Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 76 of 143
Found at i:24703970 original size:24 final size:24
Alignment explanation
Indices: 24703943--24703991 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24703933 AGAGTTTGAC
* *
24703943 TAAAATAATTAAACAAAGTTTAAT
1 TAAAACAAATAAACAAAGTTTAAT
*
24703967 TAAAACAAATAAACAGAGTTTAAT
1 TAAAACAAATAAACAAAGTTTAAT
24703991 T
1 T
24703992 GAAAGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (24 bp):
TAAAACAAATAAACAAAGTTTAAT
Found at i:24704684 original size:79 final size:78
Alignment explanation
Indices: 24704545--24704780 Score: 355
Period size: 79 Copynumber: 3.0 Consensus size: 78
24704535 CCTTTAATTG
** * *
24704545 TTGTCTTGAATTACCCTTTAAGTGCAACAAAATCGATCAGCATTTGAAGAGTCTTCCCTTGGTCT
1 TTGT-TTGAATTGTCCTTTAAGTGCACCAAAATCGATCAGCATTTGAAGAGTCTTTCCTTGGTCT
24704610 TTTGAAGAGTCACC
65 TTTGAAGAGTCACC
24704624 TTGTATTGAATTGTCCTTTAAGTGCACCAAAATCGATCAGCATTTGAAGAGTCTTTCCTTGGTCT
1 TTGT-TTGAATTGTCCTTTAAGTGCACCAAAATCGATCAGCATTTGAAGAGTCTTTCCTTGGTCT
24704689 TTTGAAGAGTCACC
65 TTTGAAGAGTCACC
* * * * *
24704703 TTGCTTTGAATCGTCCTTTAAGTGCACCTAAACCAATAAGCATTTGAAGAGTCTTTCCTTGGTCT
1 TTG-TTTGAATTGTCCTTTAAGTGCACCAAAATCGATCAGCATTTGAAGAGTCTTTCCTTGGTCT
*
24704768 TTTGAATAGTCAC
65 TTTGAAGAGTCAC
24704781 AATGTATCAA
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 144 0.99
80 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (78 bp):
TTGTTTGAATTGTCCTTTAAGTGCACCAAAATCGATCAGCATTTGAAGAGTCTTTCCTTGGTCTT
TTGAAGAGTCACC
Found at i:24705236 original size:50 final size:50
Alignment explanation
Indices: 24705174--24705274 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 50
24705164 ACTCATGTTT
* * *
24705174 AAACTAAATGAACACA-CAATATGCTTAAATGAAAGGCTT-AATTAAGATGC
1 AAACTAAATGAACAAATCAAT-TACTT-AATGAAAGACTTAAATTAAGATGC
*
24705224 AAACTAAATGAACAAATCAATTACTTAATGTAAGACTTAAATTAAGATGC
1 AAACTAAATGAACAAATCAATTACTTAATGAAAGACTTAAATTAAGATGC
24705274 A
1 A
24705275 CACTTAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 10 0.22
50 31 0.69
51 4 0.09
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (50 bp):
AAACTAAATGAACAAATCAATTACTTAATGAAAGACTTAAATTAAGATGC
Found at i:24706993 original size:23 final size:22
Alignment explanation
Indices: 24706967--24707018 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
24706957 CATCGTACTA
24706967 CCAATATCAATCGCACCAAAGTG
1 CCAATA-CAATCGCACCAAAGTG
24706990 CCAATCACAATCGCACCAAAGTG
1 CCAAT-ACAATCGCACCAAAGTG
24707013 CCAATA
1 CCAATA
24707019 AGCTCCCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 1 0.04
23 26 0.93
24 1 0.04
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.15
Consensus pattern (22 bp):
CCAATACAATCGCACCAAAGTG
Found at i:24709865 original size:12 final size:13
Alignment explanation
Indices: 24709850--24709884 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24709840 TAAAAAATTC
*
24709850 TTTTTTAAAA-TA
1 TTTTTTAAAAGCA
24709862 TTTTTTAAAAGCA
1 TTTTTTAAAAGCA
24709875 TTTTTTAAAA
1 TTTTTTAAAA
24709885 ATAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (13 bp):
TTTTTTAAAAGCA
Found at i:24726450 original size:24 final size:24
Alignment explanation
Indices: 24726422--24726484 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
24726412 AAAAATAATC
* *
24726422 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTACTTG
*
24726446 TTTCAATTAAACTCTGTTTACTTG
1 TTTCAGTTAAACTCTGTTTACTTG
* *
24726470 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
24726485 TATTACTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTACTTG
Found at i:24728863 original size:23 final size:23
Alignment explanation
Indices: 24728848--24728906 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
24728838 TTAATTTTCA
24728848 CGAACATGTTCATTTAACTAAAT
1 CGAACATGTTCATTTAACTAAAT
24728871 CGAACATGTTCATTTAACTAAAT
1 CGAACATGTTCATTTAACTAAAT
24728894 CGAACATGTTCAT
1 CGAACATGTTCAT
24728907 GGACATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (23 bp):
CGAACATGTTCATTTAACTAAAT
Found at i:24730806 original size:25 final size:25
Alignment explanation
Indices: 24730778--24730825 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24730768 TCAAAAGGCA
24730778 GATTAC-AAGCCCTTTCGATTGTTTC
1 GATTACTAA-CCCTTTCGATTGTTTC
*
24730803 GATTACTCACCCTTTCGATTGTT
1 GATTACTAACCCTTTCGATTGTT
24730826 CTTCCTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (25 bp):
GATTACTAACCCTTTCGATTGTTTC
Found at i:24731012 original size:20 final size:20
Alignment explanation
Indices: 24730983--24731024 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
24730973 CATTTGACTA
24730983 TTTTTTGGG-TTTATTCTTT
1 TTTTTTGGGTTTTATTCTTT
24731002 TTTTTTGGGGTTTTATTCTTT
1 TTTTTT-GGGTTTTATTCTTT
24731023 TT
1 TT
24731025 ATTTCTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
21 12 0.57
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.74
Consensus pattern (20 bp):
TTTTTTGGGTTTTATTCTTT
Found at i:24731093 original size:33 final size:33
Alignment explanation
Indices: 24731056--24731121 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
24731046 CATTGATGAG
* *
24731056 GTTTTTTTATTTTCTGGGTTTTGACTCTATTTT
1 GTTTTGTTATTTTCTAGGTTTTGACTCTATTTT
*
24731089 GTTTTGTTATTTTCTAGGTTTTGACTCTGTTTT
1 GTTTTGTTATTTTCTAGGTTTTGACTCTATTTT
24731122 ATTTCGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.09, C:0.09, G:0.17, T:0.65
Consensus pattern (33 bp):
GTTTTGTTATTTTCTAGGTTTTGACTCTATTTT
Found at i:24731159 original size:37 final size:37
Alignment explanation
Indices: 24731118--24731194 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
24731108 TTTGACTCTG
* *
24731118 TTTTATTTCGTATTATATATAACTTTTATTATTTATT
1 TTTTAATTCGTACTATATATAACTTTTATTATTTATT
* * *
24731155 TTTTAATTGGTACTATATCTAACTTTTATTTTTTATT
1 TTTTAATTCGTACTATATATAACTTTTATTATTTATT
24731192 TTT
1 TTT
24731195 GTTGGCATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (37 bp):
TTTTAATTCGTACTATATATAACTTTTATTATTTATT
Found at i:24731371 original size:21 final size:21
Alignment explanation
Indices: 24731289--24731561 Score: 199
Period size: 21 Copynumber: 13.1 Consensus size: 21
24731279 TTACTGTTTG
24731289 TGTATG-TATGTATA--ATTA
1 TGTATGTTATGTATATTATTA
* * *
24731307 TGTATGTTA--TACACTGTTA
1 TGTATGTTATGTATATTATTA
*
24731326 TGTATGTTATGGTCCATATTGTTA
1 TGTATGTTAT-GT--ATATTATTA
24731350 TGTATGTTATGTATATTATTA
1 TGTATGTTATGTATATTATTA
* *
24731371 TGTATGTTATG--T-TTACTG
1 TGTATGTTATGTATATTATTA
*
24731389 T-TATGTT-TGTATATT-TGTG
1 TGTATGTTATGTATATTAT-TA
24731408 TGTATGTTATGTATATTATTA
1 TGTATGTTATGTATATTATTA
* *
24731429 TGTATGTTATGTTTACTATTA
1 TGTATGTTATGTATATTATTA
* *
24731450 TGTATGTTATGTTTACTATTA
1 TGTATGTTATGTATATTATTA
* * * * *
24731471 TATGTATTATGTAGGTATAATTT
1 TGTATGTTATGTA--TATTATTA
24731494 TGTATGTTATGTATATATAATTA
1 TGTATGTTATGTATAT-T-ATTA
* * * *
24731517 TATATGTTATGTTTACTGTTA
1 TGTATGTTATGTATATTATTA
* *
24731538 TGTATGTTATGTTTATTGTTA
1 TGTATGTTATGTATATTATTA
24731559 TGT
1 TGT
24731562 TTGTATGACC
Statistics
Matches: 207, Mismatches: 29, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
16 2 0.01
17 9 0.04
18 12 0.06
19 20 0.10
20 6 0.03
21 105 0.51
22 3 0.01
23 33 0.16
24 17 0.08
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (21 bp):
TGTATGTTATGTATATTATTA
Found at i:24731438 original size:79 final size:78
Alignment explanation
Indices: 24731326--24731567 Score: 279
Period size: 79 Copynumber: 2.9 Consensus size: 78
24731316 TACACTGTTA
* * *
24731326 TGTATGTTATGGTCCATATTGTTATGTATGTTATGTATATTATTATGTATGTTATGTTTACTGTT
1 TGTATGTTAT-GT--ATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTT
24731391 ATGTTTGTATAT-TTGT
63 ATGTTTGTATATATT-T
*
24731407 GTGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTATTAT
1 -TGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACT-GT-T
24731472 ATGTATTATGTAGGTATAATTT
63 ATG--TT-TGTA--TAT-ATTT
* * *
24731494 TGTATGTTATGTATATATAATTATATATGTTATGTTTACTGTTATGTATGTTATGTTTATTGTTA
1 TGTATGTTATGTATAT-T-ATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTTA
24731559 TGTTTGTAT
64 TGTTTGTAT
24731568 GACCTTTTAT
Statistics
Matches: 141, Mismatches: 8, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
79 44 0.31
80 1 0.01
81 7 0.05
82 10 0.07
83 6 0.04
84 6 0.04
86 23 0.16
87 3 0.02
88 41 0.29
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (78 bp):
TGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTTATG
TTTGTATATATTT
Found at i:24731481 original size:88 final size:77
Alignment explanation
Indices: 24731326--24731561 Score: 247
Period size: 88 Copynumber: 2.9 Consensus size: 77
24731316 TACACTGTTA
* * *
24731326 TGTATGTTATGGTCCATATTGTTATGTATGTTATGTATATTATTATGTATGTTATGTTTACTGTT
1 TGTATGTTAT-GT--ATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTT
** *
24731391 ATGTTTGTATATTTGT
63 ATGTAGGTATAATT-T
24731407 GTGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTATTAT
1 -TGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTAC------
24731472 ATGTATTATGTAGGTATAATTT
59 -TG--TTATGTAGGTATAATTT
* * *
24731494 TGTATGTTATGTATATATAATTATATATGTTATGTTTACTGTTATGTATGTTATGTTTATTGTTA
1 TGTATGTTATGTATAT-T-ATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTTA
24731559 TGT
64 TGT
24731562 TTGTATGACC
Statistics
Matches: 134, Mismatches: 9, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
79 49 0.37
81 4 0.03
82 10 0.07
86 18 0.13
87 2 0.01
88 51 0.38
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (77 bp):
TGTATGTTATGTATATTATTATGTATGTTATGTTTACTATTATGTATGTTATGTTTACTGTTATG
TAGGTATAATTT
Found at i:24731504 original size:23 final size:23
Alignment explanation
Indices: 24731467--24731528 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24731457 TATGTTTACT
* * *
24731467 ATTATATGTATTATGTAGGTATA
1 ATTATATATGTTATGTAGATATA
* * *
24731490 ATTTTGTATGTTATGTATATATA
1 ATTATATATGTTATGTAGATATA
24731513 ATTATATATGTTATGT
1 ATTATATATGTTATGT
24731529 TTACTGTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (23 bp):
ATTATATATGTTATGTAGATATA
Found at i:24731536 original size:12 final size:11
Alignment explanation
Indices: 24731519--24731563 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
24731509 TATAATTATA
24731519 TATGTTATGTT
1 TATGTTATGTT
24731530 TACTGTTATG--
1 TA-TGTTATGTT
24731540 TATGTTATGTT
1 TATGTTATGTT
24731551 TATTGTTATGTT
1 TA-TGTTATGTT
24731563 T
1 T
24731564 GTATGACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.23
10 2 0.07
11 4 0.13
12 17 0.57
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (11 bp):
TATGTTATGTT
Found at i:24733344 original size:21 final size:22
Alignment explanation
Indices: 24733297--24733345 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
24733287 ATAGTGCAAA
24733297 CTTCTACCAATATAAGTGACAG
1 CTTCTACCAATATAAGTGACAG
* *
24733319 C-TCTACCGATATAAGTGAC-T
1 CTTCTACCAATATAAGTGACAG
24733339 CTTCTAC
1 CTTCTAC
24733346 TGAAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (22 bp):
CTTCTACCAATATAAGTGACAG
Found at i:24734426 original size:20 final size:20
Alignment explanation
Indices: 24734389--24734426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24734379 GGTATAAAAT
*
24734389 CTCTTTTTCCCCTTTTTAGA
1 CTCTTTTTCCCCTATTTAGA
24734409 CTCTTTTTCTCCC-ATTTA
1 CTCTTTTTC-CCCTATTTA
24734427 TTTCCCTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.11, C:0.32, G:0.03, T:0.55
Consensus pattern (20 bp):
CTCTTTTTCCCCTATTTAGA
Found at i:24735033 original size:15 final size:15
Alignment explanation
Indices: 24734991--24735037 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
24734981 CAATAACCCA
*
24734991 AACTGAATCGAA-TCG
1 AACTGAACCGAACT-G
24735006 AACTGTTAACCGAACTG
1 AACTG--AACCGAACTG
24735023 AACTGAACCGAACTG
1 AACTGAACCGAACTG
24735038 TTAGCTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 15 0.54
17 12 0.43
18 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (15 bp):
AACTGAACCGAACTG
Found at i:24736276 original size:28 final size:28
Alignment explanation
Indices: 24736232--24736295 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
24736222 TTGTAAGTTG
24736232 TTTTAAATTTAGGGATT-TTAGTATTTA
1 TTTTAAATTTAGGGATTATTAGTATTTA
** *
24736259 TTTTAGAATTTATTGATTACTTAGTTTTTA
1 TTTTA-AATTTAGGGATTA-TTAGTATTTA
*
24736289 TTATAAA
1 TTTTAAA
24736296 CTCTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 5 0.17
28 10 0.33
29 2 0.07
30 13 0.43
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (28 bp):
TTTTAAATTTAGGGATTATTAGTATTTA
Found at i:24736550 original size:8 final size:8
Alignment explanation
Indices: 24736534--24736571 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
24736524 ATTAACATGT
24736534 TATA-ATG
1 TATATATG
*
24736541 TATATTTG
1 TATATATG
*
24736549 TATATATA
1 TATATATG
24736557 TATATATG
1 TATATATG
24736565 TATATAT
1 TATATAT
24736572 ATTAAAGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (8 bp):
TATATATG
Found at i:24736566 original size:16 final size:16
Alignment explanation
Indices: 24736541--24736573 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24736531 TGTTATAATG
*
24736541 TATATTTGTATATATA
1 TATATATGTATATATA
24736557 TATATATGTATATATA
1 TATATATGTATATATA
24736573 T
1 T
24736574 TAAAGTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:24741018 original size:60 final size:58
Alignment explanation
Indices: 24740928--24741178 Score: 353
Period size: 58 Copynumber: 4.3 Consensus size: 58
24740918 CTCTCGGGGC
* * * *
24740928 AAAATGGTAAATTTCT-GTGAAATCGAGGTTAAAACTGGAATTTTAGAAAGTTTAGGGGT
1 AAAATGGT-AATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA-GGGT
* *
24740987 AAAATAGTATTTTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTA-ATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA-GGGT
* **
24741047 AAAATGGTAATTTTTAGTGAAATTAGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGT
* *
24741104 AAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGT
24741162 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
24741179 AAGTTTGGGG
Statistics
Matches: 175, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
57 31 0.18
58 68 0.39
59 28 0.16
60 48 0.27
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGT
Found at i:24741049 original size:29 final size:28
Alignment explanation
Indices: 24741019--24741233 Score: 167
Period size: 29 Copynumber: 7.5 Consensus size: 28
24741009 ATCGGGGTTA
24741019 AAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGAATTTTGGAAAGTTTAGGGGT
*
24741047 AAAATGGTAATTTTTAGTGAAA--TTAGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGT
24741077 AAAATGGAATTTTGGAAAGTTTA-GGGT
1 AAAATGGAATTTTGGAAAGTTTAGGGGT
24741104 AAAATGGTAATTTTTGGTGAAA--TT-GGGGT
1 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGT
24741133 CAAAAATGGAATTTTGGAAAGTTTA-GGGT
1 --AAAATGGAATTTTGGAAAGTTTAGGGGT
*
24741162 AAAATGGTAATTTTTGG-AAGTTTGGGGGT
1 AAAATGG-AA-TTTTGGAAAGTTTAGGGGT
** ** * *
24741191 CAAAATATAATTTTCTAAAATTTTGGGGT
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
*
24741220 CAAAATGTAATTTT
1 -AAAATGGAATTTT
24741234 TGGACTATTT
Statistics
Matches: 156, Mismatches: 10, Indels: 41
0.75 0.05 0.20
Matches are distributed among these distances:
26 4 0.03
27 22 0.14
28 29 0.19
29 59 0.38
30 26 0.17
31 12 0.08
32 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:24741230 original size:116 final size:116
Alignment explanation
Indices: 24740965--24741236 Score: 329
Period size: 116 Copynumber: 2.3 Consensus size: 116
24740955 GTTAAAACTG
* * *
24740965 GAATTTT-AGAAAGTTTAGGGGTAAAATAGTATTTTTTTGGTGAAATCGGGGTTAAAAATGGAAT
1 GAATTTTGA-AAAGTTTA-GGGTAAAATGGTA-ATTTTTGGTGAAATCGGGGTCAAAAATGGAAT
* *
24741029 TTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTAGTGAAATTAGGGTTAAAATG
63 TTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTAGTGAAATTAGGGTCAAAATA
* *
24741083 GAATTTTGGAAAGTTTAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTT
1 GAATTTTGAAAAGTTTAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTT
* *
24741148 GGAAAGTTTA-GGGTAAAATGGTAATTTTT-G-GAAGTTTGGGGGTCAAAATA
66 GGAAAGTTTAGGGGTAAAATGGTAATTTTTAGTGAA-ATT-AGGGTCAAAATA
* * * *
24741198 TAATTTTCTAAAATTTTGGGGTCAAAAT-GTAATTTTTGG
1 GAATTTT-GAAAAGTTTAGGGT-AAAATGGTAATTTTTGG
24741237 ACTATTTGGA
Statistics
Matches: 135, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
113 3 0.02
114 3 0.02
115 34 0.25
116 63 0.47
117 17 0.13
118 15 0.11
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (116 bp):
GAATTTTGAAAAGTTTAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTT
GGAAAGTTTAGGGGTAAAATGGTAATTTTTAGTGAAATTAGGGTCAAAATA
Found at i:24742405 original size:23 final size:24
Alignment explanation
Indices: 24742386--24742434 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 24
24742376 TCTAATTTCT
24742386 TTATTATT-AT-AATATTAA-TTA
1 TTATTATTAATAAATATTAATTTA
24742407 TTATTATTAATAAATATTAATATTA
1 TTATTATTAATAAATATTAAT-TTA
24742432 TTA
1 TTA
24742435 ATGCCTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.33
22 2 0.08
23 8 0.33
25 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTATTAATAAATATTAATTTA
Found at i:24742425 original size:19 final size:19
Alignment explanation
Indices: 24742386--24742436 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
24742376 TCTAATTTCT
*
24742386 TTATTATTA-TAATATTAA
1 TTATTATTATTAATAATAA
24742404 TTATTATTATTAATAA-ATA
1 TTATTATTATTAATAATA-A
*
24742423 TTAATATTATTAAT
1 TTATTATTATTAAT
24742437 GCCTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTATTATTAATAATAA
Found at i:24743161 original size:29 final size:28
Alignment explanation
Indices: 24743101--24743162 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
24743091 GTTATTTGAG
* *
24743101 TTGGGCCAATTGGGCCTTTGTAATTGTAT
1 TTGGCCCAATTGGG-CTTTGTAATTGGAT
24743130 TTGGCCCAATTGGG-TTTGTACATTGGACT
1 TTGGCCCAATTGGGCTTTGTA-ATTGGA-T
24743159 TTGG
1 TTGG
24743163 GCTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 5 0.17
29 18 0.62
ACGTcount: A:0.16, C:0.15, G:0.29, T:0.40
Consensus pattern (28 bp):
TTGGCCCAATTGGGCTTTGTAATTGGAT
Found at i:24743199 original size:6 final size:6
Alignment explanation
Indices: 24743190--24743255 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
24743180 TATAATAATG
* * * *
24743190 TTAAAT TTAAA- TTAAAT TCAAAT TTAAA- TTGAAT TCAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
24743235 TTAAAA TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
24743256 TTTCAAAATG
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
5 16 0.36
6 29 0.64
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:24743206 original size:11 final size:11
Alignment explanation
Indices: 24743190--24743258 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
24743180 TATAATAATG
24743190 TTAAATTTAAA-
1 TTAAA-TTAAAT
24743201 TTAAATTCAAAT
1 TTAAATT-AAAT
*
24743213 TTAAATTGAAT
1 TTAAATTAAAT
* *
24743224 TCAAAATAAAT
1 TTAAATTAAAT
24743235 TTAAAATTAAA-
1 TT-AAATTAAAT
* *
24743246 ATAAATTTAAT
1 TTAAATTAAAT
24743257 TT
1 TT
24743259 CAAAATGGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 9 0.20
11 22 0.49
12 14 0.31
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:24743212 original size:17 final size:17
Alignment explanation
Indices: 24743192--24743228 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24743182 TAATAATGTT
24743192 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTC
*
24743209 AAATTTAAATTGAATTC
1 AAATTTAAATTAAATTC
24743226 AAA
1 AAA
24743229 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTAAATTC
Found at i:24743246 original size:17 final size:18
Alignment explanation
Indices: 24743221--24743264 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
24743211 ATTTAAATTG
24743221 AATTCAAAATAAATTTAA
1 AATTCAAAATAAATTTAA
24743239 AATT-AAAATAAATTT-A
1 AATTCAAAATAAATTTAA
*
24743255 ATTTCAAAAT
1 AATTCAAAAT
24743265 GGTTTGGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAAATTTAA
Found at i:24747273 original size:52 final size:52
Alignment explanation
Indices: 24747145--24747323 Score: 279
Period size: 52 Copynumber: 3.5 Consensus size: 52
24747135 AAGGGTTACA
24747145 CACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT-CT
1 CACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACT
*
24747196 CACGATTACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACT
1 CACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACT
* * * *
24747248 CACGATGACACATAGTCATCCGACCTCATATTCCATAAAGGATTGATATACT
1 CACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACT
* * *
24747300 TACAATGACACATAATCATCGGAC
1 CACGATGACACATAGTCATCGGAC
24747324 ATTTTTCATT
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 48 0.41
52 69 0.59
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (52 bp):
CACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACT
Found at i:24749718 original size:72 final size:72
Alignment explanation
Indices: 24749637--24749778 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 72
24749627 TTGAAGAAAA
* *
24749637 AAGGGAAAACGAT-A-TTGAGGTGAGGGAAAACAATAGTGAAACCAAAATGAAAAAATAGAAGAA
1 AAGGGAAAACGATGAGGTGAGG-GAGGGAAAACAATAGTGAAAACAAAATG-AAAAATAGAAGAA
24749700 GATGAGGAT
64 GATGAGGAT
*
24749709 AAGGGAAAACGATGGGGAGGTGAGGGAGGGAAAACAATGGTGAAAACAAAATGAAAAATAGAAGA
1 AAGGGAAAACGAT---GAGGTGAGGGAGGGAAAACAATAGTGAAAACAAAATGAAAAATAGAAGA
24749774 AGATG
63 AGATG
24749779 GAGTTAGGGT
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
72 13 0.21
75 17 0.27
76 27 0.44
77 5 0.08
ACGTcount: A:0.51, C:0.05, G:0.32, T:0.12
Consensus pattern (72 bp):
AAGGGAAAACGATGAGGTGAGGGAGGGAAAACAATAGTGAAAACAAAATGAAAAATAGAAGAAGA
TGAGGAT
Found at i:24754973 original size:114 final size:114
Alignment explanation
Indices: 24754771--24755000 Score: 329
Period size: 114 Copynumber: 2.0 Consensus size: 114
24754761 CACCCACTAA
* * *
24754771 AAAGAATCCAGAGATAATAATGAGACATAAAAATTCAGTACCATACACAAGTCATGGCTAGATTT
1 AAAGAATACAGAGATAATAATGAGACATAAAAATTCAATACCATACACAA--CATGACTAGATTT
* *
24754836 GAATCTTGAAATTTCTTTTTACAGCCTATCTAGCCCAAGAATAACTAGCAG
64 GAACCTTGAAATTTCTTTTTACAGCCTATCAAGCCCAAGAATAACTAGCAG
* *
24754887 AAAGAATACAGAGATAATAATTAGGCATACAAAAATTCAATACCATACAC-A-ATGACTAGATTT
1 AAAGAATACAGAGATAATAATGAGACAT--AAAAATTCAATACCATACACAACATGACTAGATTT
* *
24754950 GAACCTTGAAATTTCTTTTTACAGCCTATGAAGTCCAAGAATAACTAGCAG
64 GAACCTTGAAATTTCTTTTTACAGCCTATCAAGCCCAAGAATAACTAGCAG
24755001 TGCACAGTGA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
114 58 0.56
116 25 0.24
117 1 0.01
118 19 0.18
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (114 bp):
AAAGAATACAGAGATAATAATGAGACATAAAAATTCAATACCATACACAACATGACTAGATTTGA
ACCTTGAAATTTCTTTTTACAGCCTATCAAGCCCAAGAATAACTAGCAG
Found at i:24761191 original size:53 final size:53
Alignment explanation
Indices: 24761129--24761236 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
24761119 AGTAACATGT
* *
24761129 TAAGCTTCCTCAACTTTGAAGATGCAAATGTATTAACACAGGTTTATATTTAA
1 TAAGCTTCCTCAACTTTGAAGATGCAAATATATTAACACAAGTTTATATTTAA
* * *
24761182 TAAGCTTCCTCAATTTTGAAGATGCAAATATATTAAGATAAGTTTATATTTAA
1 TAAGCTTCCTCAACTTTGAAGATGCAAATATATTAACACAAGTTTATATTTAA
24761235 TA
1 TA
24761237 CTACCGGCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (53 bp):
TAAGCTTCCTCAACTTTGAAGATGCAAATATATTAACACAAGTTTATATTTAA
Found at i:24768505 original size:22 final size:23
Alignment explanation
Indices: 24768469--24768511 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
24768459 CATTTGAATT
24768469 TATAAGTTTATTTATTTTTAAAA
1 TATAAGTTTATTTATTTTTAAAA
*
24768492 TATAATTTTA-TTATTTTTAA
1 TATAAGTTTATTTATTTTTAA
24768512 TCTATGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATAAGTTTATTTATTTTTAAAA
Found at i:24773593 original size:9 final size:8
Alignment explanation
Indices: 24773567--24773592 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24773557 CCATCGGTAG
24773567 AAGAAAAA
1 AAGAAAAA
24773575 AAGAAAAA
1 AAGAAAAA
24773583 AAGAAAAA
1 AAGAAAAA
24773591 AA
1 AA
24773593 ATGTAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:24779710 original size:29 final size:29
Alignment explanation
Indices: 24779674--24779730 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
24779664 TTAATTGATA
24779674 TATGATCCTTTGCATTTTCTATGAAATAT
1 TATGATCCTTTGCATTTTCTATGAAATAT
24779703 TATGATCCTTTGCATTTTCTATGAAATA
1 TATGATCCTTTGCATTTTCTATGAAATA
24779731 CCATGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (29 bp):
TATGATCCTTTGCATTTTCTATGAAATAT
Found at i:24779736 original size:29 final size:29
Alignment explanation
Indices: 24779675--24779737 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
24779665 TAATTGATAT
**
24779675 ATGATCCTTTGCATTTTCTATGAAATATT
1 ATGATCCTTTGCATTTTCTATGAAATACC
24779704 ATGATCCTTTGCATTTTCTATGAAATACC
1 ATGATCCTTTGCATTTTCTATGAAATACC
24779733 ATGAT
1 ATGAT
24779738 AATATTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (29 bp):
ATGATCCTTTGCATTTTCTATGAAATACC
Found at i:24781219 original size:34 final size:34
Alignment explanation
Indices: 24781176--24781244 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
24781166 CCTGTTGCCC
24781176 GAGGATTCAGAAAAATAAAGCCTATTTTGAATAT
1 GAGGATTCAGAAAAATAAAGCCTATTTTGAATAT
*
24781210 GAGGATTCAGAATAATAAAGCCTATTTTGAATAT
1 GAGGATTCAGAAAAATAAAGCCTATTTTGAATAT
24781244 G
1 G
24781245 GTGATGAGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (34 bp):
GAGGATTCAGAAAAATAAAGCCTATTTTGAATAT
Found at i:24783930 original size:14 final size:13
Alignment explanation
Indices: 24783890--24783932 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
24783880 TTCGCCCGAG
24783890 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
*
24783903 AAGAAAAGACAAAA
1 AAGAAAA-AGAAAA
24783917 AAGAAAAAGTAAAA
1 AAGAAAAAG-AAAA
24783931 AA
1 AA
24783933 AGGTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:24783949 original size:19 final size:19
Alignment explanation
Indices: 24783894--24783963 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
24783884 CCCGAGAAGA
*
24783894 AAAAGAAAAAAGAA-AAGAC
1 AAAAGAAAAAA-AACAAAAC
**
24783913 AAAA-AAGAAAAAGTAAAA-
1 AAAAGAA-AAAAAACAAAAC
*
24783931 AAAGGTAAAAAAAACAAAAC
1 AAAAG-AAAAAAAACAAAAC
24783951 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
24783964 AGGAGAGGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 6 0.15
19 28 0.70
20 6 0.15
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAAAAACAAAAC
Found at i:24783964 original size:15 final size:14
Alignment explanation
Indices: 24783888--24783965 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 14
24783878 ATTTCGCCCG
24783888 AGAAGAAAAAGAAAAA
1 AGAA-AAAAA-AAAAA
* *
24783904 AGAAAAGACAAAAA
1 AGAAAAAAAAAAAA
24783918 AGAAAAAGTAAAAAAA
1 AGAAAAA--AAAAAAA
* *
24783934 GGTAAAAAAAACAAA
1 AG-AAAAAAAAAAAA
*
24783949 ACAAAAGAAAAAAAA
1 AGAAAA-AAAAAAAA
24783964 AG
1 AG
24783966 GAGAGGTCGA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
14 15 0.31
15 17 0.35
16 11 0.23
17 5 0.10
ACGTcount: A:0.79, C:0.04, G:0.14, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:24784524 original size:104 final size:104
Alignment explanation
Indices: 24784279--24784541 Score: 350
Period size: 104 Copynumber: 2.5 Consensus size: 104
24784269 GTCATTTTTA
** *
24784279 ATCTTTTTCATTTATGCGAGCTTTGCCTCCAAGAAATTCAATTTTATTCGTCTTGCGACCATGTT
1 ATCTTTTTCATTTATGCGAGCTTTGCCTCCAAGAAATTCAATTTTATTCACCTTACGACCATGTT
* *
24784344 CAGTCATTTTTTGCACCAATAATGATTTATGAACCAATG
66 CAGTCATTTTTTGCACCAATAACGATTCATGAACCAATG
* * *
24784383 ATCTTTTTCATTCAAGCGAGCTTTGCCTCCAAGAAATTCAATTTTATTTACCTTACGACCATGTT
1 ATCTTTTTCATTTATGCGAGCTTTGCCTCCAAGAAATTCAATTTTATTCACCTTACGACCATGTT
24784448 CAAG-CA-TTTTTGCACCAATAACGATTCATGAACCAATG
66 C-AGTCATTTTTTGCACCAATAACGATTCATGAACCAATG
* * * * * * * *
24784486 ATCTCTTTCATTTATGCAATCTTTACCTTCAATCAAATTCAATTTCATCCACCTTA
1 ATCTTTTTCATTTATGCGAGCTTTGCCTCCAA-GAAATTCAATTTTATTCACCTTA
24784542 TAACCTTAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
103 55 0.40
104 81 0.59
105 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (104 bp):
ATCTTTTTCATTTATGCGAGCTTTGCCTCCAAGAAATTCAATTTTATTCACCTTACGACCATGTT
CAGTCATTTTTTGCACCAATAACGATTCATGAACCAATG
Found at i:24785114 original size:50 final size:50
Alignment explanation
Indices: 24785015--24785541 Score: 292
Period size: 49 Copynumber: 10.7 Consensus size: 50
24785005 ATCGAGGAAG
* * * * * * * *
24785015 CATAG-AGATATGAAGGGAAAGGTTGAGGCTGTAACAGCGAACCCTGTAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
* * *
24785064 CTTAGAAGACATGATGGGAATA-ATTGAGGCCGTAACGGTGAATCCAGTAC
1 CATAGAAGATATGATGGGAA-AGATTGAGGCCGCAACGGTGAATCCAGTAC
* * * * * * * *
24785114 CATAGAA-ATA--AAGGGAAAGGTTGAGACCGTAATGGCGAACCCTGTAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
* * * * *
24785161 CGTAGAAGATTTGATGAGAAAGATTGAGGCCACAATGGTGAATCCAGTAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
* * * * **
24785211 CAT-GAAGATATGAAGGGAAAGATTAAAGCCGCAACGGTAAATCTGGTAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
** * ** *
24785260 CAT-GAAGATATGACAGGAAAGGTTGAGGCCGCAACGACGAACCCAGTAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
* * * * * *
24785309 CTTAAAAGATGTGATGGGAAGGATTGAGGTCGCAACGGTGAATCC-GACAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAG-TAC
* * * ** ** * *
24785359 CAT-GAA-ATGTAATGGGAAAGGTTGAGGCCAAAACGACGAATTC-GACAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAG-TAC
* * * *
24785407 CAT-GAA-ATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAA-CCCGATAC
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAG-TAC
* * * * * ** *
24785455 CTTAGAAAGATATGTTGAGAAGGATTGAGGCTGCAACGGCAAATCTAGTAC
1 CATAG-AAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
* * * * *
24785506 CAT-GAAGATAGGAAGGGAAAGGTTGACGCTGCAACG
1 CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACG
24785542 ACGAACCTAG
Statistics
Matches: 365, Mismatches: 100, Indels: 26
0.74 0.20 0.05
Matches are distributed among these distances:
46 1 0.00
47 35 0.10
48 77 0.21
49 111 0.30
50 108 0.30
51 31 0.08
52 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (50 bp):
CATAGAAGATATGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTAC
Found at i:24785161 original size:47 final size:48
Alignment explanation
Indices: 24785027--24785167 Score: 133
Period size: 47 Copynumber: 2.9 Consensus size: 48
24785017 TAGAGATATG
* * * *
24785027 AAGGGAAAGGTTGAGGCTGTAACAGCGAACCCTGTACCTTAGAAGACATG
1 AAGGGAAAGGTTGAGGCCGTAACGGCGAACCCTGTACCATAG-A-ACATA
* * * * *
24785077 ATGGGAATA-ATTGAGGCCGTAACGGTGAATCCAGTACCATAGAA-ATA
1 AAGGGAA-AGGTTGAGGCCGTAACGGCGAACCCTGTACCATAGAACATA
* * *
24785124 AAGGGAAAGGTTGAGACCGTAATGGCGAACCCTGTACCGTAGAA
1 AAGGGAAAGGTTGAGGCCGTAACGGCGAACCCTGTACCATAGAA
24785168 GATTTGATGA
Statistics
Matches: 72, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
46 1 0.01
47 36 0.50
48 1 0.01
49 1 0.01
50 32 0.44
51 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.18
Consensus pattern (48 bp):
AAGGGAAAGGTTGAGGCCGTAACGGCGAACCCTGTACCATAGAACATA
Found at i:24785201 original size:97 final size:98
Alignment explanation
Indices: 24785020--24785231 Score: 268
Period size: 97 Copynumber: 2.2 Consensus size: 98
24785010 GGAAGCATAG
* * * *
24785020 AGATATGAAGGGAAAGGTTGAGGCTGTAACAGCGAACCCTGTACCTTAGAAGACATGATGGGAAT
1 AGATA-GAAGGGAAAGGTTGAGACCGTAACAGCGAACCCTGTACCGTAGAAGACATGATGAGAAT
**
24785085 AATTGAGGCCGTAACGGTGAATCCAGTACCATAGA
65 AATTGAGGCCACAACGGTGAATCCAGTACCAT-GA
** **
24785120 A-ATA-AAGGGAAAGGTTGAGACCGTAATGGCGAACCCTGTACCGTAGAAGATTTGATGAGAA-A
1 AGATAGAAGGGAAAGGTTGAGACCGTAACAGCGAACCCTGTACCGTAGAAGACATGATGAGAATA
*
24785182 GATTGAGGCCACAATGGTGAATCCAGTACCATGA
66 -ATTGAGGCCACAACGGTGAATCCAGTACCATGA
24785216 AGATATGAAGGGAAAG
1 AGATA-GAAGGGAAAG
24785232 ATTAAAGCCG
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
96 4 0.04
97 80 0.82
99 12 0.12
100 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (98 bp):
AGATAGAAGGGAAAGGTTGAGACCGTAACAGCGAACCCTGTACCGTAGAAGACATGATGAGAATA
ATTGAGGCCACAACGGTGAATCCAGTACCATGA
Found at i:24785306 original size:98 final size:98
Alignment explanation
Indices: 24785204--24785398 Score: 212
Period size: 99 Copynumber: 2.0 Consensus size: 98
24785194 AATGGTGAAT
* * **
24785204 CCAGTACCAT-GAAGATATGAAGGGAAAGATTAAAGCCGCAACGGTAAATCTGGTACCATGAAGA
1 CCAGTACCATAAAAGATATGAAGGGAAAGATTAAAGCCGCAACGGTAAATCCGACACCATGAA-A
* **
24785268 TATGACAGGAAAGGTTGAGGCCGCAACGACGAAC
65 TATAACAGGAAAGGTTGAGGCCAAAACGACGAAC
* * * * * * * *
24785302 CCAGTACCTTAAAAGATGTGATGGGAAGGATTGAGGTCGCAACGGTGAATCCGACACCATGAAAT
1 CCAGTACCATAAAAGATATGAAGGGAAAGATTAAAGCCGCAACGGTAAATCCGACACCATGAAAT
* **
24785367 GTAATGGGAAAGGTTGAGGCCAAAACGACGAA
66 ATAACAGGAAAGGTTGAGGCCAAAACGACGAA
24785399 TTCGACACCA
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
98 37 0.47
99 41 0.53
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.16
Consensus pattern (98 bp):
CCAGTACCATAAAAGATATGAAGGGAAAGATTAAAGCCGCAACGGTAAATCCGACACCATGAAAT
ATAACAGGAAAGGTTGAGGCCAAAACGACGAAC
Found at i:24785309 original size:148 final size:145
Alignment explanation
Indices: 24785127--24785526 Score: 376
Period size: 148 Copynumber: 2.7 Consensus size: 145
24785117 AGAAATAAAG
* * * * * *
24785127 GGAAAGGTTGAGACCGTAATGGCGAACCCTGTACCGTAGAAGATTTGATGAGAAAGATTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCC-GTACCTTAGAAGATATGATGAGAAGGATTGAGGCC
* * **
24785192 ACAATGGTGAATCCAGTACCATGAAGATATGAAGGGAAAGATTAAAGCCGCAACG-GTAAATCTG
65 GCAACGGTGAATCCAGTACCATGAAGATATGAAGGGAAAGATTAAAGCCAAAACGAG-AAATC-G
** *
24785256 GTACCATGAAGATATGACA
128 ACACCATGAA-ATATAACA
* * * * *
24785275 GGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTTAAAAGATGTGATGGGAAGGATTGAGGTC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCC-GTACCTTAGAAGATATGATGAGAAGGATTGAGGCC
* * * * * *
24785340 GCAACGGTGAATCC-GACACCATGAA-ATGT-AATGGGAAAGGTTGAGGCCAAAACGACGAATTC
65 GCAACGGTGAATCCAG-TACCATGAAGATATGAA-GGGAAAGATTAAAGCCAAAACGA-GAAATC
* **
24785402 GACACCATGAAATGTAATG
127 GACACCATGAAATATAACA
* *
24785421 GGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAAGATATGTTGAGAAGGATTGAGGC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCG-TACCTTAG-AAGATATGATGAGAAGGATTGAGGC
* ** * *
24785486 TGCAACGGCAAATCTAGTACCATGAAGATAGGAAGGGAAAG
64 CGCAACGGTGAATCCAGTACCATGAAGATATGAAGGGAAAG
24785527 GTTGACGCTG
Statistics
Matches: 202, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
145 1 0.00
146 40 0.20
147 70 0.35
148 88 0.44
149 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (145 bp):
GGAAAGGTTGAGGCCGCAACGGCGAACCCGTACCTTAGAAGATATGATGAGAAGGATTGAGGCCG
CAACGGTGAATCCAGTACCATGAAGATATGAAGGGAAAGATTAAAGCCAAAACGAGAAATCGACA
CCATGAAATATAACA
Found at i:24785385 original size:48 final size:48
Alignment explanation
Indices: 24785317--24785451 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
24785307 ACCTTAAAAG
* *
24785317 ATGTGATGGG-AAGGATTGAGGTCGCAACGGTGAATCCGACACCATGAA
1 ATGTAATGGGAAAGG-TTGAGGCCGCAACGGTGAATCCGACACCATGAA
** ** *
24785365 ATGTAATGGGAAAGGTTGAGGCCAAAACGACGAATTCGACACCATGAA
1 ATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAATCCGACACCATGAA
*
24785413 ATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGA
1 ATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAATCCGA
24785452 TACCTTAGAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 69 0.95
49 4 0.05
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (48 bp):
ATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAATCCGACACCATGAA
Found at i:24785889 original size:41 final size:39
Alignment explanation
Indices: 24785827--24786329 Score: 495
Period size: 41 Copynumber: 12.6 Consensus size: 39
24785817 TTATGTCACC
*
24785827 TCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* * * *
24785866 TCGTCAATCTCTTACCTCGATCATGTGGTAGATTGAAGCCA
1 TC--CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* * * * *
24785907 TCAAATCTCTTACCCCGATCATGGGGTAAATTAAAGATA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
*
24785946 TTGCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA
1 -T-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
24785987 TCGCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
1 T--CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* *
24786028 TCGCTAATCTCTTACCCCGATCATGAGGCAGATTGAAGCCA
1 TC-C-AATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* * *
24786069 TCAAATCTCTTACCCCGATCATGAGGCAAATTGAAGACA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* * *
24786108 TCGCTAATCTCTTACCCCGATCATGAGGCAGATTAAAAACCA
1 TC-C-AATCTCTTACCCCGATCATGGGGCAGATTGAAGA-CA
* * * * * *
24786150 TTCGATCTCTTACCTCGATCATGGGGCAAATTAAAAACCA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-CA
* * ** * * *
24786190 TTCGATCTCTTACCCTAATCATGGGGCAGATCGTAGCCA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
* * * *
24786229 TCCAATCTCTTACTCTGATCATGGGGCAGATTAAAAACCA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-CA
* * * *
24786269 TCCGATCTCTTACCCCGATCATAGGGCAGATCGCAA-CCA
1 TCCAATCTCTTACCCCGATCATGGGGCAGATTG-AAGACA
* *
24786308 TCTAATCTTTTACCCCGATCAT
1 TCCAATCTCTTACCCCGATCAT
24786330 AGGATAGATT
Statistics
Matches: 391, Mismatches: 61, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
39 120 0.31
40 93 0.24
41 175 0.45
42 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (39 bp):
TCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
Found at i:24785968 original size:80 final size:80
Alignment explanation
Indices: 24785830--24786329 Score: 512
Period size: 80 Copynumber: 6.2 Consensus size: 80
24785820 TGTCACCTCC
* * * * * * *
24785830 AATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCGTCAATCTCTTACCTCGATCATGTGGT
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCAATCTCTTACCCCGATCATGAGGC
24785895 AGATTGAAGCCATCA
66 AGATTGAAGCCATCA
* * * * *
24785910 AATCTCTTACCCCGATCATGGGGTAAATTAAAGATATTGCCAATCTCTTACCCTGATCATGGGGC
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCAATCTCTTACCCCGATCATGAGGC
* *
24785975 AGATTGAAGACATCGCC
66 AGATTGAAGCCAT--CA
* * *
24785992 AATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCTAATCTCTTACCCCGATCATGAGGC
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCAATCTCTTACCCCGATCATGAGGC
24786057 AGATTGAAGCCATCA
66 AGATTGAAGCCATCA
* * *
24786072 AATCTCTTACCCCGATCATGAGGCAAATTGAAGACATCGCTAATCTCTTACCCCGATCATGAGGC
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCAATCTCTTACCCCGATCATGAGGC
* *
24786137 AGATTAAAAACCATTC-
66 AGATT-GAAGCCA-TCA
* * * ** *
24786153 GATCTCTTACCTCGATCATGGGGCAAATTAAAAACCATTCG---ATCTCTTACCCTAATCATGGG
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGA-CA-TCGCCAATCTCTTACCCCGATCATGAG
* * *
24786215 GCAGATCGTAGCCATCC
64 GCAGATTGAAGCCATCA
* * * * *
24786232 AATCTCTTACTCTGATCATGGGGCAGATTAAAAACCAT--CCGATCTCTTACCCCGATCAT-AGG
1 AATCTCTTACCCCGATCATGGGGCAAATTAAAGA-CATCGCCAATCTCTTACCCCGATCATGA-G
* *
24786294 GCAGATCGCAA-CCATCT
64 GCAGATTG-AAGCCATCA
*
24786311 AATCTTTTACCCCGATCAT
1 AATCTCTTACCCCGATCAT
24786330 AGGATAGATT
Statistics
Matches: 356, Mismatches: 52, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.01
79 82 0.23
80 160 0.45
81 34 0.10
82 74 0.21
83 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (80 bp):
AATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCAATCTCTTACCCCGATCATGAGGC
AGATTGAAGCCATCA
Found at i:24786076 original size:121 final size:120
Alignment explanation
Indices: 24785829--24786290 Score: 520
Period size: 121 Copynumber: 3.8 Consensus size: 120
24785819 ATGTCACCTC
* * * *
24785829 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCGTCAATCTCTTACCTCGATCATGTGG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGGGG
* * * * * * **
24785894 TAGATT-GAAGCCATCAAATCTCTTACCCCGATCATGGGGTAAATTAAAGATATT
66 CAGATTAAAAACCATCCAATCTCTTACCCCGATCATGAGGCAAATTAAAGCCATT
*
24785948 GCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGG
1 --CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGG
* * * *
24786013 GGCAGATTGAAGA-CATCGCTAATCTCTTACCCCGATCATGAGGCAGATTGAAGCCA-T
64 GGCAGATTAAAAACCATC-C-AATCTCTTACCCCGATCATGAGGCAAATTAAAGCCATT
* * * *
24786070 CAAATCTCTTACCCCGATCATGAGGCAAATTGAAGACATCGCTAATCTCTTACCCCGATCATGAG
1 C-AATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGGG
* * * * *
24786135 GCAGATTAAAAACCATTCGATCTCTTACCTCGATCATGGGGCAAATTAAAAACCATT
65 GCAGATTAAAAACCATCCAATCTCTTACCCCGATCATGAGGCAAATT-AAAGCCATT
* ** * * * * *
24786192 CGATCTCTTACCCTAATCATGGGGCAGATCGTAGCCAT--CCAATCTCTTACTCTGATCATGGGG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGGGG
*
24786255 CAGATTAAAAACCATCCGATCTCTTACCCCGATCAT
66 CAGATTAAAAACCATCCAATCTCTTACCCCGATCAT
24786291 AGGGCAGATC
Statistics
Matches: 290, Mismatches: 44, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
119 55 0.19
120 26 0.09
121 172 0.59
122 7 0.02
123 30 0.10
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (120 bp):
CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCGCCAATCTCTTACCCCGATCATGGGG
CAGATTAAAAACCATCCAATCTCTTACCCCGATCATGAGGCAAATTAAAGCCATT
Found at i:24798706 original size:13 final size:13
Alignment explanation
Indices: 24798688--24798713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24798678 GATGGAAGAG
24798688 AATAAAATAAAAA
1 AATAAAATAAAAA
24798701 AATAAAATAAAAA
1 AATAAAATAAAAA
24798714 TGAAGTAGAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:24804943 original size:11 final size:11
Alignment explanation
Indices: 24804917--24804945 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
24804907 TAAACCTCTA
24804917 ATAATTTTTTT
1 ATAATTTTTTT
24804928 A-AATTTTTTT
1 ATAATTTTTTT
24804938 ATAATTTT
1 ATAATTTT
24804946 CCAAACTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:24805804 original size:11 final size:11
Alignment explanation
Indices: 24805788--24805835 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
24805778 CCATTTTCTA
24805788 AATAAAATAAT
1 AATAAAATAAT
*
24805799 AAT-AAATATCT
1 AATAAAATA-AT
*
24805810 AATTAAAATATT
1 AA-TAAAATAAT
24805822 AATAAAATAAT
1 AATAAAATAAT
24805833 AAT
1 AAT
24805836 TAATTAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.55
12 4 0.13
13 5 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:24805816 original size:23 final size:23
Alignment explanation
Indices: 24805784--24805827 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24805774 GCTACCATTT
24805784 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
24805807 TCTAATTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
24805828 ATAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:24805835 original size:23 final size:23
Alignment explanation
Indices: 24805790--24805838 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
24805780 ATTTTCTAAA
*
24805790 TAAAATAATAATAAATATCTAAT
1 TAAAATAATAATAAATATATAAT
*
24805813 TAAAATATTAATAAA-ATAATAAT
1 TAAAATAATAATAAATAT-ATAAT
24805836 TAA
1 TAA
24805839 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAATAATAATAAATATATAAT
Found at i:24812775 original size:26 final size:24
Alignment explanation
Indices: 24812746--24812822 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 24
24812736 ATTCTATTGG
24812746 AGAGCATTTGTGGCTAATTTTGTTAA
1 AGAGC-TTTGTGGCT-ATTTTGTTAA
*
24812772 AGAGCCTTTGTGGCTGATTCTGTTAA
1 AGAG-CTTTGTGGCT-ATTTTGTTAA
*
24812798 AGAGTCTTTGTTGCTATCTTTGTTA
1 AGAG-CTTTGTGGCTAT-TTTGTTA
24812823 TAGGATGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.05
26 41 0.93
27 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (24 bp):
AGAGCTTTGTGGCTATTTTGTTAA
Found at i:24812808 original size:52 final size:52
Alignment explanation
Indices: 24812721--24812822 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
24812711 TATTATATGT
**
24812721 GAGCCTTTGTAGCTGATTCTATTGGAGAGCATTTGTGGCTAAT-TTTGTTAAA
1 GAGCCTTTGTAGCTGATTCTATTAAAGAGCATTTGTGGCT-ATCTTTGTTAAA
* * *
24812773 GAGCCTTTGTGGCTGATTCTGTTAAAGAGTC-TTTGTTGCTATCTTTGTTA
1 GAGCCTTTGTAGCTGATTCTATTAAAGAG-CATTTGTGGCTATCTTTGTTA
24812823 TAGGATGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
51 2 0.05
52 40 0.93
53 1 0.02
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.43
Consensus pattern (52 bp):
GAGCCTTTGTAGCTGATTCTATTAAAGAGCATTTGTGGCTATCTTTGTTAAA
Found at i:24819580 original size:17 final size:17
Alignment explanation
Indices: 24819540--24819596 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
24819530 ATTAAATATT
* *
24819540 AATTTATTTTAAATTTA
1 AATTTATTTTGAATTGA
* * *
24819557 GACTTATTTTGAGTTGA
1 AATTTATTTTGAATTGA
*
24819574 AATTTATTTTGAATTTA
1 AATTTATTTTGAATTGA
24819591 AATTTA
1 AATTTA
24819597 AAGTTTAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (17 bp):
AATTTATTTTGAATTGA
Found at i:24821247 original size:30 final size:30
Alignment explanation
Indices: 24821200--24821334 Score: 127
Period size: 29 Copynumber: 4.6 Consensus size: 30
24821190 CCCAAAAGGT
*
24821200 CCCTAAA-TTTTCAAAAATCATATTTTGAC
1 CCCTAAACTTTTCTAAAATCATATTTTGAC
** *
24821229 CCCTAAACTTTTCTAAAATTGTATTTTAAC
1 CCCTAAACTTTTCTAAAATCATATTTTGAC
* * * * *
24821259 CCCCAAACTTTAC-AAAATTACATTTT-AT
1 CCCTAAACTTTTCTAAAATCATATTTTGAC
*
24821287 CCCTGAAC-TTTCTAAAAATCATATTTTGAC
1 CCCTAAACTTTTCT-AAAATCATATTTTGAC
*
24821317 CCC-AAACTTTTCCAAAAT
1 CCCTAAACTTTTCTAAAAT
24821335 TGCATTCTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
27 3 0.04
28 7 0.08
29 37 0.44
30 37 0.44
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTTTCTAAAATCATATTTTGAC
Found at i:24821285 original size:29 final size:29
Alignment explanation
Indices: 24821221--24821439 Score: 151
Period size: 29 Copynumber: 7.6 Consensus size: 29
24821211 CAAAAATCAT
* * **
24821221 ATTTTGACCCCTAAACTTTTCTAAAATTGT
1 ATTTTAACCCCTAAACTTTAC-AAAATTAC
*
24821251 ATTTTAACCCCCAAACTTTACAAAATTAC
1 ATTTTAACCCCTAAACTTTACAAAATTAC
* * * *
24821280 ATTTT-ATCCCTGAACTTT-CTAAAAATCAT
1 ATTTTAACCCCTAAACTTTAC--AAAATTAC
* * *
24821309 ATTTTGACCCC-AAACTTTTCCAAAATTGC
1 ATTTTAACCCCTAAAC-TTTACAAAATTAC
* * * *
24821338 ATTCTAACCTC-GAACTTCACAAAATTAC
1 ATTTTAACCCCTAAACTTTACAAAATTAC
* * *
24821366 ATTTTTACCCCTAAAC-TTCCAAAAATCAC
1 ATTTTAACCCCTAAACTTTAC-AAAATTAC
* * *
24821395 ATTTTAACCCCTTAATTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTACAAAATTAC
*
24821424 ATTTTTACCCCTAAAC
1 ATTTTAACCCCTAAAC
24821440 ATCTTAAAAT
Statistics
Matches: 145, Mismatches: 36, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
27 1 0.01
28 30 0.21
29 84 0.58
30 29 0.20
31 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTTTAACCCCTAAACTTTACAAAATTAC
Found at i:24821399 original size:86 final size:87
Alignment explanation
Indices: 24821200--24821478 Score: 285
Period size: 87 Copynumber: 3.2 Consensus size: 87
24821190 CCCAAAAGGT
* * * * *
24821200 CCCTAAATTTTCAAAAATCATATTTTGACCCCTAAACTTTTCTAAAATTGTATTTTAACCCCCAA
1 CCCTAAACTTCCAAAAATCATATTTTGACCCCTAAACTTTTCCAAAATTGCATTCTAACCCCCAA
* *
24821265 ACTTTACAAAATTACATTTTAT
66 ACTTCACAAAATTACATTTTAC
* * * *
24821287 CCCTGAACTTTCTAAAAATCATATTTTGACCCC-AAACTTTTCCAAAATTGCATTCTAA-CCTCG
1 CCCTAAAC-TTCCAAAAATCATATTTTGACCCCTAAACTTTTCCAAAATTGCATTCTAACCCCCA
24821350 AACTTCACAAAATTACATTTTTAC
65 AACTTCACAAAATTACA-TTTTAC
* * * * * * *
24821374 CCCTAAACTTCCAAAAATCACATTTTAACCCCTTAA-TTTTCCAAAATTACATTTTTACCCCTAA
1 CCCTAAACTTCCAAAAATCATATTTTGACCCCTAAACTTTTCCAAAATTGCATTCTAACCCCCAA
* ** *
24821438 ACATCTTAAAATTACCATTTTGC
66 ACTTCACAAAATTA-CATTTTAC
* * *
24821461 CCCCAAACATCTAAAAAT
1 CCCTAAACTTCCAAAAAT
24821479 TAACATTTTA
Statistics
Matches: 158, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
86 58 0.37
87 76 0.48
88 24 0.15
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (87 bp):
CCCTAAACTTCCAAAAATCATATTTTGACCCCTAAACTTTTCCAAAATTGCATTCTAACCCCCAA
ACTTCACAAAATTACATTTTAC
Found at i:24821448 original size:29 final size:29
Alignment explanation
Indices: 24821358--24821549 Score: 128
Period size: 29 Copynumber: 6.6 Consensus size: 29
24821348 CGAACTTCAC
* *
24821358 AAAATTACATTTTTACCCCTAAACTTCCA
1 AAAATTACATTTTTACCCCTAAACATCTA
* * * * * *
24821387 AAAATCACATTTTAACCCCTTAA-TTTTCC
1 AAAATTACATTTTTACCCCTAAACATCT-A
*
24821416 AAAATTACATTTTTACCCCTAAACATCTT
1 AAAATTACATTTTTACCCCTAAACATCTA
* *
24821445 AAAATTACCA-TTTTGCCCCCAAACATCTA
1 AAAATTA-CATTTTTACCCCTAAACATCTA
* **
24821474 AAAATTAACA-TTTTA-CCCTCGAACATCCC
1 AAAATT-ACATTTTTACCCCT-AAACATCTA
* *
24821503 AAAATTACCA-TTTT-GCCCTCGAACATCTA
1 AAAATTA-CATTTTTACCCCT-AAACATCTA
24821532 AAAATTACCA-TTTTACCC
1 AAAATTA-CATTTTTACCC
24821550 TCGAACACCC
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
28 6 0.05
29 119 0.90
30 7 0.05
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCTAAACATCTA
Found at i:24821478 original size:58 final size:58
Alignment explanation
Indices: 24821416--24821602 Score: 202
Period size: 58 Copynumber: 3.2 Consensus size: 58
24821406 TTAATTTTCC
**
24821416 AAAATTACATTTTTACCCCT-AAACATCTTAAAATTACCATTTTGCCCCCAAACATCTA
1 AAAATTACA-TTTTACCCCTCAAACATCCCAAAATTACCATTTTGCCCCCAAACATCTA
* * *
24821474 AAAATTAACATTTTA-CCCTCGAACATCCCAAAATTACCATTTTGCCCTCGAACATCTA
1 AAAATT-ACATTTTACCCCTCAAACATCCCAAAATTACCATTTTGCCCCCAAACATCTA
* * ** * *
24821532 AAAATTACCATTTTA-CCCTCGAACACCCCAAAATTACTGTTTTGCCTCCAAATC-TCAA
1 AAAATTA-CATTTTACCCCTCAAACATCCCAAAATTACCATTTTGCCCCCAAA-CATCTA
*
24821590 AAAATCACATTTT
1 AAAATTACATTTT
24821603 CGACCTCAAG
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
57 11 0.10
58 97 0.87
59 4 0.04
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (58 bp):
AAAATTACATTTTACCCCTCAAACATCCCAAAATTACCATTTTGCCCCCAAACATCTA
Found at i:24821550 original size:29 final size:29
Alignment explanation
Indices: 24821416--24821556 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
24821406 TTAATTTTCC
* *
24821416 AAAATTA-CATTTTTACCC-CTAAACATCTT
1 AAAATTACCA-TTTTACCCTC-GAACATCTA
* * *
24821445 AAAATTACCATTTTGCCCCCAAACATCTA
1 AAAATTACCATTTTACCCTCGAACATCTA
* **
24821474 AAAATTAACATTTTACCCTCGAACATCCC
1 AAAATTACCATTTTACCCTCGAACATCTA
*
24821503 AAAATTACCATTTTGCCCTCGAACATCTA
1 AAAATTACCATTTTACCCTCGAACATCTA
24821532 AAAATTACCATTTTACCCTCGAACA
1 AAAATTACCATTTTACCCTCGAACA
24821557 CCCCAAAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 94 0.97
30 3 0.03
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACATCTA
Found at i:24821672 original size:29 final size:30
Alignment explanation
Indices: 24821598--24821673 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
24821588 AAAAAATCAC
* * *
24821598 ATTTTCGACCTCAAGTTTTCCAAAGAGTTCG
1 ATTTT-GACCCCAAATTTTCCAAAGAGTTCA
* * * *
24821629 ATTTTAATCCTAAATTTTCCAAA-ATTTCA
1 ATTTTGACCCCAAATTTTCCAAAGAGTTCA
24821658 ATTTTGACCCCAAATT
1 ATTTTGACCCCAAATT
24821674 CCTCGAAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
29 17 0.49
30 13 0.37
31 5 0.14
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
ATTTTGACCCCAAATTTTCCAAAGAGTTCA
Found at i:24834774 original size:24 final size:23
Alignment explanation
Indices: 24834737--24834826 Score: 135
Period size: 24 Copynumber: 3.7 Consensus size: 23
24834727 GTATATTGGT
*
24834737 TAACTATTTTGGGCTCGTAAGAGC
1 TAAC-ATTCTGGGCTCGTAAGAGC
24834761 TAATCATTCTGGGCTCGTAAGAGC
1 TAA-CATTCTGGGCTCGTAAGAGC
24834785 TAACAATTCTGGGCTCGTAAGAGC
1 TAAC-ATTCTGGGCTCGTAAGAGC
24834809 TAACCATTCTGGGCTCGT
1 TAA-CATTCTGGGCTCGT
24834827 GTAGGATAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
23 1 0.02
24 59 0.95
25 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
TAACATTCTGGGCTCGTAAGAGC
Found at i:24839784 original size:36 final size:36
Alignment explanation
Indices: 24839682--24839784 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
24839672 ATATAATTAG
* * *
24839682 TCACATGGTATGAAGAACATACCCACATACTTTCTA
1 TCACATGGCATGAAGAACATACTCACATATTTTCTA
* *
24839718 TCACATGGCATGAAGAACATACTTATATATTTTCTA
1 TCACATGGCATGAAGAACATACTCACATATTTTCTA
24839754 TCACATGGCATGAAG-ACGATACTCACATATT
1 TCACATGGCATGAAGAAC-ATACTCACATATT
24839785 CACTTTCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 2 0.03
36 57 0.97
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (36 bp):
TCACATGGCATGAAGAACATACTCACATATTTTCTA
Found at i:24839899 original size:23 final size:23
Alignment explanation
Indices: 24839864--24840175 Score: 453
Period size: 23 Copynumber: 13.6 Consensus size: 23
24839854 ATCTTAATTT
24839864 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24839887 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24839910 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24839933 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24839956 TTTGAGCAAAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24839979 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24840002 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24840025 TTTAAGCAAAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
24840048 TTTGAGCACAAGTCATATAAATA
1 TTTAAGCACAAATCACATTAATA
*
24840071 TTTAAGAACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24840094 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24840117 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24840140 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24840163 TTTAAGCACAAAT
1 TTTAAGCACAAAT
24840176 ATATACGCTT
Statistics
Matches: 257, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 257 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:24849638 original size:6 final size:6
Alignment explanation
Indices: 24849629--24849665 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
24849619 CATCAACATC
* *
24849629 AAGATA AAGATC AAGATA AAGATG AAGATA AAGATA A
1 AAGATA AAGATA AAGATA AAGATA AAGATA AAGATA A
24849666 GGTTTGGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (6 bp):
AAGATA
Found at i:24849643 original size:12 final size:12
Alignment explanation
Indices: 24849626--24849663 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
24849616 GTCCATCAAC
24849626 ATCAAGATAAAG
1 ATCAAGATAAAG
24849638 ATCAAGATAAAG
1 ATCAAGATAAAG
*
24849650 ATGAAGATAAAG
1 ATCAAGATAAAG
24849662 AT
1 AT
24849664 AAGGTTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.58, C:0.05, G:0.18, T:0.18
Consensus pattern (12 bp):
ATCAAGATAAAG
Found at i:24856136 original size:16 final size:18
Alignment explanation
Indices: 24856117--24856153 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24856107 TATTTATCCC
*
24856117 AAAAT-ATAAT-TATTAT
1 AAAATAATAATATATGAT
24856133 AAAATAATAATATATGAT
1 AAAATAATAATATATGAT
24856151 AAA
1 AAA
24856154 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAATAATAATATATGAT
Found at i:24856647 original size:55 final size:55
Alignment explanation
Indices: 24856586--24856695 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
24856576 CATAATCTTT
24856586 ATAATACTTAATTTAAAAGATATGTATATTAAAATTATATTTTTAAAAAATTAAC
1 ATAATACTTAATTTAAAAGATATGTATATTAAAATTATATTTTTAAAAAATTAAC
24856641 ATAATACTTAATTTAAAAGATATGTATATTAAAATTATATTTTTAAAAAATTAAC
1 ATAATACTTAATTTAAAAGATATGTATATTAAAATTATATTTTTAAAAAATTAAC
24856696 TTAAAATTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (55 bp):
ATAATACTTAATTTAAAAGATATGTATATTAAAATTATATTTTTAAAAAATTAAC
Found at i:24856699 original size:27 final size:27
Alignment explanation
Indices: 24856614--24856710 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
24856604 GATATGTATA
24856614 TTAAAATTATATTTTTAAAAAATTAAC
1 TTAAAATTATATTTTTAAAAAATTAAC
* *
24856641 ATAATACTTA-A--TTTAAAAGATATGTATA-
1 TTAA-AATTATATTTTTAAAA-A-AT-TA-AC
24856669 TTAAAATTATATTTTTAAAAAATTAAC
1 TTAAAATTATATTTTTAAAAAATTAAC
*
24856696 TTAAAATTAAATTTT
1 TTAAAATTATATTTT
24856711 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
25 7 0.12
26 2 0.04
27 26 0.46
28 12 0.21
29 2 0.04
30 7 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
TTAAAATTATATTTTTAAAAAATTAAC
Found at i:24857860 original size:4 final size:4
Alignment explanation
Indices: 24857851--24857904 Score: 56
Period size: 4 Copynumber: 13.2 Consensus size: 4
24857841 AAATAAACGG
* * *
24857851 GAAA GAAA GAAA GAAA GAAAA GAAG GAGAG GAAA GAAA G-AA GAAG GAAA
1 GAAA GAAA GAAA GAAA G-AAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA
24857900 GAAA G
1 GAAA G
24857905 GTAATGTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 3 0.07
4 32 0.74
5 8 0.19
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:24861213 original size:21 final size:21
Alignment explanation
Indices: 24861187--24861233 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24861177 TTAGGGTCCA
*
24861187 ATTGCCTC-GGAGGAGTAGAGT
1 ATTGCC-CGGGAGGAGTAAAGT
*
24861208 ATTGCCCGGGAGGGGTAAAGT
1 ATTGCCCGGGAGGAGTAAAGT
24861229 ATTGC
1 ATTGC
24861234 GGTGGCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (21 bp):
ATTGCCCGGGAGGAGTAAAGT
Found at i:24861372 original size:12 final size:12
Alignment explanation
Indices: 24861336--24861372 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
24861326 ATCCAATGTC
24861336 TCTTCCT-C-CT
1 TCTTCCTCCTCT
24861346 TC-TCCTCCTCT
1 TCTTCCTCCTCT
24861357 TCTTCCTCCTCT
1 TCTTCCTCCTCT
24861369 TCTT
1 TCTT
24861373 GTTGCTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 3 0.12
11 4 0.17
12 13 0.54
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (12 bp):
TCTTCCTCCTCT
Found at i:24863719 original size:20 final size:21
Alignment explanation
Indices: 24863694--24863736 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24863684 TACTTACTAC
24863694 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
* *
24863714 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
24863735 TA
1 TA
24863737 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:24863738 original size:96 final size:94
Alignment explanation
Indices: 24863541--24863730 Score: 323
Period size: 92 Copynumber: 2.0 Consensus size: 94
24863531 AACTAATTTT
*
24863541 TTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTTACTTACTACTACTACT
1 TTTAAAAATTATTAAATTTTAAATCAATAAATATGAACAATG-TTTTTTACTTA-TACTACTACT
24863606 AACAACAAAATAAAATTACTAACTAGCAAAA
64 AACAACAAAATAAAATTACTAACTAGCAAAA
24863637 TTTAAAAATTATTAAATTTTAAATCAATAAATATGAACAATAG-TTTTTAC-T-TACTACTACTA
1 TTTAAAAATTATTAAATTTTAAATCAATAAATATGAACAAT-GTTTTTTACTTATACTACTACTA
24863699 ACAACAAAATAAAATTACTAACTAGCAAAA
65 ACAACAAAATAAAATTACTAACTAGCAAAA
24863729 TT
1 TT
24863731 AAATTAAAGT
Statistics
Matches: 92, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
92 43 0.47
94 1 0.01
95 7 0.08
96 40 0.43
97 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (94 bp):
TTTAAAAATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATACTACTACTAA
CAACAAAATAAAATTACTAACTAGCAAAA
Found at i:24864048 original size:12 final size:12
Alignment explanation
Indices: 24864031--24864076 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
24864021 ACTAACAAAT
24864031 TTTAAAATTAAA
1 TTTAAAATTAAA
*
24864043 TTTAAAA-T-AT
1 TTTAAAATTAAA
24864053 TTTAAAATTAAA
1 TTTAAAATTAAA
*
24864065 TTTAAAAATAAA
1 TTTAAAATTAAA
24864077 CACATTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 8 0.28
11 2 0.07
12 19 0.66
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:24864054 original size:22 final size:22
Alignment explanation
Indices: 24864029--24864071 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24864019 TAACTAACAA
24864029 ATTTTAAAATTAAATTTAAAAT
1 ATTTTAAAATTAAATTTAAAAT
24864051 ATTTTAAAATTAAATTTAAAA
1 ATTTTAAAATTAAATTTAAAA
24864072 ATAAACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAAAATTAAATTTAAAAT
Found at i:24864118 original size:18 final size:19
Alignment explanation
Indices: 24864095--24864162 Score: 86
Period size: 18 Copynumber: 3.6 Consensus size: 19
24864085 TTTTTTTTCT
*
24864095 TTCTCTTTCTTCC-GCTTC
1 TTCTCTTTCTTCCTTCTTC
24864113 TTCTCTTTCTTCCTTCTTCC
1 TTCTCTTTCTTCCTTCTT-C
*
24864133 TTCTTCCTTCTTCCTTCTTC
1 TTC-TCTTTCTTCCTTCTTC
24864153 TT-TCTTTCTT
1 TTCTCTTTCTT
24864163 TCTTTCTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 20 0.45
19 3 0.07
20 7 0.16
21 14 0.32
ACGTcount: A:0.00, C:0.37, G:0.01, T:0.62
Consensus pattern (19 bp):
TTCTCTTTCTTCCTTCTTC
Found at i:24864123 original size:4 final size:4
Alignment explanation
Indices: 24864110--24864184 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
24864100 TTTCTTCCGC
* * * *
24864110 TTCT TCTCT TTC- TTCC TTC- TTCC TTC- TTCC TTC- TTCC TTCT -TCT
1 TTCT T-TCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
24864154 TTCT TTCT TTCT TTCT CTTTT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TT
24864185 TTCCCTCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
3 15 0.25
4 39 0.64
5 7 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTCT
Found at i:24864131 original size:7 final size:7
Alignment explanation
Indices: 24864109--24864158 Score: 73
Period size: 7 Copynumber: 6.9 Consensus size: 7
24864099 CTTTCTTCCG
24864109 CTTCTTC
1 CTTCTTC
24864116 TCTTTCTTC
1 -C-TTCTTC
24864125 CTTCTTC
1 CTTCTTC
24864132 CTTCTTC
1 CTTCTTC
24864139 CTTCTTC
1 CTTCTTC
24864146 CTTCTTC
1 CTTCTTC
*
24864153 TTTCTT
1 CTTCTT
24864159 TCTTTCTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
7 32 0.80
8 2 0.05
9 6 0.15
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (7 bp):
CTTCTTC
Found at i:24864145 original size:21 final size:23
Alignment explanation
Indices: 24864092--24864166 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 23
24864082 TACTTTTTTT
*
24864092 TCTTTC-TCTTTCTTCCGCTTCTTC
1 TCTTTCTTCCTTCTT-C-CTTCTTC
24864116 TCTTTCTTCCTTCTTCCTTCTTC
1 TCTTTCTTCCTTCTTCCTTCTTC
*
24864139 -C-TTCTTCCTTCTTCTTTCTT-
1 TCTTTCTTCCTTCTTCCTTCTTC
24864159 TCTTTCTT
1 TCTTTCTT
24864167 TCTCTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 19 0.41
22 6 0.13
23 7 0.15
24 7 0.15
25 7 0.15
ACGTcount: A:0.00, C:0.36, G:0.01, T:0.63
Consensus pattern (23 bp):
TCTTTCTTCCTTCTTCCTTCTTC
Found at i:24864172 original size:18 final size:18
Alignment explanation
Indices: 24864090--24864184 Score: 74
Period size: 17 Copynumber: 5.4 Consensus size: 18
24864080 ATTACTTTTT
*
24864090 TTTCTTTCTCTTTCTTCC
1 TTTCTTTCTCTTTCTTTC
*
24864108 GCTTC-TTCTCTTTC-TTC
1 -TTTCTTTCTCTTTCTTTC
* * *
24864125 CTTCTTCCT-TCTTCCTTC
1 TTTCTTTCTCT-TTCTTTC
*
24864143 -TTCCTTCTTCTTTCTTTC
1 TTTCTTTC-TCTTTCTTTC
24864161 TTTCTTTCTCTTT-TTTC
1 TTTCTTTCTCTTTCTTTC
24864178 TTTCTTT
1 TTTCTTT
24864185 TTCCCTCAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.08
17 24 0.38
18 24 0.38
19 10 0.16
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTCTTTCTCTTTCTTTC
Found at i:24864172 original size:21 final size:22
Alignment explanation
Indices: 24864110--24864188 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 22
24864100 TTTCTTCCGC
*
24864110 TTCTTCTCTTTCTTCCTTCTTCC
1 TTCTT-TCTTTCTTCCTTCTTCT
*
24864133 TTC-TTCCTTCTTCCTTCTTCT
1 TTCTTTCTTTCTTCCTTCTTCT
* *
24864154 TTCTTTCTTTCTTTC-TCTTTT
1 TTCTTTCTTTCTTCCTTCTTCT
24864175 TTCTTTCTTT-TTCC
1 TTCTTTCTTTCTTCC
24864189 CTCAATTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.06
21 33 0.67
22 10 0.20
23 3 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTTCTTTCTTCCTTCTTCT
Found at i:24871881 original size:3 final size:3
Alignment explanation
Indices: 24871875--24871921 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
24871865 TATATAATAA
24871875 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24871922 GTCAATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24872084 original size:13 final size:13
Alignment explanation
Indices: 24872066--24872090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24872056 TAAATACTAA
24872066 AATTTAAATTTTC
1 AATTTAAATTTTC
24872079 AATTTAAATTTT
1 AATTTAAATTTT
24872091 TAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAAATTTTC
Found at i:24874760 original size:26 final size:25
Alignment explanation
Indices: 24874714--24874764 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24874704 TCAGGGATTG
*
24874714 ATTTAAAAATAATAATCAAATTTTA
1 ATTTAAAAACAATAATCAAATTTTA
* * *
24874739 ATTTGAAAACAATTATCAAAATTTA
1 ATTTAAAAACAATAATCAAATTTTA
24874764 A
1 A
24874765 AAATTGACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
ATTTAAAAACAATAATCAAATTTTA
Found at i:24876838 original size:26 final size:26
Alignment explanation
Indices: 24876800--24876885 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
24876790 CAACTGTCAA
*
24876800 CGGTCAACAGTCAACGATCGATGGGT
1 CGGTCAACGGTCAACGATCGATGGGT
24876826 CGGTCAACGGTCAACGATCGATGGGT
1 CGGTCAACGGTCAACGATCGATGGGT
*
24876852 CGGTCAACGGTCAATGATCGATGGGT
1 CGGTCAACGGTCAACGATCGATGGGT
*
24876878 CGATCAAC
1 CGGTCAAC
24876886 ATTCTGTCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (26 bp):
CGGTCAACGGTCAACGATCGATGGGT
Found at i:24878430 original size:35 final size:35
Alignment explanation
Indices: 24878387--24878507 Score: 147
Period size: 35 Copynumber: 3.5 Consensus size: 35
24878377 CTGCCATAAC
*
24878387 CCAA-CATGGGCTTACGTATATACACTGCCATGGT
1 CCAACCATGGTCTTACGTATATACACTGCCATGGT
* * * *
24878421 CCAACCATGGTCTTATGTTTGAATA-ACTGCCATTGC
1 CCAACCATGGTCTTACGTAT--ATACACTGCCATGGT
*
24878457 CCAACTATGGTCTTACGTATATACACTGCCATGGT
1 CCAACCATGGTCTTACGTATATACACTGCCATGGT
*
24878492 CTAACCATGGTCTTAC
1 CCAACCATGGTCTTAC
24878508 TTGTGAATGC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
34 7 0.10
35 35 0.49
36 26 0.37
37 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (35 bp):
CCAACCATGGTCTTACGTATATACACTGCCATGGT
Found at i:24878499 original size:71 final size:70
Alignment explanation
Indices: 24878358--24878515 Score: 246
Period size: 71 Copynumber: 2.2 Consensus size: 70
24878348 GTCTCCAGTT
24878358 TGGTCTTACGTTTGAATAACTGCCATAACCCAACATGGGCTTACGTATATACACTGCCATGGTCC
1 TGGTCTTACGTTTGAATAACTGCCATAACCCAACATGGGCTTACGTATATACACTGCCATGGTCC
24878423 AACCA
66 AACCA
* ** *
24878428 TGGTCTTATGTTTGAATAACTGCCATTGCCCAACTATGGTCTTACGTATATACACTGCCATGGTC
1 TGGTCTTACGTTTGAATAACTGCCATAACCCAAC-ATGGGCTTACGTATATACACTGCCATGGTC
*
24878493 TAACCA
65 CAACCA
24878499 TGGTCTTAC-TTGTGAAT
1 TGGTCTTACGTT-TGAAT
24878516 GCAACCTATC
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
70 33 0.41
71 47 0.59
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (70 bp):
TGGTCTTACGTTTGAATAACTGCCATAACCCAACATGGGCTTACGTATATACACTGCCATGGTCC
AACCA
Found at i:24885998 original size:35 final size:35
Alignment explanation
Indices: 24885958--24886159 Score: 160
Period size: 35 Copynumber: 5.7 Consensus size: 35
24885948 ATCATCAGAA
*
24885958 TGCCATAG-CCAAGCTATGGTCTTACATATATACAC
1 TGCCATAGTCCAA-CCATGGTCTTACATATATACAC
* * * *
24885993 TGCCATGGTTCAACCATGATCTTACGTATGAATA-AC
1 TGCCATAGTCCAACCATGGTCTTACATAT--ATACAC
* * * *
24886029 TGTCGTAG-CCTAACTATGGTCTTACATATATACAT
1 TGCCATAGTCC-AACCATGGTCTTACATATATACAC
* * *
24886064 TGCCATGGTCCAACCATGATCTTACATCTGAATA-AC
1 TGCCATAGTCCAACCATGGTCTTACATAT--ATACAC
* * * **
24886100 TGCCATAGCCCAGCTATGGTCTTATGTATATACAC
1 TGCCATAGTCCAACCATGGTCTTACATATATACAC
*
24886135 TGCCATGGTCCAACCATGGTCTTAC
1 TGCCATAGTCCAACCATGGTCTTAC
24886160 GTTTGAATGC
Statistics
Matches: 125, Mismatches: 33, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
34 6 0.05
35 64 0.51
36 49 0.39
37 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (35 bp):
TGCCATAGTCCAACCATGGTCTTACATATATACAC
Found at i:24886054 original size:71 final size:70
Alignment explanation
Indices: 24885958--24886167 Score: 294
Period size: 71 Copynumber: 3.0 Consensus size: 70
24885948 ATCATCAGAA
*
24885958 TGCCATAGCCAAGCTATGGTCTTACATATATACACTGCCATGGTTCAACCATGATCTTACGTATG
1 TGCCATAGCCAA-CTATGGTCTTACATATATACACTGCCATGGTCCAACCATGATCTTACGTATG
24886023 AATAAC
65 AATAAC
* * * * *
24886029 TGTCGTAGCCTAACTATGGTCTTACATATATACATTGCCATGGTCCAACCATGATCTTACATCTG
1 TGCCATAGCC-AACTATGGTCTTACATATATACACTGCCATGGTCCAACCATGATCTTACGTATG
24886094 AATAAC
65 AATAAC
* ** * *
24886100 TGCCATAGCCCAGCTATGGTCTTATGTATATACACTGCCATGGTCCAACCATGGTCTTACGTTTG
1 TGCCATAG-CCAACTATGGTCTTACATATATACACTGCCATGGTCCAACCATGATCTTACGTATG
24886165 AAT
65 AAT
24886168 GCAGCCTGTC
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
71 118 0.97
72 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (70 bp):
TGCCATAGCCAACTATGGTCTTACATATATACACTGCCATGGTCCAACCATGATCTTACGTATGA
ATAAC
Found at i:24886746 original size:6 final size:6
Alignment explanation
Indices: 24886735--24886763 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
24886725 AAATCTATTA
24886735 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
24886764 GTCCAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:24888645 original size:58 final size:58
Alignment explanation
Indices: 24888571--24889002 Score: 559
Period size: 58 Copynumber: 7.4 Consensus size: 58
24888561 CCTAGACTGT
*
24888571 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTT-AACCCCGATTTCA
* * * *
24888630 -CAAAAATTACTATTTTACCCCCAAACTTTCCAAAATCTCATTTTAAACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTT-AACCCCGATTTCA
* * * **
24888688 CAAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCTATTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCA
* * ** * *
24888746 CCAAAAATTACCATTTTACCCCCGAATTTTCCAAAATCTGATTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCA
*
24888804 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCA
*
24888863 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCGA-TTTCA
* ** *
24888922 CC-AAAATTACCATTTTACCCCCGAA-TTTCCTAAAATCCCATTTTCGGCTCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCC-AAAATCCCATTTT-AACCCCGATTTCA
24888980 CCAAAAATTA-CATTTTTACCCCC
1 CCAAAAATTACCA-TTTTACCCCC
24889003 GAAAGTTAAA
Statistics
Matches: 329, Mismatches: 36, Indels: 16
0.86 0.09 0.04
Matches are distributed among these distances:
57 9 0.03
58 191 0.58
59 129 0.39
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCA
Found at i:24888777 original size:117 final size:116
Alignment explanation
Indices: 24888572--24889002 Score: 591
Period size: 117 Copynumber: 3.7 Consensus size: 116
24888562 CTAGACTGTC
*
24888572 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCA-CAAAAA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCACCAAAAA
*
24888636 TTACTATTTTACCCCCAAACTTTCCAAAATCTCATTTTAAACCTCAATTTCA
66 TTACCATTTTACCCCCAAACTTTCCAAAATCTCATTTT-AACCTCAATTTCA
* * **
24888688 CAAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCTATTTT-AACCCTAATTTCACCAAAA
1 C-AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCACCAAAA
* * * * *
24888752 ATTACCATTTTACCCCCGAATTTTCCAAAATCTGATTTTAACCTCGATTTTA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATCTCATTTTAACCTCAATTTCA
* *
24888804 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAA
1 -CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCACCAAAA
* *
24888869 ATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCAGTTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATCTCA-TTTTAACCTCAATTTCA
* * *** *
24888922 CCAAAATTACCATTTTACCCCCGAA-TTTCCTAAAATCCCATTTTCGGCTCCGATTTCACCAAAA
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAAATCCCATTTTAAACCCCGATTTCACCAAAA
24888986 ATTA-CATTTTTACCCCC
65 ATTACCA-TTTTACCCCC
24889003 GAAAGTTAAA
Statistics
Matches: 280, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
116 69 0.25
117 197 0.70
118 14 0.05
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (116 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAAATCTCATTTTAACCTCAATTTCA
Found at i:24888863 original size:175 final size:175
Alignment explanation
Indices: 24888571--24889002 Score: 595
Period size: 175 Copynumber: 2.5 Consensus size: 175
24888561 CCTAGACTGT
** *
24888571 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTAAACCCCGATTTCA-CAAAA
1 CCAAAAATTACCATTTTACCCCCGAA-TTTCCAAAATCCCATTTT-AACCTCGATTTCACCAAAA
* * *
24888635 ATTACTATTTTACCCCCAAACTTTCCAAAATCTCATTTTAAACCTCAATTTCACAAAAAATTACC
64 ATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCAATTTCACAAAAAATTACC
* *
24888700 ATTTTACCCCTAAACTTTCCAAAATCCTA-TTTTAACC-CTAATTTCA
129 ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTC-AATTTCA
** *
24888746 CCAAAAATTACCATTTTACCCCCGAATTTTCCAAAATCTGATTTTAACCTCGATTTTACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAA-TTTCCAAAATCCCATTTTAACCTCGATTTCACCAAAAA
* * * *
24888811 TTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
65 TTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCAATTTCACAAAAAATTACCA
*
24888876 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCAGTTTCA
130 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCA
***
24888922 CC-AAAATTACCATTTTACCCCCGAATTTCCTAAAATCCCATTTTCGGCTCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATTTCC-AAAATCCCATTTTAACCT-CGATTTCACCAAAA
24888986 ATTA-CATTTTTACCCCC
64 ATTACCA-TTTTACCCCC
24889003 GAAAGTTAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
174 16 0.07
175 168 0.74
176 43 0.19
177 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (175 bp):
CCAAAAATTACCATTTTACCCCCGAATTTCCAAAATCCCATTTTAACCTCGATTTCACCAAAAAT
TACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAAACCCCAATTTCACAAAAAATTACCAT
TTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCA
Found at i:24888937 original size:30 final size:29
Alignment explanation
Indices: 24888842--24888937 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 29
24888832 TTCTAAAATC
*
24888842 CCATTTTTAACCCCGATTTCACCAAAAATTA
1 CCATTTTTAACCCAG-TTTCACC-AAAATTA
* * *
24888873 CCA-TTTTACCCCCAAACTTT--CCAAAA-TC
1 CCATTTTTA-ACCC--AGTTTCACCAAAATTA
24888901 CCATTTTTAACCTCAGTTTCACCAAAATTA
1 CCATTTTTAACC-CAGTTTCACCAAAATTA
24888931 CCATTTT
1 CCATTTT
24888938 ACCCCCGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
27 4 0.08
28 6 0.12
29 16 0.32
30 15 0.30
31 6 0.12
32 3 0.06
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.34
Consensus pattern (29 bp):
CCATTTTTAACCCAGTTTCACCAAAATTA
Found at i:24901371 original size:113 final size:114
Alignment explanation
Indices: 24901173--24901422 Score: 439
Period size: 113 Copynumber: 2.2 Consensus size: 114
24901163 AGGCGATCAT
* *
24901173 CTTCCTGATGAGATACAGAGAAGAATACCAACTCGACGCTCAATGCGAGCAAATCTTTGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
* * *
24901238 GCTTCCTGATGAGACACTGAGAAGCAGGATGAAGCAAT-AAAAGGTTAG
66 GCTTCCTGATAAGACACTGAGAAGCAGGACGAAGCAATAAAAAAGTTAG
24901286 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
24901351 GCTTCCTGATAAGACACTGAGAAGCAGGACGAAGCAATAAAAAAGTTAG
66 GCTTCCTGATAAGACACTGAGAAGCAGGACGAAGCAATAAAAAAGTTAG
*
24901400 CTTCTTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
24901423 TGGACCAGAT
Statistics
Matches: 130, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 99 0.76
114 31 0.24
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (114 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
GCTTCCTGATAAGACACTGAGAAGCAGGACGAAGCAATAAAAAAGTTAG
Found at i:24901638 original size:114 final size:114
Alignment explanation
Indices: 24901486--24901736 Score: 466
Period size: 114 Copynumber: 2.2 Consensus size: 114
24901476 AGGCGGTCAT
* *
24901486 CTTCCTGATGAGATACAAAGAAGAATATCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
* *
24901551 GCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTTAG
66 GCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAG
24901600 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
24901665 GCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAG
66 GCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAG
24901714 CTTCCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
24901737 TGGACCAGAT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 133 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (114 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
GCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAG
Found at i:24901725 original size:314 final size:314
Alignment explanation
Indices: 24901155--24902288 Score: 1452
Period size: 314 Copynumber: 3.5 Consensus size: 314
24901145 GGAGTAGTTC
* *
24901155 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCGACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
* *
24901220 AGCAAATCTTTGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGATGAAGCAAT-AAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
24901284 AGCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACC
131 AGCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACC
* *
24901349 CAGCTTCCTGATAAGACACTGAGAAGCAGGACGAAGCAATAAAAAAGTTAGCTTCTTGATGAGAT
196 CAGCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAAGTTAGCTTCCTGATGAGAT
24901414 ACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATCAA
261 ACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATCAA
* * *
24901468 AACAAGCAAGGCGGTCATCTTCCTGATGAGATACAAAGAAGAATATCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
24901533 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
24901598 AGCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACC
131 AGCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACC
*
24901663 CAGCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATGAGAT
196 CAGCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAAGTTAGCTTCCTGATGAGAT
*
24901728 ACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAA
261 ACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATCAA
* *
24901782 AACAAGCGAGGCGGTCATCTTCCTGATGAGATGCAGAGACGAATACCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
24901847 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
* *** * * *
24901912 AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCTTAAAGAAATCCAGAGAAGCGA
131 AGCTTCCTGATGAGATACAGAGAAGAATACC-AA-----C-TC--AACG--CT-C--A-ATGCG-
* * * ** * * * ** * *
24901977 ATCGAAA-CAAGT-GAGGCGGTTATCTTCCTGATGAGATAC-AGAGAAG-AATACCAACTCAACG
180 AGC-AAATC--TTCGA-AC--CCAGCTTCCTGATAAGACACTA-AGAAGCAGGACGAA-GCAA--
* *
24902038 CTCAATGCGAGCAAATCTTCGAACCCAACTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGT
235 -T-AA----A--AAA-GTT-------AGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGT
* * * *
24902103 CTTCCTGAA-GAAATCTATAGAAGCGAATCGA
284 CTTCCT-AAGGAGATCCAGAGAAGCGAATCAA
*
24902134 AACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
* *
24902199 AGCAAATCTTTGAACCCAGCTTCCTGATGAGACACTGAGAAGTAGGACGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
* *
24902264 AGCTTCTTGATGAGACACAGAGAAG
131 AGCTTCCTGATGAGATACAGAGAAG
24902289 TGGACCAAAT
Statistics
Matches: 726, Mismatches: 51, Indels: 49
0.88 0.06 0.06
Matches are distributed among these distances:
313 114 0.16
314 340 0.47
315 2 0.00
320 1 0.00
321 2 0.00
323 3 0.00
325 1 0.00
326 1 0.00
328 1 0.00
329 4 0.01
330 3 0.00
331 5 0.01
332 2 0.00
333 6 0.01
334 23 0.03
337 1 0.00
338 2 0.00
342 1 0.00
344 2 0.00
345 2 0.00
352 209 0.29
353 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (314 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTT
AGCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACC
CAGCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAAGTTAGCTTCCTGATGAGAT
ACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATCAA
Found at i:24901943 original size:200 final size:200
Alignment explanation
Indices: 24901600--24902088 Score: 834
Period size: 200 Copynumber: 2.4 Consensus size: 200
24901590 AAAAGGTTAG
24901600 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
* * *
24901665 GCTTCCTGATAAGACACTAAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATGAGATAC
66 GCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATAAGATAC
* * * *
24901730 AGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCG
131 AGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAATCAAAACAAGCGAGGCG
24901795 GTCAT
196 GTCAT
* *
24901800 CTTCCTGATGAGATGCAGAGACGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
24901865 GCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATAAGATAC
66 GCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATAAGATAC
* * *
24901930 AGAGAAGTGGACCAAATTCGTCTTCTTAAAGAAATCCAGAGAAGCGAATCGAAACAAGTGAGGCG
131 AGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAATCAAAACAAGCGAGGCG
*
24901995 GTTAT
196 GTCAT
24902000 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
* * *
24902065 ACTTCCTGATGAGATACAGAGAAG
66 GCTTCCTGATGAGACACTGAGAAG
24902089 TGGACCAGAT
Statistics
Matches: 271, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 271 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (200 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCA
GCTTCCTGATGAGACACTGAGAAGCAGGACGAAGCAATAAAAAGGTTAGCTTCCTGATAAGATAC
AGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAATCAAAACAAGCGAGGCG
GTCAT
Found at i:24902190 original size:152 final size:152
Alignment explanation
Indices: 24901914--24902246 Score: 540
Period size: 152 Copynumber: 2.2 Consensus size: 152
24901904 AAAAGGTTAG
* *
24901914 CTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCTTAAAGAAATCCAGAGAAGCGAAT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAAT
* * *
24901979 CGAAACAAGTGAGGCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAT
66 CGAAACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAT
24902044 GCGAGCAAATCTTCGAACCCAA
131 GCGAGCAAATCTTCGAACCCAA
* * * *
24902066 CTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAAGAAATCTATAGAAGCGAAT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAAT
24902131 CGAAACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAT
66 CGAAACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAT
* *
24902196 GCGAGCAAATCTTTGAACCCAG
131 GCGAGCAAATCTTCGAACCCAA
* *
24902218 CTTCCTGATGAGACACTGAGAAGTAGGAC
1 CTTCCTGATGAGATACAGAGAAGT-GGAC
24902247 GAAGCAATAA
Statistics
Matches: 167, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
152 163 0.98
153 4 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (152 bp):
CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTAAAGAAATCCAGAGAAGCGAAT
CGAAACAAGCGAGACGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAT
GCGAGCAAATCTTCGAACCCAA
Found at i:24904554 original size:29 final size:30
Alignment explanation
Indices: 24904509--24904692 Score: 138
Period size: 30 Copynumber: 6.3 Consensus size: 30
24904499 CCTAGACTGT
*
24904509 CCAAAAATTATCATTTTACCCCCGAACTTT-
1 CCAAAAATTACCATTTTACCCCCGAA-TTTA
* *
24904539 CC-AAAA-TCCCATTTTTAACCCCG-ATTTCA
1 CCAAAAATTACCA-TTTTACCCCCGAATTT-A
*
24904568 CCAAAAATTACCATTTTAACCCCG-ATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATTT-A
*
24904598 CCAAAAATTACCATTTTACCCCCAAACTTT-
1 CCAAAAATTACCATTTTACCCCCGAA-TTTA
* * *
24904628 CC-AAAA-TCCCATTTTTA-ACCCTAATTTCA
1 CCAAAAATTACCA-TTTTACCCCCGAATTT-A
*
24904657 CC-AAAATTACCATTTTACCCCTGAATTT-
1 CCAAAAATTACCATTTTACCCCCGAATTTA
*
24904685 CCTAAAAT
1 CCAAAAAT
24904693 CTCATTTTCA
Statistics
Matches: 128, Mismatches: 13, Indels: 27
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.05
28 15 0.12
29 41 0.32
30 58 0.45
31 5 0.04
32 3 0.02
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (30 bp):
CCAAAAATTACCATTTTACCCCCGAATTTA
Found at i:24904619 original size:59 final size:57
Alignment explanation
Indices: 24904508--24904736 Score: 152
Period size: 59 Copynumber: 3.9 Consensus size: 57
24904498 CCCTAGACTG
* * *
24904508 TCCAAAAATTATCATTTTACCCCCGAACTTT--CCAAAA-TCCCATTTTTAACCCC-GATT
1 TCCAAAAA-TACCATTTTAACCCCG-A-TTTCACCAAAATTACCATTTTT-ACCCCAGATT
*
24904565 TCACCAAAAATTACCATTTTAACCCCGATTTCACCAAAAATTACCA-TTTTACCCCCAAACTT
1 T--CCAAAAA-TACCATTTTAACCCCGATTTCACC-AAAATTACCATTTTTA-CCCCAGA-TT
* ** *
24904627 TCC-AAAATCCCATTTTTAACCCTAATTTCACCAAAATTACCA-TTTTACCCCTGAATT
1 TCCAAAAATACCA-TTTTAACCCCGATTTCACCAAAATTACCATTTTTACCCCAG-ATT
* * * *
24904684 TCCTAAAAT-CTCATTTTCAACTCTGATTTCACCAAAAATTA-TATTTTTACCCC
1 TCCAAAAATAC-CATTTT-AACCCCGATTTCACC-AAAATTACCATTTTTACCCC
24904737 GAAAGTTAAA
Statistics
Matches: 144, Mismatches: 12, Indels: 30
0.77 0.06 0.16
Matches are distributed among these distances:
57 18 0.12
58 42 0.29
59 62 0.43
60 14 0.10
61 5 0.03
62 3 0.02
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (57 bp):
TCCAAAAATACCATTTTAACCCCGATTTCACCAAAATTACCATTTTTACCCCAGATT
Found at i:24904685 original size:89 final size:89
Alignment explanation
Indices: 24904509--24904677 Score: 288
Period size: 89 Copynumber: 1.9 Consensus size: 89
24904499 CCTAGACTGT
* * *
24904509 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
24904574 ATTACCATTTTAACCCCGATTTCA
66 ATTACCATTTTAACCCCGATTTCA
*
24904598 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACC-AAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
24904662 ATTACCATTTT-ACCCC
66 ATTACCATTTTAACCCC
24904678 TGAATTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 5 0.07
88 14 0.18
89 57 0.75
ACGTcount: A:0.34, C:0.33, G:0.02, T:0.31
Consensus pattern (89 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
ATTACCATTTTAACCCCGATTTCA
Found at i:24904699 original size:28 final size:26
Alignment explanation
Indices: 24904609--24904700 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 26
24904599 CAAAAATTAC
* *
24904609 CATTTTACCCCCAAACTTTCCAAAATCC
1 CATTTTA-CCCCTAA-TTTCCAAAATCT
*
24904637 CATTTTTAACCCTAATTTCACCAAAAT-T
1 CA-TTTTACCCCTAATTT--CCAAAATCT
24904665 ACCATTTTACCCCTGAATTTCCTAAAATCT
1 --CATTTTACCCCT-AATTTCC-AAAATCT
24904695 CATTTT
1 CATTTT
24904701 CAACTCTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
27 3 0.06
28 15 0.29
29 26 0.50
30 8 0.15
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.37
Consensus pattern (26 bp):
CATTTTACCCCTAATTTCCAAAATCT
Found at i:24904720 original size:29 final size:28
Alignment explanation
Indices: 24904539--24904720 Score: 97
Period size: 30 Copynumber: 6.2 Consensus size: 28
24904529 CCCGAACTTT
* *
24904539 CCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATCTCA-TTTTAACCCTGATTTCA
*
24904568 CCAAAAAT-TACCATTTTAACCCCGATTTCA
1 CC-AAAATCT--CATTTTAACCCTGATTTCA
* **
24904598 CCAAAAAT-TACCATTTTACCCCCAAACTTT--
1 CC-AAAATCT--CATTTTA-ACCCTGA-TTTCA
* *
24904628 CCAAAATCCCATTTTTAACCCTAATTTCA
1 CCAAAATCTCA-TTTTAACCCTGATTTCA
*
24904657 CCAAAAT-TACCATTTTACCCCTGAATTTC-
1 CCAAAATCT--CATTTTAACCCTG-ATTTCA
* *
24904686 CTAAAATCTCATTTTCAACTCTGATTTCA
1 CCAAAATCTCATTTT-AACCCTGATTTCA
24904715 CCAAAA
1 CCAAAA
24904721 ATTATATTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
27 3 0.02
28 18 0.15
29 44 0.35
30 50 0.40
31 6 0.05
32 3 0.02
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (28 bp):
CCAAAATCTCATTTTAACCCTGATTTCA
Found at i:24904730 original size:58 final size:59
Alignment explanation
Indices: 24904578--24904724 Score: 201
Period size: 58 Copynumber: 2.5 Consensus size: 59
24904568 CCAAAAATTA
*
24904578 CCATTTT-AACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
1 CCATTTTCAACCCTGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
* * **
24904636 CCATTTTTAACCCTAATTTCACC-AAAATTACCATTTTACCCCTGAA-TTTCCTAAAATC
1 CCATTTTCAACCCTGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCC-AAAATC
* *
24904694 TCATTTTCAACTCTGATTTCACCAAAAATTA
1 CCATTTTCAACCCTGATTTCACCAAAAATTA
24904725 TATTTTTACC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 5 0.06
58 53 0.68
59 20 0.26
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
CCATTTTCAACCCTGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
Found at i:24904757 original size:58 final size:57
Alignment explanation
Indices: 24904569--24904757 Score: 181
Period size: 58 Copynumber: 3.2 Consensus size: 57
24904559 CCGATTTCAC
* *
24904569 CAAAAATTACCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTT
1 CAAAAA-TACCATTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCGAAA-TTT
* * *
24904628 CCAAAATCCCATTTTTAACCCTAATTTCACC-AAAATTACCATTTTACCCCTG-AATTT
1 CAAAAATACCA-TTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCC-GAAATTT
* * * *
24904685 CCTAAAAT-CTCATTTTCAACTCTGATTTCACCAAAAATTA-TATTTTTACCCCGAAAGTT
1 -CAAAAATAC-CATTTT-AACCCTGATTTCACCAAAAATTACCA-TTTTACCCCGAAATTT
24904744 -AAAAATTACCATTT
1 CAAAAA-TACCATTT
24904758 CACCCACGGG
Statistics
Matches: 109, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
57 12 0.11
58 54 0.50
59 43 0.39
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (57 bp):
CAAAAATACCATTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCGAAATTT
Found at i:24907101 original size:23 final size:23
Alignment explanation
Indices: 24907075--24907118 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
24907065 ATGAACTTAC
24907075 TTTGACTA-CATTTGAAA-CATACT
1 TTTG-CTAGCATTT-AAAGCATACT
24907098 TTTGCTAGCATTTAAAGCATA
1 TTTGCTAGCATTTAAAGCATA
24907119 TCAAATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (23 bp):
TTTGCTAGCATTTAAAGCATACT
Found at i:24911359 original size:31 final size:31
Alignment explanation
Indices: 24911323--24911389 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
24911313 TTAGGTCCTA
* *
24911323 AACTTGAC-AATTGTTCCCACATTGAGACTTG
1 AACTTGACAAATT-TTCCCACATTGAAACCTG
*
24911354 AACTTGACAAATTTTCTCACATTGAAACCTG
1 AACTTGACAAATTTTCCCACATTGAAACCTG
24911385 AACTT
1 AACTT
24911390 TGTGTTGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (31 bp):
AACTTGACAAATTTTCCCACATTGAAACCTG
Found at i:24912099 original size:20 final size:21
Alignment explanation
Indices: 24912056--24912096 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24912046 TTTTCATGAT
*
24912056 TTAAAATATTATTAATTAAAA
1 TTAAAATATTAATAATTAAAA
24912077 TTAAAATA-TAATAATATAAA
1 TTAAAATATTAATAAT-TAAA
24912097 TTATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATATTAATAATTAAAA
Found at i:24913165 original size:41 final size:40
Alignment explanation
Indices: 24913117--24913217 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
24913107 TCGACCTTGA
** *
24913117 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
24913157 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
24913195 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
24913218 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:24918041 original size:24 final size:23
Alignment explanation
Indices: 24918002--24918046 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
24917992 GATAGGTAGG
24918002 ATGTTTTAAAAGAAATTTGCATAT
1 ATGTTTTAAAAGAAA-TTGCATAT
24918026 ATGTTTTACAAA-AAATTGCAT
1 ATGTTTTA-AAAGAAATTGCAT
24918047 TGTTGTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (23 bp):
ATGTTTTAAAAGAAATTGCATAT
Done.