0.10
28 397 0.73
29 73 0.13
30 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1189528 original size:84 final size:84
Alignment explanation
Indices: 1189169--1189854 Score: 762
Period size: 84 Copynumber: 8.2 Consensus size: 84
1189159 AATACGGCCT
* * * * *
1189169 CTTTTCAAAGCCCACAAGTCAATGGACACATTCTCAAAGCCCATAAGTCAATGGCATCTTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGG-CACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
1189234 AGCCCACAAGTCAGTGGCAC
65 AGCCCACAAGTCAGTGGCAC
* * * * *
1189254 CTTCT-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAATTGCA-CCTTCTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAA
* * *
1189317 AGCCCACATGTCAATGGCAT
65 AGCCCACAAGTCAGTGGCAC
* * * * *
1189337 CTTTTCAAAGCCCATAAATCAATGGCACCTTCTCAAAGCCCACATGTTAGTGGCATCCTTCTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAA
1189402 AGCCCACAAGTCAGTGGCAC
65 AGCCCACAAGTCAGTGGCAC
* * * * *
1189422 CTTTTTAAAGCCCATAAGTCAGTGGCACCTTCTCAAAGCCTACATGTTAGTGGCATCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
*
1189487 GCCCACAAGTTAGTGGCAC
66 GCCCACAAGTCAGTGGCAC
* **
1189506 CTTCTCAAAGCCCACATA-TCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGCAGCATCCTTTCA
1 CTTTTCAAAGCCCACA-AGTCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* **
1189569 AAGCCTACAAGTTGGTGGCAC
64 AAGCCCACAAGTCAGTGGCAC
* * * * * *
1189590 CTTCTCAAAGCCCACATGTCAGTGGCATCCTT-TCAAATCCCACAAGTTAGCGGAAT-CTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * *
1189653 AGCCCATATGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAC
* * *
1189673 CTTTTCAAAGCCCATAAGTCCGTGGCA--TTCTC-AAGCCCATAAGTCAGTGGCATCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
*
1189735 GCCCACAAGTTAGTGGCAC
66 GCCCACAAGTCAGTGGCAC
* * * * * **
1189754 ATTTTTAAAGCCCACATGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAATGGCATTTTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
*
1189819 AGCCCACAAGTCAATGGCATC
65 AGCCCACAAGTCAGTGGCA-C
*
1189840 C-TTTCAGAGCCCACA
1 CTTTTCAAAGCCCACA
1189855 CAGGTCGATG
Statistics
Matches: 512, Mismatches: 76, Indels: 26
0.83 0.12 0.04
Matches are distributed among these distances:
80 18 0.04
81 47 0.09
82 3 0.01
83 96 0.19
84 202 0.39
85 145 0.28
86 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (84 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
GCCCACAAGTCAGTGGCAC
Found at i:1191053 original size:53 final size:50
Alignment explanation
Indices: 1190954--1191070 Score: 153
Period size: 53 Copynumber: 2.3 Consensus size: 50
1190944 TAAACAATAC
* * *
1190954 ATGTATCGATACATTCCGTTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTACGTTTTTTACCCAAATGCATCGATACATTTTTCA
*
1191004 ATGTATCGATACATTATGTTTTTCTTTACCCAAATGCATCGATACATTTTTCA
1 ATGTATCGATACATTACG--TTT-TTTACCCAAATGCATCGATACATTTTTCA
* *
1191057 ATTTATCAATACAT
1 ATGTATCGATACAT
1191071 CTAGTTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 16 0.28
52 3 0.05
53 39 0.67
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (50 bp):
ATGTATCGATACATTACGTTTTTTACCCAAATGCATCGATACATTTTTCA
Found at i:1194982 original size:51 final size:51
Alignment explanation
Indices: 1194870--1195786 Score: 420
Period size: 51 Copynumber: 17.6 Consensus size: 51
1194860 GAAATAACGA
* * * *
1194870 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTAATG-AAAATTGGTG-TTTTGGAAATAAAACCGG
* * *
1194922 AGTTGGAGTATCCCCGATTAAAGAAAATTGGTGTTTT-GAAGATAAAATCGG
1 GGTTGGAGTATCCCCGATTAATGAAAATTGGTGTTTTGGAA-ATAAAACCGG
* * * * *
1194973 GGTTAGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAT-GAAAATTGGTGTTTTGGAAATAAAACCGG
*** * * * *
1195024 GGTTGGAGTATCCCCGATT-ATGAGAAATCAATATTTTGAAAATAAAGCCAG
1 GGTTGGAGTATCCCCGATTAATGA-AAATTGGTGTTTTGGAAATAAAACCGG
** * * * * *
1195075 GGTTGGAGTATCCCC--TCGGAGGAAACGGGGTTGGAGTATCCCTGATGAAAT--AA-CGA
1 GGTTGGAGTATCCCCGAT-TAATGAAA----ATTGGTGT-T--TTG--GAAATAAAACCGG
* * * * **
1195131 GGTTAGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTAATG-AAAATTGGT-GTTTTGGAAATAAAACCGG
* * *
1195183 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAGATAAAACTGG
1 GGTTGGAGTATCCCCGATT-AATGAAAATTGGTGTTTTGGAA-ATAAAACCGG
* * * * *
1195235 GGTTGGAGTATCTCTGATT-GTGAAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAATG-AAAATTGGTGTTTTGGAAATAAAACCGG
* *** * *
1195286 GGTTGGAGTATCCTCGATT-ATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTAATGA-AAATTGGTGTTTTGGAAATAAAACCGG
* * *** * * ***** * *
1195337 GGTTGGAGTATCCCCTCGGAGATAACG-GGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT-CCC-C-GA-TTAATGAAAATTGGTGTTTTGGAAAT-AAA-ACCGG
* * * *
1195393 GGTTAGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAATG-AAAATTGGTGTTTTGGAAATAAAACCGG
* *
1195444 AGTTGGAGTAT-CCCGATTAAAGGAAAATTGGTGTTTT-GAAGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AATGAAAATTGGTGTTTTGGAA-ATAAAACCGG
* * * *
1195495 GGTTGAAGTATCCCCGATT-GTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAT-GAAAATTGGTGTTTTGGAAATAAAACCGG
* *** * *
1195546 GGTTGAAGTATCCCCGATT-ATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTAATGA-AAATTGGTGTTTTGGAAATAAAACCGG
* * *** * * *** * * *
1195597 GGTTGGAGTATCCCTTCAGAGGTAACG-GGGTTGGAGTATCCCAGATAAAATAACGA
1 GGTTGGAGTATCCC--C-GA-TTAATGAAAATTGGTGTTTTGGAAAT-AAA-ACCGG
* * *
1195653 GGTTGGAGTATCCTCGATT-GTGAGAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAATGA-AAATTGGTG-TTTTGGAAATAAAACCGG
* * * *
1195705 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AATGAAAATTGGTGTTTTGGAAATAAAACCGG
* *
1195757 GGTTAGAGTATCCCAGATT-ATGAACAATTG
1 GGTTGGAGTATCCCCGATTAATGAA-AATTG
1195787 AGAAACTTAA
Statistics
Matches: 641, Mismatches: 166, Indels: 117
0.69 0.18 0.13
Matches are distributed among these distances:
49 6 0.01
50 24 0.04
51 320 0.50
52 149 0.23
53 46 0.07
54 28 0.04
55 11 0.02
56 46 0.07
57 6 0.01
58 1 0.00
59 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAATGAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:1195345 original size:262 final size:262
Alignment explanation
Indices: 1194762--1195775 Score: 1635
Period size: 262 Copynumber: 3.9 Consensus size: 262
1194752 GAAAATAACA
* * * * ** ** *
1194762 GGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTACGAAATAAAATCGGGATTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGGGGTTGGAGTATC
* *
1194826 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
65 CCCTCGGAGGAAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGT
*
1194891 GAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAA-GAAAATTGGTG
130 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
*
1194955 TTTTGAAGATAAAATCGGGGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
195 TTTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
*
1195020 TCG
260 CCG
* *
1195023 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATAAAGCCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
*
1195088 CCTCGGAGGAAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTAGAGTATCCTCGATTGTG
66 CCTCGGAGGAAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGTG
* *
1195153 AAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
131 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
* * * * *
1195218 TTTGAAGATAAAACTGGGGTTGGAGTATCTCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
196 TTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1195283 CG
261 CG
*
1195285 GGGTTGGAGTATCCTCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
1195350 CCTCGGA-GATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGT
66 CCTCGGAGGA-AACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGT
1195414 GAAAAATTGGTG-TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCCGATTAAAGGAAAATTGGTG
130 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
1195477 TTTTGAAGATAAAACCGGGGTT-GAAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
195 TTTTGAAGATAAAACCGGGGTTAG-AGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
1195541 ACCG
259 ACCG
*
1195545 GGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
* * * * * *
1195610 CTTCAGAGGTAACGGGGTTGGAGTATCCCAGATAAAATAACGAGGTTGGAGTATCCTCGATTGTG
66 CCTCGGAGGAAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGTG
* *
1195675 AGAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTAT
131 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
* *
1195740 TTTGAAAATAAAACCGGGGTTAGAGTATCCCAGATT
196 TTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATT
1195776 ATGAACAATT
Statistics
Matches: 699, Mismatches: 46, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
259 1 0.00
260 215 0.31
261 223 0.32
262 259 0.37
263 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (262 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
CCTCGGAGGAAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTGTG
AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
TTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
CG
Found at i:1195389 original size:28 final size:28
Alignment explanation
Indices: 1195334--1195410 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1195324 GAAATAAAGC
*** *
1195334 CGGGGTTGGAGTATCCCCTCGGAGATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1195362 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
1195390 CGAGGTTAGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1195411 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1195753 original size:522 final size:523
Alignment explanation
Indices: 1194801--1195768 Score: 1681
Period size: 522 Copynumber: 1.9 Consensus size: 523
1194791 CGATGATTAC
* *
1194801 GAAATAAAATCGGGATTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATA
1 GAAATAAAACCGGGATTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATGAAATA
*
1194866 ACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGT
66 ACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGT
*
1194931 ATCCCCGATTAAAGAAAATTGGTGTTTTGAAGATAAAATCGGGGTTAGAGTATCCCCGATTGTGG
131 ATCCCCGATTAAAGAAAATTGGTGTTTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATTGTGG
* *
1194996 AAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT
196 AAAATTAGTGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTT
* * *
1195061 GAAAATAAAGCCAGGGTTGGAGTATCCCCTCGGAGGAAACGGGGTTGGAGTATCCCTGATGAAAT
261 GAAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAGGAAACGGGGTTGGAGTATCCCAGATAAAAT
*
1195126 AACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAG
326 AACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
* * * *
1195191 TATCCCCGATTAAAGGAAAATTGGTGTTTTGAAGATAAAACTGGGGTTGGAGTATCTCTGATTGT
391 TATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAACCGGGGTTAGAGTATCTCTGATTGT
1195256 GAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGATTATGAGAAATCAATATT
456 GAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGATTATGAGAAATCAATATT
1195321 TTG
521 TTG
* *
1195324 GAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATGAAATA
1 GAAATAAAACCGGGATTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATGAAATA
*
1195389 ACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAATCGGAGTTGGAGT
66 ACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGT
1195453 AT-CCCGATTAAAGGAAAATTGGTGTTTTGAAGATAAAACCGGGGTT-GAAGTATCCCCGATTGT
131 ATCCCCGATTAAA-GAAAATTGGTGTTTTGAAGATAAAACCGGGGTTAG-AGTATCCCCGATTGT
1195516 GGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATT
194 GGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATT
* * * *
1195581 TTGGAAATAAAGCCGGGGTTGGAGTATCCCTTCAGAGGTAACGGGGTTGGAGTATCCCAGATAAA
259 TTGAAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAGGAAACGGGGTTGGAGTATCCCAGATAAA
* * *
1195646 ATAACGAGGTTGGAGTATCCTCGATTGTGAGAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGG
324 ATAACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGG
1195711 AGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAACCGGGGTTAGAGTATC
389 AGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAACCGGGGTTAGAGTATC
1195769 CCAGATTATG
Statistics
Matches: 419, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
521 11 0.03
522 311 0.74
523 97 0.23
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (523 bp):
GAAATAAAACCGGGATTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATGAAATA
ACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGT
ATCCCCGATTAAAGAAAATTGGTGTTTTGAAGATAAAACCGGGGTTAGAGTATCCCCGATTGTGG
AAAATTAGTGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTT
GAAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAGGAAACGGGGTTGGAGTATCCCAGATAAAAT
AACGAGGTTAGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAACCGGGGTTAGAGTATCTCTGATTGT
GAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGATTATGAGAAATCAATATT
TTG
Found at i:1198164 original size:13 final size:13
Alignment explanation
Indices: 1198146--1198171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1198136 ACAAAGATCG
1198146 ATGTATCGATACA
1 ATGTATCGATACA
1198159 ATGTATCGATACA
1 ATGTATCGATACA
1198172 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1198213 original size:13 final size:13
Alignment explanation
Indices: 1198195--1198246 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1198185 AGCTTCGTAG
1198195 CGATACATTGTAT
1 CGATACATTGTAT
1198208 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1198227 CGATACATTGTAT
1 CGATACATTGTAT
1198240 CGATACA
1 CGATACA
1198247 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1198227 original size:19 final size:18
Alignment explanation
Indices: 1198203--1198263 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
1198193 AGCGATACAT
1198203 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1198222 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1198235 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1198254 TGTATCGATA
1 TGTATCGATA
1198264 TATTTACGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1198236 original size:32 final size:32
Alignment explanation
Indices: 1198195--1198263 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
1198185 AGCTTCGTAG
1198195 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1198227 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1198259 CGATA
1 CGATA
1198264 TATTTACGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1199099 original size:42 final size:42
Alignment explanation
Indices: 1199063--1199142 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1199053 GAGGACAAGG
*
1199063 GAAAAAGGAAAACGAAA-TACGTCCTGCTCTTTGAGGACGAAA
1 GAAAAAGGAAAA-GAAAGTACATCCTGCTCTTTGAGGACGAAA
* * *
1199105 GAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAC
1 GAAAAAGGAAAAGAAAGTACATCCTGCTCTTTGAGGAC
1199143 TAAAAAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (42 bp):
GAAAAAGGAAAAGAAAGTACATCCTGCTCTTTGAGGACGAAA
Found at i:1199214 original size:61 final size:56
Alignment explanation
Indices: 1199126--1199955 Score: 908
Period size: 55 Copynumber: 14.3 Consensus size: 56
1199116 ATAAAGTGCA
* **
1199126 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT----A-GAAAGGCG
* * ** *
1199187 TCCTGCTTTTTAAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----A-GAAAGGCG
** * *
1199248 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCATTATAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT-TAGAAAG---GCG
* * *
1199309 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGG-TTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
* * *
1199364 TCCTGCTCTTTGAGGACTGGAAAATGCCATCAACTGGTGTGGGCTTT-GAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
* *
1199419 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTT-GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
* * *
1199474 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGGGTGGGCTTTGAAAAGGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----A-GAAAGGCG
** * * *
1199535 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----AGA-AAGGCG
* *
1199596 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGCGTGGGCTTT-GAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
1199651 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
* *
1199706 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
*
1199761 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCG
*
1199822 TCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGG-TTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
* *
1199877 TCCTGCTCTTTGAGGACT-GAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCG
1199938 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1199956 AAAGGGCGAA
Statistics
Matches: 687, Mismatches: 53, Indels: 58
0.86 0.07 0.07
Matches are distributed among these distances:
54 4 0.01
55 343 0.50
56 10 0.01
58 10 0.01
59 3 0.00
60 8 0.01
61 304 0.44
62 4 0.01
63 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCG
Found at i:1199648 original size:287 final size:284
Alignment explanation
Indices: 1199126--1199955 Score: 1161
Period size: 287 Copynumber: 2.9 Consensus size: 284
1199116 ATAAAGTGCA
*
1199126 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTCGTGTGGGCTTT------GAAAGGCGTCC
* * * *
1199190 TGCTTTTTAAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGGAAAGGCGTCCTGCT
59 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCGTCCTGCT
*
1199255 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCATTATAAAAAGAAAGCATCCTGCTCTTT
123 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGC-TT-TGAAAAGAAAGCATCCTGCTCTTT
* *
1199320 GAGGACTGAAAAATGCCACCAACTTGTGTGGGTTTTGAAAGGCATCCTGCTCTTTGAGGACTGGA
186 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGA
* *
1199385 AAATGCCATCAACTGGTGTGGGCTTTGAAAGGTG
251 AAATGCCACCAACTGGTGTGGGCTTTGAAAGGCG
1199419 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
1199484 TGAGGACTGGAAAATGCCACCAACTCGGGTGGGCTTTGAAAAGGAAAAGCGTCCTGCTCTTTGAG
66 TGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCGTCCTGCTCTTTGAG
*
1199549 GACTGGAAGGTGCCACCAATTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACT
130 GACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAA-AGAAAGCATCCTGCTCTTTGAGGACT
*
1199614 GGAAAATGCCACCAACTTGCGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCC
193 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCC
*
1199679 ACCAACTTGTGTGGGCTTTGAAAGGCG
258 ACCAACTGGTGTGGGCTTTGAAAGGCG
** * * *
1199706 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
*
1199771 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGAGAAGGCGTCCTGCTCTTTGA
66 TGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCGTCCTGCTCTTTGA
* * * *
1199835 GGACTGAAAGATGCCACCAACTTGTGTGGGTTTTG-AAAG---GCGTCCTGCTCTTTGAGGACT-
129 GGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGCATCCTGCTCTTTGAGGACTG
*
1199895 GAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTTTGAGGACT
194 GAAAA-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCATCCTGCTCTTTGAGGACT
1199956 AAAGGGCGAA
Statistics
Matches: 490, Mismatches: 35, Indels: 30
0.88 0.06 0.05
Matches are distributed among these distances:
280 5 0.01
281 41 0.08
284 2 0.00
285 3 0.01
286 16 0.03
287 378 0.77
293 40 0.08
294 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (284 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCGTCCTGCTCTTTGAGG
ACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGCATCCTGCTCTTTGAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACC
AACTGGTGTGGGCTTTGAAAGGCG
Found at i:1200049 original size:100 final size:100
Alignment explanation
Indices: 1199876--1200058 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
1199866 TTTGAAAGGC
*
1199876 GTCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCC
1 GTCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1199941 TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGT
66 TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGT
** *
1199976 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1200041 TGCTCTTTGAGGACTAAA
66 TGCTCTTTGAGGACTAAA
1200059 AAGTGGAAGG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGT
Found at i:1202609 original size:15 final size:15
Alignment explanation
Indices: 1202589--1202623 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1202579 AACCATCAAA
1202589 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
1202604 GATGATGATGATAAT
1 GATGATGAAGATAAT
1202619 GATGA
1 GATGA
1202624 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:1205597 original size:20 final size:21
Alignment explanation
Indices: 1205574--1205612 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1205564 CTAAGCAATA
1205574 TGTATCGATACA-TCTAGGTG
1 TGTATCGATACATTCTAGGTG
1205594 TGTATCGATACATTCTAGG
1 TGTATCGATACATTCTAGG
1205613 GTTTTGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGGTG
Found at i:1210445 original size:7 final size:7
Alignment explanation
Indices: 1210433--1210487 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
1210423 CAAAGATCTA
1210433 AAAAAAC
1 AAAAAAC
1210440 AAAAAAC
1 AAAAAAC
*
1210447 AAAAAAA
1 AAAAAAC
*
1210454 AGTAAAAAA
1 A--AAAAAC
1210463 AAAAAAC
1 AAAAAAC
1210470 -AAAAAC
1 AAAAAAC
1210476 -AAAAAC
1 AAAAAAC
1210482 AAAAAA
1 AAAAAA
1210488 GCAATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 12 0.28
7 24 0.56
9 7 0.16
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:1210450 original size:6 final size:6
Alignment explanation
Indices: 1210434--1210486 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
1210424 AAAGATCTAA
1210434 AAAAAC AAAAAAC AAAAA- AAAGTAA- AAAAA- AAAAAC AAAAAC AAAAAC
1 AAAAAC -AAAAAC AAAAAC AAA--AAC AAAAAC AAAAAC AAAAAC AAAAAC
1210482 AAAAA
1 AAAAA
1210487 AGCAATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.23
6 22 0.51
7 11 0.26
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (6 bp):
AAAAAC
Found at i:1219442 original size:11 final size:11
Alignment explanation
Indices: 1219426--1219452 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1219416 CATATAAATT
1219426 TTATTAAATAA
1 TTATTAAATAA
1219437 TTATTAAATAA
1 TTATTAAATAA
1219448 TTATT
1 TTATT
1219453 TAATTTACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTATTAAATAA
Found at i:1220059 original size:15 final size:15
Alignment explanation
Indices: 1220036--1220065 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1220026 AAAAATATGT
1220036 AATTATTTAAAATAA
1 AATTATTTAAAATAA
*
1220051 AATTTTTTAAAATAA
1 AATTATTTAAAATAA
1220066 TTATATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTATTTAAAATAA
Found at i:1220812 original size:20 final size:20
Alignment explanation
Indices: 1220787--1220826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1220777 TTTTATAAAA
*
1220787 AAATTATTTATTTAAT-TTTT
1 AAATTAATT-TTTAATCTTTT
1220807 AAATTAATTTTTAATCTTTT
1 AAATTAATTTTTAATCTTTT
1220827 TCTTTGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATTAATTTTTAATCTTTT
Found at i:1223301 original size:15 final size:16
Alignment explanation
Indices: 1223275--1223304 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1223265 ATTAATTATC
1223275 AAAATAATATTATTTT
1 AAAATAATATTATTTT
1223291 AAAAT-ATATTATTT
1 AAAATAATATTATTT
1223305 AAATACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATAATATTATTTT
Found at i:1223308 original size:29 final size:30
Alignment explanation
Indices: 1223238--1223319 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 30
1223228 GCAAAGGGAG
* *
1223238 ATTAACTAAACTAATATTGTTTTAAAAATTA
1 ATTATCTAAA-TAATATTATTTTAAAAATTA
*
1223269 ATTATCAAAATAATATTATTTT-AAAA-TA
1 ATTATCTAAATAATATTATTTTAAAAATTA
* * *
1223297 TATTATTTAAATACTGTTATTTT
1 -ATTATCTAAATAATATTATTTT
1223320 TGTTATGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.05
29 22 0.51
30 11 0.26
31 8 0.19
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTATCTAAATAATATTATTTTAAAAATTA
Found at i:1223630 original size:14 final size:14
Alignment explanation
Indices: 1223605--1223639 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1223595 AATGTATAAA
*
1223605 AATTTATTTAAATAT
1 AATTT-TTTAAACAT
1223620 AATTTTTTAAACAT
1 AATTTTTTAAACAT
1223634 AATTTT
1 AATTTT
1223640 AATACGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTTTTTAAACAT
Found at i:1224247 original size:53 final size:52
Alignment explanation
Indices: 1224114--1224265 Score: 145
Period size: 53 Copynumber: 3.0 Consensus size: 52
1224104 ATTTTGTTGG
* * *
1224114 GCATTAGTGCTATTTTTC-TCGTCATATAGTATTTTAGGTC-ATT-TTTTTGT
1 GCATTAGTGTTATTTTTCAT-GTCATATAATATTTTAAGTCTATTATTTTTGT
* * * * *
1224164 ACATTTGTGTT-TTTTTGCA--TCATGTCATATTTTAAATCGTATTATTTTTGT
1 GCATTAGTGTTATTTTT-CATGTCATATAATATTTTAAGTC-TATTATTTTTGT
*
1224215 GCATTAGTGTTATTTTTCATGTCATATAATATTTTAAGTCATGTTATTTTT
1 GCATTAGTGTTATTTTTCATGTCATATAATATTTTAAGTC-TATTATTTTT
1224266 TCTTATAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
48 14 0.18
49 5 0.06
50 12 0.15
51 18 0.23
52 5 0.06
53 25 0.32
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.55
Consensus pattern (52 bp):
GCATTAGTGTTATTTTTCATGTCATATAATATTTTAAGTCTATTATTTTTGT
Found at i:1224248 original size:101 final size:103
Alignment explanation
Indices: 1224071--1224256 Score: 252
Period size: 101 Copynumber: 1.8 Consensus size: 103
1224061 TTTCATATTA
** * ** *
1224071 TTTTTTGTGTCATGTCTTATTTTAGGTCGTGTTATTTTGTTGGGCATTAGTGCTATTTTTCTCGT
1 TTTTTTGCATCATGTCATATTTTAAATCGTATTATTTTGTTGGGCATTAGTGCTATTTTTCTCGT
* *
1224136 CATATAGTATTTTAGGTCATTTTTTTGTACATTTGTGT
66 CATATAATATTTTAAGTCATTTTTTTGTACATTTGTGT
* *
1224174 TTTTTTGCATCATGTCATATTTTAAATCGTATTA-TTT-TTGTGCATTAGTGTTATTTTTCAT-G
1 TTTTTTGCATCATGTCATATTTTAAATCGTATTATTTTGTTGGGCATTAGTGCTATTTTTC-TCG
1224236 TCATATAATATTTTAAGTCAT
65 TCATATAATATTTTAAGTCAT
1224257 GTTATTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
101 40 0.56
102 4 0.06
103 28 0.39
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (103 bp):
TTTTTTGCATCATGTCATATTTTAAATCGTATTATTTTGTTGGGCATTAGTGCTATTTTTCTCGT
CATATAATATTTTAAGTCATTTTTTTGTACATTTGTGT
Found at i:1224260 original size:34 final size:34
Alignment explanation
Indices: 1224222--1224301 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
1224212 TGTGCATTAG
* * *
1224222 TGTTATTTTTCATGTCATATAATATTTTAAGTCA
1 TGTTATTTTTCATATAATATAATATTTTAAATCA
* * *
1224256 TGTTATTTTTTCTTATAATGTAGTATTTTAAATCA
1 TGTTA-TTTTTCATATAATATAATATTTTAAATCA
1224291 TGTTAATTTTT
1 TGTT-ATTTTT
1224302 TTGTATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 5 0.13
35 32 0.84
36 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (34 bp):
TGTTATTTTTCATATAATATAATATTTTAAATCA
Found at i:1224362 original size:23 final size:23
Alignment explanation
Indices: 1224312--1224365 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1224302 TTGTATATTA
*
1224312 ATATTATATTTTTCATATCATAT
1 ATATTTTATTTTTCATATCATAT
* *
1224335 TTATTTTATTTTT-ATATCTTAT
1 ATATTTTATTTTTCATATCATAT
1224357 CATATTTTA
1 -ATATTTTA
1224366 AATTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATTTTATTTTTCATATCATAT
Found at i:1224652 original size:13 final size:13
Alignment explanation
Indices: 1224628--1224681 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
1224618 TGTGACAAAA
1224628 ATAATAATATTTTG
1 ATAAT-ATATTTTG
**
1224642 ATAATATATTTAA
1 ATAATATATTTTG
1224655 ATACAATATTATTTTG
1 AT--AATA-TATTTTG
1224671 ATAATATATTT
1 ATAATATATTT
1224682 GAAAATAACG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 13 0.39
14 9 0.27
15 4 0.12
16 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (13 bp):
ATAATATATTTTG
Found at i:1224698 original size:29 final size:29
Alignment explanation
Indices: 1224635--1224704 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
1224625 AAAATAATAA
*
1224635 TATTTTGATAATATATTTAAATACAATAT
1 TATTTTGATAATATATTTAAATACAACAT
* *
1224664 TATTTTGATAATATATTTGAAA-ATAACGT
1 TATTTTGATAATATATTT-AAATACAACAT
*
1224693 TGTTTTGATAAT
1 TATTTTGATAAT
1224705 TAATTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (29 bp):
TATTTTGATAATATATTTAAATACAACAT
Found at i:1226562 original size:19 final size:19
Alignment explanation
Indices: 1226535--1226589 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1226525 TGTATCGATA
*
1226535 CATTGTATCAATACATGCT
1 CATTGTATCAATACATACT
* *
1226554 CATTTTATCGATACATACT
1 CATTGTATCAATACATACT
* *
1226573 CAATTGTTTCGATACAT
1 C-ATTGTATCAATACAT
1226590 GAAACTGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (19 bp):
CATTGTATCAATACATACT
Found at i:1226662 original size:20 final size:19
Alignment explanation
Indices: 1226613--1226671 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
1226603 ATTACCCTAA
*
1226613 GTGAAATGTATCGATATAT
1 GTGAAATGTATCGATACAT
* *
1226632 GGGATATTGTATCGATACAT
1 GTGA-AATGTATCGATACAT
1226652 GATGAAATGTATCGATACAT
1 G-TGAAATGTATCGATACAT
1226672 TGTGCCTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (19 bp):
GTGAAATGTATCGATACAT
Found at i:1227928 original size:17 final size:17
Alignment explanation
Indices: 1227895--1227951 Score: 73
Period size: 16 Copynumber: 3.3 Consensus size: 17
1227885 AATTTATTAC
1227895 ATTTTTAAAATTTTAAATT
1 ATTTTT-AAA-TTTAAATT
1227914 ATTTTTAAATTTAAATT
1 ATTTTTAAATTTAAATT
1227931 ATTTTGT--ATTTAAATT
1 ATTTT-TAAATTTAAATT
1227947 ATTTT
1 ATTTT
1227952 AGTTTTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.38
17 13 0.35
18 4 0.11
19 6 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTTAAATTTAAATT
Found at i:1227958 original size:16 final size:16
Alignment explanation
Indices: 1227905--1227959 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
1227895 ATTTTTAAAA
*
1227905 TTTTAAATTATTTTTAA
1 TTTTAAATTA-TTTTAG
*
1227922 ATTTAAATTATTTT-G
1 TTTTAAATTATTTTAG
1227937 TATTTAAATTATTTTAG
1 T-TTTAAATTATTTTAG
1227954 TTTTAA
1 TTTTAA
1227960 GTCATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 22 0.67
17 11 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTTAAATTATTTTAG
Found at i:1228016 original size:14 final size:16
Alignment explanation
Indices: 1227986--1228018 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1227976 CTTAAGTTAA
1227986 TTGAGTTTGTATTATT
1 TTGAGTTTGTATTATT
1228002 TTGAGTTT-T-TTATT
1 TTGAGTTTGTATTATT
1228016 TTG
1 TTG
1228019 GGTTCGGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (16 bp):
TTGAGTTTGTATTATT
Found at i:1230293 original size:19 final size:18
Alignment explanation
Indices: 1230265--1230327 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1230255 AAACAGAAAA
*
1230265 TGTATAGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1230284 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
1230297 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1230316 TGTATCGATACA
1 TGTATCGATACA
1230328 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 20 0.54
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1230307 original size:32 final size:32
Alignment explanation
Indices: 1230263--1230335 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1230253 ACAAACAGAA
* *
1230263 AATGTATAGATACATAAGTGTTGTATCGATAT
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1230295 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
1230327 AATGTATCG
1 AATGTATCG
1230336 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1230378 original size:21 final size:21
Alignment explanation
Indices: 1230352--1230393 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1230342 AGCTACTACC
1230352 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1230373 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1230394 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Done.