Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:920220 original size:22 final size:21
Alignment explanation
Indices: 920195--920237 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
920185 TATTTTGGGA
920195 TATTTACTATTT-TAAATAAAAT
1 TATTTACT-TTTATAAA-AAAAT
920217 TATTTACTTTTATAAAAAAAT
1 TATTTACTTTTATAAAAAAAT
920238 CATCAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTTACTTTTATAAAAAAAT
Found at i:921462 original size:87 final size:90
Alignment explanation
Indices: 921368--921668 Score: 363
Period size: 87 Copynumber: 3.3 Consensus size: 90
921358 TCCGTTCTTA
* * * *
921368 ATATTATTATTATTATATTTTTTTATTTTATTTTATATTATATATATTATTATATTA-ATTATA-
1 ATATTATTATTATTATATTATATTATATTATATTATATTATATATATTATTATATTATATTATAT
921431 TATATTATATTATATATTATTATAT
66 TATATTATATTATATATTATTATAT
921456 AT-TTATT-TATATTATATTATATTATATTATATTATATTATAT-TA-T-TTATATTATATTATA
1 ATATTATTAT-TATTATATTATATTATATTATATTATATTATATATATTATTATATTATATTATA
*
921516 TTATATTATATTATAT-TATATTATTT
65 TTATATTATATTATATAT-TATTATAT
921542 ATATTA-TATTATATATATTATATTATATTATATTATATT-TATTATATTATATTATATTATATT
1 ATATTATTATTAT-TATATTATATTATATTATATTATATTATA-TATA-T-TATTATATTATATT
921605 ATATTATATTATTATTATACTATTATTATAT
62 ATATTATATTA-TATTATA-TATTATTATAT
* *
921636 -TATTAATATTATTACTACTAATATTATTATTAT
1 ATATTATTATTATTA-TA-TTATATTA-TATTAT
921669 TAATAATAAT
Statistics
Matches: 186, Mismatches: 7, Indels: 32
0.83 0.03 0.14
Matches are distributed among these distances:
84 8 0.04
85 8 0.04
86 33 0.18
87 65 0.35
88 4 0.02
91 1 0.01
92 23 0.12
93 14 0.08
94 16 0.09
95 8 0.04
96 6 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (90 bp):
ATATTATTATTATTATATTATATTATATTATATTATATTATATATATTATTATATTATATTATAT
TATATTATATTATATATTATTATAT
Found at i:921566 original size:82 final size:84
Alignment explanation
Indices: 921369--921647 Score: 371
Period size: 82 Copynumber: 3.4 Consensus size: 84
921359 CCGTTCTTAA
* * * *
921369 TATTA-TTATTATTATATTTTTTTATTTTATTTTATATTATA-TATATTA-TTATATTA-ATTAT
1 TATTATTTATTATTATA-TTATATATATTATATTATATTATATTATATTATTTATATTATATTAT
921430 A-TATATTATATTATA-TAT
65 ATTATATTATATTATATTAT
*
921448 TATTATATATTTATTTATATTATATTATATTATATTATATTATATTATATTATTTATATTATATT
1 TATTATTTA-TTA-TTATATTATA-TATATTATATTATATTATATTATATTATTTATATTATATT
921513 ATATTATATTATATTATATTA-
63 ATATTATATTATATTATATTAT
921534 TATTATTTA-TATTATATTATATATATTATATTATATTATATTATATT-TATTATATTATATTAT
1 TATTATTTATTATTATATTATATATATTATATTATATTATATTATATTAT-TTATATTATATTAT
921597 ATTATATTATATTATATTAT
65 ATTATATTATATTATATTAT
*
921617 TATTATACTATTATTATATTAT-TAATATTAT
1 TATTAT-TTATTATTATATTATAT-ATATTAT
921648 TACTACTAAT
Statistics
Matches: 179, Mismatches: 7, Indels: 22
0.86 0.03 0.11
Matches are distributed among these distances:
79 5 0.03
80 2 0.01
81 7 0.04
82 81 0.45
83 23 0.13
84 13 0.07
85 24 0.13
86 22 0.12
87 2 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (84 bp):
TATTATTTATTATTATATTATATATATTATATTATATTATATTATATTATTTATATTATATTATA
TTATATTATATTATATTAT
Found at i:921638 original size:5 final size:5
Alignment explanation
Indices: 921372--921647 Score: 367
Period size: 5 Copynumber: 56.2 Consensus size: 5
921362 TTCTTAATAT
* * * *
921372 TATTA TTATTA TATTT TTTTA TTTTA TTTTA TATTA TATATA TTATTA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA
921420 TATTA -ATTA TA-TA TATTA TATTA TA-TA TTATTA TA-TA T-TTA T-TTA
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA
921465 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T-TTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
921514 TATTA TATTA TATTA TATTA TATTA T-TTA TATTA TATTA TA-TA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
921562 TATTA TATTA TATTA TATT- TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* *
921611 TATTA TTATTA TACTA TTATTA TATTA T-TAA TATTA T
1 TATTA -TATTA TATTA -TATTA TATTA TATTA TATTA T
921648 TACTACTAAT
Statistics
Matches: 247, Mismatches: 8, Indels: 31
0.86 0.03 0.11
Matches are distributed among these distances:
4 39 0.16
5 185 0.75
6 20 0.08
7 3 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:921666 original size:82 final size:77
Alignment explanation
Indices: 921372--921668 Score: 310
Period size: 77 Copynumber: 3.8 Consensus size: 77
921362 TTCTTAATAT
* * * *
921372 TATTATTATTATATTTTTTTATTTTATTTTATATTATATATATTATTATATTAATTATATATATT
1 TATTA-TATTATATTATATTATATTATATTATATTATA-ATATTATTATA-TAATTATAT-TATT
921437 ATATTATA-TATTATTA
62 ATATTATATTA-TATTA
* *
921453 TA-TAT-TTAT-TTATATTATATTATATTATATTATATTA-TATTATATTATTTATATTATATTA
1 TATTATATTATATTATATTATATTATATTATATTATAATATTATTATA-TAATTATA-T-TATTA
921514 TATTATATTATATTA
63 TATTATATTATATTA
* *
921529 TATTATATTAT-TTATATTATATTATA-TATATTATATTA-TATTATATTA-TAT-TTATTATAT
1 TATTATATTATATTATATTATATTATATTATATTATAATATTATTATATAATTATATTATTATAT
921589 TATATTATATTA
66 TATATTATATTA
*
921601 TATTATATTATATTATTATTATACTATTATTATATTATTAATATTATTACTACTAA-TATTATTA
1 TATTATATTATATTA-TATTATATTA-TATTATATTA-TAATATTATTA-TA-TAATTA-TATTA
921665 TTAT
60 TTAT
921669 TAATAATAAT
Statistics
Matches: 191, Mismatches: 11, Indels: 27
0.83 0.05 0.12
Matches are distributed among these distances:
72 31 0.16
73 4 0.02
74 9 0.05
75 20 0.10
76 31 0.16
77 49 0.26
78 28 0.15
79 3 0.02
80 6 0.03
81 3 0.02
82 7 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (77 bp):
TATTATATTATATTATATTATATTATATTATATTATAATATTATTATATAATTATATTATTATAT
TATATTATATTA
Found at i:927797 original size:29 final size:30
Alignment explanation
Indices: 927733--927804 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
927723 GGCAGATGTG
* * *
927733 CTTAATTAATTTTTTAGCTAAGTTCGAGGG
1 CTTAATTAATTTTTTAGCAAAGTTCAAGGA
* * *
927763 CCTAATTGATTTTTTAG-AAAGTTTAAGGA
1 CTTAATTAATTTTTTAGCAAAGTTCAAGGA
927792 CTTAATTAATTTT
1 CTTAATTAATTTT
927805 CTTGAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (30 bp):
CTTAATTAATTTTTTAGCAAAGTTCAAGGA
Found at i:928706 original size:21 final size:21
Alignment explanation
Indices: 928642--928709 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
928632 TAATTTTTAA
* *
928642 TTTAAAATTTCTA-ATATTAAT
1 TTTAAAATTTATATATATT-TT
928663 TTTAAAATTTATATATATTTT
1 TTTAAAATTTATATATATTTT
* *
928684 TTTATAATTTAT-TTTATTCTT
1 TTTAAAATTTATATATATT-TT
928705 TTTAA
1 TTTAA
928710 GAATCTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.12
21 30 0.75
22 5 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAAAATTTATATATATTTT
Found at i:929681 original size:20 final size:23
Alignment explanation
Indices: 929643--929685 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
929633 ACCGGAAAAA
929643 CTAAGGAGGAAGAAGAATATTTT
1 CTAAGGAGGAAGAAGAATATTTT
929666 CTAAGGA-GAA-AA-AATATTTT
1 CTAAGGAGGAAGAAGAATATTTT
929686 TCCAACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 3 0.15
23 7 0.35
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (23 bp):
CTAAGGAGGAAGAAGAATATTTT
Found at i:932973 original size:2 final size:2
Alignment explanation
Indices: 932966--932994 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
932956 ATTTAGAGTT
932966 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
932995 ATTTCAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:935223 original size:43 final size:43
Alignment explanation
Indices: 935162--935244 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
935152 TAAGATAACC
*
935162 AAAATAGGCTTTTATTTAGCATTCAAATAGCTGGATTGAACTA
1 AAAATAGGCTTTTATTTAGCATTCAAATAACTGGATTGAACTA
*
935205 AAAATATGCTTTTATTTAGCATTCAAATAACTGGATTGAA
1 AAAATAGGCTTTTATTTAGCATTCAAATAACTGGATTGAA
935245 AAGTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (43 bp):
AAAATAGGCTTTTATTTAGCATTCAAATAACTGGATTGAACTA
Found at i:936603 original size:16 final size:16
Alignment explanation
Indices: 936578--936613 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
936568 ATAAAGAAAA
*
936578 TAAAAATGCATAAATT
1 TAAAAATGCATAAAGT
*
936594 TAAAAGTGCATAAAGT
1 TAAAAATGCATAAAGT
936610 TAAA
1 TAAA
936614 TAGCAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (16 bp):
TAAAAATGCATAAAGT
Found at i:938128 original size:19 final size:20
Alignment explanation
Indices: 938081--938132 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
938071 GATCTTGGGA
*
938081 GATGAATTAGGTATTTGAAAT
1 GATGAATTAGG-GTTTGAAAT
* *
938102 GATAAATTAGGGTTT-AGAT
1 GATGAATTAGGGTTTGAAAT
938121 GATGAATTAGGG
1 GATGAATTAGGG
938133 GAAAGTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.35
Consensus pattern (20 bp):
GATGAATTAGGGTTTGAAAT
Found at i:939422 original size:2 final size:2
Alignment explanation
Indices: 939417--939446 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
939407 TTACAGTGTG
939417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
939447 CAACCGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:940378 original size:10 final size:10
Alignment explanation
Indices: 940363--940392 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
940353 TTCTTGCTCG
940363 TTTTTTCTTT
1 TTTTTTCTTT
940373 TTTTTTCTTT
1 TTTTTTCTTT
*
940383 TTTTTGCTTT
1 TTTTTTCTTT
940393 GTAACTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:941626 original size:55 final size:55
Alignment explanation
Indices: 941157--941637 Score: 495
Period size: 55 Copynumber: 8.7 Consensus size: 55
941147 TCTTCGAAAG
* * * * *
941157 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTAAAGGACTCGAA-AAACATTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATC-TTCAACAA
** * * * * * * *
941212 ATAGGTTCACTCCCTAATCCTTTAGGGAGAATAGAACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * * * * * **
941267 ACGTG-CATGCTCCCTATTCGTTCAGGGAGTATA-AGACTCGAACAATATTCAGTAA
1 ACGGGTC-CGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAA
* **
941322 ACGGGTCCGCTCTCTATTCTTTCAGAGAGTATAGAACTTTAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * **
941377 ACGGGTCCGCTCTCTATTCCTTGAGAGAGTATAGGACTTTAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * * * * *
941432 ATGGGTCCACTCTCTATTTCTTGAGAGAGTATA-AGACTCGAATAATTTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAA
* *
941487 ACGGGTTCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
* * *
941542 ATGGGTCCGCTCTCTATTCCTTCAAAGAGTATAAAACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* * *
941597 ACGGGTCCGCTCCCTATTCCATCTGAGAGTATAGAACTCGA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGA
941638 TCTTCATAAA
Statistics
Matches: 356, Mismatches: 61, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.01
55 347 0.97
56 7 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (55 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
Found at i:941700 original size:37 final size:37
Alignment explanation
Indices: 941653--941763 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
941643 ATAAAATGAT
*
941653 TTTGCTTCACTACTATTCCGTGAAGGCTTAAGATTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
* * *
941690 TTTGCTTCACTACTCTTCCATGAAGGCTTAGGTTTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
* *
941727 ATTACTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
941764 CTTGTTTCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (37 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
Found at i:942878 original size:66 final size:65
Alignment explanation
Indices: 942801--942963 Score: 197
Period size: 66 Copynumber: 2.5 Consensus size: 65
942791 AATTAAATTG
* * * *
942801 AACATCGAATGCATTTCATGCATCAATGCACTTA-CCATGCACCGATGAACTGAGGAT-TTTAAT
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGAACTCAGGATATTT--T
942864 GAA
64 G-A
* * * *
942867 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGAACTCAGGATATTTTGA
*
942931 AACATCGAATGCACTTGATGCATCGATGCACTC
1 AACATCGAATGCATTTGATGCATCGATGCACTC
942964 TTAGTGCACC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 31 0.36
65 4 0.05
66 47 0.55
67 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGAACTCAGGATATTTTGA
Found at i:942961 original size:17 final size:19
Alignment explanation
Indices: 942933--942981 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
942923 TATTTTGAAA
942933 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
942951 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
942970 CACCGATGCACT
1 CATCGATGCACT
942982 AAGGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:944241 original size:14 final size:13
Alignment explanation
Indices: 944222--944314 Score: 66
Period size: 13 Copynumber: 6.8 Consensus size: 13
944212 TTTTCTCTAT
944222 TTTTTCATTTTTCA
1 TTTTTC-TTTTTCA
*
944236 TTTTTCTCTTTC-
1 TTTTTCTTTTTCA
*
944248 TCTTTCTTTTTTCA
1 TTTTTC-TTTTTCA
*
944262 TTTTTTCATTTTTTA
1 -TTTTTC-TTTTTCA
*
944277 -TTTTCTCTTTTCT
1 TTTTTCT-TTTTCA
944290 TTTTTCTCTTTTC-
1 TTTTTCT-TTTTCA
944303 TCTTTTCTTTTT
1 T-TTTTCTTTTT
944315 TTCTTTTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
12 6 0.09
13 24 0.37
14 24 0.37
15 11 0.17
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTTTTTCA
Found at i:944267 original size:34 final size:33
Alignment explanation
Indices: 944221--944331 Score: 133
Period size: 34 Copynumber: 3.4 Consensus size: 33
944211 TTTTTCTCTA
944221 TTTTTTCA-TTTTTCATTTTTCTCTTTCTCTTTC
1 TTTTTTCATTTTTTCATTTTT-TCTTTCTCTTTC
*
944254 TTTTTTCATTTTTTCATTTTTTATTTTCTCTTTTC
1 TTTTTTCATTTTTTCATTTTTT-CTTTCTC-TTTC
* *
944289 TTTTTTC-TCTTTTC-TCTTTTCTTT-T-TTTC
1 TTTTTTCATTTTTTCATTTTTTCTTTCTCTTTC
944318 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
944332 TCTTTCACCA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
29 11 0.16
30 5 0.07
31 1 0.01
32 3 0.04
33 14 0.20
34 24 0.35
35 11 0.16
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTTTCATTTTTTCATTTTTTCTTTCTCTTTC
Found at i:944274 original size:41 final size:41
Alignment explanation
Indices: 944211--944291 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
944201 CTCATTTTAT
944211 TTTTTCTCTATTTTTTCATTTTTCATTTTTCTCTTTCTCTTTC
1 TTTTTCTCTATTTTTTCATTTTTCA-TTTTCTCTTT-TCTTTC
*
944254 TTTTT-TC-ATTTTTTCATTTTTTATTTTCTCTTTTCTTT
1 TTTTTCTCTATTTTTTCATTTTTCATTTTCTCTTTTCTTT
944292 TTTCTCTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
39 5 0.14
40 10 0.27
41 15 0.41
42 2 0.05
43 5 0.14
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (41 bp):
TTTTTCTCTATTTTTTCATTTTTCATTTTCTCTTTTCTTTC
Found at i:944309 original size:41 final size:41
Alignment explanation
Indices: 944223--944322 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
944213 TTTCTCTATT
* * *
944223 TTTTCATTTTTCATTTTTCTCTTTCTCTTTCTTTTTTCATT
1 TTTTCATTTTTTATTTTTCTCTTTCTCTTTCTCTTTTCATC
*
944264 TTTTCATTTTTTA-TTTTCTCTTTTCTTTTTTCTCTTTTC-TC
1 TTTTCATTTTTTATTTTTCTC-TTTC-TCTTTCTCTTTTCATC
* *
944305 TTTTCTTTTTTTCTTTTT
1 TTTTCATTTTTTATTTTT
944323 TCATTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.14
41 28 0.56
42 15 0.30
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (41 bp):
TTTTCATTTTTTATTTTTCTCTTTCTCTTTCTCTTTTCATC
Found at i:944353 original size:7 final size:7
Alignment explanation
Indices: 944222--944330 Score: 68
Period size: 7 Copynumber: 15.7 Consensus size: 7
944212 TTTTCTCTAT
944222 TTTTTCA
1 TTTTTCA
944229 TTTTTCA
1 TTTTTCA
944236 TTTTTC-
1 TTTTTCA
*
944242 TCTTTC-
1 TTTTTCA
* *
944248 TCTTTCT
1 TTTTTCA
944255 TTTTTCA
1 TTTTTCA
944262 TTTTTTCA
1 -TTTTTCA
*
944270 TTTTTTA
1 TTTTTCA
944277 -TTTTC-
1 TTTTTCA
*
944282 TCTTTTCT
1 T-TTTTCA
944290 TTTTTC-
1 TTTTTCA
944296 TCTTTTC-
1 T-TTTTCA
*
944303 TCTTTTCTT
1 T-TTTTC-A
*
944312 TTTTTCT
1 TTTTTCA
944319 TTTTTCA
1 TTTTTCA
944326 TTTTT
1 TTTTT
944331 TTCTTTCACC
Statistics
Matches: 88, Mismatches: 6, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
6 16 0.18
7 58 0.66
8 13 0.15
9 1 0.01
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:944364 original size:56 final size:57
Alignment explanation
Indices: 944227--944375 Score: 170
Period size: 56 Copynumber: 2.6 Consensus size: 57
944217 TCTATTTTTT
*
944227 CATTTTTCATTTTTCTCTTT-CTCTTTC-TTTTTTCATTTTTTCATTTTTTATTTTCT
1 CATTTTTCATTTTTCTCTTTCCT-TTTCTTTTTTTCATTTTTTCATTTTTTATTTTCC
*
944283 C--TTTTCTTTTTTCTCTTTTCTCTTTTCTTTTTTTC-TTTTTTCATTTTTT-TCTTTCAC
1 CATTTTTCATTTTTCTC-TTTC-CTTTTCTTTTTTTCATTTTTTCATTTTTTAT-TTTC-C
944340 CATTTTTCATTTTT-TCTTTCCTTTT-TATTTTTTCAT
1 CATTTTTCATTTTTCTCTTTCCTTTTCT-TTTTTTCAT
944376 CAGGCGAAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 19
0.78 0.03 0.19
Matches are distributed among these distances:
54 13 0.16
55 5 0.06
56 35 0.44
57 15 0.19
58 2 0.03
59 10 0.12
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (57 bp):
CATTTTTCATTTTTCTCTTTCCTTTTCTTTTTTTCATTTTTTCATTTTTTATTTTCC
Found at i:955833 original size:2 final size:2
Alignment explanation
Indices: 955826--955853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
955816 ATATTTACAG
955826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
955854 GCCGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:958254 original size:677 final size:677
Alignment explanation
Indices: 956962--958319 Score: 2653
Period size: 677 Copynumber: 2.0 Consensus size: 677
956952 CCCATATTGG
956962 TTAATATTGCAGGTACACCGAGGCAGTTTTTTCAAGCGTGTGTCTCATGTGTGCATAGCTGGAAC
1 TTAATATTGCAGGTACACCGAGGCAGTTTTTTCAAGCGTGTGTCTCATGTGTGCATAGCTGGAAC
957027 ATCAGATCACCATTATGATTCAATGGTTGTTCCTTAGGTGGCGCCTGGTAACACTTCCATAAACC
66 ATCAGATCACCATTATGATTCAATGGTTGTTCCTTAGGTGGCGCCTGGTAACACTTCCATAAACC
957092 CTAACGGGTTACAGGTTCTTCTTTGGTCATAATCTTCTGGACTGCTATCTGGATGGATCGCCCAG
131 CTAACGGGTTACAGGTTCTTCTTTGGTCATAATCTTCTGGACTGCTATCTGGATGGATCGCCCAG
957157 TTCCACCTTGAATTTGGCTACAATTCAATTGGGCCTACAATCAAATAATATGTGACAAATGAATA
196 TTCCACCTTGAATTTGGCTACAATTCAATTGGGCCTACAATCAAATAATATGTGACAAATGAATA
* * *
957222 ATACTACACTTAATCATATATATATATATATATATTTTTAAAAAAAATTCAAAACTGACACCATA
261 ATACTACACTTAATAATATATATATATATATATATATTTAAAAAAAAATCAAAACTGACACCATA
957287 CTATATTTTATTATCTTTCTAAACTACTATATTACTATATAATTATCATCAAATAACATAAAATA
326 CTATATTTTATTATCTTTCTAAACTACTATATTACTATATAATTATCATCAAATAACATAAAATA
957352 AAATAATATAATCAAAATAAAATTATAAGATAATAGCAAAAATCTTCGGACGAAAAGACGTGTCT
391 AAATAATATAATCAAAATAAAATTATAAGATAATAGCAAAAATCTTCGGACGAAAAGACGTGTCT
957417 ACACGAATAAAATAATCAAGAGAGGGTGAGTTGACTAATAAATTTCTTTTGTGGAAGCCTTAGAA
456 ACACGAATAAAATAATCAAGAGAGGGTGAGTTGACTAATAAATTTCTTTTGTGGAAGCCTTAGAA
957482 AATTAAAATTATTTACAAAAGAATTTATAGTGGTTCAATTTTCTCAATAAGATTTACACTCAATT
521 AATTAAAATTATTTACAAAAGAATTTATAGTGGTTCAATTTTCTCAATAAGATTTACACTCAATT
957547 GTAGCTATCCATACTAAGAATTTCTATAAAATTCACTAATTTGTATTCACACTTGAAGATAAGAT
586 GTAGCTATCCATACTAAGAATTTCTATAAAATTCACTAATTTGTATTCACACTTGAAGATAAGAT
957612 GTAACCTTACAAACTCACCCCAAAGTC
651 GTAACCTTACAAACTCACCCCAAAGTC
957639 TTAATATTGCAGGTACACCGAGGCAGTTTTTTCAAGCGTGTGTCTCATGTGTGCATAGCTGGAAC
1 TTAATATTGCAGGTACACCGAGGCAGTTTTTTCAAGCGTGTGTCTCATGTGTGCATAGCTGGAAC
957704 ATCAGATCACCATTATGATTCAATGGTTGTTCCTTAGGTGGCGCCTGGTAACACTTCCATAAACC
66 ATCAGATCACCATTATGATTCAATGGTTGTTCCTTAGGTGGCGCCTGGTAACACTTCCATAAACC
*
957769 CTAACGGGTTACAGGTTCTTCTTTGGTCCTAATCTTCTGGACTGCTATCTGGATGGATCGCCCAG
131 CTAACGGGTTACAGGTTCTTCTTTGGTCATAATCTTCTGGACTGCTATCTGGATGGATCGCCCAG
957834 TTCCACCTTGAATTTGGCTACAATTCAATTGGGCCTACAATCAAATAATATGTGACAAATGAATA
196 TTCCACCTTGAATTTGGCTACAATTCAATTGGGCCTACAATCAAATAATATGTGACAAATGAATA
957899 ATACTACACTTAATAATATATATATATATATATATATTTAAAAAAAAATCAAAACTGACACCATA
261 ATACTACACTTAATAATATATATATATATATATATATTTAAAAAAAAATCAAAACTGACACCATA
957964 CTATATTTTATTATCTTTCTAAACTACTATATTACTATATAATTATCATCAAATAACATAAAATA
326 CTATATTTTATTATCTTTCTAAACTACTATATTACTATATAATTATCATCAAATAACATAAAATA
958029 AAATAATATAATCAAAATAAAATTATAAGATAATAGCAAAAATCTTCGGACGAAAAGACGTGTCT
391 AAATAATATAATCAAAATAAAATTATAAGATAATAGCAAAAATCTTCGGACGAAAAGACGTGTCT
958094 ACACGAATAAAATAATCAAGAGAGGGTGAGTTGACTAATAAATTTCTTTTGTGGAAGCCTTAGAA
456 ACACGAATAAAATAATCAAGAGAGGGTGAGTTGACTAATAAATTTCTTTTGTGGAAGCCTTAGAA
958159 AATTAAAATTATTTACAAAAGAATTTATAGTGGTTCAATTTTCTCAATAAGATTTACACTCAATT
521 AATTAAAATTATTTACAAAAGAATTTATAGTGGTTCAATTTTCTCAATAAGATTTACACTCAATT
*
958224 GTAGCTATCCATACTAAGAATTTCTATAAAATTCACTAATTTGTATTCACACTTGAGGATAAGAT
586 GTAGCTATCCATACTAAGAATTTCTATAAAATTCACTAATTTGTATTCACACTTGAAGATAAGAT
* *
958289 GTAACCTTACAAGCTCACCCCAAAGTG
651 GTAACCTTACAAACTCACCCCAAAGTC
958316 TTAA
1 TTAA
958320 GACTTTCAAA
Statistics
Matches: 674, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
677 674 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (677 bp):
TTAATATTGCAGGTACACCGAGGCAGTTTTTTCAAGCGTGTGTCTCATGTGTGCATAGCTGGAAC
ATCAGATCACCATTATGATTCAATGGTTGTTCCTTAGGTGGCGCCTGGTAACACTTCCATAAACC
CTAACGGGTTACAGGTTCTTCTTTGGTCATAATCTTCTGGACTGCTATCTGGATGGATCGCCCAG
TTCCACCTTGAATTTGGCTACAATTCAATTGGGCCTACAATCAAATAATATGTGACAAATGAATA
ATACTACACTTAATAATATATATATATATATATATATTTAAAAAAAAATCAAAACTGACACCATA
CTATATTTTATTATCTTTCTAAACTACTATATTACTATATAATTATCATCAAATAACATAAAATA
AAATAATATAATCAAAATAAAATTATAAGATAATAGCAAAAATCTTCGGACGAAAAGACGTGTCT
ACACGAATAAAATAATCAAGAGAGGGTGAGTTGACTAATAAATTTCTTTTGTGGAAGCCTTAGAA
AATTAAAATTATTTACAAAAGAATTTATAGTGGTTCAATTTTCTCAATAAGATTTACACTCAATT
GTAGCTATCCATACTAAGAATTTCTATAAAATTCACTAATTTGTATTCACACTTGAAGATAAGAT
GTAACCTTACAAACTCACCCCAAAGTC
Found at i:959310 original size:64 final size:64
Alignment explanation
Indices: 959214--959334 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
959204 ATACATTATT
*
959214 TATTTAACTTTGAATACTAAAAGATAATTATAT-TCTTTTAAATATTTTAAATTAAAATAATATC
1 TATTTAACTTTGAATACTAAAAGATAATTATATCT-TTTTAAATATTTCAAATTAAAATAATATC
* * * * *
959278 TATTTAAGTTTGGATAGTAAAAGAT-GTGTATATCTTTTTGAATATTTCAAATTAAAA
1 TATTTAACTTTGAATACTAAAAGATAAT-TATATCTTTTTAAATATTTCAAATTAAAA
959335 GAAATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.02
64 47 0.96
65 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (64 bp):
TATTTAACTTTGAATACTAAAAGATAATTATATCTTTTTAAATATTTCAAATTAAAATAATATC
Found at i:967420 original size:58 final size:57
Alignment explanation
Indices: 967330--967477 Score: 158
Period size: 58 Copynumber: 2.6 Consensus size: 57
967320 ATCGGGAGAC
* * * *
967330 ATTTTGGGAATTAATTC-AAAATAAGTGCTATTTA-AGGAA-TTAATTTGAAATGGGTGTT
1 ATTTTGGGAATTAATTCGAAAA-AGGTGCTATTTAGA-GAATTTAATTCGAAA--AGTGCT
* *
967388 ATTTTGGGAATTAATTCGAAAAAGGTGTTATTTTGAGAATTTAATTCGAAAAGTGCT
1 ATTTTGGGAATTAATTCGAAAAAGGTGCTATTTAGAGAATTTAATTCGAAAAGTGCT
* *
967445 ATTTTGAGAATTTAATTTGAAAAAGGTGCTATT
1 ATTTTGGGAA-TTAATTCGAAAAAGGTGCTATT
967478 ATGGTATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
57 13 0.17
58 49 0.64
59 15 0.19
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (57 bp):
ATTTTGGGAATTAATTCGAAAAAGGTGCTATTTAGAGAATTTAATTCGAAAAGTGCT
Found at i:967487 original size:29 final size:30
Alignment explanation
Indices: 967330--967477 Score: 139
Period size: 29 Copynumber: 5.1 Consensus size: 30
967320 ATCGGGAGAC
* *
967330 ATTTTGGGAA-TTAATTC-AAAATAAGTGCT
1 ATTTTGAGAATTTAATTCGAAAA-AGGTGCT
* * ** *
967359 A-TTTAAGGAA-TTAATTTGAAATGGGTGTT
1 ATTTTGA-GAATTTAATTCGAAAAAGGTGCT
* *
967388 ATTTTGGGAA-TTAATTCGAAAAAGGTGTT
1 ATTTTGAGAATTTAATTCGAAAAAGGTGCT
967417 ATTTTGAGAATTTAATTCG-AAAA-GTGCT
1 ATTTTGAGAATTTAATTCGAAAAAGGTGCT
*
967445 ATTTTGAGAATTTAATTTGAAAAAGGTGCT
1 ATTTTGAGAATTTAATTCGAAAAAGGTGCT
967475 ATT
1 ATT
967478 ATGGTATTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
28 25 0.26
29 51 0.52
30 22 0.22
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (30 bp):
ATTTTGAGAATTTAATTCGAAAAAGGTGCT
Found at i:974616 original size:13 final size:13
Alignment explanation
Indices: 974598--974623 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974588 TTGACCGATT
974598 TTGACCCGACCCG
1 TTGACCCGACCCG
974611 TTGACCCGACCCG
1 TTGACCCGACCCG
974624 ACCGTTGACC
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:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
TTGACCCGACCCG
Found at i:974630 original size:17 final size:18
Alignment explanation
Indices: 974600--974633 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
974590 GACCGATTTT
974600 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
974618 GACCCGA-CCGTTGACC
1 GACCCGACCCGTTGACC
974634 GTTGACTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:974735 original size:57 final size:60
Alignment explanation
Indices: 974642--974780 Score: 205
Period size: 57 Copynumber: 2.4 Consensus size: 60
974632 CCGTTGACTG
*
974642 GGTGATATTTTGGGAA-TTAATTCGAAATGGATGCTATTTTGGGAA-TTAATTCGAAAAA
1 GGTGATATTTTGGGAATTTAATTCGAAAAGGATGCTATTTTGGGAATTTAATTCGAAAAA
* * * *
974700 -GTGCTATTTTGGAAATTTAATTTGAAAAGG-TGCTATTTTGGGAATTTAATTTGAAAAA
1 GGTGATATTTTGGGAATTTAATTCGAAAAGGATGCTATTTTGGGAATTTAATTCGAAAAA
974758 GGTGATATTTTGGGAATTTAATT
1 GGTGATATTTTGGGAATTTAATT
974781 AAAAAAAAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
57 27 0.38
58 24 0.34
59 20 0.28
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (60 bp):
GGTGATATTTTGGGAATTTAATTCGAAAAGGATGCTATTTTGGGAATTTAATTCGAAAAA
Found at i:974760 original size:30 final size:29
Alignment explanation
Indices: 974642--974826 Score: 189
Period size: 29 Copynumber: 6.3 Consensus size: 29
974632 CCGTTGACTG
* * *
974642 GGTGATATTTTGGGAATTAATTCG-AAAT
1 GGTGCTATTTTGGGAATTAATTTGAAAAA
*
974670 GGATGCTATTTTGGGAATTAATTCGAAAAA
1 GG-TGCTATTTTGGGAATTAATTTGAAAAA
*
974700 -GTGCTATTTTGGAAATTTAATTTG-AAAA
1 GGTGCTATTTTGGGAA-TTAATTTGAAAAA
974728 GGTGCTATTTTGGGAATTTAATTTGAAAAA
1 GGTGCTATTTTGGGAA-TTAATTTGAAAAA
* **
974758 GGTGATATTTTGGGAATTTAATTAAAAAAA
1 GGTGCTATTTTGGGAA-TTAATTTGAAAAA
* * * *
974788 AGTACTATTTTGGTAATT-ATTTTAAAAA
1 GGTGCTATTTTGGGAATTAATTTGAAAAA
974816 GGGTGCTATTT
1 -GGTGCTATTT
974827 CTGTAAAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.20
29 62 0.46
30 46 0.34
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTTGAAAAA
Found at i:974814 original size:29 final size:30
Alignment explanation
Indices: 974675--974815 Score: 130
Period size: 30 Copynumber: 4.8 Consensus size: 30
974665 GAAATGGATG
** *
974675 CTATTTTGGGAA-TTAA-TTCGAAAAAGTG
1 CTATTTTGGGAATTTAATTTAAAAAAAGTA
* * * *
974703 CTATTTTGGAAATTTAATTT-GAAAAGGTG
1 CTATTTTGGGAATTTAATTTAAAAAAAGTA
* *
974732 CTATTTTGGGAATTTAATTTGAAAAAGGTGA
1 CTATTTTGGGAATTTAATTTAAAAAAAGT-A
*
974763 -TATTTTGGGAATTTAATTAAAAAAAAGTA
1 CTATTTTGGGAATTTAATTTAAAAAAAGTA
* *
974792 CTATTTTGGTAA-TTATTTTAAAAA
1 CTATTTTGGGAATTTAATTTAAAAA
974816 GGGTGCTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
28 11 0.11
29 42 0.43
30 44 0.45
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (30 bp):
CTATTTTGGGAATTTAATTTAAAAAAAGTA
Found at i:974826 original size:59 final size:58
Alignment explanation
Indices: 974675--974826 Score: 182
Period size: 59 Copynumber: 2.6 Consensus size: 58
974665 GAAATGGATG
* ** * *
974675 CTATTTTGGGAATTAATTCGAAAAA-GTGCTATTTTGGAAATTTAATTTGAAAAGGTG
1 CTATTTTGGGAATTAATTTGAAAAAGGTGCTATTTTGGAAATTTAATTAAAAAAAGTA
* *
974732 CTATTTTGGGAATTTAATTTGAAAAAGGTGATATTTTGGGAATTTAATTAAAAAAAAGTA
1 CTATTTTGGGAA-TTAATTTGAAAAAGGTGCTATTTTGGAAATTTAATT-AAAAAAAGTA
* *
974792 CTATTTTGGTAATT-ATTTTAAAAAGGGTGCTATTT
1 CTATTTTGGGAATTAATTTGAAAAA-GGTGCTATTT
974827 CTGTAAAATG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
57 12 0.15
58 21 0.26
59 31 0.38
60 17 0.21
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (58 bp):
CTATTTTGGGAATTAATTTGAAAAAGGTGCTATTTTGGAAATTTAATTAAAAAAAGTA
Found at i:977165 original size:23 final size:23
Alignment explanation
Indices: 977110--977155 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
977100 AATTCATCTT
977110 TGAGATTGTTCCTTCCGTTTCAA
1 TGAGATTGTTCCTTCCGTTTCAA
977133 TGAGATTGTTCCTTCCGTTTCAA
1 TGAGATTGTTCCTTCCGTTTCAA
977156 CTAGTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (23 bp):
TGAGATTGTTCCTTCCGTTTCAA
Found at i:978448 original size:2 final size:2
Alignment explanation
Indices: 978443--978648 Score: 118
Period size: 2 Copynumber: 107.0 Consensus size: 2
978433 TTAAAAAAAT
* * *
978443 TA TA TA T- TA TA -A TA TA TA TT TA CA TA T- TA TA CA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
978483 T- TA TT TA TA TA T- TA TA GTA TA TT TA T- TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
978522 TA TT TG TA TA T- TA TA GTA TA TA TA TA TA TA T- TA TG TA T- TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
978562 CA TA TA -A TA TA -A TA TT TA TA TT TA TA TA T- TA TA TG TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
978602 TA CCA TA TA TA TT TA TCA TA TA T- TA TA TA TA -A TA GTA TA TA
1 TA -TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA
978643 TA TA TA
1 TA TA TA
978649 CATTGCTAAT
Statistics
Matches: 155, Mismatches: 27, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
1 15 0.10
2 127 0.82
3 13 0.08
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:978526 original size:38 final size:38
Alignment explanation
Indices: 978467--978595 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 38
978457 TATATTTACA
* *
978467 TATTATACATAGTATATTATTTATATATTATAGTATATT
1 TATTATATATATTATA-TATTTATATATTATAGTATATT
*
978506 TATTATATATATTATATATTTGTATATTATAGTATA--
1 TATTATATATATTATATATTTATATATTATAGTATATT
* * *
978542 TA-TATATATATTATGTA-TTACATATAATA-TAATATT
1 TATTATATATATTATATATTTATATATTATAGT-ATATT
*
978578 TATATTTATATATTATAT
1 TAT-TATATATATTATAT
978596 GTAGTATACC
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
33 1 0.01
34 12 0.16
35 14 0.18
36 4 0.05
38 31 0.41
39 14 0.18
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TATTATATATATTATATATTTATATATTATAGTATATT
Found at i:978572 original size:58 final size:56
Alignment explanation
Indices: 978450--978614 Score: 163
Period size: 58 Copynumber: 2.8 Consensus size: 56
978440 AATTATATAT
* * * * **
978450 TATAATATATATTTACATATTATA-CATAGTATATTATTTATATATTATAGTATATT
1 TATAATATATATTTATATTTTATATTATAGTATA-TATATATATATTATAGTATACA
*
978506 TATTATATATATTATATATTTGTATATTATAGTATATATATATATATTAT-GTATTACA
1 TATAATATATATT-TATATTT-TATATTATAGTATATATATATATATTATAGTA-TACA
*
978564 TATAATATAATATTTATATTTATATATTATATGTAGTATACCATATATATT
1 TATAATAT-ATATTTATATTT-TATATTATA-GTA-TATA-TATATATATT
978615 TATCATATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
56 12 0.13
57 8 0.09
58 42 0.46
59 16 0.18
60 4 0.04
61 9 0.10
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (56 bp):
TATAATATATATTTATATTTTATATTATAGTATATATATATATATTATAGTATACA
Found at i:978630 original size:58 final size:59
Alignment explanation
Indices: 978488--978648 Score: 147
Period size: 58 Copynumber: 2.8 Consensus size: 59
978478 GTATATTATT
** * *
978488 TATATATTATAGTAT-ATTTATTATAT-ATATTATATATTTGTATATTATAGTATATATA
1 TATATATTAT-GTATCACATATTATATAATATTATATATTTATATATTATAGTATATACA
* *
978546 TATATATTATGTATTACATATAATATAATATT-TATATTTATATATTATATGTAGTATACCA
1 TATATATTATGTATCACATATTATATAATATTATATATTTATATATTATA-GTA-TATA-CA
* * *
978607 TATATA-T-T-TATCATATATTATAT-ATAATAGTATATATATATA
1 TATATATTATGTATCACATATTATATAATATTA-TATATTTATATA
978649 CATTGCTAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
57 8 0.09
58 46 0.53
59 20 0.23
60 5 0.06
61 7 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
TATATATTATGTATCACATATTATATAATATTATATATTTATATATTATAGTATATACA
Found at i:981266 original size:20 final size:21
Alignment explanation
Indices: 981221--981273 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
981211 AAAATGCCTC
*
981221 AGTATTGATAC-TGACCCTTTG
1 AGTATTGATACTTGACCC-TAG
981242 AGTATTGATACTTGACCC-AG
1 AGTATTGATACTTGACCCTAG
*
981262 AGTATCGATACT
1 AGTATTGATACT
981274 CCTTGAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.41
21 11 0.38
22 6 0.21
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
AGTATTGATACTTGACCCTAG
Found at i:991765 original size:157 final size:158
Alignment explanation
Indices: 991479--991793 Score: 623
Period size: 157 Copynumber: 2.0 Consensus size: 158
991469 AGCTATGTTT
991479 GAAAGTCATGAGCTAATTATATCACCTCAAAATATGTGTAAGATAATGCATGAAGCTTAAGAGCT
1 GAAAGTCATGAGCTAATTATATCACCTCAAAATATGTGTAAGATAATGCATGAAGCTTAAGAGCT
991544 AATATGAATGCATATGAACTAATGAAATGAATTATAATGATGTTGCCTTGATGTATATATGATAA
66 AATATGAATGCATATGAACTAATGAAATGAATTATAATGATGTTGCCTTGATGTATATATGATAA
991609 TCATGCTTAATATGA-TATAAGACTATC
131 TCATGCTTAATATGATTATAAGACTATC
991636 GAAAGTCATGAGCTAATTATATCACCTCAAAATATGTGTAAGATAATGCATGAAGCTTAAGAGCT
1 GAAAGTCATGAGCTAATTATATCACCTCAAAATATGTGTAAGATAATGCATGAAGCTTAAGAGCT
991701 AATATGAATGCATATGAACTAATGAAATGAATTATAATGATGTTGCCTTGATGTATATATGATAA
66 AATATGAATGCATATGAACTAATGAAATGAATTATAATGATGTTGCCTTGATGTATATATGATAA
991766 TCATGCTTAATATGATTATAAGACTATC
131 TCATGCTTAATATGATTATAAGACTATC
991794 CTAACATGCT
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 145 0.92
158 12 0.08
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.33
Consensus pattern (158 bp):
GAAAGTCATGAGCTAATTATATCACCTCAAAATATGTGTAAGATAATGCATGAAGCTTAAGAGCT
AATATGAATGCATATGAACTAATGAAATGAATTATAATGATGTTGCCTTGATGTATATATGATAA
TCATGCTTAATATGATTATAAGACTATC
Found at i:993886 original size:210 final size:210
Alignment explanation
Indices: 993524--993954 Score: 709
Period size: 210 Copynumber: 2.1 Consensus size: 210
993514 TGTTTTGTAT
* * *
993524 AAGTATGTGTGATTCGAGATTATACGGGGTTTGGTTGGTACATTGAGCTTTGCTTTGAGAATATA
1 AAGTATGTGTGATTCGAGATTATACGGGGTTTAGTTGGTACATTGAGCTTTGCTCTGAGAAGATA
* * *
993589 CGAGGTTTGGTTGGGTGTAGAGCTTTGTTTTGCAATTTATGGTTTTGGACCTATGTGAGTTCGTA
66 CGAGGTTTGGTTGGGTGTAGAGCTTTGCTATGCAATTCATGGTTTTGGACCTATGTGAGTTCGTA
* * *
993654 AATAAAATGGGAGTTGTATGGAGTCTGTTTATCCAATGAGTGAGTTGTGTTTCAAACAAAGGTCA
131 AATAAAATGGGAGTTGTATGGAGTCCGTTTATCCAATGAGTGAGTTGTGTTTCAAAAAAAGGCCA
993719 TTAAACTTAAAATGA
196 TTAAACTTAAAATGA
* * *
993734 AAGTATGTGTGATTCGAGATTTTACGGGGTTTAGTTGGTACGTTGAGCTTTGCTCTGGGAAGATA
1 AAGTATGTGTGATTCGAGATTATACGGGGTTTAGTTGGTACATTGAGCTTTGCTCTGAGAAGATA
* * *
993799 CGGGGTTTGGTTGGGTGTAGAGCTTTGCTATGTAATTCGTGGTTTTGGACCTATGTGAGTTCGTA
66 CGAGGTTTGGTTGGGTGTAGAGCTTTGCTATGCAATTCATGGTTTTGGACCTATGTGAGTTCGTA
993864 AATAAAATGGGAGTTGTATGGAGTCCGTTTATCCAATGAGTGAGTTGTGTTTCAAAAAAAGGCCA
131 AATAAAATGGGAGTTGTATGGAGTCCGTTTATCCAATGAGTGAGTTGTGTTTCAAAAAAAGGCCA
* *
993929 TTAATCTTTAAATGA
196 TTAAACTTAAAATGA
993944 AAGTATGTGTG
1 AAGTATGTGTG
993955 TTTTGTGTGT
Statistics
Matches: 204, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
210 204 1.00
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (210 bp):
AAGTATGTGTGATTCGAGATTATACGGGGTTTAGTTGGTACATTGAGCTTTGCTCTGAGAAGATA
CGAGGTTTGGTTGGGTGTAGAGCTTTGCTATGCAATTCATGGTTTTGGACCTATGTGAGTTCGTA
AATAAAATGGGAGTTGTATGGAGTCCGTTTATCCAATGAGTGAGTTGTGTTTCAAAAAAAGGCCA
TTAAACTTAAAATGA
Found at i:995981 original size:22 final size:22
Alignment explanation
Indices: 995954--996006 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
995944 TGAAGGAGAT
995954 GAAGACAAAATAAGAGAAAGAA
1 GAAGACAAAATAAGAGAAAGAA
995976 GAAGACAAAATAAGAGAAAGAA
1 GAAGACAAAATAAGAGAAAGAA
995998 GAAGACAAA
1 GAAGACAAA
996007 TAGTGAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.68, C:0.06, G:0.23, T:0.04
Consensus pattern (22 bp):
GAAGACAAAATAAGAGAAAGAA
Found at i:1013147 original size:20 final size:21
Alignment explanation
Indices: 1013108--1013148 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1013098 TTTTGTTCAT
1013108 TTTAAAACAATTCATTATTAAC
1 TTTAAAACAATT-ATTATTAAC
*
1013130 TTTAAAACTATT-TTATTAA
1 TTTAAAACAATTATTATTAA
1013149 TGAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAAACAATTATTATTAAC
Found at i:1019031 original size:143 final size:144
Alignment explanation
Indices: 1018773--1019060 Score: 569
Period size: 143 Copynumber: 2.0 Consensus size: 144
1018763 AAAAAATGAC
1018773 AAGATTGTAATTTTGAGATTTTTCAAGGGCAAAGTTGGTATCTACTAACTCCTTGTAATAATTAT
1 AAGATTGTAATTTTGAGATTTTTCAAGGGCAAAGTTGGTATCTACTAACTCCTTGTAATAATTAT
1018838 ATATTTTAGATGAAAATTTTGTCATGTGGTAGGATGATGAATAATGGATTTTAAGGG-AAATGGT
66 ATATTTTAGATGAAAATTTTGTCATGTGGTAGGATGATGAATAATGGATTTTAAGGGAAAATGGT
1018902 TAATTTGTAATAAA
131 TAATTTGTAATAAA
1018916 AAGATTGTAATTTTGAGATTTTTCAAGGGCAAAGTTGGTATCTACTAACTCCTTGTAATAATTAT
1 AAGATTGTAATTTTGAGATTTTTCAAGGGCAAAGTTGGTATCTACTAACTCCTTGTAATAATTAT
1018981 ATATTTTAGATGAAAATTTTGTCATGTGGTAGGATGATGAATAATGGATTTTAAGGGAAAATGGT
66 ATATTTTAGATGAAAATTTTGTCATGTGGTAGGATGATGAATAATGGATTTTAAGGGAAAATGGT
1019046 TAATTTGTAATAAA
131 TAATTTGTAATAAA
1019060 A
1 A
1019061 TGAATTTTTA
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 122 0.85
144 22 0.15
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (144 bp):
AAGATTGTAATTTTGAGATTTTTCAAGGGCAAAGTTGGTATCTACTAACTCCTTGTAATAATTAT
ATATTTTAGATGAAAATTTTGTCATGTGGTAGGATGATGAATAATGGATTTTAAGGGAAAATGGT
TAATTTGTAATAAA
Found at i:1021304 original size:57 final size:57
Alignment explanation
Indices: 1021216--1021330 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
1021206 ACTCACGTTC
*
1021216 AGACATGCCTTGTTTTGGGAACAAAAATGCATCCCAACTTTACCCATTCATCCTACT
1 AGACATACCTTGTTTTGGGAACAAAAATGCATCCCAACTTTACCCATTCATCCTACT
* *
1021273 AGACATACCTTGTTTTGGGTACTAAAATGCATCCCAACTTTACCCATTCATCCTACT
1 AGACATACCTTGTTTTGGGAACAAAAATGCATCCCAACTTTACCCATTCATCCTACT
1021330 A
1 A
1021331 AGGCTAGTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (57 bp):
AGACATACCTTGTTTTGGGAACAAAAATGCATCCCAACTTTACCCATTCATCCTACT
Found at i:1036927 original size:21 final size:21
Alignment explanation
Indices: 1036902--1036968 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
1036892 AAAATGCCCT
1036902 AAATGCAACTATATGCAGCTA
1 AAATGCAACTATATGCAGCTA
* *
1036923 AAATGCAA-TGAAATGC-CCT-
1 AAATGCAACT-ATATGCAGCTA
* *
1036942 AAATGTAACTATATGCAGTTA
1 AAATGCAACTATATGCAGCTA
1036963 AAATGC
1 AAATGC
1036969 TTATCACAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 12 0.34
20 5 0.14
21 18 0.51
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (21 bp):
AAATGCAACTATATGCAGCTA
Found at i:1036952 original size:40 final size:40
Alignment explanation
Indices: 1036893--1036968 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
1036883 ATAGCCGCTA
1036893 AAATGCCCTAAATGCAACTATATGCAGCTAAAATGCAATG
1 AAATGCCCTAAATGCAACTATATGCAGCTAAAATGCAATG
* *
1036933 AAATGCCCTAAATGTAACTATATGCAGTTAAAATGC
1 AAATGCCCTAAATGCAACTATATGCAGCTAAAATGC
1036969 TTATCACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (40 bp):
AAATGCCCTAAATGCAACTATATGCAGCTAAAATGCAATG
Found at i:1036957 original size:19 final size:19
Alignment explanation
Indices: 1036895--1036957 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
1036885 AGCCGCTAAA
1036895 ATGCCCTAAATGCAACTAT
1 ATGCCCTAAATGCAACTAT
* *
1036914 ATGCAGCTAAAATGCAA-TGAA
1 ATGC-CCT-AAATGCAACT-AT
*
1036935 ATGCCCTAAATGTAACTAT
1 ATGCCCTAAATGCAACTAT
1036954 ATGC
1 ATGC
1036958 AGTTAAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (19 bp):
ATGCCCTAAATGCAACTAT
Found at i:1037481 original size:3 final size:3
Alignment explanation
Indices: 1037466--1037524 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
1037456 TTGATTATTG
* * *
1037466 TAT TAT TAA TAT TAT TAA TAT TAC TAT T-T TAT TAT TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1037511 TAA TAT ATAT TAT T
1 TAT TAT -TAT TAT T
1037525 TAATTAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1042651 original size:34 final size:34
Alignment explanation
Indices: 1042608--1042673 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
1042598 GTCCCTCCTC
1042608 TTTCCTCACATTTAGATATGCTGCAAGATAAACT
1 TTTCCTCACATTTAGATATGCTGCAAGATAAACT
* *
1042642 TTTCCTCACATTTAGATATGTTGCATGATAAA
1 TTTCCTCACATTTAGATATGCTGCAAGATAAA
1042674 TTATGTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (34 bp):
TTTCCTCACATTTAGATATGCTGCAAGATAAACT
Found at i:1043667 original size:17 final size:18
Alignment explanation
Indices: 1043612--1043665 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
1043602 AACCGAAACC
1043612 GGTTTTCGGTTCGGTTCG
1 GGTTTTCGGTTCGGTTCG
*
1043630 GGTTTT---TTAACAGTTCG
1 GGTTTTCGGTT--CGGTTCG
1043647 GGTTTTCGGTTCGGTTCG
1 GGTTTTCGGTTCGGTTCG
1043665 G
1 G
1043666 TTCGGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.07
17 12 0.41
18 13 0.45
20 2 0.07
ACGTcount: A:0.06, C:0.15, G:0.35, T:0.44
Consensus pattern (18 bp):
GGTTTTCGGTTCGGTTCG
Found at i:1048477 original size:22 final size:19
Alignment explanation
Indices: 1048452--1048503 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
1048442 CTTGGGGTAT
*
1048452 TATCGATACCCACTTATAGAAG
1 TATCGATACCC-CATA-AG-AG
1048474 TATCGATACTCCCATAAGAG
1 TATCGATAC-CCCATAAGAG
1048494 TATCGATACC
1 TATCGATACC
1048504 GAAGGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 2 0.07
22 12 0.43
23 2 0.07
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (19 bp):
TATCGATACCCCATAAGAG
Found at i:1054091 original size:2 final size:2
Alignment explanation
Indices: 1054041--1054074 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1054031 GGACATGTTG
1054041 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
1054075 GGATACTTTA
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:1062446 original size:3 final size:3
Alignment explanation
Indices: 1062438--1062540 Score: 99
Period size: 3 Copynumber: 35.0 Consensus size: 3
1062428 GCCTGTTTTG
* * *
1062438 TAA TAA TAA TATT TAT TAA TAA TAA AAA TAAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1062484 TAA TAA TAA TAA TAA TAA -ACA -AA TAA -AA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
1062526 TAA TAG TAA AAA TAA
1 TAA TAA TAA TAA TAA
1062541 AACAAATTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
2 8 0.09
3 72 0.85
4 5 0.06
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1062501 original size:33 final size:33
Alignment explanation
Indices: 1062438--1062540 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 33
1062428 GCCTGTTTTG
* * *
1062438 TAATAATAAT-ATTTATTAATAATAAAAATAAA
1 TAATAATAATAATATAATAATAATAATAATAAA
1062470 TAATAATAATAATATAATAATAATAATAATAAA
1 TAATAATAATAATATAATAATAATAATAATAAA
* * *
1062503 CAAATAA-AATAAAATAATAATAATAATAGTAAA
1 -TAATAATAATAATATAATAATAATAATAATAAA
1062536 -AATAA
1 TAATAA
1062541 AACAAATTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
31 5 0.08
32 10 0.16
33 43 0.68
34 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (33 bp):
TAATAATAATAATATAATAATAATAATAATAAA
Found at i:1062650 original size:29 final size:29
Alignment explanation
Indices: 1062594--1062650 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1062584 AATCACTCTA
*
1062594 ATATATTTTATTAATAATTTTTTGATATG
1 ATATATTTTATTAATAATTTTTTAATATG
* *
1062623 ATATTTTTTATT-ATTATTTTATTAATAT
1 ATATATTTTATTAATAATTTT-TTAATAT
1062651 ATAATTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (29 bp):
ATATATTTTATTAATAATTTTTTAATATG
Found at i:1063726 original size:2 final size:2
Alignment explanation
Indices: 1063721--1063766 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
1063711 TATAATCATA
* * * *
1063721 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT GT 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
1063763 AT AT
1 AT AT
1063767 TTCATATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1063780 original size:20 final size:19
Alignment explanation
Indices: 1063752--1063792 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1063742 TGTATGTATG
* *
1063752 TATGTATATATATATTTCA
1 TATGTATATACATATATCA
1063771 TATGTGATATACATATATCA
1 TATGT-ATATACATATATCA
1063791 TA
1 TA
1063793 CAAATTCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (19 bp):
TATGTATATACATATATCA
Found at i:1067963 original size:82 final size:83
Alignment explanation
Indices: 1067825--1067977 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 83
1067815 CTTGGGCATC
* * *
1067825 GATACCAAAAATAGCTTCGATGTTTGGGAAAAACCATCAGTATCGATACTCTTAT-GGGAGTACC
1 GATACCAAAAATAACTTCGATGTTTGGGAAAAACCATCAATATCGATACTCCTATGGGGAGTACC
1067889 GATACTACCCCAAGTGTT
66 GATACTACCCCAAGTGTT
* *
1067907 GATACCAAAAATAACTTTGATGTTT-TGAATAATACC-TCAATATCGATAAC-CCTATGGGGAGT
1 GATACCAAAAATAACTTCGATGTTTGGGAA-AA-ACCATCAATATCGAT-ACTCCTATGGGGAGT
*
1067969 ATCGATACT
63 ACCGATACT
1067978 CTACCCTTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
81 3 0.05
82 39 0.64
83 19 0.31
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (83 bp):
GATACCAAAAATAACTTCGATGTTTGGGAAAAACCATCAATATCGATACTCCTATGGGGAGTACC
GATACTACCCCAAGTGTT
Found at i:1071561 original size:28 final size:28
Alignment explanation
Indices: 1071526--1071579 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1071516 AATCAAACTA
*
1071526 ACCGATAATATCATTAAGATATTCTAAT
1 ACCGATAATATCAGTAAGATATTCTAAT
1071554 ACCGATAATATCAGTAAGATATTCTA
1 ACCGATAATATCAGTAAGATATTCTA
1071580 TCTTTAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (28 bp):
ACCGATAATATCAGTAAGATATTCTAAT
Found at i:1074606 original size:2 final size:2
Alignment explanation
Indices: 1074599--1074661 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
1074589 TTTAAAAATA
1074599 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
1074641 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1074662 CTATTAATTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1075288 original size:34 final size:34
Alignment explanation
Indices: 1075243--1075327 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
1075233 GCCCAATAAG
* * *
1075243 CACTCGAGGTGCTATCAACGTAA-ACAAAAATATA
1 CACTCCAGGTGCAATCAAC-AAATACAAAAATATA
* * *
1075277 CACTCCTGGTGCAATCATCAAATACAAAAATATG
1 CACTCCAGGTGCAATCAACAAATACAAAAATATA
1075311 CACTCCAGGTGCAATCA
1 CACTCCAGGTGCAATCA
1075328 TATAATGTGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (34 bp):
CACTCCAGGTGCAATCAACAAATACAAAAATATA
Found at i:1078374 original size:11 final size:12
Alignment explanation
Indices: 1078347--1078382 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1078337 TCCCACCTCC
1078347 TTCTTTTCTTCA
1 TTCTTTTCTTCA
*
1078359 TTCTTTT-TTTA
1 TTCTTTTCTTCA
1078370 TTCTTTTCTTCA
1 TTCTTTTCTTCA
1078382 T
1 T
1078383 CATCTTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.72
Consensus pattern (12 bp):
TTCTTTTCTTCA
Found at i:1081975 original size:20 final size:20
Alignment explanation
Indices: 1081952--1082000 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1081942 CGATATTAAT
1081952 ACCAGTCCTTC-GCTACAGAG
1 ACCAGTCCTTCAG-TACAGAG
* **
1081972 ACCAGTTCTTCAGTATGGAG
1 ACCAGTCCTTCAGTACAGAG
1081992 ACCAGTCCT
1 ACCAGTCCT
1082001 GCGGTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (20 bp):
ACCAGTCCTTCAGTACAGAG
Found at i:1082007 original size:20 final size:20
Alignment explanation
Indices: 1081968--1082013 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1081958 CCTTCGCTAC
* *
1081968 AGAGACCAGTTCTTCAGTAT
1 AGAGACCAGTCCTGCAGTAT
* *
1081988 GGAGACCAGTCCTGCGGTAT
1 AGAGACCAGTCCTGCAGTAT
1082008 AGAGAC
1 AGAGAC
1082014 TCGTTCTTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (20 bp):
AGAGACCAGTCCTGCAGTAT
Found at i:1082075 original size:20 final size:20
Alignment explanation
Indices: 1082050--1082089 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1082040 GTCTCGAGAT
*
1082050 CGAGCATCCAATCTTGATAC
1 CGAGCATCCAATATTGATAC
*
1082070 CGAGCATCCATTATTGATAC
1 CGAGCATCCAATATTGATAC
1082090 TATAACCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
CGAGCATCCAATATTGATAC
Found at i:1084866 original size:10 final size:9
Alignment explanation
Indices: 1084822--1084903 Score: 56
Period size: 10 Copynumber: 8.4 Consensus size: 9
1084812 GCTACTGGAA
1084822 ACCGGTTTG
1 ACCGGTTTG
*
1084831 ACCGGTTTTCA
1 ACCGG-TTT-G
*
1084842 ACTGGGTTTG
1 AC-CGGTTTG
1084852 ACCGGTTTCG
1 ACCGGTTT-G
*
1084862 ACCGGTTTAA
1 ACCGGTTT-G
*
1084872 ACCGTTTTG
1 ACCGGTTTG
**
1084881 ACCGGTCTAA
1 ACCGGT-TTG
1084891 ACCGGTTTG
1 ACCGGTTTG
1084900 ACCG
1 ACCG
1084904 ATCTGACCCG
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
9 20 0.36
10 28 0.51
11 5 0.09
12 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1084878 original size:19 final size:19
Alignment explanation
Indices: 1084852--1084903 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1084842 ACTGGGTTTG
*
1084852 ACCGGTTTCGACCGGTTTAA
1 ACCGGTTT-GACCGGTCTAA
*
1084872 ACCGTTTTGACCGGTCTAA
1 ACCGGTTTGACCGGTCTAA
1084891 ACCGGTTTGACCG
1 ACCGGTTTGACCG
1084904 ATCTGACCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTAA
Found at i:1084935 original size:17 final size:17
Alignment explanation
Indices: 1084913--1084950 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1084903 GATCTGACCC
1084913 GACCCGACCCAACCGTT
1 GACCCGACCCAACCGTT
*
1084930 GACCCGACCCGACCGTT
1 GACCCGACCCAACCGTT
1084947 GACC
1 GACC
1084951 GTTGACTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.11
Consensus pattern (17 bp):
GACCCGACCCAACCGTT
Found at i:1086451 original size:17 final size:17
Alignment explanation
Indices: 1086413--1086451 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1086403 GATAGTATAA
*
1086413 TTTATTTATAATTTCAT
1 TTTATTTATAATGTCAT
* *
1086430 GTTATTTATAATGTGAT
1 TTTATTTATAATGTCAT
1086447 TTTAT
1 TTTAT
1086452 ATTGATGGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (17 bp):
TTTATTTATAATGTCAT
Found at i:1091560 original size:19 final size:20
Alignment explanation
Indices: 1091538--1091585 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
1091528 GGTTTTCAAT
1091538 CGGTTTTGACC-GTTTCG-AC
1 CGGTTTTGACCTG-TTCGAAC
1091557 CGGTTTTGACCTGTTCGAAC
1 CGGTTTTGACCTGTTCGAAC
1091577 C-GTTTTGAC
1 CGGTTTTGAC
1091586 TGGTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.38
Consensus pattern (20 bp):
CGGTTTTGACCTGTTCGAAC
Found at i:1091637 original size:22 final size:22
Alignment explanation
Indices: 1091611--1091652 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1091601 TGACTGGTCT
*
1091611 GACCCGACCCGACTGTTGACCC
1 GACCCGACCCGACTATTGACCC
1091633 GACCCGACCCGACTATTGAC
1 GACCCGACCCGACTATTGAC
1091653 TGTTGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.43, G:0.21, T:0.14
Consensus pattern (22 bp):
GACCCGACCCGACTATTGACCC
Found at i:1101085 original size:78 final size:78
Alignment explanation
Indices: 1100996--1101176 Score: 283
Period size: 78 Copynumber: 2.3 Consensus size: 78
1100986 CGTTGTACAA
* **
1100996 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-CAAAACTGTTTAGGGGGGGAAT
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA-GGGGGGAAT
*
1101060 CGGTTCCTCCTATG
65 CAGTTCCTCCTATG
* *
1101074 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCCAAAACCATTTAGGGGGGAATC
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTAGGGGGGAATC
1101139 AGTTCCTCCTATG
66 AGTTCCTCCTATG
*
1101152 GGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGGAATCGGTTCCCTCCGAGCA
1101177 ATCTGTAATT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 85 0.89
79 10 0.11
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.23
Consensus pattern (78 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTAGGGGGGAATC
AGTTCCTCCTATG
Found at i:1103792 original size:21 final size:21
Alignment explanation
Indices: 1103766--1103805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1103756 CAGAACCCCA
*
1103766 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1103787 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1103806 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1103834 original size:20 final size:21
Alignment explanation
Indices: 1103788--1103848 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1103778 TTCCCCTGTG
1103788 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1103811 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1103831 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1103849 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1107947 original size:117 final size:118
Alignment explanation
Indices: 1107727--1107948 Score: 281
Period size: 117 Copynumber: 1.9 Consensus size: 118
1107717 CTTTCAAATC
*
1107727 AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
* * *
1107792 TATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
* * * *
1107845 AAAA-TTTCTTTTTCAA-AGTTTTC-AGATTTTATTTTTGAAAGCTCTAACTCCTTTTTCAACAT
1 AAAATTTTCTTTTTCAATA-CTTTCAAG-TTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACAT
* * **
1107907 TTCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
64 TTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
1107949 ATCATTTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
116 3 0.03
117 78 0.88
118 8 0.09
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:1109382 original size:76 final size:77
Alignment explanation
Indices: 1109253--1109463 Score: 282
Period size: 76 Copynumber: 2.8 Consensus size: 77
1109243 CCGTTGTACA
* * * * *
1109253 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATTGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
**
1109317 -CAAAACTGTTT
66 CCAAAACCATTT
* * *
1109328 AGGGGGGAATCGGTTTCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
1109393 CCAAAACCATTT
66 CCAAAACCATTT
* * *
1109405 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
1109464 TTTGGCTTTG
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 18 0.15
76 38 0.32
77 31 0.26
78 31 0.26
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
CCAAAACCATTT
Found at i:1113261 original size:19 final size:20
Alignment explanation
Indices: 1113237--1113274 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1113227 TTGAATATGA
1113237 TTTGATTTTGAAAG-CAAAG
1 TTTGATTTTGAAAGACAAAG
1113256 TTTGATTTTGAAAGACAAA
1 TTTGATTTTGAAAGACAAA
1113275 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (20 bp):
TTTGATTTTGAAAGACAAAG
Found at i:1116190 original size:17 final size:19
Alignment explanation
Indices: 1116149--1116185 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1116139 TAAAACAAGA
1116149 AAAATTCATGAGATATATT
1 AAAATTCATGAGATATATT
1116168 AAAATTCATGAGATATAT
1 AAAATTCATGAGATATAT
1116186 GAATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AAAATTCATGAGATATATT
Found at i:1127085 original size:29 final size:29
Alignment explanation
Indices: 1127043--1127130 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
1127033 ATTTTCACCT
*
1127043 AACTAAATTGATGTAAGCAATGAAATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
1127072 AACTAAATTGATGTAAGCAATGCCATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1127101 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1127130 A
1 A
1127131 TTAATTTAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1130339 original size:23 final size:23
Alignment explanation
Indices: 1130313--1130358 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1130303 AAGTGCCTAT
1130313 ATCAATGATATATGATAGAGATC
1 ATCAATGATATATGATAGAGATC
1130336 ATCAATGATATATGATAGAGATC
1 ATCAATGATATATGATAGAGATC
1130359 CAATGTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ATCAATGATATATGATAGAGATC
Found at i:1130373 original size:23 final size:22
Alignment explanation
Indices: 1130315--1130363 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
1130305 GTGCCTATAT
1130315 CAATGATATATGATAGAGATCA
1 CAATGATATATGATAGAGATCA
1130337 TCAATGATATATGATAGAGATC-
1 -CAATGATATATGATAGAGATCA
1130359 CAATG
1 CAATG
1130364 TTTACTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.19
23 21 0.81
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (22 bp):
CAATGATATATGATAGAGATCA
Found at i:1133195 original size:31 final size:31
Alignment explanation
Indices: 1133069--1133195 Score: 109
Period size: 31 Copynumber: 3.9 Consensus size: 31
1133059 AGAAACACTT
*
1133069 TATTAGAATGATTCTAAATGCTTAGAAATAG
1 TATTAGAATGATTCTAAATGCTTAGAAATGG
1133100 TATTAGAATGATTCTAAATGCTTAG-AATGAAG
1 TATTAGAATGATTCTAAATGCTTAGAAATG--G
* *
1133132 AAAATATTGAAAAT-TTTCCCT-AA-GCTTAGAAATGG
1 ----TATT-AGAATGATT--CTAAATGCTTAGAAATGG
*
1133167 TATTAGAATGATTCTAAATGCTTTGAAAT
1 TATTAGAATGATTCTAAATGCTTAGAAAT
1133196 ATGATTTGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
29 2 0.03
30 9 0.12
31 40 0.52
32 1 0.01
35 1 0.01
36 12 0.16
37 10 0.13
38 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (31 bp):
TATTAGAATGATTCTAAATGCTTAGAAATGG
Found at i:1139179 original size:23 final size:24
Alignment explanation
Indices: 1139153--1139199 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1139143 AACTTTATAC
1139153 TCATCT-TTAGGGCCTATCTTTTT
1 TCATCTCTTAGGGCCTATCTTTTT
* * *
1139176 TCATCTCTTTGGGCTTTTCTTTTT
1 TCATCTCTTAGGGCCTATCTTTTT
1139200 CTTCTAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.09, C:0.21, G:0.13, T:0.57
Consensus pattern (24 bp):
TCATCTCTTAGGGCCTATCTTTTT
Found at i:1144529 original size:23 final size:22
Alignment explanation
Indices: 1144481--1144560 Score: 103
Period size: 23 Copynumber: 3.7 Consensus size: 22
1144471 AGAACCCCAG
*
1144481 GGGGGTATCGATTCCCC-T--A
1 GGGGGAATCGATTCCCCTTCAA
1144500 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
*
1144523 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
1144545 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
1144561 TCTGCCCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
19 16 0.30
20 1 0.02
22 16 0.30
23 20 0.38
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:1150879 original size:43 final size:43
Alignment explanation
Indices: 1150769--1151002 Score: 344
Period size: 43 Copynumber: 5.4 Consensus size: 43
1150759 AGAAAAAAAG
* *
1150769 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACGTA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGG---G-A
*
1150816 CATGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
*
1150859 CCTGGGGGAACTGTATGGCTTACCCTTGCACACAACAAAGGGA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* *
1150902 CCT-GGGGAACCGTAAGGCTTACCCTTGCACACAACAAAGAGA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* * *
1150944 CTTGGGGGAACTCTAAGGCTTACCCTTGCACACAGCAAAGGGA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
1150987 CCTGGGGGAACTGTAA
1 CCTGGGGGAACTGTAA
1151003 CGGTAATTAA
Statistics
Matches: 171, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 38 0.22
43 94 0.55
44 1 0.01
47 38 0.22
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.17
Consensus pattern (43 bp):
CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
Found at i:1150950 original size:85 final size:86
Alignment explanation
Indices: 1150769--1151002 Score: 353
Period size: 85 Copynumber: 2.7 Consensus size: 86
1150759 AGAAAAAAAG
* *
1150769 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACGTACATGGGGGAACTGTAAGG
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGG---G-ACCTGGGGGAACTGTAAGG
*
1150834 CTTACCCTTGCACACAACAAAGGGA
62 CTTACCCTTGCACACAACAAAGAGA
* * *
1150859 CCTGGGGGAACTGTATGGCTTACCCTTGCACACAACAAAGGGACCT-GGGGAACCGTAAGGCTTA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTA
1150923 CCCTTGCACACAACAAAGAGA
66 CCCTTGCACACAACAAAGAGA
* *
1150944 CTTGGGGGAACTCTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAA
1 CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAA
1151003 CGGTAATTAA
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
85 79 0.60
86 14 0.11
87 1 0.01
90 38 0.29
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.17
Consensus pattern (86 bp):
CCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTA
CCCTTGCACACAACAAAGAGA
Found at i:1153803 original size:13 final size:13
Alignment explanation
Indices: 1153785--1153814 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1153775 CAATGGTCAA
1153785 GGGTCAACGGGTC
1 GGGTCAACGGGTC
1153798 GGGTCAACGGGTC
1 GGGTCAACGGGTC
1153811 GGGT
1 GGGT
1153815 AAATTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.20, G:0.50, T:0.17
Consensus pattern (13 bp):
GGGTCAACGGGTC
Found at i:1155818 original size:42 final size:42
Alignment explanation
Indices: 1155767--1156029 Score: 418
Period size: 42 Copynumber: 6.2 Consensus size: 42
1155757 AGCCTGGGAA
* * **
1155767 AACTATAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGAA
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGG
*
1155809 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGG
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGG
*
1155852 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGG
*
1155894 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGG
1155936 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGG
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGG
* *
1155979 AACTATAAGGCTTACCCTTACACACAGCAAAGGGACCTGGGGG
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGG
1156022 AACTGTAA
1 AACTGTAA
1156030 CGGTAATTAA
Statistics
Matches: 210, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
42 120 0.57
43 90 0.43
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (42 bp):
AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGG
Found at i:1155848 original size:85 final size:84
Alignment explanation
Indices: 1155740--1156029 Score: 409
Period size: 85 Copynumber: 3.4 Consensus size: 84
1155730 AGGTCTTATA
* * * * * * *
1155740 CTTGCACATATCAAAAGAGCCTGGGAAAACTATAAGGCTTACCCTTGCACACAGCAAAGGAACCT
1 CTTGCACACAGCAAAGGAACCTGGG-GAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
**
1155805 GGAAAACTGTAAGGCTTACC
65 GGGGAACTGTAAGGCTTACC
*
1155825 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
1 CTTGCACACAGCAAAGGAACCT-GGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
1155890 GGGGAACTGTAAGGCTTACC
65 GGGGAACTGTAAGGCTTACC
* *
1155910 CTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
1 CTTGCACACAGCAAAGGAACCTGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-
*
1155975 GGGGAACTATAAGGCTTACC
65 GGGGAACTGTAAGGCTTACC
* *
1155995 CTTACACACAGCAAAGGGACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAGGAACCT-GGGGAACTGTAA
1156030 CGGTAATTAA
Statistics
Matches: 186, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
84 41 0.22
85 130 0.70
86 15 0.08
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (84 bp):
CTTGCACACAGCAAAGGAACCTGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
GGGAACTGTAAGGCTTACC
Found at i:1155914 original size:127 final size:128
Alignment explanation
Indices: 1155767--1156029 Score: 438
Period size: 127 Copynumber: 2.1 Consensus size: 128
1155757 AGCCTGGGAA
* *
1155767 AACTATAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGAAAACTGTAAGGCTTACCCTTGCAC
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGAAAACTGTAAGGCTTACCCTTGCAC
* *
1155832 ACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT-GGGG
66 ACAGCAAAGGAACCTGGGGGAACTATAAGGCTTACCCTTACACACAACAAAGGGACCTGGGGG
* **
1155894 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCTTGCAC
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGAAAACTGTAAGGCTTACCCTTGCAC
* *
1155959 ACAGCAAAGGGACCTGGGGGAACTATAAGGCTTACCCTTACACACAGCAAAGGGACCTGGGGG
66 ACAGCAAAGGAACCTGGGGGAACTATAAGGCTTACCCTTACACACAACAAAGGGACCTGGGGG
1156022 AACTGTAA
1 AACTGTAA
1156030 CGGTAATTAA
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
127 114 0.90
128 12 0.10
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (128 bp):
AACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGAAAACTGTAAGGCTTACCCTTGCAC
ACAGCAAAGGAACCTGGGGGAACTATAAGGCTTACCCTTACACACAACAAAGGGACCTGGGGG
Found at i:1158759 original size:14 final size:15
Alignment explanation
Indices: 1158740--1158772 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1158730 GGTCAACTTC
*
1158740 GGTCAATGGTCAA-G
1 GGTCAACGGTCAATG
1158754 GGTCAACGGTCAATG
1 GGTCAACGGTCAATG
1158769 GGTC
1 GGTC
1158773 GGGTCGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.21
Consensus pattern (15 bp):
GGTCAACGGTCAATG
Found at i:1158788 original size:13 final size:13
Alignment explanation
Indices: 1158772--1158805 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1158762 GTCAATGGGT
1158772 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
*
1158785 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
1158798 CTGGTCGG
1 CGGGTCGG
1158806 ATCGGGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1158791 original size:18 final size:18
Alignment explanation
Indices: 1158768--1158830 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 18
1158758 AACGGTCAAT
1158768 GGGTCGGGTCGGGTAAAC
1 GGGTCGGGTCGGGTAAAC
1158786 GGGTCGGGTC-----AAC
1 GGGTCGGGTCGGGTAAAC
* *
1158799 TGGTCGGATCGGGTAAAC
1 GGGTCGGGTCGGGTAAAC
*
1158817 AGGTCGGGTCGGGT
1 GGGTCGGGTCGGGT
1158831 TGGAATCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
13 11 0.31
18 25 0.69
ACGTcount: A:0.16, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGGTCGGGTCGGGTAAAC
Found at i:1158796 original size:31 final size:31
Alignment explanation
Indices: 1158761--1158826 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
1158751 AAGGGTCAAC
* *
1158761 GGTCAA-TGGGTCGGGTCGGGTAAACGGGTCG
1 GGTCAACT-GGTCGGATCGGGTAAACAGGTCG
1158792 GGTCAACTGGTCGGATCGGGTAAACAGGTCG
1 GGTCAACTGGTCGGATCGGGTAAACAGGTCG
1158823 GGTC
1 GGTC
1158827 GGGTTGGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.44, T:0.20
Consensus pattern (31 bp):
GGTCAACTGGTCGGATCGGGTAAACAGGTCG
Found at i:1162586 original size:21 final size:21
Alignment explanation
Indices: 1162560--1162616 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1162550 AGGAGCGTGA
*
1162560 GTGTATCAGTACACTCTTATG
1 GTGTATCGGTACACTCTTATG
1162581 GTGTATCGGTACACTCTTATG
1 GTGTATCGGTACACTCTTATG
1162602 GTGTATCGGTACACT
1 GTGTATCGGTACACT
1162617 GTGTGTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (21 bp):
GTGTATCGGTACACTCTTATG
Found at i:1163190 original size:10 final size:10
Alignment explanation
Indices: 1163175--1163199 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1163165 AGACTCTATA
1163175 AAACATTTTT
1 AAACATTTTT
1163185 AAACATTTTT
1 AAACATTTTT
1163195 AAACA
1 AAACA
1163200 AGATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (10 bp):
AAACATTTTT
Found at i:1181388 original size:873 final size:873
Alignment explanation
Indices: 1179703--1182317 Score: 4711
Period size: 873 Copynumber: 3.0 Consensus size: 873
1179693 GATGACATTT
*
1179703 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGAATATACGCAG
1 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATACGCAG
* *
1179768 CGTGTGATGATTTTCACGCGTAGGTAAGAAGCAGGAGTAGGATTAAGGAGTACTGAGCAACTCAA
66 CGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTAGGATTAAGGAGTACTGAGCAACTCAA
* *
1179833 AGCATCGAGGTGTATATTAAAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGATAGTT
131 AGCATCGAGGTGTATATTACAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGTTAGTT
*
1179898 GCATGTATTAAATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
196 GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
1179963 AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
261 AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
*
1180028 ATATTTTATATTAAAATATGTTTAAATATTTTATGATTGTTTTTAAGTTACTTAATATTTTATAA
326 ATATTTTATATTAAAATATGTTTAAATATTTTGTGATTGTTTTTAAGTTACTTAATATTTTATAA
*
1180093 TAATAACTATAGTTTGAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGAGGT
391 TAATAACTATAGTTTGAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGGGT
*
1180158 GGAAAATATTTTAAATAATTAATGTGACTTCTGTAACCTGTATTGGTATAAGTATACTGGTTGTA
456 GGAAAATATTTTAAATAATTAATGTGACTTCTGTAACCTTTATTGGTATAAGTATACTGGTTGTA
*
1180223 GGTGTTAAAATCCTCTTTCAAGAGCTTTTCATAATCATCCTGCTGTATGAAATTGCTTTGACAAA
521 GGTGTTAAAATCCTCTTTCAAGAGCTTTTCATAATCATCCAGCTGTATGAAATTGCTTTGACAAA
* *
1180288 GTTGTTCTGCTTCCCCTTATTCCATTGAGTCCGTTTCCAAAATGCTTTAGCATTCTTTAGAATAT
586 GTTGTTCTGCTTCCCCTTCTTCCATTGAGTCCGTTTCCAAAATGCTCTAGCATTCTTTAGAATAT
*
1180353 CCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCGGTTACCGCATAGTGAGTT
651 CCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCGGTTACCGCATAATGAGTT
1180418 CACTTTTCTCGTAATCAATGAGGATGCGACCCATGGCTGGGAAAGGTCTCCCCAAAATTATAGGT
716 CACTTTTCTCGTAATCAATGAGGATGCGACCCATGGCTGGGAAAGGTCTCCCCAAAATTATAGGT
* * *
1180483 GCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTTAGTTGGGAACACTAATATATCTATCCT
781 GCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTAAGTTGGGAACACTAATCTATCCATCCT
1180548 CGCTATGACATCTTCGATCCTTCCCAAA
846 CGCTATGACATCTTCGATCCTTCCCAAA
*
1180576 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATATGCAG
1 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATACGCAG
1180641 CGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTAGGATTAAGGAGTACTGAGCAACTCAA
66 CGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTAGGATTAAGGAGTACTGAGCAACTCAA
* *
1180706 AGCATCGATGTGTATATTACAATATCAGTAAGACATACTTCGATGTGATTTTGACTTAGTTAGTT
131 AGCATCGAGGTGTATATTACAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGTTAGTT
1180771 GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
196 GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
* *
1180836 AACTAAAACTACTTTATTCCACTTTACTATGGTTAGTATTAACTAATACTACTACTATGTAGGAT
261 AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
* *
1180901 ATATTTTATATTAAAACATGTTTAAATATTTTGTGACTGTTTTTAAGTTACTTAATATTTTATAA
326 ATATTTTATATTAAAATATGTTTAAATATTTTGTGATTGTTTTTAAGTTACTTAATATTTTATAA
1180966 TAATAACTATAGTTTGAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGGGT
391 TAATAACTATAGTTTGAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGGGT
1181031 GGAAAATATTTTAAATAATTAATGTGACTTCTGTAACCTTTATTGGTATAAGTATACTGGTTGTA
456 GGAAAATATTTTAAATAATTAATGTGACTTCTGTAACCTTTATTGGTATAAGTATACTGGTTGTA
* *
1181096 GGTGTTAAAATCATCTTTCAAGAGCTTTTCATAATCATCCAGCAT-TATGAAATTTCTTTGACAA
521 GGTGTTAAAATCCTCTTTCAAGAGCTTTTCATAATCATCCAGC-TGTATGAAATTGCTTTGACAA
*
1181160 AGTTGTTCTGCTTCCCCTTCTTCCATTGAGTCCGTTTCCAAAATGCTCTAGCATTCTTTATAATA
585 AGTTGTTCTGCTTCCCCTTCTTCCATTGAGTCCGTTTCCAAAATGCTCTAGCATTCTTTAGAATA
* *
1181225 TCCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCTGTTACCGCATACTGAGT
650 TCCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCGGTTACCGCATAATGAGT
* *
1181290 TCACTTCTCTCGTAATCAATGAGGATGTGACCCATGGCTGGGAAAGGTCTCCCCAAAATTATAGG
715 TCACTTTTCTCGTAATCAATGAGGATGCGACCCATGGCTGGGAAAGGTCTCCCCAAAATTATAGG
1181355 TGCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTAAGTTGGGAACACTAATCTATCCATCC
780 TGCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTAAGTTGGGAACACTAATCTATCCATCC
*
1181420 TCGCTATGCCATCTTCGATCCTTCCCAAA
845 TCGCTATGACATCTTCGATCCTTCCCAAA
1181449 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATACGCAG
1 ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATACGCAG
* * *
1181514 TGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTATGATTAAGGAGTACAGAGCAACTCAA
66 CGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTAGGATTAAGGAGTACTGAGCAACTCAA
1181579 AGCATCGAGGTGTATATTACAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGTTAGTT
131 AGCATCGAGGTGTATATTACAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGTTAGTT
1181644 GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
196 GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
1181709 AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
261 AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
* *
1181774 ATATTTTGTATTAAAATATTTTTAAATATTTTGTGATTGTTTTTAAGTTACTT-A-ATTTTATAA
326 ATATTTTATATTAAAATATGTTTAAATATTTTGTGATTGTTTTTAAGTTACTTAATATTTTATAA
*
1181837 TAATAACTAAAGTTTGAAAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGG
391 TAATAACTATAGTTTG--AAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGG
1181902 GTGG-AAATATTTTAAATAATTAATGTGACATT-TGTAA-CTTGTATTGGTATAAGTATACTGGT
454 GTGGAAAATATTTTAAATAATTAATGTGAC-TTCTGTAACCTT-TATTGGTATAAGTATACTGGT
* *
1181964 CGTAGGTGTTACAATCCTCTTTCAAGAGCTTTTCATAATCATCCAGCTGTATGAAATTGCTTTGA
517 TGTAGGTGTTAAAATCCTCTTTCAAGAGCTTTTCATAATCATCCAGCTGTATGAAATTGCTTTGA
* * * *
1182029 AAAAGTTTTTCTGCTTCCCCTTCTTCCATTGAGTCCATTTCCAAAATGCTCTAGCATTATTTAGA
582 CAAAGTTGTTCTGCTTCCCCTTCTTCCATTGAGTCCGTTTCCAAAATGCTCTAGCATTCTTTAGA
*
1182094 ATATCCACATACTTGAGAGAATGAAAGACATTCACAGTCACACTTGGATCGGTTACCGCATAATG
647 ATATCCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCGGTTACCGCATAATG
* *
1182159 AGTTCACTTTTCTCGTAATCAATGAGGATGCGATCCATGGCTGGGAAAGTTCTCCCCAAAATTAT
712 AGTTCACTTTTCTCGTAATCAATGAGGATGCGACCCATGGCTGGGAAAGGTCTCCCCAAAATTAT
*
1182224 AGGTGCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTCAGTTGGGAACACTAATCTATCCA
777 AGGTGCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTAAGTTGGGAACACTAATCTATCCA
*
1182289 TCCTCGCTATGATATCTTCGATCCTTCCC
842 TCCTCGCTATGACATCTTCGATCCTTCCC
1182318 TCGAGATAAA
Statistics
Matches: 1674, Mismatches: 62, Indels: 13
0.96 0.04 0.01
Matches are distributed among these distances:
871 28 0.02
872 385 0.23
873 1260 0.75
874 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (873 bp):
ATTTTATGCATGCGATGTATTGTACAGTTTAATAATTTAAATTGCCTCACTAAGTATATACGCAG
CGTGTGATGATTTTCACGCGTAGATAAGAAGCAAGAGTAGGATTAAGGAGTACTGAGCAACTCAA
AGCATCGAGGTGTATATTACAATATCAGTAAGACATCCTTCGATGTGATTTTGACTTAGTTAGTT
GCATGTATTATATAAATGTCCTAGTTGCTCTATTCAATCATTTTGGAACCAGTTTGTAATGGCTA
AACTAAAACTACTTTATTCTACTTTACTATGGTTAGTATTAACCAATACTACTACTATGTAGGAT
ATATTTTATATTAAAATATGTTTAAATATTTTGTGATTGTTTTTAAGTTACTTAATATTTTATAA
TAATAACTATAGTTTGAAAGAAAGAATTTTTTTAAAAGAAACAAATTTTTGTATCATTTTGGGGT
GGAAAATATTTTAAATAATTAATGTGACTTCTGTAACCTTTATTGGTATAAGTATACTGGTTGTA
GGTGTTAAAATCCTCTTTCAAGAGCTTTTCATAATCATCCAGCTGTATGAAATTGCTTTGACAAA
GTTGTTCTGCTTCCCCTTCTTCCATTGAGTCCGTTTCCAAAATGCTCTAGCATTCTTTAGAATAT
CCACATACTTGAGAGAATGAAAGACATTCACGGTCACACTTGGATCGGTTACCGCATAATGAGTT
CACTTTTCTCGTAATCAATGAGGATGCGACCCATGGCTGGGAAAGGTCTCCCCAAAATTATAGGT
GCATTGGCATCAACCTCGCAATCAAGTATAAGAAAGTAAGTTGGGAACACTAATCTATCCATCCT
CGCTATGACATCTTCGATCCTTCCCAAA
Found at i:1181887 original size:18 final size:18
Alignment explanation
Indices: 1181854--1181888 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1181844 TAAAGTTTGA
* *
1181854 AAAAGAAAGAATTTTTTT
1 AAAAGAAACAAATTTTTT
1181872 AAAAGAAACAAATTTTT
1 AAAAGAAACAAATTTTT
1181889 GTATCATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
AAAAGAAACAAATTTTTT
Found at i:1186012 original size:19 final size:18
Alignment explanation
Indices: 1185976--1186018 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1185966 TTGCTATTCA
* *
1185976 TATTATATTAGTATTATT
1 TATTATATTACTAATATT
1185994 TATTACTATTACTAATATT
1 TATTA-TATTACTAATATT
*
1186013 TTTTAT
1 TATTAT
1186019 TTTATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATATTACTAATATT
Found at i:1190636 original size:17 final size:18
Alignment explanation
Indices: 1190603--1190651 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
1190593 AGAAAATGAT
1190603 ACAACTCAAACAATAAAA
1 ACAACTCAAACAATAAAA
*
1190621 ACAACT-AAATAATAAAA
1 ACAACTCAAACAATAAAA
* *
1190638 ACAATTCGAACAAT
1 ACAACTCAAACAAT
1190652 TAAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.63, C:0.18, G:0.02, T:0.16
Consensus pattern (18 bp):
ACAACTCAAACAATAAAA
Found at i:1190642 original size:26 final size:26
Alignment explanation
Indices: 1190610--1190666 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
1190600 GATACAACTC
1190610 AAACAATAAAAACAACTAAATAATAA
1 AAACAATAAAAACAACTAAATAATAA
*** *
1190636 AAACAATTCGAACAATTAAATAATAA
1 AAACAATAAAAACAACTAAATAATAA
1190662 AAACA
1 AAACA
1190667 TTAACGAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.68, C:0.12, G:0.02, T:0.18
Consensus pattern (26 bp):
AAACAATAAAAACAACTAAATAATAA
Found at i:1190718 original size:19 final size:19
Alignment explanation
Indices: 1190680--1190718 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1190670 ACGAACCAAA
* *
1190680 TAAATAAAAAGTTCATAAT
1 TAAATAAAAACTTCACAAT
*
1190699 TAAATAAAAACTTTACAAT
1 TAAATAAAAACTTCACAAT
1190718 T
1 T
1190719 GCTGGTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAAAAACTTCACAAT
Found at i:1211134 original size:20 final size:20
Alignment explanation
Indices: 1211109--1211156 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1211099 ACTTCCTCAA
1211109 ATAAATCTTGCCTTAGCGAG
1 ATAAATCTTGCCTTAGCGAG
1211129 ATAAATCTTGCCTTAGCGAG
1 ATAAATCTTGCCTTAGCGAG
1211149 ATAAATCT
1 ATAAATCT
1211157 GCTCATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (20 bp):
ATAAATCTTGCCTTAGCGAG
Found at i:1215140 original size:45 final size:45
Alignment explanation
Indices: 1215089--1215179 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
1215079 TTCAGTGCCT
1215089 TGGATATCAATCTGTTGTCAAAATGTGTGCCTTCGTCACTAATTA
1 TGGATATCAATCTGTTGTCAAAATGTGTGCCTTCGTCACTAATTA
1215134 TGGATATCAATCTGTTGTCAAAATGTGTGCCTTCGTCACTAATTA
1 TGGATATCAATCTGTTGTCAAAATGTGTGCCTTCGTCACTAATTA
1215179 T
1 T
1215180 AGCTCGTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (45 bp):
TGGATATCAATCTGTTGTCAAAATGTGTGCCTTCGTCACTAATTA
Found at i:1221751 original size:163 final size:165
Alignment explanation
Indices: 1221475--1221809 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 165
1221465 CATCAGTCAA
*
1221475 ACCAAATAAATCTTGCCTAAGCAAAACTTATCCACCACAATCTAATATAACCTATATGCAACTAA
1 ACCAACTAAATCTTGCCTAAGCAAAACTTATCCACCACAATCTAATATAACCTATATGCAACTAA
1221540 ATGCAACTAAAAATGAAGTGCATACTTTGTTTAGATGAGCAATAACTTAAGTGAAAAGACTAGGA
66 ATGCAACTAAAAATGAAGTGCATACTTTGTTTAGATGAGCAATAACTTAAGTGAAAAGACTAGGA
1221605 ACTAAGTCTTTTTACGGAGTTATC-AGCA-CCATG
131 ACTAAGTCTTTTTACGGAGTTATCAAGCACCCATG
1221638 ACCAACTAAATCTTGCCTAAGCAAAACTTATCCACCACAATCTAATATAACCTATATGCAACTAA
1 ACCAACTAAATCTTGCCTAAGCAAAACTTATCCACCACAATCTAATATAACCTATATGCAACTAA
1221703 ATGCAACTAAAAATGAAGTGCATACTTTGTTTAGATGAGCAATAACTTAAGTGAAAAGACTAGGA
66 ATGCAACTAAAAATGAAGTGCATACTTTGTTTAGATGAGCAATAACTTAAGTGAAAAGACTAGGA
1221768 ACTAAGTCTTTTTACGGAGTTATCAAGCACCCATG
131 ACTAAGTCTTTTTACGGAGTTATCAAGCACCCATG
1221803 ACCAACT
1 ACCAACT
1221810 TAACTCATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
163 153 0.91
164 4 0.02
165 12 0.07
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (165 bp):
ACCAACTAAATCTTGCCTAAGCAAAACTTATCCACCACAATCTAATATAACCTATATGCAACTAA
ATGCAACTAAAAATGAAGTGCATACTTTGTTTAGATGAGCAATAACTTAAGTGAAAAGACTAGGA
ACTAAGTCTTTTTACGGAGTTATCAAGCACCCATG
Found at i:1238830 original size:9 final size:9
Alignment explanation
Indices: 1238808--1238837 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1238798 TAATTTTTAG
1238808 TTTAATTCAT
1 TTTAATT-AT
1238818 TTTAATTAT
1 TTTAATTAT
1238827 TTTAATTAT
1 TTTAATTAT
1238836 TT
1 TT
1238838 CCTTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTAATTAT
Found at i:1239189 original size:38 final size:39
Alignment explanation
Indices: 1239146--1239219 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
1239136 TTTTAGGATT
* *
1239146 CACCTTTTATT-CCTCTATTTATTCATTTTCAAAGGGTA
1 CACCTTTTATTCCCTCCATTTATTCATTTCCAAAGGGTA
*
1239184 CACCTTTTATTCCCTCCATTTATTCCTTTCCAAAGG
1 CACCTTTTATTCCCTCCATTTATTCATTTCCAAAGG
1239220 TTTTTCTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 11 0.34
39 21 0.66
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.45
Consensus pattern (39 bp):
CACCTTTTATTCCCTCCATTTATTCATTTCCAAAGGGTA
Found at i:1241937 original size:25 final size:25
Alignment explanation
Indices: 1241909--1241957 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1241899 AGCTAGTTTT
1241909 GGAGGTAAATAAAGCATTTACTGGG
1 GGAGGTAAATAAAGCATTTACTGGG
1241934 GGAGGTAAATAAAGCATTTACTGG
1 GGAGGTAAATAAAGCATTTACTGG
1241958 TTATGCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (25 bp):
GGAGGTAAATAAAGCATTTACTGGG
Found at i:1243437 original size:73 final size:71
Alignment explanation
Indices: 1243316--1243455 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 71
1243306 CTATATAGTC
*
1243316 ATGAAAACTTTGAGAATTAAGCATGTTTGCACACCAAATCAAGCAAGATATTCAAAGTTTTAAAG
1 ATGAAAACTTTGAGAATTAAGCATGTTTGCAAACCAAATCAAGCAAGATATTCAAAGTTTTAAAG
1243381 TCTGAT
66 TCTGAT
* * *
1243387 ATGAAATACTTTGATAATTAAGC-TGTTTGTATAACACAAATCAAGCAAGATATTCCAAGTTTTA
1 ATGAAA-ACTTTGAGAATTAAGCATGTTTGCA-AAC-CAAATCAAGCAAGATATTCAAAGTTTTA
1243451 AAGTC
63 AAGTC
1243456 CAGATATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
71 13 0.21
72 17 0.27
73 32 0.52
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (71 bp):
ATGAAAACTTTGAGAATTAAGCATGTTTGCAAACCAAATCAAGCAAGATATTCAAAGTTTTAAAG
TCTGAT
Found at i:1245998 original size:31 final size:31
Alignment explanation
Indices: 1245935--1246003 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
1245925 TATATCTATA
*
1245935 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
1245965 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
1245996 A-TTTATTA
1 ATTTTATTA
1246004 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:1246341 original size:201 final size:198
Alignment explanation
Indices: 1246104--1246540 Score: 626
Period size: 201 Copynumber: 2.2 Consensus size: 198
1246094 CACATATGTT
1246104 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC-CGGTATAAATATACCG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAAT-TAACTCGGTATAAATATACCG
* *
1246168 ATTTTATGAGAGAATATGTCAACATAATGTATCGACAAAAATTTAAAAAAATGTCGATACATTTT
65 ATTTTATGAGAAAATAGGTCAACATAATGTATCGAC-AAAATTTAAAAAAATGTCGATAC-TTTT
1246233 GTCCAAAATGAATGCCAAACAAGGTGCACACATAAAGTGTCGATACATTTATTAAA-AGTATCGA
128 GTCCAAAATGAATGCCAAACAAGGTGCACACATAAAGTGTCGATACATTTA--AAATAGTATCGA
1246297 TCCCAAAA
191 TCCCAAAA
* * * * *
1246305 ACATCGAAACCAATAATTACAACGTAATAGGTAAATTTACAATTTACTCGGTATAAATATACTGA
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTAACTCGGTATAAATATACCGA
* * * ***** *
1246370 TTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTC
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACAAAATTTAAAAAAATGTCGATACTTTTGTC
* * * *
1246435 CAGAATGAATGCCTAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCA
131 CAAAATGAATGCCAAACAAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCA
1246500 AAA
196 AAA
*
1246503 ACATCGAAACCGATAATTATAATGTAATAGATAAATTT
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
1246541 GTAATGTTTA
Statistics
Matches: 210, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
197 3 0.01
198 49 0.23
199 51 0.24
200 19 0.09
201 88 0.42
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (198 bp):
ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTAACTCGGTATAAATATACCGA
TTTTATGAGAAAATAGGTCAACATAATGTATCGACAAAATTTAAAAAAATGTCGATACTTTTGTC
CAAAATGAATGCCAAACAAGGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCA
AAA
Found at i:1247227 original size:23 final size:23
Alignment explanation
Indices: 1247192--1247242 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1247182 CCAGTAATTA
** *
1247192 ACCTATTTTATTATATAAGTGTT
1 ACCTATTACATTATATAAGTGGT
1247215 ACCTATTACATTATATAAGTGGT
1 ACCTATTACATTATATAAGTGGT
1247238 ACCTA
1 ACCTA
1247243 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGGT
Found at i:1247283 original size:87 final size:87
Alignment explanation
Indices: 1247137--1247532 Score: 549
Period size: 87 Copynumber: 4.5 Consensus size: 87
1247127 AACTTATTTT
** *
1247137 ATTATATAAGCTCTATCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
1 ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
* *
1247202 TTATATAAGTGTTACCTATTAC
66 TTATATAAGCGCTACCTATTAC
* *
1247224 ATTATATAAGTGGTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATTTTA
1 ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
**
1247289 TTATATAAGCGCTACCTATTTT
66 TTATATAAGCGCTACCTATTAC
* * *
1247311 ATTATATAAGCACTAAGCCCTACCTAATATGTTATTATGTTTGATAATGTTTCCAGTAATTAACC
1 ATTATATAAG--C---G--GTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACC
* *
1247376 TATTTTATTATATAAGTGATACCTATTAC
59 TATTTTATTATATAAGCGCTACCTATTAC
* * *
1247405 ATTATATAAGCGGTACCTAATATATTATTGTGTTTGATAATGTTTCCAGTAATTAACATATTTTA
1 ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
1247470 TTATATAAGCGCTACCTATTAC
66 TTATATAAGCGCTACCTATTAC
* * *
1247492 ATTATATAAGCGGTATCTAATATGTTATTGTACTTGGTAAT
1 ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAAT
1247533 ATTTTCGGTT
Statistics
Matches: 273, Mismatches: 29, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
87 193 0.71
89 1 0.00
92 2 0.01
94 77 0.28
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (87 bp):
ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
TTATATAAGCGCTACCTATTAC
Found at i:1247367 original size:181 final size:181
Alignment explanation
Indices: 1247143--1247502 Score: 612
Period size: 181 Copynumber: 2.0 Consensus size: 181
1247133 TTTTATTATA
* * *
1247143 TAAGCTCTATCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATAT
1 TAAGCCCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATAT
* * * *
1247208 AAGTGTTACCTATTACATTATATAAGTGGTACCTAATATGTTATTGTGCTTGATAATGTTTCTAG
66 AAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCTTGATAATGTTTCCAG
* **
1247273 TAATTAACCTATTTTATTATATAAGCGCTACCTATTTTATTATATAAGCAC
131 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCAC
*
1247324 TAAGCCCTACCTAATATGTTATTATGTTTGATAATGTTTCCAGTAATTAACCTATTTTATTATAT
1 TAAGCCCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATAT
*
1247389 AAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGTTTGATAATGTTTCCAG
66 AAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCTTGATAATGTTTCCAG
1247454 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGC
131 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGC
1247503 GGTATCTAAT
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 167 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (181 bp):
TAAGCCCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATAT
AAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCTTGATAATGTTTCCAG
TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCAC
Found at i:1247408 original size:23 final size:23
Alignment explanation
Indices: 1247373--1247432 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1247363 CCAGTAATTA
* *
1247373 ACCTATTTTATTATATAAGTGAT
1 ACCTATTATATTATATAAGCGAT
* *
1247396 ACCTATTACATTATATAAGCGGT
1 ACCTATTATATTATATAAGCGAT
*
1247419 ACCTAATATATTAT
1 ACCTATTATATTAT
1247433 TGTGTTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGAT
Found at i:1247519 original size:23 final size:23
Alignment explanation
Indices: 1247469--1247513 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1247459 AACATATTTT
*
1247469 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
1247492 ATTATATAAGCGGTATCTAATA
1 ATTATATAAGCGCTACCTAATA
1247514 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1249068 original size:17 final size:18
Alignment explanation
Indices: 1249042--1249083 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1249032 AGGTGAAAAC
*
1249042 AAATAAATAAAAT-ATTG
1 AAATAAATAAAATCATTA
*
1249059 AAATATATAAAATCATTA
1 AAATAAATAAAATCATTA
1249077 AAATAAA
1 AAATAAA
1249084 ACAGGCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATAAATAAAATCATTA
Done.