Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 6 of 21
Found at i:795090 original size:33 final size:33
Alignment explanation
Indices: 795048--795112 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
795038 TACAACCCAA
* *
795048 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
795081 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
795113 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:796658 original size:21 final size:21
Alignment explanation
Indices: 796629--796673 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
796619 AAGTTTTCAT
*
796629 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
796649 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
796671 TTT
1 TTT
796674 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:798907 original size:13 final size:13
Alignment explanation
Indices: 798889--798914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
798879 CAATTTTTTG
798889 TGTATCGATACAT
1 TGTATCGATACAT
798902 TGTATCGATACAT
1 TGTATCGATACAT
798915 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:801104 original size:13 final size:13
Alignment explanation
Indices: 801086--801123 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
801076 CATTTTTCTT
801086 TGTATCGATACAA
1 TGTATCGATACAA
*
801099 TGTATCGATACAC
1 TGTATCGATACAA
801112 TGTATCGATACA
1 TGTATCGATACA
801124 GAGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:803625 original size:13 final size:13
Alignment explanation
Indices: 803607--803632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
803597 TACACAAAAT
803607 ATGTATCGATACA
1 ATGTATCGATACA
803620 ATGTATCGATACA
1 ATGTATCGATACA
803633 CAAAAAATTG
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:803630 original size:32 final size:33
Alignment explanation
Indices: 803589--803652 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
803579 TAGCCAAACT
* *
803589 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCAATACAA
803621 TGTATCGATACACAAAAAATTGTATCAATACA
1 TGTATCGATACACAAAAAATTGTATCAATACA
803653 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCAATACAA
Found at i:806788 original size:28 final size:28
Alignment explanation
Indices: 806749--806824 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
806739 TTTTTTCATA
*
806749 ATCGGGGGTACTCCAACCCTATTATTTC
1 ATCGGGGATACTCCAACCCTATTATTTC
**
806777 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCTATTATTTC
* *
806805 -TGAGGGGACACTCCAACCCT
1 AT-CGGGGATACTCCAACCCT
806825 GGCATTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTATTATTTC
Found at i:806884 original size:51 final size:51
Alignment explanation
Indices: 806809--806926 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
806799 TATTTCTGAG
* *
806809 GGGACACTCCAACCCTGGCATTATTTCCAAAATATTAATTTCTCACAATCA
1 GGGATACTCCAACCCCGGCATTATTTCCAAAATATTAATTTCTCACAATCA
* * * * *
806860 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCA
1 GGGATACTCCAACCCCGGCATTATTTCCAAAATATTAATTTCTCACAATCA
806911 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
806927 ATTATTTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCATTATTTCCAAAATATTAATTTCTCACAATCA
Found at i:811076 original size:17 final size:18
Alignment explanation
Indices: 811051--811085 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
811041 AAATTCCCTT
*
811051 TAAATAAGAAAAA-AAAG
1 TAAAAAAGAAAAACAAAG
811068 TAAAAAAGAAAAACAAAG
1 TAAAAAAGAAAAACAAAG
811086 AAAGCATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.09
Consensus pattern (18 bp):
TAAAAAAGAAAAACAAAG
Found at i:811117 original size:21 final size:21
Alignment explanation
Indices: 811078--811117 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
811068 TAAAAAAGAA
*
811078 AAACAAAGAAAGCATGATATG
1 AAACAAAAAAAGCATGATATG
811099 AAACAAAAAAATGCA-GATA
1 AAACAAAAAAA-GCATGATA
811118 GTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.12
Consensus pattern (21 bp):
AAACAAAAAAAGCATGATATG
Found at i:811154 original size:18 final size:19
Alignment explanation
Indices: 811121--811167 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
811111 GCAGATAGTA
811121 AAAAAAAGAGAAAAATGAG
1 AAAAAAAGAGAAAAATGAG
* *
811140 AAAAGAAGAG-AAAATGGG
1 AAAAAAAGAGAAAAATGAG
811158 AAAACAAAGA
1 AAAA-AAAGA
811168 TATGCAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAGAAAAATGAG
Found at i:812327 original size:15 final size:16
Alignment explanation
Indices: 812299--812328 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
812289 TAATAAGCTA
812299 CATTTGCTATCATTTG
1 CATTTGCTATCATTTG
812315 CATTTGC-ATCATTT
1 CATTTGCTATCATTT
812329 CACATGCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (16 bp):
CATTTGCTATCATTTG
Found at i:812528 original size:89 final size:90
Alignment explanation
Indices: 812312--812535 Score: 220
Period size: 89 Copynumber: 2.5 Consensus size: 90
812302 TTGCTATCAT
* * * **
812312 TTGCATTTGCATCATTTCACATGCATCTACACCATTAGATCACA-TAGGCATTTGCATGGTTTCA
1 TTGCATTTGCATCATTTCACGTGCATCTACACCATTAGATAACATTAGGCATTTACATCATTTCA
** *
812376 TGTGCATTTGCCTCGTTACTGATGC
66 CATGCATTTGCCACGTTACTGATGC
** * * ** * ** *
812401 TTGCATTTTGCATTGTTTTATGCACATCTATA-TTTTAGATGACATTA-GCATTTACATCATTTC
1 TTGCA-TTTGCATCATTTCACGTGCATCTACACCATTAGATAACATTAGGCATTTACATCATTTC
* * *
812464 ACATGCATTTGCCACTTTATTGGTGC
65 ACATGCATTTGCCACGTTACTGATGC
*
812490 TTGTATTTGCATCATTTCACGTGCATCTACACCATTAGATAACATT
1 TTGCATTTGCATCATTTCACGTGCATCTACACCATTAGATAACATT
812536 GACATTGGCC
Statistics
Matches: 101, Mismatches: 31, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
88 19 0.19
89 62 0.61
90 20 0.20
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (90 bp):
TTGCATTTGCATCATTTCACGTGCATCTACACCATTAGATAACATTAGGCATTTACATCATTTCA
CATGCATTTGCCACGTTACTGATGC
Found at i:813753 original size:2 final size:2
Alignment explanation
Indices: 813746--813781 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
813736 CCTATATTAC
813746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
813782 GAATTCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:815942 original size:20 final size:20
Alignment explanation
Indices: 815919--815984 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
815909 TTAATTTAAA
*
815919 TAAAAATAAATTTTAATTAT
1 TAAAAATAAATTTAAATTAT
* *
815939 TAAATATTAATTTAAATTA-
1 TAAAAATAAATTTAAATTAT
* *
815958 -AATTAAATTAATTTAAATTAA
1 TAA--AAATAAATTTAAATTAT
815979 TAAAAA
1 TAAAAA
815985 ATATATTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.05
20 34 0.89
22 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAATAAATTTAAATTAT
Found at i:815957 original size:10 final size:10
Alignment explanation
Indices: 815922--815979 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
815912 ATTTAAATAA
*
815922 AAATAAATTT
1 AAATTAATTT
* *
815932 TAATT-ATTA
1 AAATTAATTT
815941 AATATTAATTT
1 AA-ATTAATTT
*
815952 AAATTAAATT
1 AAATTAATTT
815962 AAATTAATTT
1 AAATTAATTT
815972 AAATTAAT
1 AAATTAAT
815980 AAAAAATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 4 0.10
10 30 0.77
11 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AAATTAATTT
Found at i:815958 original size:5 final size:5
Alignment explanation
Indices: 815944--815978 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
815934 ATTATTAAAT
* *
815944 ATTAA TTTAA ATTAA ATTAA ATTAA TTTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
815979 TAAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
ATTAA
Found at i:816437 original size:19 final size:20
Alignment explanation
Indices: 816407--816461 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
816397 TATTCTAGTG
*
816407 TAAAAATTTATTTTATTATT
1 TAAAAATATATTTTATTATT
* ** *
816427 T-CAAATATATTAAAATATT
1 TAAAAATATATTTTATTATT
816446 TAAAAATATATTTTAT
1 TAAAAATATATTTTAT
816462 GAATTTTATA
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAAATATATTTTATTATT
Found at i:816506 original size:38 final size:40
Alignment explanation
Indices: 816464--816562 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 40
816454 TATTTTATGA
816464 ATTTTATATATTTTTATAATTAAATTTAAA-T-AA-AAATT
1 ATTTTATATATTTTTA-AATTAAATTTAAATTAAACAAATT
* *
816502 ATTTT-TAT-TATTTAAATAATAATTTAAATTAAACTAAATT
1 ATTTTATATATTTTTAAATTA-AATTTAAATTAAAC-AAATT
816542 A-TTTA-A-ATTTTTAAATTAAAT
1 ATTTTATATATTTTTAAATTAAAT
816563 CTAATTCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
35 4 0.08
36 13 0.26
37 4 0.08
38 10 0.20
39 13 0.26
40 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (40 bp):
ATTTTATATATTTTTAAATTAAATTTAAATTAAACAAATT
Found at i:818887 original size:32 final size:33
Alignment explanation
Indices: 818831--818899 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
818821 TAATATTAAC
*
818831 ATAATACGAATGTACTAATATATCAAAATATAT
1 ATAATACGAATCTACTAATATATCAAAATATAT
* * *
818864 ATAATACGAA-CTATTAATATATCAGAATTTAT
1 ATAATACGAATCTACTAATATATCAAAATATAT
818896 ATAA
1 ATAA
818900 ATATATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.35
Consensus pattern (33 bp):
ATAATACGAATCTACTAATATATCAAAATATAT
Found at i:821268 original size:26 final size:24
Alignment explanation
Indices: 821222--821290 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
821212 AATATTATTT
* *
821222 TATTT-AAATTTAATTTTAAATTA
1 TATTTAAAATTTAATATTAAAATA
821245 TATTTAAAATATTAATATTAAAATA
1 TATTTAAAAT-TTAATATTAAAATA
821270 -ATTTAAAGTATGTTAATATTA
1 TATTTAAA--AT-TTAATATTA
821291 TTTTAAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.13
24 11 0.28
25 12 0.31
26 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TATTTAAAATTTAATATTAAAATA
Found at i:822170 original size:18 final size:19
Alignment explanation
Indices: 822133--822173 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
822123 AACATTATTT
822133 TTATATATAATAAATATAA
1 TTATATATAATAAATATAA
* *
822152 TTATAT-TATTAAATTTAA
1 TTATATATAATAAATATAA
822170 TTAT
1 TTAT
822174 CGTCATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATATAATAAATATAA
Found at i:825740 original size:37 final size:37
Alignment explanation
Indices: 825699--825775 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
825689 TAATAAATGC
* *
825699 CTAATTGTATATGAATTATTCTTTTATATTAGTTTTT
1 CTAATTCTATATGAATTATTCTTCTATATTAGTTTTT
*
825736 CTAATTCTATATGAATTATTCTTCTATCTTAGTTTTT
1 CTAATTCTATATGAATTATTCTTCTATATTAGTTTTT
825773 CTA
1 CTA
825776 GTTATCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.57
Consensus pattern (37 bp):
CTAATTCTATATGAATTATTCTTCTATATTAGTTTTT
Found at i:825757 original size:20 final size:19
Alignment explanation
Indices: 825699--825757 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
825689 TAATAAATGC
825699 CTAATTGTATATGAATTATT
1 CTAATT-TATATGAATTATT
* * *
825719 CT--TTTATATTAGTTTTT
1 CTAATTTATATGAATTATT
825736 CTAATTCTATATGAATTATT
1 CTAATT-TATATGAATTATT
825756 CT
1 CT
825758 TCTATCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
19 2 0.07
20 14 0.47
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (19 bp):
CTAATTTATATGAATTATT
Found at i:831036 original size:21 final size:21
Alignment explanation
Indices: 830988--831043 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
830978 TATAAACAGT
830988 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAAGTG
* ***
831009 -TATGTATCGATACATGCTTG
1 AAATGTATCGATACATAAGTG
831029 AAATGTATCGATACA
1 AAATGTATCGATACA
831044 AAACCACCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTG
Found at i:831119 original size:22 final size:20
Alignment explanation
Indices: 831067--831126 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
831057 TTCTGGAAAG
*
831067 AAATTGTATCGATACATAAGT
1 AAATTGTATCGATACAT-TGT
*
831088 GAA-TGTATCGATACATTGCTT
1 AAATTGTATCGATACATTG--T
831109 AAATTGTATCGATACATT
1 AAATTGTATCGATACATT
831127 CTGGGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 5 0.15
22 14 0.42
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
AAATTGTATCGATACATTGT
Found at i:839054 original size:20 final size:20
Alignment explanation
Indices: 838980--839104 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
838970 TTTCACCCAG
* *
838980 ATGTATTGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
839000 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
839020 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
839040 ATGTATCGATACATTCTGTTTTTTTACCTA
1 ATGTATCGATACA-------TTTTT--C-A
839070 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
839091 ATGTATCGATACAT
1 ATGTATCGATACAT
839105 CTAGTTAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 57 0.68
21 1 0.01
22 1 0.01
24 5 0.06
27 5 0.06
29 1 0.01
30 1 0.01
31 13 0.15
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:844598 original size:8 final size:8
Alignment explanation
Indices: 844585--844619 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
844575 TATTAAGTTT
844585 AAAAAATA
1 AAAAAATA
844593 AAAAAATA
1 AAAAAATA
*
844601 AAAAAAGA
1 AAAAAATA
844609 AGAAAAATA
1 A-AAAAATA
844618 AA
1 AA
844620 GCTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (8 bp):
AAAAAATA
Found at i:844614 original size:17 final size:16
Alignment explanation
Indices: 844585--844619 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
844575 TATTAAGTTT
*
844585 AAAAAATAAAAAAATA
1 AAAAAAGAAAAAAATA
844601 AAAAAAGAAGAAAAATA
1 AAAAAAGAA-AAAAATA
844618 AA
1 AA
844620 GCTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAAAAGAAAAAAATA
Found at i:846282 original size:13 final size:13
Alignment explanation
Indices: 846264--846289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
846254 CAATTTTTTG
846264 TGTATCGATACAT
1 TGTATCGATACAT
846277 TGTATCGATACAT
1 TGTATCGATACAT
846290 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:847049 original size:131 final size:131
Alignment explanation
Indices: 846782--847095 Score: 305
Period size: 131 Copynumber: 2.4 Consensus size: 131
846772 TATTTTACTA
* * * * * ** * * * *
846782 CTTTTCAATTTAGGTTCTGCTCTGGTCACCTTTTGTTAGTTTGTATAGTTTCGTACTGGCTAATC
1 CTTTTCAACTTAGGTTCTACCCTAGTCACCTTTTGTTGGTTAATTTGGTTTCATACTGGCCAA-C
* * * *
846847 CTTATTCGACTTAGGTTCTGCCTTATTCACCCTTTGTTGGTTCACATGGTTTCATCTTGAGCAAC
65 CCTGTTCGACTTAGGTTCTGCCTTAGTCACCCTTTGTTGGTTCACATGGTTTCATCTTGACCAAC
*
846912 TT
130 TC
* *
846914 CTTTT-GA-TTCAGGTT-TCACCCTAGTCACCTTTTTGTTGGTTCATTTGGTTTCATACTGGCCA
1 CTTTTCAACTT-AGGTTCT-ACCCTAGTCACC-TTTTGTTGGTTAATTTGGTTTCATACTGGCCA
* * * * * *
846976 ACCCTGTTCGACTTAGGTTTTGTCTTAGTCATCCTTTGTTGGTTTGA-TTTGTTTCATCTTGACC
63 ACCCTGTTCGACTTAGGTTCTGCCTTAGTCACCCTTTGTTGG-TTCACATGGTTTCATCTTGACC
847040 AA-TCC
127 AACT-C
* *
847045 CTTTTCAACTTAGGTTCTGCCCTAGTCACCTTTTGTTGGTTAATTTTGTTT
1 CTTTTCAACTTAGGTTCTACCCTAGTCACCTTTTGTTGGTTAATTTGGTTT
847096 TATCTCAACT
Statistics
Matches: 148, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
130 4 0.03
131 90 0.61
132 51 0.34
133 3 0.02
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (131 bp):
CTTTTCAACTTAGGTTCTACCCTAGTCACCTTTTGTTGGTTAATTTGGTTTCATACTGGCCAACC
CTGTTCGACTTAGGTTCTGCCTTAGTCACCCTTTGTTGGTTCACATGGTTTCATCTTGACCAACT
C
Found at i:847110 original size:66 final size:65
Alignment explanation
Indices: 846932--847100 Score: 182
Period size: 66 Copynumber: 2.6 Consensus size: 65
846922 TCAGGTTTCA
* * * * *
846932 CCCTAGTCACCTTTTTGTTGGTTCATTTGGTTTCATACTGGCCAA-CCCTGTTCGACTTAGGTTT
1 CCCTAGTCACC-TTTTGTTGGTTAATTTTGTTTCAT-CTGACCAATCCCTGTTCAACTTAGGTTC
846996 TG
64 TG
* * * *
846998 TCTTAGTCATCC-TTTGTTGGTTTGA-TTTGTTTCATCTTGACCAATCCCTTTTCAACTTAGGTT
1 CCCTAGTCA-CCTTTTGTTGG-TTAATTTTGTTTCATC-TGACCAATCCCTGTTCAACTTAGGTT
847061 CTG
63 CTG
*
847064 CCCTAGTCACCTTTTGTTGGTTAATTTTGTTTTATCT
1 CCCTAGTCACCTTTTGTTGGTTAATTTTGTTTCATCT
847101 CAACTAATCC
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
64 1 0.01
65 29 0.34
66 53 0.62
67 2 0.02
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (65 bp):
CCCTAGTCACCTTTTGTTGGTTAATTTTGTTTCATCTGACCAATCCCTGTTCAACTTAGGTTCTG
Found at i:847195 original size:66 final size:65
Alignment explanation
Indices: 847124--847275 Score: 160
Period size: 66 Copynumber: 2.3 Consensus size: 65
847114 ATTGATCTAG
* * * **
847124 GTTCCACCCTAGTCACCCTTCATTCGTTCATATGGTTTCATCCTGGCCAACTCTTTTTTGACTTA
1 GTTCCACCCTAGTCACCCTTCATTAGTTCATATGGTTTCATCCTGACCAACCCTTTTTCAACTTA
*** * * * *
847189 TGTTCCATGTTGGTCACCTTTTATTAGTTCATATGGTTTCATCCTGACTAACCCTTTTTCAACTT
1 -GTTCCACCCTAGTCACCCTTCATTAGTTCATATGGTTTCATCCTGACCAACCCTTTTTCAACTT
847254 A
65 A
* *
847255 GTTTTCACTCTAGTCACCCTT
1 G-TTCCACCCTAGTCACCCTT
847276 TAATGATTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
65 1 0.01
66 66 0.99
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.43
Consensus pattern (65 bp):
GTTCCACCCTAGTCACCCTTCATTAGTTCATATGGTTTCATCCTGACCAACCCTTTTTCAACTTA
Found at i:849428 original size:21 final size:20
Alignment explanation
Indices: 849391--849437 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
849381 AATCAATTTA
849391 AATAAAATCAAATTAAAAAC
1 AATAAAATCAAATTAAAAAC
849411 AATAAATATCATAA-TAAAAAC
1 AATAAA-ATCA-AATTAAAAAC
849432 AA-AAAA
1 AATAAAA
849438 AAAAAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 9 0.36
21 13 0.52
22 2 0.08
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAATCAAATTAAAAAC
Found at i:855035 original size:154 final size:155
Alignment explanation
Indices: 854829--855181 Score: 392
Period size: 154 Copynumber: 2.3 Consensus size: 155
854819 TATTTAAGAT
* * * * * * *
854829 TAGGTTAACTTTTCTATGATCATTTTAAAGCCCTTTAGGTTTACTGAGATACTTTCATGTCAAAG
1 TAGGTTCACTATTCTATGATCGTTTTAGAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAG
** * * * * *
854894 GTATA-CCTCATGGGCATTTTCATAATTTTTTTA-AAATTGAGTTTGATGTAGTCAAC-GTGATG
66 GTATACCCT-AAAGGCATTTTCATAATTTTTCTAGAAACT-AGTCTGATATAGTCAACAG-CATG
* **
854956 TTTTTATGCCAAA-GTGTGCAATTAGGG
128 CTTTTATGCCAAAGGTGTGCAATTAGAA
*
854983 TAGGTTCACTATTCTATGATCGTTTTAGAGTCTTTTAGGGTTA-TGAGTATACTTTCATGTCGAA
1 TAGGTTCACTATTCTATGATCGTTTTAGAGTCTTTTAGGGTTACTGAG-ATACTTTCATGTCAAA
** * * *
855047 GGTATACCCTAAAGGCATTTTGGTAGTTTTTCTAGAACCTAGTCTGATATAGTCACCAGCATGCT
65 GGTATACCCTAAAGGCATTTTCATAATTTTTCTAGAAACTAGTCTGATATAGTCAACAGCATGCT
* *
855112 TTTATGCCAAAGGTGTGCATTTCGAA
130 TTTATGCCAAAGGTGTGCAATTAGAA
* *
855138 TAGGTTCACTCTTCTATGATCGTTTTAGAGTCTTTTGGGGTTAC
1 TAGGTTCACTATTCTATGATCGTTTTAGAGTCTTTTAGGGTTAC
855182 CAATATTGTT
Statistics
Matches: 166, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
153 4 0.02
154 104 0.63
155 58 0.35
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (155 bp):
TAGGTTCACTATTCTATGATCGTTTTAGAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAG
GTATACCCTAAAGGCATTTTCATAATTTTTCTAGAAACTAGTCTGATATAGTCAACAGCATGCTT
TTATGCCAAAGGTGTGCAATTAGAA
Found at i:855627 original size:34 final size:32
Alignment explanation
Indices: 855563--855627 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
855553 TAGCCAAACT
* **
855563 TGTATCGATACACCAAGTATTTATCGATACAA
1 TGTATCAATACACCAAAAATTTATCGATACAA
855595 TGTATCAATACACCAAAAAATTGTATCGATACA
1 TGTATCAATACACC-AAAAATT-TATCGATACA
855628 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 5 0.18
34 10 0.36
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (32 bp):
TGTATCAATACACCAAAAATTTATCGATACAA
Found at i:859711 original size:15 final size:15
Alignment explanation
Indices: 859693--859722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
859683 CCAAATTGAG
859693 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
859708 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
859723 ATCGATGAAC
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:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:859718 original size:16 final size:16
Alignment explanation
Indices: 859682--859722 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
859672 GATAAAAATG
* *
859682 TCCAAATTGAGGAAGC
1 TCCAAAATGAAGAAGC
859698 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
859713 TCC-AAATGAA
1 TCCAAAATGAA
859723 ATCGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:861811 original size:13 final size:13
Alignment explanation
Indices: 861793--861831 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
861783 ACATTTTTCT
861793 TTGTATCGATACA
1 TTGTATCGATACA
861806 TTGTATCGATACA
1 TTGTATCGATACA
*
861819 CTGTATCGATACA
1 TTGTATCGATACA
861832 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:861976 original size:21 final size:20
Alignment explanation
Indices: 861952--861998 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
861942 AAATCTTTTG
861952 CAAAATAATT-GTTTTTCACTT
1 CAAAATAATTCGTTTTTCA--T
* *
861973 CAAATTACTTCGTTTTTCAT
1 CAAAATAATTCGTTTTTCAT
861993 CAAAAT
1 CAAAAT
861999 TAGCCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATAATTCGTTTTTCAT
Found at i:872043 original size:21 final size:22
Alignment explanation
Indices: 872019--872070 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
872009 CAATATCAAT
*
872019 AAATGTTTTAGAG-TTATGAA-C
1 AAATGTTTTAGAGCTT-TAAATC
*
872040 AAATGTTTTCGAGCTTTAAATC
1 AAATGTTTTAGAGCTTTAAATC
872062 AAATGTTTT
1 AAATGTTTT
872071 TAAGTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (22 bp):
AAATGTTTTAGAGCTTTAAATC
Found at i:872214 original size:19 final size:18
Alignment explanation
Indices: 872189--872246 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
872179 TTGTATCGAT
872189 ACATTATATCGATACATG
1 ACATTATATCGATACATG
*
872207 ATCATTATATCGATAAATG
1 A-CATTATATCGATACATG
*
872226 CACAATTGTATCGATACATG
1 -AC-ATTATATCGATACATG
872246 A
1 A
872247 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (18 bp):
ACATTATATCGATACATG
Found at i:872313 original size:13 final size:13
Alignment explanation
Indices: 872295--872319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
872285 CATGGCACAT
872295 TGTATCGATACAA
1 TGTATCGATACAA
872308 TGTATCGATACA
1 TGTATCGATACA
872320 TAAAGAATTG
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:880969 original size:20 final size:19
Alignment explanation
Indices: 880923--880976 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
880913 GTATCGATAT
880923 ATTGTATCGATACATGATC
1 ATTGTATCGATACATGATC
*
880942 ACTGTATCGATACATGCA-C
1 ATTGTATCGATACATG-ATC
880961 AATTGTATCGATACAT
1 -ATTGTATCGATACAT
880977 TAAACTGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (19 bp):
ATTGTATCGATACATGATC
Found at i:881050 original size:33 final size:32
Alignment explanation
Indices: 881007--881071 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
880997 TACTACTGTT
881007 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
*
881040 TGTATTGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
881072 TTATCCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:882098 original size:9 final size:10
Alignment explanation
Indices: 882077--882108 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
882067 ATAATTATGT
882077 TATAAATATA
1 TATAAATATA
882087 TATAAA-ATA
1 TATAAATATA
882096 TATAAATA-A
1 TATAAATATA
882105 TATA
1 TATA
882109 CTAGTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATAAATATA
Found at i:885167 original size:20 final size:20
Alignment explanation
Indices: 885142--885194 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
885132 CTACCACTAT
*
885142 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAGTACA
885162 TTGTATCGATACATAGTACA
1 TTGTATCGATACATAGTACA
885182 TTGTATCGATACA
1 TTGTATCGATACA
885195 ATGTATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATAGTACA
Found at i:885194 original size:13 final size:13
Alignment explanation
Indices: 885178--885230 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
885168 CGATACATAG
885178 TACATTGTATCGA
1 TACATTGTATCGA
*
885191 TACAATGTATCGA
1 TACATTGTATCGA
885204 TACA-TG-AT-G-
1 TACATTGTATCGA
885213 -A-ATTGTATCGA
1 TACATTGTATCGA
885224 TACATTG
1 TACATTG
885231 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:885205 original size:33 final size:33
Alignment explanation
Indices: 885158--885227 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 33
885148 CGATACATGG
*
885158 TACATTGTATCGATACAT-A-GTACATTGTATCGA
1 TACAATGTATCGATACATGATG-A-ATTGTATCGA
885191 TACAATGTATCGATACATGATGAATTGTATCGA
1 TACAATGTATCGATACATGATGAATTGTATCGA
885224 TACA
1 TACA
885228 TTGCTTCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 31 0.91
34 2 0.06
35 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (33 bp):
TACAATGTATCGATACATGATGAATTGTATCGA
Found at i:887155 original size:19 final size:21
Alignment explanation
Indices: 887105--887161 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
887095 AATTTAAATC
*
887105 AAATCAAAATAATGAAGAAGAA
1 AAATAAAAAT-ATGAAGAAGAA
*
887127 AAATAAAAAATATGAATAA-AA
1 AAAT-AAAAATATGAAGAAGAA
887148 AAATAAAAA-ATGAA
1 AAATAAAAATATGAA
887162 AAACAATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 6 0.19
22 11 0.34
23 5 0.16
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.16
Consensus pattern (21 bp):
AAATAAAAATATGAAGAAGAA
Found at i:892371 original size:33 final size:33
Alignment explanation
Indices: 892323--892387 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
892313 CACACCCAAA
*
892323 TGTATCAATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATAAAAATTGCTAAGTATCGATACAT
* **
892356 TGTATCGATAAAAATTGCTTTGTATCGATACA
1 TGTATCAATAAAAATTGCTAAGTATCGATACA
892388 CTATCAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCAATAAAAATTGCTAAGTATCGATACAT
Found at i:893091 original size:43 final size:43
Alignment explanation
Indices: 893030--893117 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
893020 CGAGTTAAGG
*
893030 ACCGAACCTCTATAAACTTCCATGTTAGCTTTCTGTCATCCTT
1 ACCGAACCTCTATAAACTTCCATGTTAGCTTTCTCTCATCCTT
*
893073 ACCGAACCTTTATAAACTTCCATGTTAGCTTTCTCTCATCCTT
1 ACCGAACCTCTATAAACTTCCATGTTAGCTTTCTCTCATCCTT
893116 AC
1 AC
893118 TCTTTTTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.38
Consensus pattern (43 bp):
ACCGAACCTCTATAAACTTCCATGTTAGCTTTCTCTCATCCTT
Found at i:898524 original size:13 final size:13
Alignment explanation
Indices: 898506--898530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
898496 TGAGTTTTTA
898506 GTATCGATACATT
1 GTATCGATACATT
898519 GTATCGATACAT
1 GTATCGATACAT
898531 GGGTACTATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:905670 original size:13 final size:13
Alignment explanation
Indices: 905652--905676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
905642 TGAGTTTTTA
905652 GTATCGATACATT
1 GTATCGATACATT
905665 GTATCGATACAT
1 GTATCGATACAT
905677 GGGTACTATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:909671 original size:130 final size:127
Alignment explanation
Indices: 909482--909939 Score: 456
Period size: 130 Copynumber: 3.5 Consensus size: 127
909472 TTTCATCTCG
* * * * *
909482 GGGATACTCCAATCC-CGGTTTCATTTCCAAAACATCAATTTTTCT-TAATTGGCGATACTCCAA
1 GGGATACTCCAA-CCTCGGTTTTATTTCTAAAACATCAATTTTT-TACAATCGGGGATACTCCAA
* * * *
909545 CTGCGATTTTATTTCTAAAGCATAAACTTTTTTACAATCGGAGATACTCCAACCCCGTTATTTCG
64 CT-CGATTTTATTTCTAAAACA-AAA-TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCC
909610 AA
126 AA
* ** * *
909612 AGGATACTCCAACCTCGGTTTTACCTCTAAAACATCAATTTTTTACAATCCGGGATACTCTAACC
1 GGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTACAATCGGGGATACTCCAA-C
* * * * * * *
909677 CCAATTTTATTTCAAAAACAACGATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCCAA
65 TCGATTTTATTTCTAAAACAA-AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAA
* * * **
909741 GGGGTTACTCTAACCTCGGTTTTATTTCTAAAACATCAACTTTCCACAATCGGGGATACTCCAAC
1 -GGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTACAATCGGGGATACTCCAA-
* * *
909806 CTCGATTTTATTT-TCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCA
64 CTCGATTTTATTTCT-AAAACA-AAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCA
*
909870 C
127 A
* *
909871 GGAGACACTCCAACCCCGGTTTTATTT-TCAAAACATCAATTTTTTTTTACAATCGGGGATACTC
1 GG-GATACTCCAACCTCGGTTTTATTTCT-AAAACATCAA---TTTTTTACAATCGGGGATACTC
909935 CAACT
61 CAACT
909940 TCGTTATTTC
Statistics
Matches: 267, Mismatches: 49, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
129 41 0.15
130 201 0.75
131 1 0.00
132 2 0.01
133 22 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (127 bp):
GGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTTACAATCGGGGATACTCCAACT
CGATTTTATTTCTAAAACAAAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:909685 original size:51 final size:51
Alignment explanation
Indices: 909630--909729 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
909620 CCAACCTCGG
* * **
909630 TTTTACCTCTAAAACATCAATTTTTTACAATCCGGGATACTCTAACCCCAA
1 TTTTACCTCAAAAACAACAATTTTCCACAATCCGGGATACTCTAACCCCAA
** * * *
909681 TTTTATTTCAAAAACAACGATTTTCCACCATCGGGGATACTCTAACCCC
1 TTTTACCTCAAAAACAACAATTTTCCACAATCCGGGATACTCTAACCCC
909730 GTTATTTCCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (51 bp):
TTTTACCTCAAAAACAACAATTTTCCACAATCCGGGATACTCTAACCCCAA
Found at i:909807 original size:51 final size:51
Alignment explanation
Indices: 909741--909857 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
909731 TTATTTCCAA
* * * *
909741 GGGGTTACTCTAACCTCGGTTTTA-TTTCTAAAACATCAACTTTCCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTTC-AAAACACCAACTTTCCACAATC
* * *
909792 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAACTTTCCACAATC
909843 GGGGATACTCCAACC
1 GGGGATACTCCAACC
909858 CCATTATTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAACTTTCCACAATC
Found at i:909965 original size:28 final size:29
Alignment explanation
Indices: 909922--909993 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
909912 TTTTTTTACA
** *
909922 ATCGGGGATACTCCAACTTCGTTA-TTTC
1 ATCGGGGATACTCCAACCACATTATTTTC
*
909950 ATCGGGGATACACCAACCACATTATTTTC
1 ATCGGGGATACTCCAACCACATTATTTTC
909979 A-CGGGGATACTCCAA
1 ATCGGGGATACTCCAA
909994 TCCCGATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCACATTATTTTC
Found at i:909966 original size:82 final size:80
Alignment explanation
Indices: 909789--909967 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 80
909779 ACTTTCCACA
* *
909789 ATCGGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCC
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCC
909854 AACCCCATTATTTCC
66 AACCCCATTATTTCC
* * * * *
909869 A-CGGAGACACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTTTTTACAATCGGGGATAC
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA---TTTTTCACAATCGGGGATAC
** *
909933 TCCAACTTCGTTATTT-C
63 TCCAACCCCATTATTTCC
*
909950 ATCGGGGATACACCAACC
1 ATCGGGGATACTCCAACC
909968 ACATTATTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 35 0.43
80 1 0.01
81 2 0.02
82 44 0.54
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCC
AACCCCATTATTTCC
Found at i:910036 original size:79 final size:80
Alignment explanation
Indices: 909950--910119 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 80
909940 TCGTTATTTC
* * * * *
909950 ATCGGGGATACACCAACCAC-ATTATTTTCACGGGGATACTCCAATCCCGA-TTTTATTTTTAAA
1 ATCGGGGATACACCAACC-CTATTATTTCCAAGGAGATACTCCAACCCCGATTTTTATTTCTAAA
* *
910013 ACACCGATTTTCTATT
65 ACACCGATTTTCCATA
* * * *
910029 ATCGGGGATACTCTAACCCTGTTATTTCCAAGGAGATACTCCAACCCCGATTTTTATTTCTAGAA
1 ATCGGGGATACACCAACCCTATTATTTCCAAGGAGATACTCCAACCCCGATTTTTATTTCTAAAA
910094 CACCGATTTTCCATA
66 CACCGATTTTCCATA
910109 ATCGGGGATAC
1 ATCGGGGATAC
910120 TCCAGCCCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 41 0.53
80 36 0.46
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (80 bp):
ATCGGGGATACACCAACCCTATTATTTCCAAGGAGATACTCCAACCCCGATTTTTATTTCTAAAA
CACCGATTTTCCATA
Found at i:910133 original size:80 final size:79
Alignment explanation
Indices: 909950--910134 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 79
909940 TCGTTATTTC
* * * * * * * *
909950 ATCGGGGATACACCAACCACATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGAGATACTCCAACCCCGATTTTATTTCTAAAAC
* *
910015 ACCGATTTTCTATT
66 ACCGATTTTCCATA
* * *
910029 ATCGGGGATACTCTAACCCTGTTATTTCCAAGGAGATACTCCAACCCCGATTTTTATTTCTAGAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGAGATACTCCAACCCCGA-TTTTATTTCTAAAA
910094 CACCGATTTTCCATA
65 CACCGATTTTCCATA
*
910109 ATCGGGGATACTCCAGCCCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATT
910135 ATCTTTGAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 41 0.46
80 48 0.54
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCAAGGAGATACTCCAACCCCGATTTTATTTCTAAAAC
ACCGATTTTCCATA
Found at i:911979 original size:20 final size:22
Alignment explanation
Indices: 911924--911986 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 22
911914 TAAAAAGTGG
* *
911924 ATAATTTGTTAAGAGAGAGTAA
1 ATAATTTGTTAAGGGGGAGTAA
* *
911946 ATATTTTCTTAAGGGGGAG-AA
1 ATAATTTGTTAAGGGGGAGTAA
911967 A-AATTTGTTAAGGGGGAGTA
1 ATAATTTGTTAAGGGGGAGTA
911987 CTAAATTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 15 0.44
21 4 0.12
22 15 0.44
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.32
Consensus pattern (22 bp):
ATAATTTGTTAAGGGGGAGTAA
Found at i:912512 original size:22 final size:22
Alignment explanation
Indices: 912479--912520 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
912469 GATAAGTCTG
912479 AATGTTTTTCAAGTAATAAATCA
1 AATGTTTTTCAAGTAA-AAATCA
912502 AATG-TTTTCAAGTAAAAAT
1 AATGTTTTTCAAGTAAAAAT
912521 AATTCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
AATGTTTTTCAAGTAAAAATCA
Found at i:912662 original size:19 final size:20
Alignment explanation
Indices: 912620--912691 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
912610 ACACCCAGAT
* *
912620 GTATCGATACATATTGCTTA
1 GTATCGATACATGTTGCATA
912640 GTATCGATACATGTT-CATA
1 GTATCGATACATGTTGCATA
* * *
912659 GTATCGATACATCTTGAAAA
1 GTATCGATACATGTTGCATA
912679 GTATCGATACATG
1 GTATCGATACATG
912692 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGTTGCATA
Found at i:914064 original size:13 final size:13
Alignment explanation
Indices: 914046--914072 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
914036 GAAAATTATT
914046 GTTTATAAATTTG
1 GTTTATAAATTTG
914059 GTTTATAAATTTG
1 GTTTATAAATTTG
914072 G
1 G
914073 GAGAAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (13 bp):
GTTTATAAATTTG
Found at i:914821 original size:13 final size:13
Alignment explanation
Indices: 914803--914827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
914793 TACACACCCA
914803 AATGTATCGATAT
1 AATGTATCGATAT
914816 AATGTATCGATA
1 AATGTATCGATA
914828 CATATTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:915899 original size:166 final size:166
Alignment explanation
Indices: 915563--915877 Score: 366
Period size: 166 Copynumber: 1.9 Consensus size: 166
915553 GAAATTTCAA
* *
915563 AAAAATTGAAAAATCCATGAAATAAAAAGAATTTTTTAAAACTAATTTAATGTAACTTAAATAAT
1 AAAAA-TGAAAAATCCATGAAATAAAAAGAATTTTTCAAAACTAATTTAATATAACTTAAATAAT
* * * * ** ** *
915628 GATATTTGATGAATTTTAAAAATTATAAACCTCAAAAAAATCCTCCCGTAATTATTTACGGAGTA
65 AATATTTGATGAATATTAAAAATTATAAACCTCAAAAAAATCCGCCCGAAAAAATTTACAAAGAA
* * *
915693 GAAAATTCTGTATTTTAGAAACAGGAAAACTTTAAGG
130 GAAAATTCTATATTTCAAAAACAGGAAAACTTTAAGG
* ** * * *
915730 AAAAATGAAAAATCCTTGAAATAATTAGAATTTTTCAAAACTTATTTAATATGAGTTAAATAATA
1 AAAAATGAAAAATCCATGAAATAAAAAGAATTTTTCAAAACTAATTTAATATAACTTAAATAATA
* * * **
915795 ATATTTGATGAATATTAAAAATTTTAAA-TTGATGAAAATCCGCCC-AAAAAATTTACAAAGAAG
66 ATATTTGATGAATATTAAAAATTATAAACCTCAAAAAAATCCGCCCGAAAAAATTTACAAAGAAG
915858 AAAATT-TCATATTTCAAAAA
131 AAAATTCT-ATATTTCAAAAA
915878 TATGAGGAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
163 1 0.01
164 27 0.22
165 12 0.10
166 77 0.63
167 5 0.04
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.33
Consensus pattern (166 bp):
AAAAATGAAAAATCCATGAAATAAAAAGAATTTTTCAAAACTAATTTAATATAACTTAAATAATA
ATATTTGATGAATATTAAAAATTATAAACCTCAAAAAAATCCGCCCGAAAAAATTTACAAAGAAG
AAAATTCTATATTTCAAAAACAGGAAAACTTTAAGG
Found at i:917250 original size:19 final size:19
Alignment explanation
Indices: 917223--917278 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
917213 TGTATCGATA
* *
917223 CATTATATCGATACATGCT
1 CATTGTATCGATACATGCC
*
917242 CATTGTATCGATACATACC
1 CATTGTATCGATACATGCC
*
917261 CAATGGTATCGATACATG
1 C-ATTGTATCGATACATG
917279 AAACTGGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (19 bp):
CATTGTATCGATACATGCC
Found at i:917271 original size:20 final size:19
Alignment explanation
Indices: 917228--917277 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
917218 CGATACATTA
* * *
917228 TATCGATACATGCTCATTG
1 TATCGATACATACCCATGG
917247 TATCGATACATACCCAATGG
1 TATCGATACATACCC-ATGG
917267 TATCGATACAT
1 TATCGATACAT
917278 GAAACTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (19 bp):
TATCGATACATACCCATGG
Found at i:922876 original size:61 final size:61
Alignment explanation
Indices: 922707--922898 Score: 209
Period size: 61 Copynumber: 3.2 Consensus size: 61
922697 ACCTTTCCTA
* * * * *
922707 AAAGCCCACTACTTAGTGGCAG-CTCTTTTCC-AAGTCCACGACTCTA-TGGCA-C-CCTTCC
1 AAAGTCCACGACTCAGTGGC-GTCTCTTTTCCAAAGTCCACGACTC-AGTGGCATCTCTTTTC
* * * *
922765 AAAGTTCACGACTCAGTGGCATC-CTTTT-CAAAGTCCATGACTTAGTGGCATCTCTTTTC
1 AAAGTCCACGACTCAGTGGCGTCTCTTTTCCAAAGTCCACGACTCAGTGGCATCTCTTTTC
* *
922824 AAAGTCCAAGACTCAGTGGCGTCTCTTTTCCAAAGTCCACGACTCAGTGGCATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCGTCTCTTTTCCAAAGTCCACGACTCAGTGGCATCTCTTTTC
*
922885 TAAGTCCACGACTC
1 AAAGTCCACGACTC
922899 TATGGCACAT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.02
57 21 0.19
58 18 0.16
59 24 0.22
60 5 0.05
61 40 0.36
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCGTCTCTTTTCCAAAGTCCACGACTCAGTGGCATCTCTTTTC
Found at i:922905 original size:30 final size:30
Alignment explanation
Indices: 922707--922898 Score: 212
Period size: 30 Copynumber: 6.5 Consensus size: 30
922697 ACCTTTCCTA
* * * *
922707 AAAGCCCACTACTTAGTGGCAGCTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC
* * *
922737 CAAGTCCACGACTCTA-TGGCA-C-CCTTCC
1 AAAGTCCACGACTC-AGTGGCATCTCTTTTC
*
922765 AAAGTTCACGACTCAGTGGCATC-CTTTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC
* *
922794 AAAGTCCATGACTTAGTGGCATCTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC
* *
922824 AAAGTCCAAGACTCAGTGGCGTCTCTTTTCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTT-C
*
922855 AAAGTCCACGACTCAGTGGCATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC
*
922885 TAAGTCCACGACTC
1 AAAGTCCACGACTC
922899 TATGGCACAT
Statistics
Matches: 137, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 21 0.15
29 26 0.19
30 61 0.45
31 28 0.20
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTC
Found at i:923007 original size:34 final size:34
Alignment explanation
Indices: 922909--923015 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
922899 TATGGCACAT
* * * *
922909 TTTTTCTTTTTAAAGTCCACAAATCCGTGGCATC
1 TTTTTCTTTTCAAAGCCCACAACTCCGTGGCACC
*
922943 TTTTTCTTTTCAAAGCCCACGACTCCGTGGCACC
1 TTTTTCTTTTCAAAGCCCACAACTCCGTGGCACC
* **
922977 TTTTTCTTTTCAAAGCCCATAACTTTGTGGCACC
1 TTTTTCTTTTCAAAGCCCACAACTCCGTGGCACC
*
923011 CTTTT
1 TTTTT
923016 AAGTCCACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (34 bp):
TTTTTCTTTTCAAAGCCCACAACTCCGTGGCACC
Found at i:923075 original size:59 final size:54
Alignment explanation
Indices: 922997--923174 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 54
922987 CAAAGCCCAT
*
922997 AACTTTGTGGCACCCTTTTAAGTCCACAACTCCATGGCATTCTTTCCTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCA--C---CCTTTTAAGTCCAC
923056 AACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCAC
** * * * *
923110 AACTCCATGGCATTTGTTCCTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCAT
1 AACTCTGTGGCA-----CCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCAC
923169 AACTCT
1 AACTCT
923175 ATCACACCTT
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
54 24 0.23
57 1 0.01
59 81 0.76
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (54 bp):
AACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCAC
Found at i:923152 original size:86 final size:86
Alignment explanation
Indices: 923004--923248 Score: 305
Period size: 86 Copynumber: 2.8 Consensus size: 86
922994 CATAACTTTG
*
923004 TGGCACCCTTTTAAGTCCACAACTCCATGGCATTCTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 TGGCACCCTTTTAAGTCCACAACTCCATGGCATTCTTTCCTTTTAAGTCCACAACTCCGTGGCAC
923069 CCTTTTAAGTCCACAACTCCA
66 CCTTTTAAGTCCACAACTCCA
*
923090 TGGCACCCTTTTAAGTCCACAACTCCATGGCATT-TGTTCCTTTTAAGTCTACAACTCCGTGGCA
1 TGGCACCCTTTTAAGTCCACAACTCCATGGCATTCT-TTCCTTTTAAGTCCACAACTCCGTGGCA
* *
923154 CCCTTTTAAGTCCATAACTCTA
65 CCCTTTTAAGTCCACAACTCCA
** * * * *
923176 TCACACCTTTTTCTTTTCAAAGTCCACAATTTCGTGGCACTT-TTTCCTTTTAAGTCCCCAACTC
1 TGGCACC-----CTTTT--AAGTCCACAACTCCATGGCA-TTCTTTCCTTTTAAGTCCACAACTC
923240 CGTGGCACC
58 CGTGGCACC
923249 TTTCCCTTCT
Statistics
Matches: 139, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
85 1 0.01
86 85 0.61
91 5 0.04
93 45 0.32
94 3 0.02
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (86 bp):
TGGCACCCTTTTAAGTCCACAACTCCATGGCATTCTTTCCTTTTAAGTCCACAACTCCGTGGCAC
CCTTTTAAGTCCACAACTCCA
Found at i:923182 original size:27 final size:27
Alignment explanation
Indices: 923004--923173 Score: 196
Period size: 27 Copynumber: 5.9 Consensus size: 27
922994 CATAACTTTG
923004 TGGCACCCTTTTAAGTCCACAACTCCA
1 TGGCACCCTTTTAAGTCCACAACTCCA
**
923031 TGGCATTCTTTCCTTTTAAGTCCACAACTCTG
1 TGGCA--C---CCTTTTAAGTCCACAACTCCA
923063 TGGCACCCTTTTAAGTCCACAACTCCA
1 TGGCACCCTTTTAAGTCCACAACTCCA
923090 TGGCACCCTTTTAAGTCCACAACTCCA
1 TGGCACCCTTTTAAGTCCACAACTCCA
* * *
923117 TGGCATTTGTTCCTTTTAAGTCTACAACTCCG
1 TGGCA-----CCCTTTTAAGTCCACAACTCCA
*
923149 TGGCACCCTTTTAAGTCCATAACTC
1 TGGCACCCTTTTAAGTCCACAACTC
923174 TATCACACCT
Statistics
Matches: 123, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
27 73 0.59
29 1 0.01
30 1 0.01
32 48 0.39
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.32
Consensus pattern (27 bp):
TGGCACCCTTTTAAGTCCACAACTCCA
Found at i:923192 original size:59 final size:59
Alignment explanation
Indices: 923069--923215 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 59
923059 TCTGTGGCAC
* **
923069 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCATGGCATTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATCACATTTGTT
* * *
923128 CCTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTATCACACCTTT-TT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATCACA--TTTGTT
* *
923188 -CTTTTCAAAGTCCACAATTTCGTGGCAC
1 CCTTTT--AAGTCCACAACTCCGTGGCAC
923216 TTTTTCCTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 52 0.69
60 2 0.03
61 21 0.28
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (59 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATCACATTTGTT
Found at i:923221 original size:33 final size:32
Alignment explanation
Indices: 923155--923256 Score: 80
Period size: 32 Copynumber: 3.1 Consensus size: 32
923145 TCCGTGGCAC
* ** **
923155 CCTTTTAAGTCCATAACTCTATCACACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
* *
923188 -CTTTTCAAAGTCCACAATTTCGTGGCACTTTTT
1 CCTTTT--AAGTCCACAACTCCGTGGCACTTTTT
* * *
923221 CCTTTTAAGTCCCCAACTCCGTGGCACCTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
923253 CCTT
1 CCTT
923257 CTCCAAAACC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
32 30 0.56
33 6 0.11
34 18 0.33
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.39
Consensus pattern (32 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
Found at i:923307 original size:32 final size:32
Alignment explanation
Indices: 923252--923559 Score: 301
Period size: 32 Copynumber: 9.7 Consensus size: 32
923242 TGGCACCTTT
* * *
923252 CCCTTCTCCAAAACCTACACAAGTCGATGGCAA
1 CCCTTCT-CAAAGCCCACACAAGTCGGTGGCAA
923285 CCCTTCTCAAAGCCCACACAAGTCGGTGGC-A
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
* *
923316 CCCCTC-CAAAGCCCACAAAAGTCGGTGGCAA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
* * *
923347 CCCTTCTCAAAGCCCACATAATTCGATGGC-A
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
* *
923378 CCCCTC-CAAAGTCCACACAAGTCGGTGGCAA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
* * ** *
923409 CCTTTCTCAAAGTCCACACAAGTTTGTGGC-T
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
*
923440 CCCCTCT-AAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
*
923471 CCTCTT-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CC-CTTCTC-AAAGCCCACACAAGTCGGTGGCAA
* **
923504 TTCCC-CCT-AAAGCCCACACAAGTCAATGGCAA
1 --CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
* *
923536 CCTTTTTCAAAAGCCCACACAAGT
1 CCCTTCTC-AAAGCCCACACAAGT
923560 TTGTGGCATT
Statistics
Matches: 227, Mismatches: 34, Indels: 28
0.79 0.12 0.10
Matches are distributed among these distances:
30 62 0.27
31 32 0.14
32 84 0.37
33 45 0.20
34 2 0.01
35 2 0.01
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.19
Consensus pattern (32 bp):
CCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
Found at i:923354 original size:62 final size:62
Alignment explanation
Indices: 923257--923559 Score: 358
Period size: 62 Copynumber: 4.8 Consensus size: 62
923247 CCTTTCCCTT
* * *
923257 CTCCAAAACCTACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCACCC
1 CTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCACCC
* * * *
923319 CTCCAAAGCCCACAAAAGTCGGTGGCAACCCTTCTCAAAGCCCACATAATTCGATGGCACCC
1 CTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCACCC
* * * ** *
923381 CTCCAAAGTCCACACAAGTCGGTGGCAACCTTTCTCAAAGTCCACACAAGTTTGTGGCTCCC
1 CTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCACCC
* *
923443 CTCTAAAGCCCACACAAGTCGGTGGCAACCTCTT-TCTAAAGCCCACACAAGTTGGTGGCAATTC
1 CTCCAAAGCCCACACAAGTCGGTGGCAACC-CTTCTC-AAAGCCCACACAAGTCGGTGGC-A--C
923507 CC
61 CC
* ** * *
923509 C-CTAAAGCCCACACAAGTCAATGGCAACCTTTTTCAAAAGCCCACACAAGT
1 CTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGT
923560 TTGTGGCATT
Statistics
Matches: 208, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
62 137 0.66
63 22 0.11
64 2 0.01
65 43 0.21
66 4 0.02
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.18
Consensus pattern (62 bp):
CTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCACCC
Found at i:923652 original size:43 final size:43
Alignment explanation
Indices: 923590--923851 Score: 191
Period size: 43 Copynumber: 5.7 Consensus size: 43
923580 CCCAATGTCA
923590 CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCG
1 CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCG
* * * *
923633 TTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTAATGTCG
1 CTGGCCTTGAATCAGCATATT-G-------GT-ACCTTTAAGTCTAATATCG
* *
923685 CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCA
1 CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCG
* * * *
923728 CTGGCCTTGAATCAGTATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCG
1 CTGGCCTTGAATCAGCATATT-G-------GT-ACCTTTAAGTCTAATATCG
* * * * *
923780 CTAGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCG
* * * *
923823 CTGGCTTTGAATTAGCACATTGGCACCTT
1 CTGGCCTTGAATCAGCATATTGGTACCTT
923852 CATCTTTAAG
Statistics
Matches: 176, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
43 95 0.54
44 5 0.03
51 6 0.03
52 70 0.40
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (43 bp):
CTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCG
Found at i:923698 original size:52 final size:52
Alignment explanation
Indices: 923616--924135 Score: 278
Period size: 52 Copynumber: 10.2 Consensus size: 52
923606 ATATTGGTAC
* * * *
923616 CTTTAAGTCTAATATCGTTGGCCTTAAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * * *
923668 CTTTAAGTCTAATGTCGCTGGCCTTGAATCAG--CA-T---A--TTGGT-AC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * *
923711 CTTTAAGTCCAATATCACTGGCCTTGAATCAGTATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* *
923763 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-------C-T
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* *
923807 -TTTAAGTCCAATATCGCTGGCTTTGAATTAGCACATTGGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* ** * * ** *
923855 CTTTAAGTCCGATATCATTGGCCTTGAATCAACACATTGGCATCTTTAACAG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
** * * * * * * *
923907 CCCTAA-TCCTCATGTCCCTGGCCTCGAATCAGTACATTGGCA-TTTTACTCAT
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTCAT
** * * * * * ** * **
923959 CTACAAGTCTAATGTCGCTAGCCATGAATCAGCACACTAACATTCTTCAT-AT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTGTCAT
* * * *
924011 CTTTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTCGCATCCTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-G--T-C--AT
* * * *
924069 CATCTTCAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTTTATCTT
1 C-T-TT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC-CTTTGTCAT
*
924125 TTTTAAGTCCA
1 CTTTAAGTCCA
924136 GTGTTGTAGG
Statistics
Matches: 351, Mismatches: 83, Indels: 67
0.70 0.17 0.13
Matches are distributed among these distances:
43 67 0.19
44 5 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 1 0.00
49 38 0.11
50 1 0.00
51 14 0.04
52 159 0.45
53 9 0.03
54 5 0.01
55 1 0.00
56 1 0.00
58 4 0.01
59 2 0.01
60 2 0.01
61 33 0.09
62 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
Found at i:923748 original size:95 final size:95
Alignment explanation
Indices: 923581--923903 Score: 427
Period size: 95 Copynumber: 3.4 Consensus size: 95
923571 CCTTCTAGGC
* * * *
923581 CCAATGTCACTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCTAATATCGTTGGCCTTAAATC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCGCTGGCCTTGAATC
923646 AGCATATTGGCACCTTTGTCATCTTTAAGT
66 AGCATATTGGCACCTTTGTCATCTTTAAGT
* *
923676 CTAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCACTGGCCTTGAATC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
923741 AGTATATTGGCACCTTTGTCATCTTTAAGT
66 AGCATATTGGCACCTTTGTCATCTTTAAGT
* * * * * *
923771 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCTTTGAATT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
923836 AGCACATTGGCACC--T-TCATCTTTAAGT
66 AGCATATTGGCACCTTTGTCATCTTTAAGT
* * ** * * * *
923863 CCGATATCATTGGCCTTGAATCAACACATTGGCATCTTTAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAA
923904 CAGCCCTAAT
Statistics
Matches: 203, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
92 45 0.22
93 1 0.00
95 157 0.77
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (95 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTTGTCATCTTTAAGT
Found at i:925381 original size:13 final size:13
Alignment explanation
Indices: 925363--925388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
925353 ATGTTGCACA
925363 GTATCGATACATT
1 GTATCGATACATT
925376 GTATCGATACATT
1 GTATCGATACATT
925389 ACCAAATGTA
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):
GTATCGATACATT
Found at i:925400 original size:20 final size:22
Alignment explanation
Indices: 925375--925427 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
925365 ATCGATACAT
**
925375 TGTATCGATACATT-ACCAA-A
1 TGTATCGATACATTGAAAAAGA
925395 TGTATCGATAC-TTGAAAAAGA
1 TGTATCGATACATTGAAAAAGA
925416 TGTATCGATACA
1 TGTATCGATACA
925428 GGCAATGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (22 bp):
TGTATCGATACATTGAAAAAGA
Found at i:925490 original size:13 final size:13
Alignment explanation
Indices: 925472--925496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
925462 ACACACAGTA
925472 TGTATCGATACAT
1 TGTATCGATACAT
925485 TGTATCGATACA
1 TGTATCGATACA
925497 CCATAAAATA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:929402 original size:13 final size:13
Alignment explanation
Indices: 929384--929409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
929374 CATTTTTCTG
929384 TGTATCGATACAT
1 TGTATCGATACAT
929397 TGTATCGATACAT
1 TGTATCGATACAT
929410 GGATCTTTGT
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:929406 original size:33 final size:33
Alignment explanation
Indices: 929364--929430 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
929354 GCCAAGGAAA
***
929364 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
929397 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
929430 T
1 T
929431 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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:931833 original size:51 final size:51
Alignment explanation
Indices: 931773--932135 Score: 250
Period size: 52 Copynumber: 6.9 Consensus size: 51
931763 AATTCTCCAC
* ** * *
931773 AATCGGGGATATTCCAACTTCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
* *
931824 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTC-T-AT
* * ** * * * *
931878 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCTGT-TAT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACCAA--TTTTCTAT
** * * ***
931931 TTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTT-TCAT
1 AATC--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-AT
* * * * * *
931984 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-TTTTCTAT
* * * *
932036 AATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTAT
* *
932088 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTT
932136 TCACAGTCGA
Statistics
Matches: 241, Mismatches: 52, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
51 66 0.27
52 84 0.35
53 39 0.16
54 26 0.11
55 18 0.07
56 4 0.02
57 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:931949 original size:28 final size:27
Alignment explanation
Indices: 931879--931954 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
931869 TTTCTTCACA
931879 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
931906 ATCGGGGATACTCCAACCCTGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
931932 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
931955 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:932203 original size:28 final size:28
Alignment explanation
Indices: 932146--932214 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
932136 TCACAGTCGA
* * **
932146 GGATACTCTAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
*
932174 GGATACTCCAACCTCGTTACTTCCGAGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
932202 GGATACTCCAACC
1 GGATACTCCAACC
932215 CCGGCTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACTTCAGAGG
Found at i:933006 original size:13 final size:13
Alignment explanation
Indices: 932988--933013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
932978 CAATTTTTTG
932988 TGTATCGATACAT
1 TGTATCGATACAT
933001 TGTATCGATACAT
1 TGTATCGATACAT
933014 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:933660 original size:14 final size:14
Alignment explanation
Indices: 933641--933667 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
933631 TTCTCCCTTA
933641 AACAAAATAATTTT
1 AACAAAATAATTTT
933655 AACAAAATAATTT
1 AACAAAATAATTT
933668 CTCCCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AACAAAATAATTTT
Found at i:935611 original size:13 final size:13
Alignment explanation
Indices: 935593--935631 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
935583 ATAATCCTCC
*
935593 TGTATCGATACAG
1 TGTATCGATACAA
935606 TGTATCGATACAA
1 TGTATCGATACAA
935619 TGTATCGATACAA
1 TGTATCGATACAA
935632 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:937713 original size:15 final size:15
Alignment explanation
Indices: 937693--937723 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
937683 ATTTTGTTTG
*
937693 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
937708 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
937723 G
1 G
937724 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:939556 original size:21 final size:21
Alignment explanation
Indices: 939527--939571 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
939517 AAGTTTTCAT
*
939527 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
939547 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
939569 TTT
1 TTT
939572 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:941806 original size:13 final size:13
Alignment explanation
Indices: 941788--941813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941778 CAATTTTTTG
941788 TGTATCGATACAT
1 TGTATCGATACAT
941801 TGTATCGATACAT
1 TGTATCGATACAT
941814 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:954370 original size:22 final size:22
Alignment explanation
Indices: 954345--954428 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 22
954335 ACCTTCTCTT
954345 CAAAAAAAAAAAGAAAAAAAAG
1 CAAAAAAAAAAAGAAAAAAAAG
*
954367 CAAAAAAAAAAATAAAACAAAA-
1 CAAAAAAAAAAAGAAAA-AAAAG
* *
954389 CAAAAAACAAAACAAAGAAAAAG
1 CAAAAAAAAAAAGAAA-AAAAAG
954412 -AGAGAAAAGAAAAAGAA
1 CA-A-AAAA-AAAAAGAA
954429 CCTGCTTAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 35 0.69
23 6 0.12
24 4 0.08
25 6 0.12
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.01
Consensus pattern (22 bp):
CAAAAAAAAAAAGAAAAAAAAG
Found at i:954373 original size:17 final size:17
Alignment explanation
Indices: 954346--954410 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
954336 CCTTCTCTTC
954346 AAAA-AAAAAAAGAAAA-
1 AAAACAAAAAAA-AAAAT
954362 AAAAGCAAAAAAAAAAAT
1 AAAA-CAAAAAAAAAAAT
* *
954380 AAAACAAAACAAAAAAC
1 AAAACAAAAAAAAAAAT
954397 AAAACAAAGAAAAA
1 AAAACAAA-AAAAA
954411 GAGAGAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.10
17 23 0.55
18 15 0.36
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACAAAAAAAAAAAT
Found at i:955517 original size:60 final size:60
Alignment explanation
Indices: 955399--956113 Score: 825
Period size: 60 Copynumber: 12.2 Consensus size: 60
955389 GCTTTTTAGC
* *
955399 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
955459 CCTTAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * *
955519 CCTTAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
955579 CCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
955640 CCTCAAAGAGCAGGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * *
955701 CCTCAAAGAGCGGGATGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * * *
955760 CCTCAAAAAGCGGGACACCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
955819 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * ** *
955880 CCCCAAAGAGTAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
955935 CCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
955990 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACAC-AGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * * * * **
956044 CGTCAAAGAGCAGGAC-ACATTTC----AAAGTCCACACGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
956099 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
956114 TACGCTTTAT
Statistics
Matches: 586, Mismatches: 52, Indels: 39
0.87 0.08 0.06
Matches are distributed among these distances:
53 3 0.01
54 47 0.08
55 132 0.23
56 8 0.01
59 110 0.19
60 154 0.26
61 132 0.23
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (60 bp):
CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
Found at i:955935 original size:55 final size:56
Alignment explanation
Indices: 955422--956113 Score: 623
Period size: 55 Copynumber: 11.9 Consensus size: 56
955412 GATGCCTTTT
* * * * *
955422 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTCCAGTCCTTAAAGAGCGGGACGC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
* * * * *
955477 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCGGGACGC
1 C----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
* *
955537 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCTTC
1 C----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGC-AG--GAC-TC
* *
955601 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCATTC
1 -CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA--C--TC
* * *
955662 TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTC
1 -CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA---C-TC
* * * * * *
955723 TCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAAAGCGGGACAC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
* * * *
955778 CTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTTT
1 C----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA--C---TC
* * *
955842 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGTAGGAC-C
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACTC
* * *
955897 CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-A
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
* *
955952 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-A
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
* *
956007 CCTCTT-AAAGCCCACAC-AGTTGGTGGCACCTTT-CAGTCGTCAAAGAGCAGGAC-A
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACTC
* * * **
956061 CATTTCAAAGTCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
956114 TACGCTTTAT
Statistics
Matches: 560, Mismatches: 47, Indels: 60
0.84 0.07 0.09
Matches are distributed among these distances:
53 2 0.00
54 50 0.09
55 146 0.26
56 3 0.01
58 1 0.00
59 95 0.17
60 131 0.23
61 126 0.22
62 1 0.00
63 2 0.00
64 2 0.00
65 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (56 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACTC
Found at i:955957 original size:27 final size:27
Alignment explanation
Indices: 955927--956009 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
955917 TTGGTGGCAT
955927 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
955954 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
955982 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
956009 T
1 T
956010 CTTAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:956875 original size:19 final size:19
Alignment explanation
Indices: 956851--956918 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
956841 AATTCAACAA
956851 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
956870 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
956885 --TGTATCGATAAATAAGT
1 TTTGTATCGATACATAAGT
*
956902 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
956919 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:956894 original size:32 final size:32
Alignment explanation
Indices: 956853--956915 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
956843 TTCAACAATT
* *
956853 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATAAATAAGTATTGTATCGATACAA
956885 TGTATCGATAAATAAGTATTGTATCGATACA
1 TGTATCGATAAATAAGTATTGTATCGATACA
956916 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATAAATAAGTATTGTATCGATACAA
Found at i:956976 original size:13 final size:13
Alignment explanation
Indices: 956958--956983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
956948 CATTTTTCTG
956958 TGTATCGATACAT
1 TGTATCGATACAT
956971 TGTATCGATACAT
1 TGTATCGATACAT
956984 GGATCTTTGT
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:956980 original size:33 final size:33
Alignment explanation
Indices: 956938--957004 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
956928 GCCAAGGAAA
***
956938 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
956971 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
957004 T
1 T
957005 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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:959411 original size:51 final size:51
Alignment explanation
Indices: 959351--959713 Score: 247
Period size: 52 Copynumber: 6.9 Consensus size: 51
959341 AATTCTCCAC
* * * *
959351 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
* *
959402 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTC-T-AT
* * * * *
959456 AATCGGGGATACTCCAACCCCG--TTAATCAT-CAGGGATACTCCAACCCCGTTATT-TCT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA---AAACACCAA-----TT-TTCTAT
* * * * ***
959513 GA--GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-AT
* * * * * *
959562 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-TTTTCTAT
* * *
959614 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTAT
* *
959666 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTT
959714 TCACAGTCGA
Statistics
Matches: 243, Mismatches: 44, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 1 0.00
51 66 0.27
52 84 0.35
53 31 0.13
54 25 0.10
55 17 0.07
56 1 0.00
57 7 0.03
58 1 0.00
59 1 0.00
60 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:959528 original size:28 final size:28
Alignment explanation
Indices: 959460--959531 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
959450 CTTCACAATC
959460 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCATCA
* *
959488 -GGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCATCA
959515 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
959532 AACTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATCATCA
Found at i:959760 original size:28 final size:28
Alignment explanation
Indices: 959728--959795 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
959718 AGTCGAGGAC
* * **
959728 ACTCCAACCTCGTTATTTCATCGGGGAT
1 ACTCCAACCCCGTTACTTCAGAGGGGAT
*
959756 ACTCCAACCCCGTTACTTCCGAGGGGAT
1 ACTCCAACCCCGTTACTTCAGAGGGGAT
959784 ACTCCAACCCCG
1 ACTCCAACCCCG
959796 GCTTTATTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (28 bp):
ACTCCAACCCCGTTACTTCAGAGGGGAT
Found at i:959813 original size:263 final size:263
Alignment explanation
Indices: 959346--959846 Score: 799
Period size: 263 Copynumber: 1.9 Consensus size: 263
959336 TTCTCAATTC
* * *
959346 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
959411 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCC
* *
959476 CGTTAATCATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAACTTTATT
131 CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
* *
959541 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
959606 TTT
261 TTT
* *
959609 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
959674 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGACACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACC
* * * **
959737 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
130 CCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTA
*
959802 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
959847 TTATTTTCGA
Statistics
Matches: 217, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 26 0.12
263 155 0.71
264 36 0.17
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:959898 original size:79 final size:79
Alignment explanation
Indices: 959749--959953 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
959739 GTTATTTCAT
* * *
959749 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
959814 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
959828 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
959892 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* ** * * * *
959907 CGGGGATACTCCAGCTTCGTTATTTTCAAGGGAACACTCTAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
959954 TTATTATCTC
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 100 0.97
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:963518 original size:13 final size:13
Alignment explanation
Indices: 963499--963537 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
963489 ACAGCATTCT
963499 CTGTATCGATACA
1 CTGTATCGATACA
* *
963512 TTGTATCAATACA
1 CTGTATCGATACA
963525 CTGTATCGATACA
1 CTGTATCGATACA
963538 AGGAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:964017 original size:21 final size:21
Alignment explanation
Indices: 963973--964014 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
963963 CCCCTAGGCA
963973 GCACCCACCAGGTCACAACCG
1 GCACCCACCAGGTCACAACCG
*
963994 GCACCCA-CAGGTCGCAACCG
1 GCACCCACCAGGTCACAACCG
964014 G
1 G
964015 GCAGCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.26, C:0.45, G:0.24, T:0.05
Consensus pattern (21 bp):
GCACCCACCAGGTCACAACCG
Found at i:965994 original size:20 final size:20
Alignment explanation
Indices: 965971--966035 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
965961 ACATTTAAAT
965971 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
965991 GTATCGATACA--TT-----
1 GTATCGATACATGTTGCACA
966004 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
966024 GTATCGATACAT
1 GTATCGATACAT
966036 TGTATCGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
18 2 0.05
20 23 0.61
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCACA
Found at i:966009 original size:13 final size:13
Alignment explanation
Indices: 965991--966048 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
965981 ATGTTGCACA
965991 GTATCGATACATT
1 GTATCGATACATT
966004 GTATCGATACA-T
1 GTATCGATACATT
*
966016 GT-T-G-CACA--
1 GTATCGATACATT
966024 GTATCGATACATT
1 GTATCGATACATT
966037 GTATCGATACAT
1 GTATCGATACAT
966049 GACCAAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 2 0.05
9 4 0.11
10 2 0.05
11 4 0.11
12 3 0.08
13 23 0.61
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:966012 original size:33 final size:33
Alignment explanation
Indices: 965970--966049 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
965960 CACATTTAAA
965970 TGTATCGATACATGTTGCACAGTATCGATACAT
1 TGTATCGATACATGTTGCACAGTATCGATACAT
966003 TGTATCGATACATGTTGCACAGTATCGATACAT
1 TGTATCGATACATGTTGCACAGTATCGATACAT
966036 TGTATCGATACATG
1 TGTATCGATACATG
966050 ACCAAATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGTTGCACAGTATCGATACAT
Found at i:966061 original size:33 final size:33
Alignment explanation
Indices: 965970--966066 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
965960 CACATTTAAA
** *
965970 TGTATCGATACATGTTGCACAGTATCGATACAT
1 TGTATCGATACATGTACCAAAGTATCGATACAT
** *
966003 TGTATCGATACATGTTGCACAGTATCGATACAT
1 TGTATCGATACATGTACCAAAGTATCGATACAT
966036 TGTATCGATACATG-ACCAAATGTATCGATAC
1 TGTATCGATACATGTACCAAA-GTATCGATAC
966067 TTGAAAAAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 3 0.05
33 57 0.95
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGTACCAAAGTATCGATACAT
Found at i:967069 original size:20 final size:19
Alignment explanation
Indices: 967046--967118 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
967036 CACACTCAGA
*
967046 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-TG-AT
967066 TGTATCGATACATGTTGAT
1 TGTATCGATACATGTTGAT
***
967085 TGTATCGATACATGGACAAT
1 TGTATCGATACAT-GTTGAT
967105 TGTATCGATACATG
1 TGTATCGATACATG
967119 AGATTAGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 15 0.32
20 31 0.66
21 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTGAT
Found at i:967184 original size:13 final size:13
Alignment explanation
Indices: 967163--967193 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
967153 CGATACATGG
*
967163 TACAATGTATCGA
1 TACATTGTATCGA
967176 TACATTGTATCGA
1 TACATTGTATCGA
967189 TACAT
1 TACAT
967194 GAGGAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:967189 original size:33 final size:34
Alignment explanation
Indices: 967147--967216 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
967137 CTACCACTGT
* *
967147 TTGTATCGATACATG-GTACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATAAA
967180 TTGTATCGATACATGAGGAAATTGTATCGATAAA
1 TTGTATCGATACATGAGGAAATTGTATCGATAAA
967214 TTG
1 TTG
967217 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATAAA
Found at i:967281 original size:20 final size:20
Alignment explanation
Indices: 967252--967306 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
967242 ATTTCAAATC
967252 AATT-TATCGATACATTATG
1 AATTGTATCGATACATTATG
967271 AATTGTATCGATACATTATG
1 AATTGTATCGATACATTATG
967291 AATTGTATCGATACAT
1 AATTGTATCGATACAT
967307 GGCTACGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
AATTGTATCGATACATTATG
Done.