Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1482737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:788105 original size:21 final size:21
Alignment explanation
Indices: 788081--788194 Score: 56
Period size: 21 Copynumber: 5.3 Consensus size: 21
788071 ATATTTTAAT
788081 GTTTATGATTTATGATTTAGG
1 GTTTATGATTTATGATTTAGG
**
788102 GTTTAT-ACATATG-TTTAGGG
1 GTTTATGATTTATGATTTA-GG
* * * * **
788122 TTAGTTTAGGGTTTTTTATTTATA
1 ---GTTTATGATTTATGATTTAGG
* *
788146 GTTTAGGTTTTATGATTTAGG
1 GTTTATGATTTATGATTTAGG
788167 GTTTAT-ATTTTAATG-TTTAGG
1 GTTTATGA-TTT-ATGATTTAGG
788188 GTTTATG
1 GTTTATG
788195 CATATTGTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 17
0.66 0.17 0.17
Matches are distributed among these distances:
19 4 0.06
20 7 0.10
21 42 0.63
22 3 0.04
23 5 0.07
24 2 0.03
25 4 0.06
ACGTcount: A:0.22, C:0.01, G:0.23, T:0.54
Consensus pattern (21 bp):
GTTTATGATTTATGATTTAGG
Found at i:788107 original size:14 final size:14
Alignment explanation
Indices: 788040--788092 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
788030 GGGTTTTTGA
* *
788040 TTTATGGTTTAGGT
1 TTTATGATTTAGGG
788054 TTTATGATTTAGGG
1 TTTATGATTTAGGG
**
788068 TTTAT-ATTTTAATG
1 TTTATGA-TTTAGGG
788082 TTTATGATTTA
1 TTTATGATTTA
788093 TGATTTAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 31 0.94
15 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (14 bp):
TTTATGATTTAGGG
Found at i:788679 original size:2 final size:2
Alignment explanation
Indices: 788665--788725 Score: 65
Period size: 2 Copynumber: 31.5 Consensus size: 2
788655 ATTTATAAAC
* * *
788665 TA TA TA T- TT TA TA TA T- TT TA TA CA TA TA TA GT- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
788705 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
788726 TAAAAGTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
1 3 0.06
2 47 0.92
3 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:788706 original size:4 final size:4
Alignment explanation
Indices: 788635--788725 Score: 68
Period size: 4 Copynumber: 23.5 Consensus size: 4
788625 GTTAACATAC
* * *
788635 ATAT ATACT ATAT -TA- ATAT A-AT TTAT AAACT ATAT AT-T TTAT ATAT
1 ATAT ATA-T ATAT ATAT ATAT ATAT ATAT ATA-T ATAT ATAT ATAT ATAT
* *
788681 -TTT ATAC ATAT ATAGT -TAT ATAT ATAT ATAT ATAT ATAT ATAT AT
1 ATAT ATAT ATAT ATA-T ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
788726 TAAAAGTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
3 11 0.16
4 49 0.72
5 8 0.12
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (4 bp):
ATAT
Found at i:789012 original size:21 final size:21
Alignment explanation
Indices: 788969--789013 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
788959 TATCGCATTA
**
788969 CGATTTCCCAAATTCGCGTTG
1 CGATTTCCCAAATTCGCAATG
* *
788990 CGATTTTCCTAATTCGCAATG
1 CGATTTCCCAAATTCGCAATG
789011 CGA
1 CGA
789014 ATACGTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (21 bp):
CGATTTCCCAAATTCGCAATG
Found at i:790615 original size:3 final size:3
Alignment explanation
Indices: 790609--790674 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
790599 TTATATTTTT
*
790609 TTA TTA TTA TT- TTT TTA TTA -TA TTA TTA TTA TTAA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A
*
790654 CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
790675 ATTTTACATA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.84
4 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:790623 original size:16 final size:16
Alignment explanation
Indices: 790599--790651 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
790589 TCCGGGTCTT
*
790599 TTATATTTTTTTATTA
1 TTATTTTTTTTTATTA
790615 TTATTTTTTTATTA-TA
1 TTATTTTTTT-TTATTA
* * *
790631 TTATTATTATTAATTA
1 TTATTTTTTTTTATTA
790647 TTATT
1 TTATT
790652 AACTATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 26 0.84
17 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTTTATTA
Found at i:792394 original size:30 final size:30
Alignment explanation
Indices: 792360--792454 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
792350 TAGACTCTTA
792360 AGTTTCTATTTTTACTATTTTAATCCCTTT
1 AGTTTCTATTTTTACTATTTTAATCCCTTT
* * * *
792390 AGTTTTTA-TTTCATCCATTTTGATCCCTTT
1 AGTTTCTATTTTTA-CTATTTTAATCCCTTT
* *
792420 AATTTCTATTTTTATTATTTTAAT-CCTTT
1 AGTTTCTATTTTTACTATTTTAATCCCTTT
792449 ATGTTT
1 A-GTTT
792455 AAATTTGTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
29 10 0.20
30 37 0.73
31 4 0.08
ACGTcount: A:0.20, C:0.15, G:0.04, T:0.61
Consensus pattern (30 bp):
AGTTTCTATTTTTACTATTTTAATCCCTTT
Found at i:805392 original size:141 final size:143
Alignment explanation
Indices: 805172--805433 Score: 413
Period size: 141 Copynumber: 1.8 Consensus size: 143
805162 AACATCAACT
*
805172 GACCAGACTTCCTCATCACGTAGGAGCCGTGTCAACATTGGGATAACCAGCCGTCCTCATCACGT
1 GACCAGACTTCCTCATCACGTAGGAGCCGTGTCAACATTGAGATAACCAGCCGTCCTCATCACGT
** *
805237 AGGAACCGAGTTATCACCCTTCCTAAAGATGGCC-AGAGTTTTTCATCATGTATGAACCATGTCA
66 AGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCATGTATGAACCATGTCA
805301 TCTACCCATAGAC
131 TCTACCCATAGAC
* * * *
805314 GACCAGA-TCTCCTCATCACGTAGGAGTCGTGTCACCCTT-AGATAACCAGCCGTCCTCATCGCG
1 GACCAGACT-TCCTCATCACGTAGGAGCCGTGTCAACATTGAGATAACCAGCCGTCCTCATCACG
*
805377 TAGGAACTGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCATGTATGA
65 TAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCATGTATGA
805434 GTCGTGTCAT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
141 57 0.52
142 52 0.48
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (143 bp):
GACCAGACTTCCTCATCACGTAGGAGCCGTGTCAACATTGAGATAACCAGCCGTCCTCATCACGT
AGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCATGTATGAACCATGTCA
TCTACCCATAGAC
Found at i:805632 original size:233 final size:233
Alignment explanation
Indices: 805225--805710 Score: 936
Period size: 233 Copynumber: 2.1 Consensus size: 233
805215 TAACCAGCCG
805225 TCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTTTTCATCATGTAT
1 TCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTTTTCATCATGTAT
805290 GAACCATGTCATCTACCCATAGACGACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCTTAG
66 GAACCATGTCATCTACCCATAGACGACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCTTAG
805355 ATAACCAGCCGTCCTCATCGCGTAGGAACTGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTC
131 ATAACCAGCCGTCCTCATCGCGTAGGAACTGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTC
805420 TTCATCATGTATGAGTCGTGTCATCCTTCAACCAGATT
196 TTCATCATGTATGAGTCGTGTCATCCTTCAACCAGATT
805458 TCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTTTTCATCATGTAT
1 TCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTTTTCATCATGTAT
*
805523 GAACCATGTCATCTACCCATAGACGACCAGATCTCCTCATCACGTAGGAGTCGTGTCAGCCTTAG
66 GAACCATGTCATCTACCCATAGACGACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCTTAG
*
805588 ATAACCAGCCGTCCTCATCGCGTAGGAACTGAGTTATCACCCTTCTTAAAGATGGCCAAGAACTC
131 ATAACCAGCCGTCCTCATCGCGTAGGAACTGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTC
*
805653 TTCATCATGTATGAGTCGTGTCATCCTTCGACCAGATT
196 TTCATCATGTATGAGTCGTGTCATCCTTCAACCAGATT
*
805691 TCCTCATCACGTATGAACCG
1 TCCTCATCACGTAGGAACCG
805711 TGTCACCCTT
Statistics
Matches: 249, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 249 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (233 bp):
TCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTTTTCATCATGTAT
GAACCATGTCATCTACCCATAGACGACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCTTAG
ATAACCAGCCGTCCTCATCGCGTAGGAACTGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTC
TTCATCATGTATGAGTCGTGTCATCCTTCAACCAGATT
Found at i:805742 original size:43 final size:40
Alignment explanation
Indices: 805646--805749 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
805636 AAGATGGCCA
* ** *
805646 AGAACTCTTCATCATGTATGAGTCGTGTCATCCTTCGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
** *
805686 AGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGACGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTT---CGACC
*
805729 CGAACTCTTCATCACGTATGA
1 AGAACTCTTCATCACGTATGA
805750 GCAATGTCGT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 28 0.56
43 22 0.44
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
Found at i:805923 original size:3 final size:3
Alignment explanation
Indices: 805917--805984 Score: 77
Period size: 3 Copynumber: 22.0 Consensus size: 3
805907 TATATTTTTT
805917 TTA TTA TTA TT- TT- TTA TTTA TTTA TTA TTA TTA TTAA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TT-A TTA TTA TT-A
*
805964 CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
805985 ATTTTACATA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 43 0.73
4 12 0.20
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:805931 original size:13 final size:13
Alignment explanation
Indices: 805917--805984 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
805907 TATATTTTTT
*
805917 TTATTATTATTTT
1 TTATTATTATTTA
805930 TTA-T-TTATTTA
1 TTATTATTATTTA
*
805941 TTATTATTATTAA
1 TTATTATTATTTA
**
805954 TTATTATTAACTA
1 TTATTATTATTTA
805967 TTATTATTA-TTA
1 TTATTATTATTTA
805979 TTATTA
1 TTATTA
805985 ATTTTACATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
11 9 0.19
12 10 0.21
13 28 0.60
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:805931 original size:24 final size:24
Alignment explanation
Indices: 805904--805988 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 24
805894 TGTCCGGGTC
*
805904 TTTTATATTT-TTT-TTATTATTA
1 TTTTTTATTTATTTATTATTATTA
805926 TTTTTTATTTATTTATTATTATTA
1 TTTTTTATTTATTTATTATTATTA
** * *
805950 TTAATTA-TTATTAACTATTATTA
1 TTTTTTATTTATTTATTATTATTA
*
805973 TTATTATTATTAATTT
1 TT-TT-TTATTTATTT
805989 TACATATTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 9 0.18
23 19 0.39
24 14 0.29
25 3 0.06
26 4 0.08
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTTATTTATTTATTATTATTA
Found at i:805937 original size:11 final size:12
Alignment explanation
Indices: 805904--805951 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 12
805894 TGTCCGGGTC
805904 TTTTATATT-TT
1 TTTTATATTATT
805915 TTTTATTATTATT
1 TTTTA-TATTATT
805928 TTTTAT-TTATT
1 TTTTATATTATT
*
805939 TATTATTATTATT
1 TTTTA-TATTATT
805952 AATTATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 14 0.44
12 6 0.19
13 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:805959 original size:10 final size:10
Alignment explanation
Indices: 805917--805987 Score: 69
Period size: 10 Copynumber: 7.2 Consensus size: 10
805907 TATATTTTTT
805917 TTATTATT-A
1 TTATTATTAA
*
805926 TT-TT-TTAT
1 TTATTATTAA
805934 TTATTTATT-A
1 TTA-TTATTAA
805944 TTATTATTAA
1 TTATTATTAA
805954 TTATTATTAA
1 TTATTATTAA
*
805964 CTATTATTATTA
1 TTATTATTA--A
805976 TTATTATTAA
1 TTATTATTAA
805986 TT
1 TT
805988 TTACATATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 7 0.14
10 27 0.53
11 2 0.04
12 9 0.18
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTATTAA
Found at i:807706 original size:30 final size:30
Alignment explanation
Indices: 807672--807766 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
807662 TAGACTCTTA
807672 AGTTTCTATTTTTACTATTTTAATCCCTTT
1 AGTTTCTATTTTTACTATTTTAATCCCTTT
* * * *
807702 AGTTTTTA-TTTCATCCATTTTGATCCCTTT
1 AGTTTCTATTTTTA-CTATTTTAATCCCTTT
* *
807732 AATTTCTATTTTTATTATTTTAAT-CCTTT
1 AGTTTCTATTTTTACTATTTTAATCCCTTT
807761 ATGTTT
1 A-GTTT
807767 AAATTTGTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
29 10 0.20
30 37 0.73
31 4 0.08
ACGTcount: A:0.20, C:0.15, G:0.04, T:0.61
Consensus pattern (30 bp):
AGTTTCTATTTTTACTATTTTAATCCCTTT
Found at i:808872 original size:39 final size:35
Alignment explanation
Indices: 808806--808944 Score: 144
Period size: 33 Copynumber: 3.9 Consensus size: 35
808796 TTCATTTGAA
* *
808806 AATCGCAACGCGAATATGAATATCGCAACGCGGAAAT
1 AATCGCAATGCGAA-ATGAAAATCGCAACGC-GAAAT
*
808843 GACTATCGCAATGCGAAATGAAAATCGCAA--CGAGAT
1 -A--ATCGCAATGCGAAATGAAAATCGCAACGCGAAAT
808879 AATCGCAATGCGAAATGAAAATCGCAA--CGACAA-
1 AATCGCAATGCGAAATGAAAATCGCAACGCGA-AAT
* *
808912 AATCGCAACGCAAAATGAAAATCGCAACGCGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGCGAA
808945 TTTAGTTTCG
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
33 54 0.60
34 2 0.02
35 4 0.04
36 4 0.04
37 1 0.01
38 1 0.01
39 12 0.13
40 12 0.13
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.14
Consensus pattern (35 bp):
AATCGCAATGCGAAATGAAAATCGCAACGCGAAAT
Found at i:808889 original size:33 final size:33
Alignment explanation
Indices: 808847--808940 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
808837 GGAAATGACT
* *
808847 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
808880 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
808913 ATCGCAACGCAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
808941 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:808903 original size:19 final size:19
Alignment explanation
Indices: 808802--808944 Score: 126
Period size: 19 Copynumber: 7.9 Consensus size: 19
808792 GGCATTCATT
808802 TGAAAATCGCAACGCGAATA
1 TGAAAATCGCAACGCGAA-A
*
808822 TGAATATCGCAACGCGGAAA
1 TGAAAATCGCAACGC-GAAA
** *
808842 TGACTATCGCAATGCGAAA
1 TGAAAATCGCAACGCGAAA
808861 TGAAAATCGCAA--CG--A
1 TGAAAATCGCAACGCGAAA
* *
808876 -GATAATCGCAATGCGAAA
1 TGAAAATCGCAACGCGAAA
808894 TGAAAATCGCAA--CG--A
1 TGAAAATCGCAACGCGAAA
* *
808909 -CAAAATCGCAACGCAAAA
1 TGAAAATCGCAACGCGAAA
808927 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
808945 TTTAGTTTCG
Statistics
Matches: 101, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.20
15 2 0.02
16 3 0.03
17 4 0.04
18 2 0.02
19 39 0.39
20 28 0.28
21 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (19 bp):
TGAAAATCGCAACGCGAAA
Found at i:808927 original size:13 final size:14
Alignment explanation
Indices: 808896--808927 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
808886 ATGCGAAATG
808896 AAAATCGCAACGAC
1 AAAATCGCAACGAC
808910 AAAATCGCAACG-C
1 AAAATCGCAACGAC
808923 AAAAT
1 AAAAT
808928 GAAAATCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.53, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:808994 original size:33 final size:33
Alignment explanation
Indices: 808950--809029 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
808940 GCGAATTTAG
* * *
808950 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
808983 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
809016 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
809030 AGTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:808995 original size:19 final size:19
Alignment explanation
Indices: 808971--809029 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
808961 GATTTTGTCG
808971 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
808990 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
809004 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
809023 TTGCGAT
1 TTGCGAT
809030 AGTCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:809037 original size:19 final size:17
Alignment explanation
Indices: 808979--809029 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
808969 CGTTGCGATT
808979 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
808996 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
809010 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
809029 T
1 T
809030 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.22
16 7 0.26
17 8 0.30
19 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:809155 original size:14 final size:14
Alignment explanation
Indices: 809136--809172 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
809126 CATCAATTAA
*
809136 ACAAATCAAGTTTT
1 ACAAATCAACTTTT
*
809150 ACAAATCATCTTTT
1 ACAAATCAACTTTT
809164 ACAAATCAA
1 ACAAATCAA
809173 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:810590 original size:21 final size:21
Alignment explanation
Indices: 810524--810593 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
810514 GTGAATCGGG
*
810524 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
810544 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
810566 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
810587 CTCTTGA
1 CTCTTGA
810594 GGAATGATAG
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:810609 original size:42 final size:41
Alignment explanation
Indices: 810524--810646 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
810514 GTGAATCGGG
* * * *
810524 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTT-GAGGATGACAGGGGC
*
810566 CTCTTGAACGGTGGGAGGGGACTCTTGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTGAGG-ATGACAGGGGC
* * * *
810608 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTTGA-GGATGACAGG
810647 AGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.88
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTTGAGGATGACAGGGGC
Found at i:812506 original size:20 final size:20
Alignment explanation
Indices: 812483--812538 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
812473 TGAAATGAAA
812483 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
812503 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
812523 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
812539 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:812560 original size:33 final size:33
Alignment explanation
Indices: 812474--812585 Score: 134
Period size: 33 Copynumber: 3.2 Consensus size: 33
812464 TCTTTTGGTT
812474 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
**
812513 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
812547 GAAATGAAAATCGCAACGAGAGAATTGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
812580 GAAATG
1 GAAATG
812586 TGATTTTCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
33 36 0.54
34 10 0.15
36 2 0.03
37 1 0.01
38 3 0.04
40 15 0.22
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:812611 original size:19 final size:19
Alignment explanation
Indices: 812587--812628 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
812577 CGCGAAATGT
812587 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
812606 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
812625 GATT
1 GATT
812629 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (19 bp):
GATTTTCATTTCGCGTTGC
Found at i:812653 original size:21 final size:20
Alignment explanation
Indices: 812587--812685 Score: 72
Period size: 19 Copynumber: 5.3 Consensus size: 20
812577 CGCGAAATGT
*
812587 GATTTTCATT-TCGCGTTGC
1 GATTTTCATTCTCTCGTTGC
*
812606 GATTTTCATT-TCGCGTTGC
1 GATTTTCATTCTCTCGTTGC
812625 G------ATTCTCTCGTTGC
1 GATTTTCATTCTCTCGTTGC
812639 GATTTTCATTTCTCTCGTTGC
1 GATTTTCA-TTCTCTCGTTGC
* **
812660 AATAGTCATTCTCGT-GTTGC
1 GATTTTCATTCTC-TCGTTGC
812680 GATTTT
1 GATTTT
812686 AAGTTTAGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
13 3 0.05
14 9 0.14
19 20 0.31
20 14 0.22
21 18 0.28
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (20 bp):
GATTTTCATTCTCTCGTTGC
Found at i:813265 original size:20 final size:20
Alignment explanation
Indices: 813240--813452 Score: 193
Period size: 20 Copynumber: 10.5 Consensus size: 20
813230 TTTAAAAATC
813240 GCGTTGCGATTTACGGATAT
1 GCGTTGCGATTTACGGATAT
*
813260 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAT
*
813280 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAT
* *
813301 GCATTGCGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* * * *
813320 CTCATTGCGATTTACAGATAC
1 -GCGTTGCGATTTACGGATAT
* *
813341 GCGTTGTGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* *
813360 CTCGTTGCGATTTACGGATAC
1 -GCGTTGCGATTTACGGATAT
*
813381 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAT
*
813401 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAT
813422 GCGTTGCGATTTTACGGATACT
1 GCGTTGCGA-TTTACGGATA-T
813444 -CGTTGCGAT
1 GCGTTGCGAT
813453 AGTCAGAATC
Statistics
Matches: 155, Mismatches: 26, Indels: 24
0.76 0.13 0.12
Matches are distributed among these distances:
20 103 0.66
21 52 0.34
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAT
Found at i:813298 original size:41 final size:41
Alignment explanation
Indices: 813241--813452 Score: 329
Period size: 41 Copynumber: 5.2 Consensus size: 41
813231 TTAAAAATCG
* *
813241 CGTTGCGATTTACGGATATGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
813282 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
813322 CATTGCGATTTACAGATACGCGTTGTGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
813362 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
813403 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
813444 CGTTGCGAT
1 CGTTGCGAT
813453 AGTCAGAATC
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 72 0.46
41 84 0.54
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:813484 original size:20 final size:20
Alignment explanation
Indices: 813461--813513 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
813451 ATAGTCAGAA
*
813461 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
813481 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
813501 TCGTGTTGCGATT
1 TCGCGTTGCGATT
813514 CTGAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:813902 original size:19 final size:20
Alignment explanation
Indices: 813870--813907 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
813860 TTTTTATTCT
813870 CTCTAAATTTCTCAATTTCC
1 CTCTAAATTTCTCAATTTCC
813890 CTCTAAA-TTCTCAATTTC
1 CTCTAAATTTCTCAATTTC
813908 TCTATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
CTCTAAATTTCTCAATTTCC
Found at i:814028 original size:2 final size:2
Alignment explanation
Indices: 814021--814133 Score: 212
Period size: 2 Copynumber: 57.5 Consensus size: 2
814011 ACTTTGAATA
814021 AT AT AT 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 AT AT AT
814063 AT AT AT 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 AT AT AT
814105 AT AT A- AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
814134 ATTTATAAAC
Statistics
Matches: 109, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 2 0.02
2 107 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:814232 original size:36 final size:37
Alignment explanation
Indices: 814183--814264 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 37
814173 TCACATAAAC
* *
814183 ATAATTTATATATAGCTTATA-AT-AATTATATAGTTT
1 ATAATATAAATATAGCTTATATATAAATT-TATAGTTT
* *
814219 ATAATATAAATATAGTTTATATATAAATTTATATTTT
1 ATAATATAAATATAGCTTATATATAAATTTATAGTTT
814256 ATATATATA
1 ATA-ATATA
814265 TTATTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 18 0.46
37 12 0.31
38 9 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (37 bp):
ATAATATAAATATAGCTTATATATAAATTTATAGTTT
Found at i:814256 original size:19 final size:19
Alignment explanation
Indices: 814193--814262 Score: 76
Period size: 18 Copynumber: 3.8 Consensus size: 19
814183 ATAATTTATA
*
814193 TATAGCTTATA-AT-AATT
1 TATAGTTTATATATAAATT
814210 ATATAGTTTATAATATAAA--
1 -TATAGTTTAT-ATATAAATT
814229 TATAGTTTATATATAAATT
1 TATAGTTTATATATAAATT
*
814248 TATATTTTATATATA
1 TATAGTTTATATATA
814263 TATTATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.16
18 19 0.42
19 15 0.33
20 2 0.04
21 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (19 bp):
TATAGTTTATATATAAATT
Found at i:814275 original size:19 final size:19
Alignment explanation
Indices: 814206--814262 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
814196 AGCTTATAAT
*
814206 AATTATATAGTTTATAATATA
1 AATT-TATATTTTAT-ATATA
*
814227 AA--TATAGTTTATATATA
1 AATTTATATTTTATATATA
814244 AATTTATATTTTATATATA
1 AATTTATATTTTATATATA
814263 TATTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.21
18 10 0.30
19 14 0.42
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTTATATTTTATATATA
Found at i:817256 original size:16 final size:16
Alignment explanation
Indices: 817235--817266 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
817225 CTACAACGCT
*
817235 CGATGAGTACCGCTAA
1 CGATGAGCACCGCTAA
817251 CGATGAGCACCGCTAA
1 CGATGAGCACCGCTAA
817267 GCACCATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (16 bp):
CGATGAGCACCGCTAA
Found at i:817270 original size:397 final size:386
Alignment explanation
Indices: 816570--817397 Score: 1163
Period size: 397 Copynumber: 2.1 Consensus size: 386
816560 CAAATTAAAA
*
816570 ATTTAAAATAAAATATTAATTACATTATCTTCCATAATTTTTTAATAATAAAAACTATAATTTAC
1 ATTTAAAATAAAATATTAATTACATTATCTTCCATAATTTTTTAATAATAAAAACTATAATTTAA
816635 CTTTAAATTTTATTTTAAATAATTTACATTTAAATTTTTAATTAATTTATAATTATACTTTGAGT
66 CTTTAAATTTTATTTTAAATAATTTACATTTAAATTTTTAATTAATTTATAATTATACTTTGAGT
**
816700 ACTTTAGAATTTTAAATTTTATTAAATTAAATTAATGGTGTTGATCGTTAGCGGTGCTCGTCAAA
131 ACTTTAGAATTTTAAATTTTATTAAATTAAATTAATGGTACTGATCGTTAGCGGTGCTCGTCAAA
* * * * * * *
816765 CGTTGTAGAGTTTTCTTTATTTTCTTTTTATATTTGAATAACTAAATATAAATTAGAAAAATTAT
196 CGTCGTAGAATTTTCATTATTTTATGTCTATATTTGAATAACTAAATATAAATTAGAAAAACTAT
* * * *
816830 ACAAAACTTGACGAGTGCCGCTAATGATAAGCACCGTTAAGCACCATTAATTTAATTTATAAAAA
261 ACAAAACTCGACGAGTACCGCTAACGATAAGCACCGCTAAGCACCATTAATTTAATTTATAAAAA
* *
816895 TTTAAAATTCTAAAAAACTCAACGTATAATTATAAATAAGTTAAAAAATTAAAGATAAATT
326 TTTAAAATTCTAAAAAACTCAACATATAATTATAAATAAGTTAAAAAATTAAAGATAAACT
* *
816956 ATTTAAAGTAAAATATTAATTACATTGTCTTCCATAATTTTTTAATAAATAAAAAACTATAATTT
1 ATTTAAAATAAAATATTAATTACATTATCTTCCATAATTTTTTAAT-AAT-AAAAACTATAATTT
* *
817021 AACTTTAAATTTTATTTTAAATAATTTACCTTTAAATTTTTAGTTAATTTATAATTATAC-TTGA
64 AACTTTAAATTTTATTTTAAATAATTTACATTTAAATTTTTAATTAATTTATAATTATACTTTGA
*
817085 GTACTTTAGAATTTTAAATTTTGTTAAATTAAATTAATGGTACTGATCGTTAGTGGTGCTCAGTG
129 GTACTTTAGAATTTTAAATTTTATTAAATTAAATTAATGGTACTGATCGTTA-----G--C---G
* *
817150 GTGCTCGTTAAACGTCGTAGAATTTTCATTATTTTATGTCTATATTTGTATAACTAAATATAAAT
184 GTGCTCGTCAAACGTCGTAGAATTTTCATTATTTTATGTCTATATTTGAATAACTAAATATAAAT
* ** * *
817215 TAGAAAAACTCTACAACGCTCGATGAGTACCGCTAACGATGAGCACCGCTAAGCACCATTAATTT
249 TAGAAAAACTATACAAAACTCGACGAGTACCGCTAACGATAAGCACCGCTAAGCACCATTAATTT
* ** * * * * *
817280 AATTTATAAATATTTAAAATTCTAAAGTACTCAATATATAATTATAAATTATTTCAAAATTTAAA
314 AATTTATAAAAATTTAAAATTCTAAAAAACTCAACATATAATTATAAATAAGTTAAAAAATTAAA
*
817345 GTTAAACT
379 GATAAACT
* * *
817353 ATTTAAAATGAAATATTAATTACAATATTTTTCCATAATCTTTTT
1 ATTTAAAATAAAATATTAATTACATTA-TCTTCCATAAT-TTTTT
817398 TAACAATTTT
Statistics
Matches: 386, Mismatches: 42, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
386 44 0.11
387 56 0.15
388 71 0.18
392 1 0.00
394 1 0.00
397 198 0.51
398 10 0.03
399 5 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (386 bp):
ATTTAAAATAAAATATTAATTACATTATCTTCCATAATTTTTTAATAATAAAAACTATAATTTAA
CTTTAAATTTTATTTTAAATAATTTACATTTAAATTTTTAATTAATTTATAATTATACTTTGAGT
ACTTTAGAATTTTAAATTTTATTAAATTAAATTAATGGTACTGATCGTTAGCGGTGCTCGTCAAA
CGTCGTAGAATTTTCATTATTTTATGTCTATATTTGAATAACTAAATATAAATTAGAAAAACTAT
ACAAAACTCGACGAGTACCGCTAACGATAAGCACCGCTAAGCACCATTAATTTAATTTATAAAAA
TTTAAAATTCTAAAAAACTCAACATATAATTATAAATAAGTTAAAAAATTAAAGATAAACT
Found at i:819646 original size:18 final size:17
Alignment explanation
Indices: 819625--819671 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
819615 TATATCTAAA
819625 TAAAAAATATATTTATTT
1 TAAAAAATA-ATTTATTT
819643 TAAAAAATAATTTATTT
1 TAAAAAATAATTTATTT
*
819660 AAAATAAATAAT
1 TAAA-AAATAAT
819672 ATATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAAATAATTTATTT
Found at i:819647 original size:16 final size:16
Alignment explanation
Indices: 819628--819665 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
819618 ATCTAAATAA
819628 AAAATAT-ATTTATTTT
1 AAAATATAATTTA-TTT
*
819644 AAAAAATAATTTATTT
1 AAAATATAATTTATTT
819660 AAAATA
1 AAAATA
819666 AATAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATAATTTATTT
Found at i:819667 original size:21 final size:21
Alignment explanation
Indices: 819621--819675 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 21
819611 AAAATATATC
819621 TAAATAAAAAATATATTTATT
1 TAAATAAAAAATATATTTATT
819642 T---TAAAAAATA-ATTTATT
1 TAAATAAAAAATATATTTATT
*
819659 TAAAATAAATAATATAT
1 T-AAATAAAAAATATAT
819676 ATCTAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 8 0.29
18 9 0.32
21 9 0.32
22 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATAAAAAATATATTTATT
Found at i:826364 original size:188 final size:185
Alignment explanation
Indices: 826043--826422 Score: 692
Period size: 188 Copynumber: 2.0 Consensus size: 185
826033 GAAATTCGAC
*
826043 GAAGAGAATCGGGTGAAGCATCAACCCTCAGCCTTGCACACCGAGTCTAGAGGGAGAACTTCAGA
1 GAAGAAAATCGGGTGAAGCATCAACCCTCAGCCTTGCACACCGAGTCTAGAGGGAGAACTTCAGA
826108 AAGAAATTCAAATCGTGGCAGATCAAAATCCAGAAGGGACAAATCAAGAACAGGAAATAAAGATT
66 AAGAAATTCAAATCGTGGCAGATCAAAATCCAGAAGGGACAAATCAAGAACAGGAAATAAAGATT
826173 TTACCTGTTATAATTGCGGCAAAAAGAAGGGTCACTTC-AAAGAGATT-CCGAGCACT
131 TTACCTGTTATAATTGCGGC---AAGAAGGGTCACTTCAAAAGAGATTGCCGAGCACT
826229 GAAGAAAATCGGGTGAAGCATCAACCTCCTCAGCCTTGCACACCGAGTCTAGAGGGAGAACTTCA
1 GAAGAAAATCGGGTGAAGCATCAA-C-CCTCAGCCTTGCACACCGAGTCTAGAGGGAGAACTTCA
826294 GAAAGAAATTCAAATCGTGGCAGATCAAAATCCAGAAGGGACAAATCAAGAACAGGAAATAAAGA
64 GAAAGAAATTCAAATCGTGGCAGATCAAAATCCAGAAGGGACAAATCAAGAACAGGAAATAAAGA
826359 TTTTACCTGTTATAATTGCGGCAAGAAGGGTCACTTCAAAAGAGATTGCCGAGCACT
129 TTTTACCTGTTATAATTGCGGCAAGAAGGGTCACTTCAAAAGAGATTGCCGAGCACT
826416 GAAGAAA
1 GAAGAAA
826423 GATACCGGTG
Statistics
Matches: 189, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
185 15 0.08
186 32 0.17
187 17 0.09
188 125 0.66
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (185 bp):
GAAGAAAATCGGGTGAAGCATCAACCCTCAGCCTTGCACACCGAGTCTAGAGGGAGAACTTCAGA
AAGAAATTCAAATCGTGGCAGATCAAAATCCAGAAGGGACAAATCAAGAACAGGAAATAAAGATT
TTACCTGTTATAATTGCGGCAAGAAGGGTCACTTCAAAAGAGATTGCCGAGCACT
Found at i:833791 original size:14 final size:14
Alignment explanation
Indices: 833774--833841 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
833764 CATATAACTT
833774 TTAATTTATATAAA
1 TTAATTTATATAAA
*
833788 TTAATTTATTTAATA
1 TTAATTTATATAA-A
*** **
833803 TTAAAACATATCACTT
1 TTAATTTATAT-A-AA
833819 TTAATTTATATAAA
1 TTAATTTATATAAA
833833 TTAATTTAT
1 TTAATTTAT
833842 TTAATATTAT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
14 21 0.54
15 9 0.23
16 9 0.23
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATTTATATAAA
Found at i:833808 original size:45 final size:45
Alignment explanation
Indices: 833758--833850 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
833748 AATTTCGTTG
833758 TTAAAACATATAACTTTTAATTTATATAAATTAATTTATTTAATA
1 TTAAAACATATAACTTTTAATTTATATAAATTAATTTATTTAATA
*
833803 TTAAAACATATCACTTTTAATTTATATAAATTAATTTATTTAATA
1 TTAAAACATATAACTTTTAATTTATATAAATTAATTTATTTAATA
833848 TTA
1 TTA
833851 TATGTTTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (45 bp):
TTAAAACATATAACTTTTAATTTATATAAATTAATTTATTTAATA
Found at i:843738 original size:25 final size:25
Alignment explanation
Indices: 843679--843738 Score: 104
Period size: 24 Copynumber: 2.4 Consensus size: 25
843669 AGTGCTTTAG
*
843679 GTTCTTTTTGTTTTTCCTTGTTATT
1 GTTCTTTTTGCTTTTCCTTGTTATT
843704 GTTC-TTTTGCTTTTCCTTGTTATT
1 GTTCTTTTTGCTTTTCCTTGTTATT
843728 GTTCTTTTTGC
1 GTTCTTTTTGC
843739 ATTATCTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.03, C:0.15, G:0.13, T:0.68
Consensus pattern (25 bp):
GTTCTTTTTGCTTTTCCTTGTTATT
Found at i:848859 original size:14 final size:14
Alignment explanation
Indices: 848840--848870 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
848830 GTTTTTGCAA
*
848840 GTGTTGGTTGCCTT
1 GTGTTGATTGCCTT
848854 GTGTTGATTGCCTT
1 GTGTTGATTGCCTT
848868 GTG
1 GTG
848871 CCTTCGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.35, T:0.48
Consensus pattern (14 bp):
GTGTTGATTGCCTT
Found at i:852974 original size:2 final size:2
Alignment explanation
Indices: 852967--853006 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
852957 GTTTAACACA
852967 AT AT 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 AT AT
853007 TATGAAACAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:853941 original size:28 final size:30
Alignment explanation
Indices: 853903--854024 Score: 101
Period size: 34 Copynumber: 4.0 Consensus size: 30
853893 TTTTATAATA
*
853903 ATTAACTTGATTTTATAATAATTTATGTAT
1 ATTAATTTGATTTTATAATAATTTATGTAT
***
853933 A-T-ATTTGATTTTATAATAACAAACT-TA-
1 ATTAATTTGATTTTATAATAATTTA-TGTAT
*
853960 ATTAATTTAATTTTATAATAATTTATGTAT
1 ATTAATTTGATTTTATAATAATTTATGTAT
*
853990 AATAACTAACTTT-ATTTTGTAATAATTTATGTAT
1 -AT---TAA-TTTGATTTTATAATAATTTATGTAT
854024 A
1 A
854025 ATAACAGTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
27 1 0.01
28 21 0.29
29 21 0.29
30 1 0.01
31 2 0.03
33 1 0.01
34 23 0.32
35 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (30 bp):
ATTAATTTGATTTTATAATAATTTATGTAT
Found at i:857499 original size:23 final size:22
Alignment explanation
Indices: 857472--857550 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 22
857462 CATAGCAAAA
857472 TGCATCAATGCACATTCAAGGCG
1 TGCATCAATGCACATTCAAGG-G
** * *
857495 TGCATCGGTGCACCTTC-ATGG
1 TGCATCAATGCACATTCAAGGG
*
857516 TGAATCAATGCACA-TCAAGGG
1 TGCATCAATGCACATTCAAGGG
*
857537 ATGCATCGATGCAC
1 -TGCATCAATGCAC
857551 TAGATAGTGT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.05
21 14 0.33
22 13 0.30
23 14 0.33
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (22 bp):
TGCATCAATGCACATTCAAGGG
Found at i:857786 original size:2 final size:2
Alignment explanation
Indices: 857779--857804 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
857769 CAAAAAGTGT
857779 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
857805 AGCATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:861423 original size:21 final size:22
Alignment explanation
Indices: 861397--861439 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
861387 GAGATTATTT
861397 TCATTTTTCA-ATTTT-GAAATA
1 TCATTTTT-ATATTTTAGAAATA
861418 TCATTTTTATATTTTAGAAATA
1 TCATTTTTATATTTTAGAAATA
861440 ATTTCTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
TCATTTTTATATTTTAGAAATA
Found at i:863980 original size:26 final size:27
Alignment explanation
Indices: 863936--864010 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
863926 ATCAAATTAA
*
863936 ATTAAAATATATATTTTATTGTTATTT
1 ATTAAAATATATATTTTATTCTTATTT
* *
863963 ATTAAAA-ATATTTTTTATTCTTATCTAAC
1 ATTAAAATATATATTTTATTCTTAT-T--T
*
863992 ATAAAAATATATATTTTAT
1 ATTAAAATATATATTTTAT
864011 CTCATCTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 15 0.38
27 8 0.21
29 6 0.15
30 10 0.26
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (27 bp):
ATTAAAATATATATTTTATTCTTATTT
Found at i:864224 original size:120 final size:115
Alignment explanation
Indices: 864004--864244 Score: 281
Period size: 120 Copynumber: 2.0 Consensus size: 115
863994 AAAAATATAT
*
864004 ATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGGTATAATTACACATTTTATCACTTAT
1 ATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTTATCACTTAT
* *
864069 ATTCTATCAATTTAGTCGTAATTTTAAACAATTAAAATTAATTTA-TATATTTTTC
66 ATTATACCAATTTAGTCGTAA-TTT-----ATTAAAATTAATTTAGTATATTTTTC
* *
864124 ATTTTATCTCATTTTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTGTTCTCTTAT
1 ATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACA-TT-TTATC----
864189 ACTTTTATATTATACCAATTTAGTCGTAA-TT-TTAAAATTAATTTATGTATATTTTT
60 AC--TTATATTATACCAATTTAGTCGTAATTTATTAAAATTAATTTA-GTATATTTTT
864245 TAATATAACA
Statistics
Matches: 106, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
120 64 0.60
121 2 0.02
122 13 0.12
126 4 0.04
128 23 0.22
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (115 bp):
ATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTTATCACTTAT
ATTATACCAATTTAGTCGTAATTTATTAAAATTAATTTAGTATATTTTTC
Found at i:864489 original size:18 final size:18
Alignment explanation
Indices: 864463--864524 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
864453 GAATAAAATT
*
864463 TAAATATTTAATTTAAGG
1 TAAAAATTTAATTTAAGG
* ** **
864481 TAAAAATTT-CTAAAATT
1 TAAAAATTTAATTTAAGG
*
864498 TAAATATTTAATTTAAGG
1 TAAAAATTTAATTTAAGG
864516 TAAAAATTT
1 TAAAAATTT
864525 CTAAAAAATA
Statistics
Matches: 30, Mismatches: 13, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
17 11 0.37
18 19 0.63
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (18 bp):
TAAAAATTTAATTTAAGG
Found at i:864500 original size:35 final size:35
Alignment explanation
Indices: 864456--864530 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
864446 ATAGTAAGAA
864456 TAAAATTTAAATATTTAATTTAAGGTAAAAATTTC
1 TAAAATTTAAATATTTAATTTAAGGTAAAAATTTC
864491 TAAAATTTAAATATTTAATTTAAGGTAAAAATTTC
1 TAAAATTTAAATATTTAATTTAAGGTAAAAATTTC
864526 TAAAA
1 TAAAA
864531 AATATTTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (35 bp):
TAAAATTTAAATATTTAATTTAAGGTAAAAATTTC
Found at i:865651 original size:21 final size:21
Alignment explanation
Indices: 865622--865665 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
865612 TTAAGAAATA
865622 AATTAAATTA-AATAGTATTAT
1 AATTAAATTATAATA-TATTAT
* *
865643 AATTTAATTATATTATATTAT
1 AATTAAATTATAATATATTAT
865664 AA
1 AA
865666 AATATACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTAAATTATAATATATTAT
Found at i:866655 original size:18 final size:20
Alignment explanation
Indices: 866615--866662 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
866605 TCTACCATTT
*
866615 AATAATAATATTTTTTCTCA
1 AATAATAATATTTTATCTCA
866635 AATAATAATATTTTAT-T-A
1 AATAATAATATTTTATCTCA
866653 AATAATAATA
1 AATAATAATA
866663 GCACAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
20 15 0.56
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATAATATTTTATCTCA
Found at i:866891 original size:11 final size:11
Alignment explanation
Indices: 866875--866929 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 11
866865 TATTTCTTTA
866875 TTCTTCTTTCT
1 TTCTTCTTTCT
*
866886 TTCTTCTCGTCTT
1 TTCTTCT-TTC-T
866899 CTTCTTCCTTTCT
1 -TTCTT-CTTTCT
866912 TTCTTC-TTCT
1 TTCTTCTTTCT
866922 TT-TTCTTT
1 TTCTTCTTT
866930 ACTCTTGGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.08
10 8 0.22
11 8 0.22
12 7 0.19
13 2 0.05
14 7 0.19
15 2 0.05
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (11 bp):
TTCTTCTTTCT
Found at i:867349 original size:31 final size:31
Alignment explanation
Indices: 867308--867374 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
867298 GATCATGATT
867308 CTTCGGCTGGGACGCAAGGACGACCATGCGA
1 CTTCGGCTGGGACGCAAGGACGACCATGCGA
* * ** * *
867339 CTTCGTCTGGGAGGCGGGGAGGGCCATGCGA
1 CTTCGGCTGGGACGCAAGGACGACCATGCGA
867370 CTTCG
1 CTTCG
867375 AGGCATACTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.27, G:0.40, T:0.16
Consensus pattern (31 bp):
CTTCGGCTGGGACGCAAGGACGACCATGCGA
Found at i:869154 original size:5 final size:5
Alignment explanation
Indices: 869136--869168 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
869126 AATATATTAA
869136 TAAAT T-AA- TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
869169 CTAGAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 1 0.04
4 4 0.15
5 21 0.81
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:872562 original size:28 final size:28
Alignment explanation
Indices: 872465--872562 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
872455 AGGGTTCTAC
* * *
872465 GTGGTCCTTCGTGACATATGTGTTCTAC
1 GTGGTCCTTCGGGACATATGTGTTATAT
* *
872493 GTGGTCCTTCGGAACATATGTTTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
*
872521 GTGGTCCTTTGGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
*
872549 GTGGTCCTCCGGGA
1 GTGGTCCTTCGGGA
872563 TATAGTGGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (28 bp):
GTGGTCCTTCGGGACATATGTGTTATAT
Found at i:872572 original size:18 final size:19
Alignment explanation
Indices: 872544--872580 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
872534 ACATATGTGT
872544 TATATGTGGTCCTCCGGGA
1 TATATGTGGTCCTCCGGGA
872563 TATA-GTGGTCCTCCGGGA
1 TATATGTGGTCCTCCGGGA
872581 CAAATTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (19 bp):
TATATGTGGTCCTCCGGGA
Found at i:873123 original size:5 final size:5
Alignment explanation
Indices: 873113--873145 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
873103 TCCAGAAAGC
873113 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAG
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAG
873146 GAGCAAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:874722 original size:32 final size:31
Alignment explanation
Indices: 874619--874727 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
874609 TAGGTCCCAA
* * * *
874619 AGAACCTAGATAAACTGTCAATATGTTCCTT
1 AGAACATAGGTAAACTGTCCATATGTTCCGT
* *
874650 AGAACATAGGTATACTGTCCATATGTCCCG-
1 AGAACATAGGTAAACTGTCCATATGTTCCGT
* * *
874680 AAAGATATAGGTAAATCTGTCCATATATTCCGT
1 AGA-ACATAGGTAAA-CTGTCCATATGTTCCGT
874713 AGAACATAGGTAAAC
1 AGAACATAGGTAAAC
874728 CCTCGACTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
30 2 0.03
31 34 0.55
32 24 0.39
33 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (31 bp):
AGAACATAGGTAAACTGTCCATATGTTCCGT
Found at i:878768 original size:20 final size:20
Alignment explanation
Indices: 878743--878810 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
878733 GGAATGTACT
878743 GATACACTATAGTGTATACC
1 GATACACTATAGTGTATACC
878763 GATACACTATAGTGTATACC
1 GATACACTATAGTGTATACC
878783 GATACACTATAGTGTATACC
1 GATACACTATAGTGTATACC
878803 GATACACT
1 GATACACT
878811 TCAAAAGGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (20 bp):
GATACACTATAGTGTATACC
Found at i:879698 original size:28 final size:28
Alignment explanation
Indices: 879658--879738 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
879648 AGAGCCGAGG
*
879658 GTTCTACGTGGTCTTTCGAGACATATGT
1 GTTCTACGTGGTCTTTCGGGACATATGT
*
879686 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCTTTCGGGACATATGT
* *
879714 GTTATATGTGGTCTTTCGGGACATA
1 GTTCTACGTGGTCTTTCGGGACATA
879739 GTGGTCATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.38
Consensus pattern (28 bp):
GTTCTACGTGGTCTTTCGGGACATATGT
Found at i:885178 original size:23 final size:25
Alignment explanation
Indices: 885147--885192 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
885137 TTCGATGGGA
885147 AGATCTTTGG-GATATGGG-TGTTTG
1 AGATCTTTGGTGA-ATGGGATGTTTG
885171 AGAT-TTTGGTGAATGGGATGTT
1 AGATCTTTGGTGAATGGGATGTT
885193 ATTGGCGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (25 bp):
AGATCTTTGGTGAATGGGATGTTTG
Found at i:889823 original size:21 final size:21
Alignment explanation
Indices: 889799--889859 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
889789 AATTTTGAAA
889799 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
889820 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
889834 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
889855 AAATG
1 AAATG
889860 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:889905 original size:36 final size:36
Alignment explanation
Indices: 889792--889910 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
889782 GGTAACCAAT
889792 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
889829 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
* **
889864 TTTGAAAAATAGTTTTTCAAAGTTTGGTGGATGTTT-
1 TTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTC
*
889900 GTTGAAAAATG
1 TTTGAAAAATG
889911 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 26 0.34
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (36 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
Found at i:894409 original size:21 final size:21
Alignment explanation
Indices: 894385--894445 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
894375 AACTTTGAAA
894385 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
894406 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
894420 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
894441 AAATG
1 AAATG
894446 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:894476 original size:37 final size:37
Alignment explanation
Indices: 894377--894495 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
894367 TGGTAACCAA
894377 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
894414 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
894449 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
894486 -GTTGAAAAAT
1 CTTTGAAAAAT
894496 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:900323 original size:3 final size:3
Alignment explanation
Indices: 900317--900386 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
900307 AATATTTTAT
* *
900317 TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
900363 CAA TTA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
900387 ACGGGCAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:902139 original size:17 final size:17
Alignment explanation
Indices: 902117--902150 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
902107 ACATTAGCCC
902117 TGAATCCACTTTACCTA
1 TGAATCCACTTTACCTA
902134 TGAATCCACTTTACCTA
1 TGAATCCACTTTACCTA
902151 CATCTGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
TGAATCCACTTTACCTA
Found at i:904940 original size:64 final size:63
Alignment explanation
Indices: 904871--905027 Score: 176
Period size: 64 Copynumber: 2.4 Consensus size: 63
904861 TTGAAGATGT
*
904871 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAACACATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTA-TGCATCGATGCATC-CATTTAATAATAAA-ACATCGAATGCATATTA-T
904933 GC
62 GC
* * * *
904935 ATCGATGCATAAGGCATGCATGGATGCATCCATTTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTATGCATCGATGCATCCATTTAATAATAAAACATCGAATGCATATTATGC
* *
904999 ACCGATGCACAAGTAATGCATCGATGCAT
1 ATCGATGCACAGGT-ATGCATCGATGCAT
905028 ACCTTCATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 2 0.03
64 62 0.79
65 14 0.18
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (63 bp):
ATCGATGCACAGGTATGCATCGATGCATCCATTTAATAATAAAACATCGAATGCATATTATGC
Found at i:905443 original size:29 final size:29
Alignment explanation
Indices: 905404--905484 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
905394 TATGTGATAT
905404 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
905434 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
905463 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
905485 ACATATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.14
29 37 0.76
30 5 0.10
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:911874 original size:64 final size:64
Alignment explanation
Indices: 911805--911961 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
911795 TTGAAGGTGT
**
911805 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
911867 GC
63 GC
* * * *
911869 ATCGATGCATAAGGCA-TGCATAGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* * *
911933 ACCAATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
911962 ACCTTCATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 3 0.04
64 62 0.82
65 11 0.14
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:912382 original size:29 final size:29
Alignment explanation
Indices: 912343--912452 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
912333 TATGTGATAT
912343 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
912373 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
912402 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
912431 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
912453 ACATATAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:912571 original size:15 final size:15
Alignment explanation
Indices: 912536--912564 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
912526 CGAGGGTATA
912536 ATAGTCCTTCGGGAC
1 ATAGTCCTTCGGGAC
912551 ATAGTCCTTCGGGA
1 ATAGTCCTTCGGGA
912565 TGTAGTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (15 bp):
ATAGTCCTTCGGGAC
Found at i:924216 original size:33 final size:33
Alignment explanation
Indices: 924176--924240 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
924166 GTGTATTGTC
*
924176 ATAAATTTTAAATTCGAATAATTATGTTTACAA
1 ATAAATTTTAAATTCGAATAACTATGTTTACAA
* *
924209 ATAAATTTTGAATTTGAATAACTATGTTTACA
1 ATAAATTTTAAATTCGAATAACTATGTTTACA
924241 GACATATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (33 bp):
ATAAATTTTAAATTCGAATAACTATGTTTACAA
Found at i:924254 original size:82 final size:82
Alignment explanation
Indices: 924127--924310 Score: 287
Period size: 82 Copynumber: 2.2 Consensus size: 82
924117 TTTTCTCTTC
* * * * *
924127 ATAAAATTTGAATTCGAATAACTATGTTTACATATATGCGTGTATTGTCATAAATTTTAAATTCG
1 ATAAATTTTGAATTCGAATAACTATGTTTACAGACATACGTGTATTGTCATAAATTTTAAATTCA
924192 AATAATTATGTTTACAA
66 AATAATTATGTTTACAA
* *
924209 ATAAATTTTGAATTTGAATAACTATGTTTACAGACATATGTGTATTGTCATAAATTTTAAATTCA
1 ATAAATTTTGAATTCGAATAACTATGTTTACAGACATACGTGTATTGTCATAAATTTTAAATTCA
* *
924274 AATAATTATGTTTATAG
66 AATAATTATGTTTACAA
924291 ATAAATTTTGAATTCGAATA
1 ATAAATTTTGAATTCGAATA
924311 TCTAATACCC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (82 bp):
ATAAATTTTGAATTCGAATAACTATGTTTACAGACATACGTGTATTGTCATAAATTTTAAATTCA
AATAATTATGTTTACAA
Found at i:932566 original size:19 final size:19
Alignment explanation
Indices: 932532--932568 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
932522 ATGACCAACA
*
932532 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
932551 AAATCGCAACGTGATCTC
1 AAATCGCAACGCGATCTC
932569 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:932617 original size:20 final size:20
Alignment explanation
Indices: 932594--932660 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
932584 GTTTCCATAT
*
932594 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
932614 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
*
932634 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
932654 TCGCAAC
1 TCGCAAC
932661 ACTGAATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:933515 original size:24 final size:24
Alignment explanation
Indices: 933481--933534 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
933471 GTATTCGAAA
933481 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
933505 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
933529 TTTGAT
1 TTTGAT
933535 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:935820 original size:18 final size:18
Alignment explanation
Indices: 935797--935831 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
935787 AGAAAAAGGC
*
935797 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
935815 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
935832 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:936143 original size:140 final size:140
Alignment explanation
Indices: 935891--936160 Score: 531
Period size: 140 Copynumber: 1.9 Consensus size: 140
935881 AAACGTTGTA
*
935891 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
935956 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
936021 TATGTGTATT
131 TATGTGTATT
936031 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
936096 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
936161 CGCAACGCGA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:936156 original size:20 final size:20
Alignment explanation
Indices: 936131--936333 Score: 214
Period size: 20 Copynumber: 10.8 Consensus size: 20
936121 TTACACATTC
*
936131 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
936151 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
936171 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
936190 A----A-AATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
936205 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
936225 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
936245 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
936265 A----A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
936279 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
936299 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
936319 ATTTGACTATCGCAA
1 ATTTGACTATCGCAA
936334 TGAGAAAATC
Statistics
Matches: 152, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
14 20 0.13
15 3 0.02
16 1 0.01
18 1 0.01
19 3 0.02
20 124 0.82
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:936256 original size:74 final size:75
Alignment explanation
Indices: 936131--936375 Score: 363
Period size: 74 Copynumber: 3.3 Consensus size: 75
936121 TTACACATTC
* * * * * *
936131 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCA-AAAAT
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACTGAGAAAAT
*
936195 CACAACGCGA
66 CGCAACGCGA
936205 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAAC-GAGAAAAT
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACTGAGAAAAT
936269 CGCAACGCGA
66 CGCAACGCGA
936279 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAA-TGAGAAAAT
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACTGAGAAAAT
* *
936343 CGCAAAGCGT
66 CGCAACGCGA
*
936353 ATTAT-ACTATCGCAACGCAAATT
1 ATT-TGACTATCGCAACGCGAATT
936376 GACTTTCGCG
Statistics
Matches: 158, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
73 1 0.01
74 156 0.99
75 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACTGAGAAAAT
CGCAACGCGA
Found at i:936271 original size:54 final size:54
Alignment explanation
Indices: 936213--936315 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
936203 GAATTTGACT
* * *
936213 ATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAA
*
936267 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
936316 GGTATTTGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAA
Found at i:936403 original size:20 final size:21
Alignment explanation
Indices: 936374--936431 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
936364 GCAACGCAAA
936374 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
936394 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
936414 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
936432 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:937158 original size:21 final size:21
Alignment explanation
Indices: 937125--937199 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
937115 CGCTTTGAAA
* *
937125 ATCGCATTACGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* **
937146 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
937166 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTTTGTATT
*
937187 ATCACGTTGCGAT
1 ATCGCGTTGCGAT
937200 AGTCAGAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 3 0.07
20 13 0.32
21 23 0.56
22 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTGTATT
Found at i:937171 original size:20 final size:20
Alignment explanation
Indices: 937146--937210 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
937136 ATTTTGTATT
937146 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
**
937166 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
937187 ATCACGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
937207 ATCG
1 ATCG
937211 TGTTACGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.50
21 14 0.39
22 2 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:937185 original size:41 final size:41
Alignment explanation
Indices: 937124--937220 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
937114 GCGCTTTGAA
* * *
937124 AATCGCATTACGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTACGATTATGTATTATCACGTTGCGATAGTCAG
*
937165 AATCGCGTTGCGATTATGTATTATCACGTTGCGATAGTCAG
1 AATCGCGTTACGATTATGTATTATCACGTTGCGATAGTCAG
*
937206 AATCGTGTTACGATT
1 AATCGCGTTACGATT
937221 TACATATTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
AATCGCGTTACGATTATGTATTATCACGTTGCGATAGTCAG
Found at i:939818 original size:17 final size:17
Alignment explanation
Indices: 939771--939838 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
939761 AAGAGTTAGC
* *
939771 TTAATAAATGAAATAGT
1 TTAATGAATGAACTAGT
*
939788 TTGATGAATGAACTAGT
1 TTAATGAATGAACTAGT
* * *
939805 TTAATTAATTAACTAACT
1 TTAATGAATGAACT-AGT
* *
939823 TTATTCAATGAACTAG
1 TTAATGAATGAACTAG
939839 ATGCATGAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 26 0.67
18 13 0.33
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (17 bp):
TTAATGAATGAACTAGT
Found at i:940652 original size:2 final size:2
Alignment explanation
Indices: 940645--940678 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
940635 ATAGAATGAC
940645 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
940679 TAAATAGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:940799 original size:15 final size:15
Alignment explanation
Indices: 940779--940808 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
940769 TAGAGGTACA
940779 TTTTTTAATTTAATT
1 TTTTTTAATTTAATT
*
940794 TTTTTTCATTTAATT
1 TTTTTTAATTTAATT
940809 ATCTTTATAT
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:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTAATTTAATT
Found at i:946782 original size:62 final size:62
Alignment explanation
Indices: 946708--946832 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
946698 ATGCCCCAAA
946708 CGTCGAAGAGCTTTATCTCCAGAATATTTTACAGCGGCATCTCATGTCGTCTGAAAATGTTT
1 CGTCGAAGAGCTTTATCTCCAGAATATTTTACAGCGGCATCTCATGTCGTCTGAAAATGTTT
946770 CGTCGAAGAGCTTTATCTCCAGAATATTTTACAGCGGCATCTCATGTCGTCTGAAAATGTTT
1 CGTCGAAGAGCTTTATCTCCAGAATATTTTACAGCGGCATCTCATGTCGTCTGAAAATGTTT
946832 C
1 C
946833 CAGTGCGCTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
CGTCGAAGAGCTTTATCTCCAGAATATTTTACAGCGGCATCTCATGTCGTCTGAAAATGTTT
Found at i:954032 original size:12 final size:12
Alignment explanation
Indices: 953995--954042 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
953985 TAGTTGAGAG
*
953995 TGATGATGACAA
1 TGATGATGACGA
*
954007 TGATGATAACGA
1 TGATGATGACGA
* *
954019 TGACGATGATGA
1 TGATGATGACGA
*
954031 TGAAGATGACGA
1 TGATGATGACGA
954043 CAATGAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (12 bp):
TGATGATGACGA
Found at i:954041 original size:18 final size:18
Alignment explanation
Indices: 953999--954042 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
953989 TGAGAGTGAT
*
953999 GATGACAATGATGATAAC
1 GATGACGATGATGATAAC
954017 GATGACGATGATGATGAA-
1 GATGACGATGATGAT-AAC
954035 GATGACGA
1 GATGACGA
954043 CAATGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (18 bp):
GATGACGATGATGATAAC
Found at i:954048 original size:18 final size:20
Alignment explanation
Indices: 953996--954048 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
953986 AGTTGAGAGT
*
953996 GATGATGACAATGATGATAAC
1 GATGACGACAATGATGA-AAC
**
954017 GATGACGATGATGATG-AA-
1 GATGACGACAATGATGAAAC
954035 GATGACGACAATGA
1 GATGACGACAATGA
954049 AAATGAAGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 12 0.44
19 2 0.07
21 13 0.48
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (20 bp):
GATGACGACAATGATGAAAC
Found at i:957224 original size:16 final size:16
Alignment explanation
Indices: 957205--957245 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
957195 ATTTTGAGAA
* *
957205 TTTGAGAGTTTGGAAG
1 TTTGAGAGTTCGAAAG
957221 TTTGAGAGTTCGAAAG
1 TTTGAGAGTTCGAAAG
957237 TTTGAGAGT
1 TTTGAGAGT
957246 ATGTTAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.34, T:0.37
Consensus pattern (16 bp):
TTTGAGAGTTCGAAAG
Found at i:957230 original size:8 final size:8
Alignment explanation
Indices: 957197--957245 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
957187 CATGAGCCAT
*
957197 TTTGAGAA
1 TTTGAGAG
957205 TTTGAGAG
1 TTTGAGAG
957213 TTTG-GAAG
1 TTTGAG-AG
957221 TTTGAGAG
1 TTTGAGAG
* *
957229 TTCGAAAG
1 TTTGAGAG
957237 TTTGAGAG
1 TTTGAGAG
957245 T
1 T
957246 ATGTTAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 1 0.03
8 32 0.94
9 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.37
Consensus pattern (8 bp):
TTTGAGAG
Found at i:958481 original size:27 final size:27
Alignment explanation
Indices: 958443--958511 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
958433 GAAAAAAACA
* *
958443 TTTATTTCCCAATTTTGTTTCCGATCC
1 TTTATTTCCCAATTCTGTTTCCAATCC
958470 TTTATTTCCCAATTCTGTTTCCAATCC
1 TTTATTTCCCAATTCTGTTTCCAATCC
*
958497 TTTATTCCCCAATTC
1 TTTATTTCCCAATTC
958512 CTTCCCACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.29, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTATTTCCCAATTCTGTTTCCAATCC
Found at i:958524 original size:26 final size:27
Alignment explanation
Indices: 958468--958524 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
958458 TGTTTCCGAT
* * * *
958468 CCTTTATTTCCCAATTCTGTTTCCAAT
1 CCTTTATTCCCCAATTCTCTTCCCAAC
*
958495 CCTTTATTCCCCAATTC-CTTCCCACC
1 CCTTTATTCCCCAATTCTCTTCCCAAC
958521 CCTT
1 CCTT
958525 CCACTGTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.16, C:0.40, G:0.02, T:0.42
Consensus pattern (27 bp):
CCTTTATTCCCCAATTCTCTTCCCAAC
Found at i:976575 original size:60 final size:60
Alignment explanation
Indices: 976505--976619 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
976495 CTTATGATTT
* * *
976505 TTTAAGTATAGGGTATTATT-TTGTTGAGTACTTCAATTATTAAAAGTTATAAAATTATCA
1 TTTAAGTATAGAGTATTATTCTT-TTGAGTACTTCAACTATTAAAAATTATAAAATTATCA
* * ** *
976565 TTTAATTATAGAGTTTTATTCTTTTGAGTTTTTCGACTATTAAAAATTATAAAAT
1 TTTAAGTATAGAGTATTATTCTTTTGAGTACTTCAACTATTAAAAATTATAAAAT
976620 AATTAACCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (60 bp):
TTTAAGTATAGAGTATTATTCTTTTGAGTACTTCAACTATTAAAAATTATAAAATTATCA
Found at i:977263 original size:19 final size:19
Alignment explanation
Indices: 977239--977277 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
977229 GTTGTATTTT
977239 TATATTAACATTAATAAAC
1 TATATTAACATTAATAAAC
977258 TATATTAACATTAATAAAC
1 TATATTAACATTAATAAAC
977277 T
1 T
977278 GTTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATTAACATTAATAAAC
Found at i:982080 original size:80 final size:80
Alignment explanation
Indices: 981931--982085 Score: 285
Period size: 80 Copynumber: 1.9 Consensus size: 80
981921 CTGGGGATAC
981931 CTCTTCTGTGAAGACTTCCATGTATGAGATGATGAACGGCTTTCTTTCTTTATCCCTTCACAACA
1 CTCTTCTGTGAAGACTTCCATGTATGAGATGATGAACGGCTTTCTTTCTTTATCCCTTCACAACA
*
981996 GAGAATATATCCCTT
66 GAGAAAATATCCCTT
982011 CTCTTCTGTGAAGACTTCCATGTATGAGATGATGAACGGCTTTC-TTCTTTATCCCTTCACAACA
1 CTCTTCTGTGAAGACTTCCATGTATGAGATGATGAACGGCTTTCTTTCTTTATCCCTTCACAACA
982075 GGAGAAAATAT
66 -GAGAAAATAT
982086 ATATCCCTTG
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
79 20 0.27
80 53 0.73
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (80 bp):
CTCTTCTGTGAAGACTTCCATGTATGAGATGATGAACGGCTTTCTTTCTTTATCCCTTCACAACA
GAGAAAATATCCCTT
Found at i:982281 original size:8 final size:7
Alignment explanation
Indices: 982268--982331 Score: 71
Period size: 7 Copynumber: 9.4 Consensus size: 7
982258 AATAAGAAGC
982268 AAAAAAGG
1 AAAAAA-G
982276 AAAAAAG
1 AAAAAAG
982283 --AAAAG
1 AAAAAAG
982288 AAAAAAG
1 AAAAAAG
*
982295 AAAAAAC
1 AAAAAAG
982302 AAAAAAG
1 AAAAAAG
*
982309 GAAAAA-
1 AAAAAAG
*
982315 ACAAAAG
1 AAAAAAG
982322 AAAAAAG
1 AAAAAAG
982329 AAA
1 AAA
982332 GAACAAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
5 5 0.11
6 4 0.09
7 32 0.68
8 6 0.13
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:982299 original size:27 final size:28
Alignment explanation
Indices: 982268--982328 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
982258 AATAAGAAGC
*
982268 AAAAAAGGAAAAAA-GAAAAGAA-AAAAG
1 AAAAAAGCAAAAAAGGAAAA-AACAAAAG
982295 AAAAAA-CAAAAAAGGAAAAAACAAAAG
1 AAAAAAGCAAAAAAGGAAAAAACAAAAG
982322 AAAAAAG
1 AAAAAAG
982329 AAAGAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (28 bp):
AAAAAAGCAAAAAAGGAAAAAACAAAAG
Found at i:982305 original size:34 final size:34
Alignment explanation
Indices: 982267--982338 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
982257 CAATAAGAAG
*
982267 CAAAAAAGGAAAAAAGAAAAGAAAAAAGAAAAAA
1 CAAAAAAGGAAAAAACAAAAGAAAAAAGAAAAAA
*
982301 CAAAAAAGGAAAAAACAAAAGAAAAAAGAAAGAA
1 CAAAAAAGGAAAAAACAAAAGAAAAAAGAAAAAA
982335 CAAA
1 CAAA
982339 GATCAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (34 bp):
CAAAAAAGGAAAAAACAAAAGAAAAAAGAAAAAA
Found at i:982312 original size:15 final size:14
Alignment explanation
Indices: 982283--982320 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
982273 AGGAAAAAAG
*
982283 AAAAGAAAAAAGAA
1 AAAACAAAAAAGAA
982297 AAAACAAAAAAGGAA
1 AAAACAAAAAA-GAA
982312 AAAACAAAA
1 AAAACAAAA
982321 GAAAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAGAA
Found at i:982983 original size:22 final size:22
Alignment explanation
Indices: 982955--982998 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
982945 AGCTACCCCA
*
982955 TCAAACCTTTGAACATCAAATG
1 TCAAACCATTGAACATCAAATG
*
982977 TCAAACCATTGAGCATCAAATG
1 TCAAACCATTGAACATCAAATG
982999 GACAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (22 bp):
TCAAACCATTGAACATCAAATG
Found at i:984565 original size:43 final size:43
Alignment explanation
Indices: 984504--984653 Score: 116
Period size: 43 Copynumber: 3.5 Consensus size: 43
984494 CAGAGCCAAT
984504 TTCAACTTCAC-AGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACGAGCGAAGGATATTGGACTCAA-ACAACGCAAG
** ** *
984547 TTCAACTTCACGA-CGAAGGGACCGTTGGTTGTCAATA-AA--CAAC
1 TTCAACTTCACGAGCGAA-GGA-TATTGG-ACTCAA-ACAACGCAAG
* *
984590 TTCCCAATTTCA-TAGCGAAGGATATTGGACTCCAAACAACGCAAG
1 TT--CAACTTCACGAGCGAAGGATATTGGACT-CAAACAACGCAAG
984635 TTCAACTTCACGA-CGAAGG
1 TTCAACTTCACGAGCGAAGG
984654 GACCGCTGGT
Statistics
Matches: 80, Mismatches: 15, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
42 2 0.03
43 42 0.52
44 9 0.11
45 22 0.28
46 5 0.06
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGAGCGAAGGATATTGGACTCAAACAACGCAAG
Found at i:984648 original size:194 final size:199
Alignment explanation
Indices: 984424--984991 Score: 777
Period size: 194 Copynumber: 2.9 Consensus size: 199
984414 GTATCGTGTC
984424 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
*
984489 AATTGCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
*
984554 TCACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTCCCAATTTC-A-T-A-G-CGAAGGATA
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAACTCACGACGAAGGATA
984614 TTGG
196 TTGG
*
984618 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
* *
984683 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
*
984748 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC-T-TC----------CCAATTTCAAC-TC
*
984813 ACGACGAATGATATTGG
183 ACGACGAAGGATATTGG
* * *
984830 ACTCCAGACAACGCAAGTTCAACTTCACGAC---GGGA-CGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
* *
984891 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGG--ATTGGA-T-GAGACAACACAAG-TCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
* * * *
984951 TCACAACGAAAGGACGGCTGGTTGTCAATAAACAATTTCCC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
984992 GGTTCCAGAG
Statistics
Matches: 337, Mismatches: 19, Indels: 39
0.85 0.05 0.10
Matches are distributed among these distances:
191 2 0.01
194 160 0.47
195 1 0.00
196 2 0.01
201 2 0.01
202 1 0.00
203 37 0.11
204 11 0.03
205 1 0.00
206 14 0.04
207 1 0.00
208 56 0.17
209 5 0.01
210 1 0.00
211 1 0.00
212 42 0.12
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (199 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAACTCACGACGAAGGATA
TTGG
Found at i:984664 original size:88 final size:88
Alignment explanation
Indices: 984510--984689 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
984500 CAATTTCAAC
*
984510 TTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGG
1 TTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
984575 TTGTCAATAAACAACTTCCCAAT
66 TTGTCAATAAACAACTTCCCAAT
*
984598 TTCATAGCGAAGGATATTGGACTCCAA-ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
1 TTCACAGCGAAGGATATTGGACT-CAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
*
984662 GTTGTCAATAAATAACTTCCCAAT
65 GTTGTCAATAAACAACTTCCCAAT
984686 TTCA
1 TTCA
984690 GAGCCAATTT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 85 0.97
89 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (88 bp):
TTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
TTGTCAATAAACAACTTCCCAAT
Found at i:984792 original size:106 final size:106
Alignment explanation
Indices: 984598--985035 Score: 594
Period size: 106 Copynumber: 4.2 Consensus size: 106
984588 ACTTCCCAAT
* *
984598 TTCATAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* *
984663 TTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAAC
66 TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
*
984704 TTCACAGCGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* *
984769 TTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAAC
66 TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
*
984810 TTCAC-GACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC---GGGA-CGCTG
1 TTCACAG-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
*
984870 GTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAAC
65 GTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* * * * *
984912 TTCACAGCGAAGG--ATTGGA-T-GAGACAACACAAG-TCAACTTCACAACGAAAGGACGGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * ** *
984972 TTGTCAATAAACAATTTCCCGGTTCCAGAGCCAATTTCAAC
66 TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
*
985013 -TCAC-GACGGAGGATATTGGACTC
1 TTCACAG-CGAAGGATATTGGACTC
985036 GGAACATACT
Statistics
Matches: 300, Mismatches: 21, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
97 12 0.04
98 11 0.04
99 2 0.01
100 18 0.06
101 42 0.14
102 60 0.20
103 6 0.02
105 1 0.00
106 148 0.49
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
Found at i:985064 original size:203 final size:209
Alignment explanation
Indices: 984605--985035 Score: 615
Period size: 203 Copynumber: 2.1 Consensus size: 209
984595 AATTTCATAG
*
984605 CGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC---GGGACCGCTGGTTGTCAA
* * *
984670 TAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAA
63 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGAGATTGGACTCCAGACAA
* * * * **
984735 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGC
128 CACAAGTTCAACTTCACAACGAAAGGACCGCTGGTTGTCAACAAACAACTTCCCAATTCCAGAGC
984800 CAATTTCAACTTCACGA
193 CAATTTCAACTTCACGA
*
984817 CGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGGA-CGCTGGTTGTCAACAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGGACCGCTGGTTGTCAACAA
* *
984881 ACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA-G-GATTGGA-T-GAGACAACAC
66 ACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGAGATTGGACTCCAGACAACAC
* * * **
984942 AAG-TCAACTTCACAACGAAAGGACGGCTGGTTGTCAATAAACAATTTCCCGGTTCCAGAGCCAA
131 AAGTTCAACTTCACAACGAAAGGACCGCTGGTTGTCAACAAACAACTTCCCAATTCCAGAGCCAA
985006 TTTCAAC-TCACGA
196 TTTCAACTTCACGA
*
985019 CGGAGGATATTGGACTC
1 CGAAGGATATTGGACTC
985036 GGAACATACT
Statistics
Matches: 199, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
202 21 0.11
203 58 0.29
204 11 0.06
205 1 0.01
206 6 0.03
207 1 0.01
208 55 0.28
209 4 0.02
212 42 0.21
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (209 bp):
CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGGACCGCTGGTTGTCAACAA
ACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGAGATTGGACTCCAGACAACAC
AAGTTCAACTTCACAACGAAAGGACCGCTGGTTGTCAACAAACAACTTCCCAATTCCAGAGCCAA
TTTCAACTTCACGA
Found at i:985388 original size:57 final size:58
Alignment explanation
Indices: 985327--985442 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
985317 TTCGATTTCA
985327 TTCAGCTCGAAGGCAGCGATG-AACTACTTTCTGGAAGAATTTTCAAGACGAAATTTT
1 TTCAGCTCGAAGGCAGCGATGAAACTACTTTCTGGAAGAATTTTCAAGACGAAATTTT
985384 TTCAGCTCGAAGGCAGCGATGAAACTACTTTCTGGAAGAATTTTCAAGACGAAATTTT
1 TTCAGCTCGAAGGCAGCGATGAAACTACTTTCTGGAAGAATTTTCAAGACGAAATTTT
985442 T
1 T
985443 AAACCGAGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 21 0.36
58 37 0.64
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (58 bp):
TTCAGCTCGAAGGCAGCGATGAAACTACTTTCTGGAAGAATTTTCAAGACGAAATTTT
Done.