Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 150 of 279
Found at i:48674402 original size:19 final size:19
Alignment explanation
Indices: 48674373--48674431 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 19
48674363 CTTGGGAGAT
48674373 TTTTCCTTTTT-ATTTCTCTA
1 TTTT-CTTTTTCATTT-TCTA
*
48674393 TTTTCTTTTTCCTTTTCTA
1 TTTTCTTTTTCATTTTCTA
48674412 TTTTCTATTTTCTATTTTCT
1 TTTTCT-TTTTC-ATTTTCT
48674432 CCCTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 16 0.47
20 12 0.35
21 6 0.18
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTTTTTCATTTTCTA
Found at i:48674408 original size:26 final size:26
Alignment explanation
Indices: 48674372--48674430 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 26
48674362 GCTTGGGAGA
48674372 TTTTTCCTTTT-TATTTCTCTATTTTC
1 TTTTTCCTTTTCTATTT-TCTATTTTC
48674398 TTTTTCCTTTTCTATTTTCTATTTTC
1 TTTTTCCTTTTCTATTTTCTATTTTC
48674424 TATTTTC
1 T-TTTTC
48674431 TCCCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTCCTTTTCTATTTTCTATTTTC
Found at i:48674415 original size:7 final size:7
Alignment explanation
Indices: 48674379--48674431 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
48674369 AGATTTTTCC
48674379 TTTT-TA
1 TTTTCTA
48674385 TTTCTCTA
1 TTT-TCTA
48674393 TTTTCT-
1 TTTTCTA
*
48674399 TTTTC-C
1 TTTTCTA
48674405 TTTTCTA
1 TTTTCTA
48674412 TTTTCTA
1 TTTTCTA
48674419 TTTTCTA
1 TTTTCTA
48674426 TTTTCT
1 TTTTCT
48674432 CCCTTTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
6 13 0.31
7 24 0.57
8 5 0.12
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCTA
Found at i:48674415 original size:14 final size:14
Alignment explanation
Indices: 48674371--48674450 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 14
48674361 TGCTTGGGAG
48674371 ATTTTTCCTTTT-T
1 ATTTTTCCTTTTCT
*
48674384 ATTTCT-CTATTT-T
1 ATTTTTCCT-TTTCT
*
48674397 CTTTTTCCTTTTCT
1 ATTTTTCCTTTTCT
*
48674411 A-TTTTCTATTTTCT
1 ATTTTTC-CTTTTCT
*
48674425 ATTTTCTCCCTTTCT
1 ATTTT-TCCTTTTCT
48674440 -TTCTTTCCTTT
1 ATT-TTTCCTTT
48674451 CTTCCCCTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
12 2 0.04
13 21 0.40
14 17 0.33
15 10 0.19
16 2 0.04
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTCCTTTTCT
Found at i:48678389 original size:24 final size:24
Alignment explanation
Indices: 48678362--48678410 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
48678352 GAAAAAACCG
*
48678362 ATGGTGGTGATGAAGATGAAGACA
1 ATGGTGGAGATGAAGATGAAGACA
*
48678386 ATGGTGGAGATGAAGATGAATACA
1 ATGGTGGAGATGAAGATGAAGACA
48678410 A
1 A
48678411 GGGTCGAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (24 bp):
ATGGTGGAGATGAAGATGAAGACA
Found at i:48678424 original size:24 final size:24
Alignment explanation
Indices: 48678373--48678425 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48678363 TGGTGGTGAT
* * *
48678373 GAAGATGAAGACAATGGTGGAGAT
1 GAAGATGAAGACAAGGGTCGAGAC
* *
48678397 GAAGATGAATACAAGGGTCGAGGC
1 GAAGATGAAGACAAGGGTCGAGAC
48678421 GAAGA
1 GAAGA
48678426 CAAATAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.38, T:0.13
Consensus pattern (24 bp):
GAAGATGAAGACAAGGGTCGAGAC
Found at i:48679211 original size:2 final size:2
Alignment explanation
Indices: 48679204--48679241 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
48679194 TCATTTTCAC
48679204 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
48679242 TTCTTCTCCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:48688791 original size:85 final size:85
Alignment explanation
Indices: 48688648--48688810 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
48688638 ATAGGATTGG
*
48688648 ACATATAACTCCTGAGATTCAAAAGGTGATTTATGATGGCAATTGTGTTTTTCTCTTTGGTATTA
1 ACATATAACTCCTGAGATTCAAAAGGTGATTTATGATGGCAATTGTGCTTTTCTCTTTGGTATTA
48688713 TGTTGCTTCTCTTGTACTGT
66 TGTTGCTTCTCTTGTACTGT
*
48688733 ACATATAACTCCTGAGATTCAAAAGGTTATTTATGATGGCAATTGTGCTTTTCTCTTTGGTATTA
1 ACATATAACTCCTGAGATTCAAAAGGTGATTTATGATGGCAATTGTGCTTTTCTCTTTGGTATTA
48688798 TGTTGCTTCTCTT
66 TGTTGCTTCTCTT
48688811 ATATGGTTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.45
Consensus pattern (85 bp):
ACATATAACTCCTGAGATTCAAAAGGTGATTTATGATGGCAATTGTGCTTTTCTCTTTGGTATTA
TGTTGCTTCTCTTGTACTGT
Found at i:48693691 original size:22 final size:22
Alignment explanation
Indices: 48693665--48693709 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48693655 TTTTAATAAA
48693665 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
48693687 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
48693709 A
1 A
48693710 CATTTAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:48705914 original size:24 final size:24
Alignment explanation
Indices: 48705882--48705931 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
48705872 GCATCCATGG
48705882 TTGGTAACCATTAAATTGTTAGTT
1 TTGGTAACCATTAAATTGTTAGTT
48705906 TTGGTAACCATTAAATTGTTAGTT
1 TTGGTAACCATTAAATTGTTAGTT
48705930 TT
1 TT
48705932 CTTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (24 bp):
TTGGTAACCATTAAATTGTTAGTT
Found at i:48707026 original size:3 final size:3
Alignment explanation
Indices: 48707018--48707069 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
48707008 AAACACACAC
* * * *
48707018 ACA ACA ACA GCA GCA GCA ACA ACA ACA ACA ACA ACA ACA ACA ATA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
48707066 ACA A
1 ACA A
48707070 ACAATAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.31, G:0.06, T:0.02
Consensus pattern (3 bp):
ACA
Found at i:48713486 original size:29 final size:29
Alignment explanation
Indices: 48713444--48713503 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
48713434 GAGTTAGATT
48713444 AATAAGGGTTGCAAAATGTAATTTTGGTA
1 AATAAGGGTTGCAAAATGTAATTTTGGTA
48713473 AATAAGGGTTGCAAAATGTAATTTTGGTA
1 AATAAGGGTTGCAAAATGTAATTTTGGTA
48713502 AA
1 AA
48713504 CAAGATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
AATAAGGGTTGCAAAATGTAATTTTGGTA
Found at i:48723015 original size:18 final size:17
Alignment explanation
Indices: 48722973--48723015 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
48722963 TTTCTCTTTC
*
48722973 TTTATTCTTTTCGATTA
1 TTTATTTTTTTCGATTA
*
48722990 TTTCATTTTTTTCGATCTG
1 TTT-ATTTTTTTCGAT-TA
48723009 TTTATTT
1 TTTATTT
48723016 ATAAAAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (17 bp):
TTTATTTTTTTCGATTA
Found at i:48723682 original size:21 final size:22
Alignment explanation
Indices: 48723645--48723688 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
48723635 TATTATATAA
48723645 TTTATATTAAATTATTT-CTAT
1 TTTATATTAAATTATTTCCTAT
*
48723666 TTTATA-TATATTGATTTCCTAT
1 TTTATATTAAATT-ATTTCCTAT
48723688 T
1 T
48723689 ATTGTAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTATATTAAATTATTTCCTAT
Found at i:48726899 original size:202 final size:200
Alignment explanation
Indices: 48726536--48727127 Score: 808
Period size: 202 Copynumber: 2.9 Consensus size: 200
48726526 AAGGCTTAGC
* * * * ** * *
48726536 AGATTACGCCACACAGACCATCATACAAAATCACGTGTTTATTGTCTTAGTAAACTTTCATAAAA
1 AGATAACGCCACAGAGGCCATCATACAAAATCACGTGTTTACTGT-TCCG-GAACTTTCACAAAA
* * * * ** *
48726601 GGCGCTATGGGTATCTCCCTCATAGACTTATACATATTTTCATGTTGTGATCTGCCAATTTGGTT
64 GGCGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCGTGATCTGCTAGTCCGATT
** * *
48726666 TACATGCTACCGAAGCCATCACCATGAATATTCATACAATCATATCTTGTCATGGGTCCCAGAAG
129 TACATATTACCGAAGCCATCACCATGAATATTCATACAATCATATCTTGTCATGGGTCCCAAAAA
*
48726731 GTTTAAT
194 GCTTAAT
* * *
48726738 AGATAACGCCATAGATGCCATCATACAAAATCACATGTTTACTGTTCCGGCAGACTTTCACAAAA
1 AGATAACGCCACAGAGGCCATCATACAAAATCACGTGTTTACTGTTCCGG-A-ACTTTCACAAAA
* *
48726803 GGCGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCATAATCTGCTAGTCCGATT
64 GGCGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCGTGATCTGCTAGTCCGATT
* * *
48726868 TACATATTACCGAAACCATCACCATGAATATTCATACAGTCATATCTTGTCATGAGTCCCAAAAA
129 TACATATTACCGAAGCCATCACCATGAATATTCATACAATCATATCTTGTCATGGGTCCCAAAAA
*
48726933 GCTTAGT
194 GCTTAAT
* * *
48726940 AGATTACGCCACATAGGCCATCATACAAAATCACGTGTTTACTGTTCCAGTGAACTTTTACAAAA
1 AGATAACGCCACAGAGGCCATCATACAAAATCACGTGTTTACTGTTCC-G-GAACTTTCACAAAA
*
48727005 GGCGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCGTGATCTACTAGTCC-AGT
64 GGCGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCGTGATCTGCTAGTCCGA-T
*
48727069 TTACATATTACCGAAGCTATCACCATGAATATTCATACAATCATATCTTGTCATGGGTC
128 TTACATATTACCGAAGCCATCACCATGAATATTCATACAATCATATCTTGTCATGGGTC
48727128 TCAACCACAT
Statistics
Matches: 343, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
201 4 0.01
202 336 0.98
203 2 0.01
204 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (200 bp):
AGATAACGCCACAGAGGCCATCATACAAAATCACGTGTTTACTGTTCCGGAACTTTCACAAAAGG
CGCTATGGGTATCTCCCTCATGGACTTATACATATTTTCATGTCGTGATCTGCTAGTCCGATTTA
CATATTACCGAAGCCATCACCATGAATATTCATACAATCATATCTTGTCATGGGTCCCAAAAAGC
TTAAT
Found at i:48729320 original size:20 final size:20
Alignment explanation
Indices: 48729282--48729321 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48729272 ACAACCCAAC
*
48729282 AACCAGGATTGGGTCTCACT
1 AACCAGGATTGGATCTCACT
*
48729302 AACCAGGATTGGATTTCACT
1 AACCAGGATTGGATCTCACT
48729322 TGTAAGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (20 bp):
AACCAGGATTGGATCTCACT
Found at i:48731395 original size:101 final size:102
Alignment explanation
Indices: 48731189--48731434 Score: 377
Period size: 101 Copynumber: 2.4 Consensus size: 102
48731179 AATTCATCCT
* * * *
48731189 TTACATTCGTAGTGCCATAACCCAGTTATGATTTTATCATCAGAATGCCATAGCCCAAGCTATGA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAAGCTATGA
* **
48731254 TCTTACATATAAACATTGTTATGGTCCAACCATGGTC
66 TCTTACATATAAACAATGCCATGGTCCAACCATGGTC
*
48731291 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATTAGAATGCCATAGCCC-AGCTATGA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAAGCTATGA
48731355 TCTTACATATAAACAATGCCATGGTCCAACCATGGTC
66 TCTTACATATAAACAATGCCATGGTCCAACCATGGTC
* * *
48731392 TTACGTTCATAATGCCATAACCTAGTTATGGTCTTATCCATCA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTAT-CATCA
48731435 ATTCATCATT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
101 76 0.58
102 55 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (102 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAAGCTATGA
TCTTACATATAAACAATGCCATGGTCCAACCATGGTC
Found at i:48732147 original size:31 final size:31
Alignment explanation
Indices: 48732088--48732147 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
48732078 TTGGTGCATT
* *
48732088 TGTACACATGGAACTTGGATTGTGATTCATA
1 TGTACACATGAAACTTGGATTGTCATTCATA
* * *
48732119 TGTATACATGAAACTTTGATTTTCATTCA
1 TGTACACATGAAACTTGGATTGTCATTCA
48732148 ATTATTCAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (31 bp):
TGTACACATGAAACTTGGATTGTCATTCATA
Found at i:48739963 original size:14 final size:14
Alignment explanation
Indices: 48739944--48739970 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48739934 AACAACATGA
48739944 ATGATAATATATAC
1 ATGATAATATATAC
48739958 ATGATAATATATA
1 ATGATAATATATA
48739971 TAAAAAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
ATGATAATATATAC
Found at i:48741783 original size:12 final size:12
Alignment explanation
Indices: 48741766--48741799 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48741756 GAGGACAAAC
*
48741766 GCCCGTGTCCTT
1 GCCCGTGTCCTA
48741778 GCCCGTGTCCTA
1 GCCCGTGTCCTA
48741790 GCCCGTGTCC
1 GCCCGTGTCC
48741800 AAACTAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.44, G:0.26, T:0.26
Consensus pattern (12 bp):
GCCCGTGTCCTA
Found at i:48741901 original size:66 final size:65
Alignment explanation
Indices: 48741813--48741996 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 65
48741803 CTAGTGAGTT
* *
48741813 TACTGACTTGGGTCACACGGCCAAGCCACACGTCCGTGTGCTAGGCCGTGTGAAAAAT-AATGAG
1 TACTGACTTGTGTCACATGGCCAAGCCACACG-CCGTGTGCTAGGCCGTGTGAAAAATGAA-GAG
48741877 CA
64 CA
* * * * * * *
48741879 TTCTGACTTGTGACACATGGCCAAGCCACACGCTCGTGTGCTAGGTCGTGTGAAAACTGGAGGGT
1 TACTGACTTGTGTCACATGGCCAAGCCACACGC-CGTGTGCTAGGCCGTGTGAAAAATGAAGAGC
48741944 A
65 A
* * *
48741945 TACTGACTTGTGTCACATGGCCAA-CCACACAACTGTGTGTTAGGCCGTGTGA
1 TACTGACTTGTGTCACATGGCCAAGCCACAC-GCCGTGTGCTAGGCCGTGTGA
48741997 GGCTACTGAC
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
65 23 0.23
66 76 0.76
67 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (65 bp):
TACTGACTTGTGTCACATGGCCAAGCCACACGCCGTGTGCTAGGCCGTGTGAAAAATGAAGAGCA
Found at i:48746312 original size:11 final size:11
Alignment explanation
Indices: 48746296--48746339 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
48746286 ATAAACATTA
48746296 AAAAATATTTT
1 AAAAATATTTT
48746307 AAAAATA----
1 AAAAATATTTT
48746314 AAAAATATTTT
1 AAAAATATTTT
*
48746325 AAAAGTATTTT
1 AAAAATATTTT
48746336 AAAA
1 AAAA
48746340 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
7 7 0.25
11 21 0.75
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:48746336 original size:29 final size:30
Alignment explanation
Indices: 48746296--48746355 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
48746286 ATAAACATTA
48746296 AAAAATATTTTAAAAATAAAAA-ATAT-TTT
1 AAAAATATTTT-AAAATAAAAATATATATTT
*
48746325 AAAAGTATTTTAAAATAAAAATATATATTT
1 AAAAATATTTTAAAATAAAAATATATATTT
48746355 A
1 A
48746356 TTATATTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.36
29 14 0.50
30 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAAATATTTTAAAATAAAAATATATATTT
Found at i:48746345 original size:17 final size:18
Alignment explanation
Indices: 48746294--48746328 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
48746284 TAATAAACAT
48746294 TAAAAAATATTTTAAAAA
1 TAAAAAATATTTTAAAAA
48746312 TAAAAAATATTTTAAAA
1 TAAAAAATATTTTAAAA
48746329 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAAATATTTTAAAAA
Found at i:48746362 original size:29 final size:28
Alignment explanation
Indices: 48746297--48746355 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 28
48746287 TAAACATTAA
48746297 AAAATATTTTAAAAATAAAAAATATTTT
1 AAAATATTTTAAAAATAAAAAATATTTT
48746325 AAAAGTATTTT-AAAATAAAAATATATATTT
1 AAAA-TATTTTAAAAATAAAAA-ATAT-TTT
48746355 A
1 A
48746356 TTATATTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 14 0.50
29 10 0.36
30 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATATTTTAAAAATAAAAAATATTTT
Found at i:48751787 original size:10 final size:10
Alignment explanation
Indices: 48751772--48751820 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
48751762 TCCAAGCTTG
48751772 TTATAATTAA
1 TTATAATTAA
48751782 TTATAATTAA
1 TTATAATTAA
*
48751792 -AACT-ATTAA
1 TTA-TAATTAA
48751801 -TATAATTAA
1 TTATAATTAA
48751810 TTATAACTTAA
1 TTATAA-TTAA
48751821 AAAATATTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.36
10 16 0.48
11 4 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (10 bp):
TTATAATTAA
Found at i:48756135 original size:14 final size:14
Alignment explanation
Indices: 48756116--48756143 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48756106 GCGGATATTG
48756116 ATCACTTATATTTA
1 ATCACTTATATTTA
48756130 ATCACTTATATTTA
1 ATCACTTATATTTA
48756144 CATTAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATCACTTATATTTA
Found at i:48761194 original size:21 final size:20
Alignment explanation
Indices: 48761169--48761210 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
48761159 AATTTAAAAT
48761169 ATTTA-TTTATTTTAGTAGAAA
1 ATTTAGTTTATTTT--TAGAAA
48761190 ATTTAGTTTATTTTTAGAAA
1 ATTTAGTTTATTTTTAGAAA
48761210 A
1 A
48761211 GCTAACGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTTAGTTTATTTTTAGAAA
Found at i:48762788 original size:3 final size:3
Alignment explanation
Indices: 48762773--48762808 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
48762763 AAGCATAAAC
* *
48762773 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48762809 CATTGGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:48763526 original size:21 final size:20
Alignment explanation
Indices: 48763496--48763534 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
48763486 AGTAGGTTTA
48763496 GTTATTGGGTTTTGGGGTGG
1 GTTATTGGGTTTTGGGGTGG
48763516 GTTAGTTGGGTTTTGGGGT
1 GTTA-TTGGGTTTTGGGGT
48763535 TTAATGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.46
Consensus pattern (20 bp):
GTTATTGGGTTTTGGGGTGG
Found at i:48764407 original size:126 final size:126
Alignment explanation
Indices: 48764176--48764410 Score: 452
Period size: 126 Copynumber: 1.9 Consensus size: 126
48764166 CGGTATGTGA
48764176 CCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTAAAAGGTTCA
1 CCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTAAAAGGTTCA
*
48764241 ACCCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTTGAAAATACCTCGGCGTGC
66 ACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAATACCTCGGCGTGC
48764302 CCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTAAAAGGTTCA
1 CCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTAAAAGGTTCA
*
48764367 ACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTG
66 ACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTG
48764411 CCAAACAGAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 107 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (126 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTAAAAGGTTCA
ACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAATACCTCGGCGTGC
Found at i:48768757 original size:9 final size:9
Alignment explanation
Indices: 48768743--48768786 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
48768733 TTTTGTTACA
48768743 ACAATTAAT
1 ACAATTAAT
48768752 ACAATTAAT
1 ACAATTAAT
48768761 ACAATT-A-
1 ACAATTAAT
48768768 ACAATTAAT
1 ACAATTAAT
48768777 ACAATTAAT
1 ACAATTAAT
48768786 A
1 A
48768787 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 25 0.76
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:48768773 original size:16 final size:16
Alignment explanation
Indices: 48768752--48768789 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48768742 AACAATTAAT
48768752 ACAATTAATACAATTA
1 ACAATTAATACAATTA
48768768 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
48768784 ATAATT
1 ACAATT
48768790 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:48768880 original size:16 final size:16
Alignment explanation
Indices: 48768859--48768900 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
48768849 AATAATTTGA
*
48768859 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
48768875 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
48768891 TAGTTTTAAT
1 TAATTTTAAT
48768901 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:48771164 original size:3 final size:3
Alignment explanation
Indices: 48771156--48771184 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48771146 AGACTAGTGT
48771156 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
48771185 GATGGGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:48781808 original size:33 final size:33
Alignment explanation
Indices: 48781766--48781830 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
48781756 TCTTGAAAAT
*
48781766 GAATCTGCCTCAACAAAATGACCTCATTTTTCA
1 GAATCTGCCTCAACAAAATGACATCATTTTTCA
48781799 GAATCTGCCTCAACAAAATGACATCATTTTTC
1 GAATCTGCCTCAACAAAATGACATCATTTTTC
48781831 GACCAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (33 bp):
GAATCTGCCTCAACAAAATGACATCATTTTTCA
Found at i:48783495 original size:12 final size:11
Alignment explanation
Indices: 48783472--48783506 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48783462 ATATTATATA
48783472 ATTATTATTTT
1 ATTATTATTTT
*
48783483 ATTGTTAATTTT
1 ATTATT-ATTTT
48783495 ATTATTATTTT
1 ATTATTATTTT
48783506 A
1 A
48783507 GAAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:48784004 original size:16 final size:16
Alignment explanation
Indices: 48783980--48784033 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
48783970 TTTGGTTCGC
*
48783980 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
48783996 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
48784012 TGTATTGGAATAGAGG
1 TGTAATGGATTAGAGG
48784028 TGTAAT
1 TGTAAT
48784034 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:48784284 original size:16 final size:16
Alignment explanation
Indices: 48784247--48784288 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48784237 TTAATCATAT
*
48784247 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
48784263 TT-AAATATATTATAA
1 TTAAAATATATTATAA
48784278 TTAAAATATAT
1 TTAAAATATAT
48784289 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:48784295 original size:14 final size:15
Alignment explanation
Indices: 48784256--48784297 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48784246 TTTAAACATA
*
48784256 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48784271 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48784285 A-TATAATTTAATA
1 ATTATAATTAAATA
48784298 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:48784347 original size:61 final size:60
Alignment explanation
Indices: 48784282--48784468 Score: 186
Period size: 61 Copynumber: 3.1 Consensus size: 60
48784272 TTATAATTAA
48784282 AATATATAATTTAATAAAATTCTTAATAATCAGTATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCA-TATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
48784343 AATATATGATACT-ATAAAA-TATAAATTAA-CATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAT-ATTCTTATATGAATTTACTCA-AATCAT
*
48784402 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAA-TCATATTCTTATATGAATTTACTCAAATCAT
48784463 AATATA
1 AATATA
48784469 AAATCGTGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.31
60 24 0.25
61 36 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATCATATTCTTATATGAATTTACTCAAATCAT
Found at i:48784395 original size:120 final size:120
Alignment explanation
Indices: 48784250--48784468 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
48784240 ATCATATTTA
*
48784250 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAG
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
48784315 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
48784370 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
48784435 TATTCTTATATGAATTTACTCAAATCATAATATA
66 TATTCTTATATGAATTTACTCAAATCATAATATA
48784469 AAATCGTGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:48784415 original size:14 final size:15
Alignment explanation
Indices: 48784366--48784417 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48784356 ATAAAATATA
48784366 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
48784381 TATTAAATATATTAT
1 AATTAAATATATTAT
48784396 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
48784409 AATTTAATA
1 AATTAAATA
48784418 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:48784468 original size:59 final size:59
Alignment explanation
Indices: 48784285--48784469 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
48784275 TAATTAAAAT
* *
48784285 ATATAATTTAATAAAATTCTTAATAATCAGTATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
48784344 ATAT-ATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TACTCAAATCA
48784404 T-
58 TA
48784405 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
48784464 ATATAA
1 ATATAA
48784470 AATCGTGTTG
Statistics
Matches: 94, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 8 0.09
59 21 0.22
60 8 0.09
61 15 0.16
62 6 0.06
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:48789647 original size:15 final size:16
Alignment explanation
Indices: 48789629--48789659 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
48789619 AAAAATTTAA
48789629 AAGTTTTTT-ATTTTT
1 AAGTTTTTTAATTTTT
48789644 AAGTTTTTTAATTTTT
1 AAGTTTTTTAATTTTT
48789660 TGGTTAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
AAGTTTTTTAATTTTT
Found at i:48799924 original size:9 final size:9
Alignment explanation
Indices: 48799912--48799940 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
48799902 TTTAATTGGT
48799912 TTATTCGAA
1 TTATTCGAA
48799921 TTATTCGAA
1 TTATTCGAA
48799930 TTATTCGAA
1 TTATTCGAA
48799939 TT
1 TT
48799941 TAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:48808014 original size:81 final size:81
Alignment explanation
Indices: 48807857--48808017 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
48807847 ACTCATTGGT
* * *
48807857 CCATCACTTTTTTGCAAACCTTTTCTGCTCTTCAATGGTGACACCAATCTGTTAGCCAAATGGGA
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAAATGGGA
*
48807922 AGGTGAAAATGATCTG
66 AGGCGAAAATGATCTG
*
48807938 CCATCACTTCTTTGCAAACTTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCC-AATCGGG
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAAAT-GGG
* *
48808002 CAGGCGACAATGATCT
65 AAGGCGAAAATGATCT
48808018 CCGTAGCTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 3 0.04
81 69 0.96
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (81 bp):
CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAAATGGGA
AGGCGAAAATGATCTG
Found at i:48811125 original size:29 final size:29
Alignment explanation
Indices: 48811083--48811140 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
48811073 AAGCTCAATA
* *
48811083 ACAAGTGCATTTGTAGTTAAATAGTGGAC
1 ACAAGTACAATTGTAGTTAAATAGTGGAC
*
48811112 ACAAGTACAATTGTAGTTAAATGGTGGAC
1 ACAAGTACAATTGTAGTTAAATAGTGGAC
48811141 TATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (29 bp):
ACAAGTACAATTGTAGTTAAATAGTGGAC
Found at i:48819411 original size:3 final size:3
Alignment explanation
Indices: 48819403--48819428 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48819393 ATCACATGTT
48819403 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
48819429 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48823768 original size:3 final size:3
Alignment explanation
Indices: 48823760--48823794 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48823750 ATCACATGTT
48823760 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48823795 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48843470 original size:20 final size:22
Alignment explanation
Indices: 48843424--48843470 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
48843414 GAAATAGTAG
48843424 TAAAATAGTGAAAAAATAACAA
1 TAAAATAGTGAAAAAATAACAA
* *
48843446 GAAAATAGT-AATAAA-AACAA
1 TAAAATAGTGAAAAAATAACAA
48843466 TAAAA
1 TAAAA
48843471 AAAAGCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAATAGTGAAAAAATAACAA
Found at i:48843473 original size:23 final size:22
Alignment explanation
Indices: 48843425--48843473 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
48843415 AAATAGTAGT
* * *
48843425 AAAATAGTGAAAAAATAACAAG
1 AAAATAGTAAAAAAACAACAAA
*
48843447 AAAATAGTAATAAAAACAATAAA
1 AAAATAGTAA-AAAAACAACAAA
48843470 AAAA
1 AAAA
48843474 AGCAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:48843797 original size:16 final size:16
Alignment explanation
Indices: 48843776--48843815 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
48843766 GTATAAATTC
* *
48843776 TTTTTAATTTATTTTA
1 TTTTTAAATTATATTA
48843792 TTTTTAAATTATATTA
1 TTTTTAAATTATATTA
48843808 -TTTTAAAT
1 TTTTTAAAT
48843816 ACTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAAATTATATTA
Found at i:48846028 original size:33 final size:35
Alignment explanation
Indices: 48845991--48846087 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
48845981 ATGGTTATAT
48845991 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
48846024 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
48846059 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
48846088 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:48846282 original size:13 final size:13
Alignment explanation
Indices: 48846266--48846318 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
48846256 TTTAAACTGA
48846266 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * * *
48846279 ACTTCTCCACACC
1 ACTTTTCAAAAGC
48846292 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
48846305 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
48846318 A
1 A
48846319 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48847157 original size:16 final size:16
Alignment explanation
Indices: 48847124--48847157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48847114 ACTCCCTGTT
* *
48847124 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
48847140 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
48847156 AA
1 AA
48847158 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:48849984 original size:21 final size:21
Alignment explanation
Indices: 48849958--48849998 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48849948 AGACGAGCAA
* *
48849958 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
48849979 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
48849999 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:48851937 original size:16 final size:16
Alignment explanation
Indices: 48851904--48851937 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48851894 GGAGATTGTT
* *
48851904 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
48851920 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
48851936 AA
1 AA
48851938 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:48855071 original size:508 final size:507
Alignment explanation
Indices: 48854062--48855082 Score: 1880
Period size: 508 Copynumber: 2.0 Consensus size: 507
48854052 TTGGAAAGGG
48854062 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCAACCCGT
1 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCAACCCGT
*
48854127 ATCCCTCGCCGAAACCTGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCTC
66 ATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCTC
* *
48854192 AAACATTTTATATCATCAAAATAAGTCATCAAGCATCGTTTTAATCCAAATTATAAATTATCAAA
131 AAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAAA
*
48854257 AATAGATCTTATAACTTCATTTACAATTAAACACAAAATAACTAATATTTAGACACTCTAGGTAC
196 AATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTAC
*
48854322 ATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGAATTGTTGTTGGATGCTGAATCA
261 ATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGAATCGTTGTTGGATGCTGAATCA
* * * **
48854387 GCGATCAAACTTAAGTACTTAACTTGAGCATGAAAAACAAAACCGTATGCTGGGTAAAAACTCAG
326 GCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCATATGCTGAATAAAAACTCAG
*
48854452 TGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAACATATGTATAATAAAATGTCAAGC
391 TGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAGC
*
48854517 ACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
456 ACAATTGAACATTTAAAACCATACAATACTCAATTATCATCACTTGCTATAT
*
48854569 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
1 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACA-CCCCAACCCG
*
48854634 TATCCCTCGTCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
65 TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
48854699 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
130 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
48854764 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
195 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
*
48854829 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
260 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGAATCGTTGTTGGATGCTGAATC
48854894 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCATATGCTGAATAAAAACTCA
325 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCATATGCTGAATAAAAACTCA
*
48854959 GTGGTATTTCTATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
390 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
*
48855024 CACAATTGAATATTTAAAACCATACAATACTCAATTATCATCACTTGCTATAT
455 CACAATTGAACATTTAAAACCATACAATACTCAATTATCATCACTTGCTATAT
48855077 ATAATA
1 ATAATA
48855083 GCTTTTCACA
Statistics
Matches: 495, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
507 53 0.11
508 442 0.89
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (507 bp):
ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCAACCCGT
ATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCTC
AAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAAA
AATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTAC
ATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGAATCGTTGTTGGATGCTGAATCA
GCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCATATGCTGAATAAAAACTCAG
TGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAGC
ACAATTGAACATTTAAAACCATACAATACTCAATTATCATCACTTGCTATAT
Found at i:48855457 original size:26 final size:27
Alignment explanation
Indices: 48855406--48855459 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48855396 CAAAAAATAC
* * *
48855406 TTTTAAAATACTTTTTTATTTTTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
48855433 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
48855459 T
1 T
48855460 AAAAAATGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTATATGTTTAT
Found at i:48856490 original size:5 final size:5
Alignment explanation
Indices: 48856480--48856525 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
48856470 TTGTTTCTTT
* * *
48856480 TATAA TATAA TATAA TAT-- TATAA TCTAA TATAA TCTAA TCTAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
48856526 TTATACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 3 0.09
5 32 0.91
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:48856502 original size:18 final size:18
Alignment explanation
Indices: 48856479--48856513 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48856469 TTTGTTTCTT
48856479 TTATAATATAATATAATA
1 TTATAATATAATATAATA
*
48856497 TTATAATCTAATATAAT
1 TTATAATATAATATAAT
48856514 CTAATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATATAATATAATA
Found at i:48871443 original size:38 final size:37
Alignment explanation
Indices: 48871401--48871483 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 37
48871391 GCCCCGACGC
* * *
48871401 TTTAATTTTGTTTAATTTTTTTATATTTCTTATTATAT
1 TTTAATTTTGTTTAATTTATATAT-TTTCTTACTATAT
* *
48871439 TTTAATGTTGTTTAATTTATATATTTTCTTGCTATAT
1 TTTAATTTTGTTTAATTTATATATTTTCTTACTATAT
*
48871476 TTGAATTT
1 TTTAATTT
48871484 AATATTTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 17 0.45
38 21 0.55
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.66
Consensus pattern (37 bp):
TTTAATTTTGTTTAATTTATATATTTTCTTACTATAT
Found at i:48884974 original size:4 final size:4
Alignment explanation
Indices: 48884965--48884995 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
48884955 AGAAGAAGAC
48884965 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
48884996 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:48890686 original size:24 final size:24
Alignment explanation
Indices: 48890659--48890704 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48890649 TTGAATGTTG
* *
48890659 TATCATGGTAAATCGAAAATTTCT
1 TATCATGGTAAACCAAAAATTTCT
48890683 TATCATGGTAAACCAAAAATTT
1 TATCATGGTAAACCAAAAATTT
48890705 TTTCGTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (24 bp):
TATCATGGTAAACCAAAAATTTCT
Found at i:48892123 original size:7 final size:7
Alignment explanation
Indices: 48892111--48892160 Score: 65
Period size: 6 Copynumber: 7.9 Consensus size: 7
48892101 TGTAAATGAA
48892111 TCATTTC
1 TCATTTC
48892118 TCATTTC
1 TCATTTC
48892125 TCATTT-
1 TCATTTC
48892131 TCATTT-
1 TCATTTC
48892137 TCATTTC
1 TCATTTC
48892144 T-ATTTC
1 TCATTTC
48892150 -CATTTC
1 TCATTTC
48892156 -CATTT
1 TCATTT
48892161 TGAGAAACCC
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.66
7 14 0.34
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (7 bp):
TCATTTC
Found at i:48895852 original size:50 final size:50
Alignment explanation
Indices: 48895786--48895884 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
48895776 ATATTATTCT
* * * *
48895786 AATCAATGTCATATAGAAGGAGAGAAGTT-TTATACGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTT-TACAGATTCTACTTGTAC
* *
48895836 AATCAATATCAAATAGAAGAAGAGTAGTTCTTTACAGATTCTATTTGTA
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTTTACAGATTCTACTTGTA
48895885 TCATTTCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 40 0.95
51 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAGAAGTTCTTTACAGATTCTACTTGTAC
Found at i:48902175 original size:21 final size:21
Alignment explanation
Indices: 48902149--48902210 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
48902139 CGAACACTCT
48902149 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
*
48902170 TGAACAGAAGCTCATAAGATC
1 TGAACAGAAGCTCATAAGAGC
*
48902191 TGAACAGAAGCTCAAAAGAG
1 TGAACAGAAGCTCATAAGAG
48902211 TTGATCCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:48920488 original size:26 final size:24
Alignment explanation
Indices: 48920439--48920488 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
48920429 ACAATAATAC
*
48920439 ATAACATAAAGCATACAGTCATTT
1 ATAACATAAAGCATACAGCCATTT
*
48920463 ATAACATAAGGGCATAACAGCCATTT
1 ATAACATAA-AGCAT-ACAGCCATTT
48920489 TACCACGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 9 0.41
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
ATAACATAAAGCATACAGCCATTT
Found at i:48924185 original size:11 final size:11
Alignment explanation
Indices: 48924169--48924197 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
48924159 GACTGTGTTG
48924169 CCCAAGGTTTC
1 CCCAAGGTTTC
48924180 CCCAAGGTTTC
1 CCCAAGGTTTC
48924191 CCCAAGG
1 CCCAAGG
48924198 GAGGTACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (11 bp):
CCCAAGGTTTC
Found at i:48931757 original size:12 final size:12
Alignment explanation
Indices: 48931740--48931773 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
48931730 CGGTCCTCCC
48931740 ATATTAATTTTT
1 ATATTAATTTTT
*
48931752 ATATTATTTTTT
1 ATATTAATTTTT
48931764 ATA-TAATTTT
1 ATATTAATTTT
48931774 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:48934707 original size:23 final size:23
Alignment explanation
Indices: 48934667--48934712 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48934657 ATTAATTTTT
*
48934667 AAGTTAATCGAATCAAGTTATTC
1 AAGTTAATCGAATCAAGTAATTC
*
48934690 AAGTTAACTTGAAT-AAGTAATTC
1 AAGTTAA-TCGAATCAAGTAATTC
48934713 GAATTTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (23 bp):
AAGTTAATCGAATCAAGTAATTC
Found at i:48934851 original size:20 final size:20
Alignment explanation
Indices: 48934825--48934878 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
48934815 CTCTTTCAAC
*
48934825 AAAAATTACAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
*
48934845 CAAAATTTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
48934865 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
48934879 TTACATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:48936749 original size:55 final size:55
Alignment explanation
Indices: 48936663--48936771 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
48936653 AAGGAGCCAA
* ** *
48936663 ATGCTTCTTCTATTCTTTTCCTTGGCGCAGCTGGGCCATCCTAGACTTGAACCAG
1 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
48936718 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
1 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
48936772 AAGATCTCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (55 bp):
ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
Found at i:48938522 original size:19 final size:20
Alignment explanation
Indices: 48938478--48938526 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
48938468 CAACACATAA
48938478 AGTGCCTGAAACGACACACGT
1 AGTGCCTGAAACGACACAC-T
*
48938499 GGTGCCT-AATACGACACA-T
1 AGTGCCTGAA-ACGACACACT
48938518 AGTGCCTGA
1 AGTGCCTGA
48938527 TCGGGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (20 bp):
AGTGCCTGAAACGACACACT
Found at i:48939394 original size:5 final size:6
Alignment explanation
Indices: 48939379--48939403 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48939369 CAAATTCTCG
48939379 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
48939404 CCTTTCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:48939479 original size:20 final size:20
Alignment explanation
Indices: 48939447--48939485 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48939437 TCTTTCCTTA
48939447 ATTTGTTTCTCTTTTATTTC
1 ATTTGTTTCTCTTTTATTTC
48939467 ATTTCGTTT-TCTTTTATTT
1 ATTT-GTTTCTCTTTTATTT
48939486 GTCTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.10, C:0.13, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTGTTTCTCTTTTATTTC
Found at i:48939808 original size:14 final size:17
Alignment explanation
Indices: 48939789--48939826 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
48939779 ATTTATTTCT
48939789 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
48939803 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
48939820 TAATATA
1 TAATATA
48939827 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:48939844 original size:11 final size:11
Alignment explanation
Indices: 48939806--48939844 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
48939796 ATATTTATAA
48939806 TATAATTAATT
1 TATAATTAATT
*
48939817 TAATAATATACTT
1 T-ATAAT-TAATT
48939830 TATAATTAATT
1 TATAATTAATT
48939841 TATA
1 TATA
48939845 TATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:48939862 original size:17 final size:17
Alignment explanation
Indices: 48939830--48939863 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48939820 TAATATACTT
* *
48939830 TATAATTAATTTATATA
1 TATAATTAAATCATATA
48939847 TATAATTAAATCATATA
1 TATAATTAAATCATATA
48939864 AAAATTTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAATTAAATCATATA
Found at i:48946893 original size:4 final size:4
Alignment explanation
Indices: 48946884--48946908 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
48946874 AACTCACTTG
48946884 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
48946909 CTATATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:48948396 original size:16 final size:18
Alignment explanation
Indices: 48948375--48948414 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
48948365 ACACATAAAA
48948375 TATATAAT-ATAAT-TTT
1 TATATAATGATAATATTT
48948391 TATAT-ATGATAATATTT
1 TATATAATGATAATATTT
48948408 TA-ATAAT
1 TATATAAT
48948415 TTTACAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATATAATGATAATATTT
Found at i:48957211 original size:41 final size:40
Alignment explanation
Indices: 48957076--48957210 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 40
48957066 ACCAGTTTGG
* * * *
48957076 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAATGCCTCATCGGTTAATCCGAAGTAATAAATTGA
** * * *
48957116 CACTTAGTGTCTCATC-GTCTAAACCGAAG---TAAATTGA
1 CACCCAATGCCTCATCGGT-TAATCCGAAGTAATAAATTGA
48957153 CACCCAATGCCTCATCGAGTTAATCCGAAGTAATAAATTGA
1 CACCCAATGCCTCATCG-GTTAATCCGAAGTAATAAATTGA
*
48957194 CACCCAATGTCTCATCG
1 CACCCAATGCCTCATCG
48957211 ACTCAAAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
37 19 0.25
38 9 0.12
39 3 0.04
40 21 0.28
41 24 0.32
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
CACCCAATGCCTCATCGGTTAATCCGAAGTAATAAATTGA
Found at i:48957398 original size:24 final size:24
Alignment explanation
Indices: 48957369--48957415 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48957359 TATATATACC
48957369 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATATTAAA-TCAATA
48957393 AATTCATCACATATTAAATCAAT
1 AATTCATCACATATTAAATCAAT
48957416 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCATCACATATTAAATCAATA
Found at i:48958101 original size:16 final size:16
Alignment explanation
Indices: 48958080--48958118 Score: 57
Period size: 13 Copynumber: 2.6 Consensus size: 16
48958070 ACTTTTCTCC
48958080 TTCTTTCTTCCTCTTT
1 TTCTTTCTTCCTCTTT
48958096 TTC--T-TTCCTCTTT
1 TTCTTTCTTCCTCTTT
48958109 TTCTTTCTTC
1 TTCTTTCTTC
48958119 ATTCTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 1 0.05
16 6 0.30
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCTTTCTTCCTCTTT
Found at i:48958105 original size:13 final size:13
Alignment explanation
Indices: 48958083--48958115 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
48958073 TTTCTCCTTC
48958083 TTTC-TTCCTCTT
1 TTTCTTTCCTCTT
48958095 TTTCTTTCCTCTT
1 TTTCTTTCCTCTT
48958108 TTTCTTTC
1 TTTCTTTC
48958116 TTCATTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCTTTCCTCTT
Found at i:48958146 original size:24 final size:22
Alignment explanation
Indices: 48958107--48958162 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
48958097 TCTTTCCTCT
48958107 TTTTCTTTCTTCATTC-TATTCTC
1 TTTTCTTT-TTCATTCAT-TTCTC
*
48958130 TGTTTCTTTTTCAATTCATTTTTC
1 T-TTTCTTTTTC-ATTCATTTCTC
48958154 TTTTCTTTT
1 TTTTCTTTT
48958163 ATTTGTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 12 0.41
24 16 0.55
25 1 0.03
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTCTTTTTCATTCATTTCTC
Found at i:48958230 original size:19 final size:20
Alignment explanation
Indices: 48958206--48958244 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48958196 ATTAATAAGT
48958206 AATACATAT-TTTATTATTA
1 AATACATATATTTATTATTA
48958225 AATACATATATTTATTATTA
1 AATACATATATTTATTATTA
48958245 TTACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AATACATATATTTATTATTA
Found at i:48958252 original size:21 final size:20
Alignment explanation
Indices: 48958209--48958259 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
48958199 AATAAGTAAT
*
48958209 ACATAT-TTTATTATTAAAT
1 ACATATATTTATTATTAAAC
*
48958228 ACATATATTTATTATTATTAC
1 ACATATATTTATTATTA-AAC
*
48958249 ACATGTATTTA
1 ACATATATTTA
48958260 CCAACACCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (20 bp):
ACATATATTTATTATTAAAC
Found at i:48959281 original size:23 final size:25
Alignment explanation
Indices: 48959250--48959303 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
48959240 CATAATTTTG
*
48959250 ATTTATTTAATTT-T-ATATTATTA
1 ATTTTTTTAATTTATAATATTATTA
*
48959273 ATTTTTTTATTTTCATAATATTATTA
1 ATTTTTTTAATTT-ATAATATTATTA
48959299 ATTTT
1 ATTTT
48959304 ATTGTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
25 1 0.04
26 14 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTTTAATTTATAATATTATTA
Found at i:48959304 original size:23 final size:22
Alignment explanation
Indices: 48959277--48959327 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
48959267 TTATTAATTT
*
48959277 TTTTATTTTCATAATA-TTATTAA
1 TTTTATTGT-ATAATATTTA-TAA
*
48959300 TTTTATTGTATATTATTTATAA
1 TTTTATTGTATAATATTTATAA
48959322 TTTTAT
1 TTTTAT
48959328 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATTGTATAATATTTATAA
Found at i:48959326 original size:45 final size:46
Alignment explanation
Indices: 48959239--48959327 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 46
48959229 TTTGGTGAAA
* * * **
48959239 TCATAATTTTGATTTATTTAATTTTATATTATTAATTTTTTTATTT
1 TCATAATATTGATTAATTTAATTGTATATTATTAATAATTTTATTT
* *
48959285 TCATAATATT-ATTAATTTTATTGTATATTATTTATAATTTTAT
1 TCATAATATTGATTAATTTAATTGTATATTATTAATAATTTTAT
48959328 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 27 0.75
46 9 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (46 bp):
TCATAATATTGATTAATTTAATTGTATATTATTAATAATTTTATTT
Found at i:48967156 original size:11 final size:11
Alignment explanation
Indices: 48967140--48967174 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
48967130 CCCTTCCCCC
48967140 CTCCCTTCTCT
1 CTCCCTTCTCT
48967151 CTCCCTTCTCT
1 CTCCCTTCTCT
48967162 CTTCCC-TCTCT
1 C-TCCCTTCTCT
48967173 CT
1 CT
48967175 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:48983196 original size:11 final size:11
Alignment explanation
Indices: 48983180--48983214 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
48983170 CCCTTCCCCC
48983180 CTCCCTTCTCT
1 CTCCCTTCTCT
48983191 CTCCCTTCTCT
1 CTCCCTTCTCT
48983202 CTTCCC-TCTCT
1 C-TCCCTTCTCT
48983213 CT
1 CT
48983215 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:48986034 original size:47 final size:47
Alignment explanation
Indices: 48985971--48986368 Score: 520
Period size: 47 Copynumber: 8.4 Consensus size: 47
48985961 CCCTTCGGGA
* * *
48985971 CTTATCACATTTATACACTTCCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
48986018 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48986065 CTTATCACA--CATACACATGTTCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACATTTATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
48986112 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48986159 CTTATCACA--CATACACATGTTCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACATTTATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
48986206 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48986253 CTTATCACA--CATACACATGTTCACCTTTATCACATTGGCCATTCGGC
1 CTTATCACATTTATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
* * *
48986300 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48986349 CCTATCACATATATATACTT
1 CTTATCACATTTATACACTT
48986369 GTACATCAAT
Statistics
Matches: 313, Mismatches: 24, Indels: 28
0.86 0.07 0.08
Matches are distributed among these distances:
45 18 0.06
46 3 0.01
47 239 0.76
48 2 0.01
49 45 0.14
50 1 0.00
51 5 0.02
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:48986132 original size:94 final size:94
Alignment explanation
Indices: 48985992--48986357 Score: 642
Period size: 94 Copynumber: 3.9 Consensus size: 94
48985982 TATACACTTC
48985992 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
1 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
48986057 CATTCGGCCTTATCACACATACACATGTT
66 CATTCGGCCTTATCACACATACACATGTT
48986086 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
1 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
48986151 CATTCGGCCTTATCACACATACACATGTT
66 CATTCGGCCTTATCACACATACACATGTT
48986180 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
1 CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
48986245 CATTCGGCCTTATCACACATACACATGTT
66 CATTCGGCCTTATCACACATACACATGTT
* *** * *
48986274 CACCTTTATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTG
1 CACATCCGTCACATTGGCCATTCGGCCTTATCA--CATTTATACACTTTCACATTCATCACATTG
* *
48986339 GCCACTCGGCCCTATCACA
64 GCCATTCGGCCTTATCACA
48986358 TATATATACT
Statistics
Matches: 262, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
94 217 0.83
96 45 0.17
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (94 bp):
CACATCCGTCACATTGGCCATTCGGCCTTATCACATTTATACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCACACATACACATGTT
Found at i:48990438 original size:30 final size:32
Alignment explanation
Indices: 48990370--48990438 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
48990360 TATATATTGT
* *
48990370 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
48990403 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
48990433 AATATA
1 AATATA
48990439 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:48990505 original size:11 final size:11
Alignment explanation
Indices: 48990442--48990515 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
48990432 AAATATAATA
48990442 AAAG-AAAAAG
1 AAAGAAAAAAG
*
48990452 AAATAGAAAAAG
1 AAAGA-AAAAAG
* *
48990464 AAAGAAAGAAC
1 AAAGAAAAAAG
*
48990475 AAATG-AAATAG
1 AAA-GAAAAAAG
* *
48990486 AAGGGAAAAAG
1 AAAGAAAAAAG
*
48990497 AAAGAAAAAGG
1 AAAGAAAAAAG
48990508 AAAGAAAA
1 AAAGAAAA
48990516 GGAGAAAGAC
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
10 4 0.08
11 33 0.69
12 11 0.23
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:48990522 original size:29 final size:29
Alignment explanation
Indices: 48990464--48990522 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48990454 ATAGAAAAAG
* * *
48990464 AAAGAAAGAACAAATGAAATAGAAGGGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGGGAA
48990493 AAAGAAAGAA-AAAGGAAAGAAAAGGAGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGG-GAA
48990522 A
1 A
48990523 GACCAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAACAAAGGAAAGAAAAGGGAA
Found at i:48991469 original size:40 final size:39
Alignment explanation
Indices: 48991346--48991486 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 39
48991336 CAACTTCGAG
* * *
48991346 TCGATGAGACACT-GGATGTCAACTTACTACTTCGTATTAA
1 TCGATGAGACACTAGG-TGTCAAATTATTACTTCGAATT-A
* * * *
48991386 TTCGATGAGGCACTATGTGT-GAA-T-TTACTTCGATTTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
48991423 GTCGATGAGACACTGGGTGTCAAATTATTACTTTGAATTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
48991463 TCCGATGAGGCACTAGGTGCCAAA
1 T-CGATGAGACACTAGGTGTCAAA
48991487 CTAGTGTGTT
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 3 0.04
40 31 0.40
41 15 0.19
42 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
Found at i:48995011 original size:13 final size:15
Alignment explanation
Indices: 48994983--48995026 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
48994973 AAAATATGTT
48994983 TATGAAAAAATAAAA
1 TATGAAAAAATAAAA
48994998 TATG-AAAAAT-AAA
1 TATGAAAAAATAAAA
48995011 TA--AAAAAATGAAAA
1 TATGAAAAAAT-AAAA
48995025 TA
1 TA
48995027 ATAAATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.23
13 5 0.19
14 11 0.42
15 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
TATGAAAAAATAAAA
Found at i:48995295 original size:157 final size:157
Alignment explanation
Indices: 48995008--48995492 Score: 676
Period size: 157 Copynumber: 3.1 Consensus size: 157
48994998 TATGAAAAAT
* * ** * *
48995008 AAATAAAAAA-ATGAAAATAATAAATTTACTGAAAGTAATAAAAT-TCGAAAAAAATAAAAATAC
1 AAATAAAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCT-GAAAATAAGAAAAATAC
*
48995071 GAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATATAT
65 GAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACAT
48995136 TTCAAACATTATGTACTAAAATAATATA
130 TTCAAACATTATGTACTAAAATAATATA
48995164 AAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATAC
1 AAATAA-AAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATAC
*
48995229 GAACAAA-GGCAAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACAT
65 GAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACAT
*
48995293 TTCGAAA-ATTATGTACTAAAATAAAATA
130 TTC-AAACATTATGTACTAAAATAATATA
* * * * *
48995321 AAATAAATAGACACGAAGATAGTATATATTTTGAAAGTAATAAAATCCT-AAAATAAGAAAAATA
1 AAATAAA-AAATACGAAAATAATATATTTTTTGAAAGTAATAAAAT-CTGAAAATAAGAAAAATA
* * * * *
48995385 CGAACAAATGGCCAAAATGAGGGTTTTTTACTAAATTTATATAAAAAAATACACTAAATTAATAC
64 CGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATAT-AAAAAACACACTAAAATAATAC
*
48995450 ATTTCAAACTTTATGTTA-TAAAATAATATA
128 ATTTCAAACATTATG-TACTAAAATAATATA
48995480 AAATAATAAAATA
1 AAATAA-AAAATA
48995493 GTATTAATTT
Statistics
Matches: 295, Mismatches: 23, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
156 7 0.02
157 144 0.49
158 90 0.31
159 51 0.17
160 3 0.01
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (157 bp):
AAATAAAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACG
AACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATT
TCAAACATTATGTACTAAAATAATATA
Found at i:48995739 original size:159 final size:161
Alignment explanation
Indices: 48995507--48995807 Score: 432
Period size: 160 Copynumber: 1.9 Consensus size: 161
48995497 TAATTTAGTG
*
48995507 TGTTTGAAATGTATTAATTTAGTGTGTCTTTTTATATAAATTTAGTAAAAAAACCCTCATTTTGG
1 TGTTTGAAATGTATTAATTTAGTGTATCTTTTTATATAAATTTAGTAAAAAAACCCTCATTTTGG
*
48995572 TCATTTGTTCGTA-TTT-TTC-TTATTTTCGGATTTTATTACTTTCAAAAAAATATACTATTTTC
66 CCATTTGTTCGTATTTTCTTCTTTATTTTCGGATTTTATTACTTTC-AAAAAATATACTATTTTC
48995634 GTATTTTATTATTTTATATTATTTTAGTACATAA
130 --ATTTTATTATTTTATATTATTTTAGTACATAA
* * *
48995668 TGTTTGAAATGTATTATTTTAGTGTAT-TTTTTATATAAATTTAGT-GAAAAACCCTTATTTTGG
1 TGTTTGAAATGTATTAATTTAGTGTATCTTTTTATATAAATTTAGTAAAAAAACCCTCATTTTGG
* * * **
48995731 CCCTTTGTTCGTATTTTTCTTCTTTTTTTTTGGATTTTATTACTTTCAGTAAATATACTATTTTC
66 CCATTTGTTCGTA-TTTTCTTCTTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTC
*
48995796 ATTTTTTTATTT
130 ATTTTATTATTT
48995808 CTTTTCATAT
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
159 27 0.22
160 29 0.23
161 28 0.22
162 19 0.15
163 22 0.18
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.55
Consensus pattern (161 bp):
TGTTTGAAATGTATTAATTTAGTGTATCTTTTTATATAAATTTAGTAAAAAAACCCTCATTTTGG
CCATTTGTTCGTATTTTCTTCTTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCA
TTTTATTATTTTATATTATTTTAGTACATAA
Found at i:48995956 original size:27 final size:27
Alignment explanation
Indices: 48995909--48995978 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
48995899 GAACAAATGG
* *
48995909 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTGTGGCACTGGCACCATT
* *
48995936 GGTGCCGCCTTTGTCACTGGCACCATT
1 GGTGCCGCCTGTGGCACTGGCACCATT
48995963 GGTGCCGCCTGTGGCA
1 GGTGCCGCCTGTGGCA
48995979 GTCCCTCCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.26
Consensus pattern (27 bp):
GGTGCCGCCTGTGGCACTGGCACCATT
Found at i:48998712 original size:43 final size:43
Alignment explanation
Indices: 48998656--48998745 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
48998646 CATTACCCAA
48998656 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
*
48998699 ACACATAAAAAAAATCTACTAACTATGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
48998742 ACAC
1 ACAC
48998746 GTAACATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (43 bp):
ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
Found at i:49002227 original size:73 final size:74
Alignment explanation
Indices: 49002140--49002311 Score: 212
Period size: 72 Copynumber: 2.4 Consensus size: 74
49002130 TTTGGAAGAT
*
49002140 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAATAAA-ATTTGGGGGG-TTGGGAGGAAGTAAAATTC
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAA-AAAGATTTGGGGGGTTTGGGAGGAAATAAAATT-
49002203 TCTAGGGG-AA
64 TCTAGGGGAAA
* * * *
49002213 GTAAAAGTTTTGGGGAGAAAATAAAA--AAAAAGTTTTGGGGGGTTTGGGGGGAAATAAAATTTT
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAGATTTGGGGGGTTTGGGAGGAAATAAAATTTC
*
49002276 TGGGGGAAA
66 TAGGGGAAA
* *
49002285 GTAAAATTTTTAGGG-GAAAGTAAAAGG
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGG
49002312 GTTTAAAGGA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
70 3 0.04
71 26 0.31
72 31 0.36
73 25 0.29
ACGTcount: A:0.40, C:0.01, G:0.34, T:0.25
Consensus pattern (74 bp):
GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAGATTTGGGGGGTTTGGGAGGAAATAAAATTTC
TAGGGGAAA
Found at i:49002282 original size:18 final size:19
Alignment explanation
Indices: 49002259--49002309 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
49002249 GGGGGGTTTG
49002259 GGGGGAAA-TAAAATTTTT
1 GGGGGAAAGTAAAATTTTT
49002277 GGGGGAAAGTAAAATTTTT
1 GGGGGAAAGTAAAATTTTT
*
49002296 AGGGGAAAGTAAAA
1 GGGGGAAAGTAAAA
49002310 GGGTTTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.25
Consensus pattern (19 bp):
GGGGGAAAGTAAAATTTTT
Found at i:49002316 original size:20 final size:19
Alignment explanation
Indices: 49002260--49002316 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
49002250 GGGGGTTTGG
** *
49002260 GGGGAAA-TAAAATTTTTG
1 GGGGAAAGTAAAAGGTTTA
**
49002278 GGGGAAAGTAAAATTTTTA
1 GGGGAAAGTAAAAGGTTTA
49002297 GGGGAAAGTAAAAGGGTTTA
1 GGGGAAAGTAAAA-GGTTTA
49002317 AAGGAGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 7 0.21
19 23 0.68
20 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (19 bp):
GGGGAAAGTAAAAGGTTTA
Found at i:49004506 original size:16 final size:16
Alignment explanation
Indices: 49004485--49004517 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49004475 TCTACGTTCT
49004485 TGACATCCCATCTTTG
1 TGACATCCCATCTTTG
49004501 TGACATCCCATCTTTG
1 TGACATCCCATCTTTG
49004517 T
1 T
49004518 CTCAGTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (16 bp):
TGACATCCCATCTTTG
Found at i:49006017 original size:20 final size:20
Alignment explanation
Indices: 49005994--49006061 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
49005984 CATGGTATCA
* *
49005994 ATACTTTGAGGAAGGTATTG
1 ATACTTTGAGGAAAGTATAG
49006014 ATACTTTG-GGTAAAGTATAG
1 ATACTTTGAGG-AAAGTATAG
* * *
49006034 ATACTCTGAGTAAAGTATCG
1 ATACTTTGAGGAAAGTATAG
49006054 ATACTTTG
1 ATACTTTG
49006062 TTAAGGGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (20 bp):
ATACTTTGAGGAAAGTATAG
Found at i:49006078 original size:40 final size:40
Alignment explanation
Indices: 49005987--49006078 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
49005977 GGTGGGACAT
* * *
49005987 GGTATCAATACTTTGAGGAAGGTATTGATACTTTGGGTAA
1 GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
* * *
49006027 AGTAT-AGATACTCTGAGTAAAGTATCGATACTTT-GTTAA
1 GGTATCA-ATACTCTGAGGAAAGTATCGATACTTTGGGTAA
49006066 GGGTATCAATACT
1 -GGTATCAATACT
49006079 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.12
40 36 0.86
41 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (40 bp):
GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
Found at i:49007321 original size:21 final size:20
Alignment explanation
Indices: 49007290--49007331 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
49007280 CCTCACGTTC
49007290 CATTTTTCTTTTCTTTCTTT
1 CATTTTTCTTTTCTTTCTTT
*
49007310 CATTTTTACTTTTGTTTCTTT
1 CATTTTT-CTTTTCTTTCTTT
49007331 C
1 C
49007332 CTTTCTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.71
Consensus pattern (20 bp):
CATTTTTCTTTTCTTTCTTT
Found at i:49011575 original size:18 final size:17
Alignment explanation
Indices: 49011549--49011584 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49011539 TTTGGTTATA
49011549 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
49011567 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
49011584 T
1 T
49011585 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:49015620 original size:21 final size:21
Alignment explanation
Indices: 49015579--49015621 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49015569 AATAAAGTAG
*
49015579 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
49015600 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
49015621 A
1 A
49015622 AATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:49018122 original size:20 final size:19
Alignment explanation
Indices: 49018086--49018124 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49018076 AAAATATTTT
*
49018086 TATTTTTTTATTTTTAAAA
1 TATTTTTGTATTTTTAAAA
*
49018105 TATTTTTGTGTTTATTAAAA
1 TATTTTTGTATTT-TTAAAA
49018125 ATCGGGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTGTATTTTTAAAA
Found at i:49029977 original size:23 final size:23
Alignment explanation
Indices: 49029950--49029995 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
49029940 AACAAATACC
49029950 CATATTTATATAAT-TAAAACATT
1 CATATTT-TATAATATAAAACATT
*
49029973 CATATTTTATACTATAAAACATT
1 CATATTTTATAATATAAAACATT
49029996 TATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
CATATTTTATAATATAAAACATT
Found at i:49030052 original size:24 final size:22
Alignment explanation
Indices: 49029995--49030054 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
49029985 TATAAAACAT
49029995 TTATTAT-TAAATATTTATAAA
1 TTATTATATAAATATTTATAAA
*
49030016 TT-TTA-ATATATATTTATTAAA
1 TTATTATATAAATATTTA-TAAA
49030037 TTATTGATATAAATATTT
1 TTATT-ATATAAATATTT
49030055 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 12 0.38
21 8 0.25
22 2 0.06
23 1 0.03
24 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTATATAAATATTTATAAA
Found at i:49031077 original size:16 final size:15
Alignment explanation
Indices: 49031051--49031109 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
49031041 AGAAAGTAAA
*
49031051 AGAGCTGTAATGAAAT
1 AGAGTTGTAATG-AAT
*
49031067 AGGGTTGTAATTGAAT
1 AGAGTTGTAA-TGAAT
*
49031083 AAAGTTGTAATGGAAT
1 AGAGTTGTAAT-GAAT
49031099 AGAGTTGTAAT
1 AGAGTTGTAAT
49031110 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.03
16 33 0.92
17 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (15 bp):
AGAGTTGTAATGAAT
Found at i:49033356 original size:26 final size:26
Alignment explanation
Indices: 49033325--49033419 Score: 129
Period size: 26 Copynumber: 3.7 Consensus size: 26
49033315 GTAATGGGCC
49033325 TAAATTACTGAAATACCCTCGATGGG
1 TAAATTACTGAAATACCCTCGATGGG
** *
49033351 TAAATTACCAAAATACCCTCGATGGT
1 TAAATTACTGAAATACCCTCGATGGG
* * *
49033377 TAAATTACTCAAATACCC-CCATAGG
1 TAAATTACTGAAATACCCTCGATGGG
49033402 TAAATTACTGAAATACCC
1 TAAATTACTGAAATACCC
49033420 CGTAGGAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 21 0.35
26 39 0.65
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (26 bp):
TAAATTACTGAAATACCCTCGATGGG
Found at i:49038992 original size:128 final size:128
Alignment explanation
Indices: 49038842--49039224 Score: 525
Period size: 128 Copynumber: 2.9 Consensus size: 128
49038832 AACTCACTTT
* *
49038842 TCGCAATATGAGTTGATTTTTTTGAGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1 TCGCAATATGAGTTGTTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
49038907 ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
66 ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
* *
49038970 TCGCAATATGAGTTGTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1 TCGCAATATGAGTTGTTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
49039035 ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
66 ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
* * *
49039098 TCGCAATATGAGTTGGTTCTTGAACAACATAAATTGAAAATAGAAATTGAAAATACCTCAGCGTG
1 TCGCAATATGAGTT-GTT-TT--------T--TTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* * * * *
49039163 ACCTGAGGCTCAACTCACCTCTCGCAATATAAGCTAATTTTTG-AAAAGTAGGAATTGAAAAG
54 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATT-AAAAG
49039225 CAGAAATTGA
Statistics
Matches: 228, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
128 139 0.61
129 3 0.01
130 2 0.01
138 1 0.00
140 73 0.32
141 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (128 bp):
TCGCAATATGAGTTGTTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTC
Done.