Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 160 of 199
Found at i:47573893 original size:10 final size:10
Alignment explanation
Indices: 47573878--47573950 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
47573868 ATGTGAAGGG
47573878 ATATATATGT
1 ATATATATGT
47573888 ATATATA--T
1 ATATATATGT
47573896 ATATATATGT
1 ATATATATGT
* ***
47573906 ATAAATAAAA
1 ATATATATGT
*
47573916 ATATGTATG-
1 ATATATATGT
*
47573925 -TATATGTGT
1 ATATATATGT
47573934 ATATATATGT
1 ATATATATGT
*
47573944 ACATATA
1 ATATATA
47573951 AGGTATAAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
8 14 0.30
10 33 0.70
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (10 bp):
ATATATATGT
Found at i:47575904 original size:44 final size:44
Alignment explanation
Indices: 47575837--47576002 Score: 158
Period size: 44 Copynumber: 3.8 Consensus size: 44
47575827 GTTTTTTCTG
* * * *
47575837 TCTGCTCCGCTACTGCTTTGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACGTCTTAGA
* *** * *
47575881 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACGTCTTAGA
* * ** *
47575924 TCTGCTTCACTACTGCTTAGGAAGAT-GAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-AACGTCTTAGA
47575968 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAA
47576003 AATTCTTCGG
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.01
43 32 0.34
44 60 0.63
45 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACGTCTTAGA
Found at i:47576199 original size:46 final size:45
Alignment explanation
Indices: 47576149--47576499 Score: 222
Period size: 44 Copynumber: 7.9 Consensus size: 45
47576139 CTTCGACCTG
*
47576149 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTTTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
* * *
47576195 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTA
* * * * ** ** **
47576236 CTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTC-T-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTTCGGTCTA
* * * * * ** *
47576280 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ACTAGCTCCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGGTCTA
47576324 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
* * *** *
47576370 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TGAATTCTTCGGTCTA
* * * * * * *
47576414 CCCCACTGTAACTTCAGGGAGATAAGGTTTG--TGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGGTCTA
* *
47576458 CTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGG
47576500 NNNNNNNNNN
Statistics
Matches: 234, Mismatches: 53, Indels: 36
0.72 0.16 0.11
Matches are distributed among these distances:
41 30 0.13
42 4 0.02
43 1 0.00
44 123 0.53
45 3 0.01
46 70 0.30
47 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTA
Found at i:47576433 original size:134 final size:133
Alignment explanation
Indices: 47576195--47576499 Score: 358
Period size: 134 Copynumber: 2.3 Consensus size: 133
47576185 CTTCGGTTTA
* * * * *
47576195 CTCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGCGATCTACTCTACTGTAACTTCAGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAG
* *
47576255 AGATGAGATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCA
66 AGATAAGA-CCTTTATTCTAATCCGCCCCACTGTAACTTCAGGGAGATAAGG-TTACTAGCTCCA
47576319 ATCTG
129 ATCTG
*
47576324 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAG
** * *
47576389 AGATAAGA-CTTGCATATTC-AA-CCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTT
66 AGATAAGACCTT---TATTCTAATCC-GCCCCACTGTAACTTCAGGGAGATAAGGTTACTAGCTC
*
47576451 CGATCTG
127 CAATCTG
* *
47576458 CTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
47576500 NNNNNNNNNN
Statistics
Matches: 151, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
129 30 0.20
131 1 0.01
132 3 0.02
133 2 0.01
134 107 0.71
135 8 0.05
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (133 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAG
AGATAAGACCTTTATTCTAATCCGCCCCACTGTAACTTCAGGGAGATAAGGTTACTAGCTCCAAT
CTG
Found at i:47576467 original size:44 final size:44
Alignment explanation
Indices: 47576017--47576485 Score: 209
Period size: 44 Copynumber: 10.6 Consensus size: 44
47576007 CTTCGGTCTA
* * * * ** * *
47576017 CTCCACTGTAACCTCAAGGAGATAAGACTTGCATATTTAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * *
47576061 CCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * * *** * * *
47576105 CTCCTCTACT-GCTT-AGGAAGGTAAGATCTACCATCTTCGACCTG
1 CTCCACT-GTAACTTCAGGGAGATAAGAT-TTGTAGCTTCAATCTG
* * * * ** * *
47576149 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTTTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTG-TA-GCTTCAATCTG
* ** * * *
47576195 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A--TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * *
47576236 CTCTACTGTAACTTCAGAGAGATGAGATCCTT-TA--TTCTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT--TTGTAGCTTC-AATCTG
* ** *
47576280 CTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * ** *
47576324 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTG-TA-GCTTCAATCTG
* * * ** *
47576370 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * *
47576414 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
*
47576458 CTCCTCTGTAA-TCTCAGGGAGATAAGAT
1 CTCCACTGTAACT-TCAGGGAGATAAGAT
47576486 CTGAAATTCT
Statistics
Matches: 316, Mismatches: 93, Indels: 32
0.72 0.21 0.07
Matches are distributed among these distances:
41 29 0.09
42 1 0.00
43 18 0.06
44 179 0.57
45 17 0.05
46 72 0.23
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
Found at i:47578027 original size:7 final size:7
Alignment explanation
Indices: 47577974--47578027 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
47577964 TTAGCTTCTC
47577974 CATTTTT
1 CATTTTT
*
47577981 CAATTTT
1 CATTTTT
47577988 CA-TTTT
1 CATTTTT
*
47577994 CTTTTTT
1 CATTTTT
*
47578001 CAATTTT
1 CATTTTT
*
47578008 CA-TTCT
1 CATTTTT
47578014 CATTTTT
1 CATTTTT
47578021 CATTTTT
1 CATTTTT
47578028 TCAGAGTGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:47578027 original size:20 final size:20
Alignment explanation
Indices: 47577969--47578026 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
47577959 TCCCCTTAGC
47577969 TTCTCCATTTTTCAATTTTCA
1 TTCT-CATTTTTCAATTTTCA
* *
47577990 TTTTCTTTTTTCAATTTTCA
1 TTCTCATTTTTCAATTTTCA
47578010 TTCTCATTTTTC-ATTTT
1 TTCTCATTTTTCAATTTT
47578027 TTCAGAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTCATTTTTCAATTTTCA
Found at i:47578969 original size:6 final size:6
Alignment explanation
Indices: 47578960--47578988 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47578950 TCTTAGTTTC
47578960 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
47578989 TTCCTTCTTT
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:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:47583438 original size:10 final size:10
Alignment explanation
Indices: 47583423--47583495 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
47583413 ATGTGAAGGG
47583423 ATATATATGT
1 ATATATATGT
47583433 ATATATA--T
1 ATATATATGT
47583441 ATATATATGT
1 ATATATATGT
* ***
47583451 ATAAATAAAA
1 ATATATATGT
*
47583461 ATATGTATG-
1 ATATATATGT
*
47583470 -TATATGTGT
1 ATATATATGT
47583479 ATATATATGT
1 ATATATATGT
*
47583489 ACATATA
1 ATATATA
47583496 AGGTATAAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
8 14 0.30
10 33 0.70
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (10 bp):
ATATATATGT
Found at i:47583789 original size:2 final size:2
Alignment explanation
Indices: 47583782--47583816 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47583772 ACAAGAATAC
47583782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47583817 GCACACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47586089 original size:18 final size:19
Alignment explanation
Indices: 47586068--47586111 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
47586058 TACCTAAATA
47586068 CATTTTATTTTA-TTATAT
1 CATTTTATTTTATTTATAT
47586086 CATTTTA-TTTATTTATAT
1 CATTTTATTTTATTTATAT
*
47586104 CCTTTTAT
1 CATTTTAT
47586112 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (19 bp):
CATTTTATTTTATTTATAT
Found at i:47586149 original size:3 final size:3
Alignment explanation
Indices: 47586134--47586186 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
47586124 TTTTAGATTT
* * ** * *
47586134 TTA TTA TTG TTA TTA TTA TTA ATA CCA TCA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47586182 TTA TT
1 TTA TT
47586187 CTTAAATTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47592810 original size:20 final size:20
Alignment explanation
Indices: 47592785--47592830 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
47592775 GCAATGCTGT
47592785 AAAGGATAAGGTTAACGAGA
1 AAAGGATAAGGTTAACGAGA
47592805 AAAGGATAAGGTTAACGAGA
1 AAAGGATAAGGTTAACGAGA
47592825 AAAGGA
1 AAAGGA
47592831 AAATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.30, T:0.13
Consensus pattern (20 bp):
AAAGGATAAGGTTAACGAGA
Found at i:47604247 original size:128 final size:129
Alignment explanation
Indices: 47604019--47604277 Score: 430
Period size: 128 Copynumber: 2.0 Consensus size: 129
47604009 TAGTAGACAA
* * *
47604019 GAATTTGATAGGATGCAAACGGATGTTTATTGTGAAATACAAGTCTGATGGTTCTATTGAAAGGT
1 GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
*
47604084 ACAAAGCCAGATTGGTTGCTAAAGGTTTCACTCAAACTTAT-AGTAGAATATCAAGAGACGTTT
66 ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGAGTAGAATATCAAGAGACGTTT
* *
47604147 GAATTTGGTAGGATGCAAACGGGTGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
1 GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
* *
47604212 ACAAAGTCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGGAGTAGACTATCAAGAGACGTTT
66 ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTAT-GAGTAGAATATCAAGAGACGTTT
47604277 G
1 G
47604278 CCTCTGTTGC
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 99 0.82
130 22 0.18
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (129 bp):
GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGAGTAGAATATCAAGAGACGTTT
Found at i:47608970 original size:16 final size:18
Alignment explanation
Indices: 47608949--47608986 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
47608939 GTCATGGTTT
47608949 AAAATGAAAATT-T-AAA
1 AAAATGAAAATTGTGAAA
*
47608965 AAAATGAATATTGTGAAA
1 AAAATGAAAATTGTGAAA
47608983 AAAA
1 AAAA
47608987 AATGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAATGAAAATTGTGAAA
Found at i:47610023 original size:24 final size:24
Alignment explanation
Indices: 47609995--47610040 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
47609985 ATAGTAATAC
*
47609995 ATTTTTATTTAAAAAA-ATATATAA
1 ATTTTT-TATAAAAAATATATATAA
47610019 ATTTTTTATAAAAAATATATAT
1 ATTTTTTATAAAAAATATATAT
47610041 TTAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTTTTATAAAAAATATATATAA
Found at i:47612476 original size:42 final size:42
Alignment explanation
Indices: 47612428--47612509 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
47612418 CTTAGGTGCT
* *
47612428 ATTTCTTATTTTATAATTGTTAATTAATCCAATTGCATCTGA
1 ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCTGA
*
47612470 ATTTCTTATTTGATAGTTGTTAATTAAACCAATTGCATCT
1 ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCT
47612510 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (42 bp):
ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCTGA
Found at i:47614386 original size:12 final size:12
Alignment explanation
Indices: 47614371--47614397 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47614361 AGCCTACTAC
47614371 CACAAGCATTGT
1 CACAAGCATTGT
47614383 CACAAGCATTGT
1 CACAAGCATTGT
47614395 CAC
1 CAC
47614398 TGATGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (12 bp):
CACAAGCATTGT
Found at i:47618940 original size:46 final size:46
Alignment explanation
Indices: 47618869--47618961 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
47618859 TCAATTAACG
*
47618869 AAGTGAAAACTCATTCTCTGTTTCCAACCTTTTAAGGTTTAATCTC
1 AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
*
47618915 AAGTGAAAACTCATTCTCTGATTCCAGCCTTTTAAGGTTTAATCTC
1 AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
47618961 A
1 A
47618962 CTTCCTTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (46 bp):
AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
Found at i:47622670 original size:6 final size:6
Alignment explanation
Indices: 47622655--47622684 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
47622645 AGTAATAATT
47622655 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
47622685 CGTTGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:47636582 original size:22 final size:22
Alignment explanation
Indices: 47636533--47636590 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
47636523 CCCAGAAGTA
*
47636533 TGTCTCGAGACATATTGAGTTT
1 TGTCTCGAGACATATTGAGCTT
* *
47636555 TATCTCGAGACATA-TGTTGCTT
1 TGTCTCGAGACATATTG-AGCTT
*
47636577 TGTCTCAAGACATA
1 TGTCTCGAGACATA
47636591 GTTCATTGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (22 bp):
TGTCTCGAGACATATTGAGCTT
Found at i:47636601 original size:20 final size:22
Alignment explanation
Indices: 47636557--47636612 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
47636547 TTGAGTTTTA
* *
47636557 TCTCGAGACATATGTTGCTTTG
1 TCTCAAGACATATGTTGCATTG
47636579 TCTCAAGACATA-GTT-CATTG
1 TCTCAAGACATATGTTGCATTG
*
47636599 TCTTAAGAC-TATGT
1 TCTCAAGACATATGT
47636613 ATTGTGACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 3 0.10
22 11 0.37
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (22 bp):
TCTCAAGACATATGTTGCATTG
Found at i:47638911 original size:62 final size:65
Alignment explanation
Indices: 47638828--47638995 Score: 227
Period size: 62 Copynumber: 2.6 Consensus size: 65
47638818 CACAGCTAAC
* *
47638828 CTATGGTCTTACTCGTTAGGTTCCATGTTTAATGTCTTGACGAACTCCATTGGTT-A-A-CCGAA
1 CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTGACGAACTCCATTGGTTCATAGCCAAA
* * *
47638890 CTATGGTCTTAC-CCTTCAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTGCCATAGTC
1 CTATGGTCTTACTCATT-AGGTTCCATGTTTAATGTCTTGACGAACTCCATTGGTT--CATAGCC
47638954 AAA
63 AAA
*
47638957 CTATGGTCTTACTCATTAGGTTTCATGTTTAATGTCTTG
1 CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTG
47638996 GTGGATTCCA
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
61 3 0.03
62 49 0.53
65 1 0.01
66 1 0.01
67 36 0.39
68 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (65 bp):
CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTGACGAACTCCATTGGTTCATAGCCAAA
Found at i:47638990 original size:67 final size:66
Alignment explanation
Indices: 47638828--47639035 Score: 246
Period size: 67 Copynumber: 3.2 Consensus size: 66
47638818 CACAGCTAAC
* * * *
47638828 CTATGGTCTTACTCGTTAGGTTCCATGTTTAATGTCTTGACGAACTCCATTGGTT--A-A-CCGA
1 CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTGCATAGTCAA
47638889 A
66 A
*
47638890 CTATGGTCTTAC-CCTTCAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTGCCATAGTC
1 CTATGGTCTTACTCATT-AGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTG-CATAGTC
47638954 AAA
64 AAA
* * * * * * *
47638957 CTATGGTCTTACTCATTAGGTTTCATGTTTAATGTCTTGGTGGATTCCAATAGTTGACATAGTCT
1 CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTG-CATAGTCA
47639022 AA
65 AA
47639024 CTATGGTCTTAC
1 CTATGGTCTTAC
47639036 CCCCATAATC
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
61 3 0.02
62 49 0.39
65 1 0.01
66 1 0.01
67 69 0.55
68 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (66 bp):
CTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGGTTGCATAGTCAA
A
Found at i:47640390 original size:2 final size:2
Alignment explanation
Indices: 47640385--47640460 Score: 68
Period size: 2 Copynumber: 39.5 Consensus size: 2
47640375 AAAGATAGAA
* * * * *
47640385 AT AT AT A- AT AT AT AC AT AT AA AA AT AT AC AT AT -T TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
47640424 AT AT AA AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47640461 CGAATAAGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:47641655 original size:17 final size:17
Alignment explanation
Indices: 47641630--47641754 Score: 81
Period size: 17 Copynumber: 6.7 Consensus size: 17
47641620 CGAATATAAT
*
47641630 AAATATTTTTATTTTTA
1 AAATATTTTTAATTTTA
*
47641647 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
47641664 AAATACTTTTAAAATACTTTTTTTA
1 AAATA-TTTT----TA---ATTTTA
47641689 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
47641705 AAATATTTTTAAAATACTTTT
1 AAATATTTTT--AAT--TTTA
* *
47641726 AATTTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
47641743 AAATATTTTTAA
1 AAATATTTTTAA
47641755 AATAATTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
16 9 0.11
17 37 0.44
18 4 0.05
19 8 0.10
21 11 0.13
22 2 0.02
23 4 0.05
25 9 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:47641766 original size:13 final size:11
Alignment explanation
Indices: 47641659--47641774 Score: 60
Period size: 11 Copynumber: 11.3 Consensus size: 11
47641649 ATTTTTTTAA
*
47641659 TTTTAAAATAC
1 TTTTAAAATAT
47641670 TTTTAAAATACTTT
1 TTTTAAAATA---T
47641684 TTTTAAAAT-T
1 TTTTAAAATAT
47641694 TTTT---A-A-
1 TTTTAAAATAT
47641700 TTTTAAAATAT
1 TTTTAAAATAT
*
47641711 TTTTAAAATAC
1 TTTTAAAATAT
47641722 TTTT--AAT-T
1 TTTTAAAATAT
* *
47641730 TTTT---TTAA
1 TTTTAAAATAT
47641738 TTTTAAAATAT
1 TTTTAAAATAT
47641749 TTTTAAAATAATT
1 TTTTAAAAT-A-T
47641762 TTTTAAAAT-T
1 TTTTAAAATAT
47641772 TTT
1 TTT
47641775 GTTTTAATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 31
0.69 0.06 0.26
Matches are distributed among these distances:
6 4 0.05
7 2 0.02
8 8 0.10
9 4 0.05
10 10 0.12
11 35 0.42
12 1 0.01
13 10 0.12
14 9 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:47641781 original size:14 final size:13
Alignment explanation
Indices: 47641738--47641770 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
47641728 TTTTTTTTAA
47641738 TTTTAAAAT-A-T
1 TTTTAAAATAATT
47641749 TTTTAAAATAATT
1 TTTTAAAATAATT
47641762 TTTTAAAAT
1 TTTTAAAAT
47641771 TTTTGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAATAATT
Found at i:47641991 original size:13 final size:13
Alignment explanation
Indices: 47641973--47641997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47641963 TTTCAAAACA
47641973 AAAATCCCCCTTC
1 AAAATCCCCCTTC
47641986 AAAATCCCCCTT
1 AAAATCCCCCTT
47641998 TACTTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATCCCCCTTC
Found at i:47642790 original size:44 final size:43
Alignment explanation
Indices: 47642740--47642828 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
47642730 AGGAAGATAA
** * * *
47642740 GATCTGCCGTCTTCAATCTGCTCCACTACTGTTTAGGGAGACAG
1 GATCTGCAATCTTCAACCTACTCCACTACTGCTTA-GGAGACAG
*
47642784 GATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGAGATAG
1 GATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGAGACAG
47642827 GA
1 GA
47642829 CTAATGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
GATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGAGACAG
Found at i:47643643 original size:132 final size:132
Alignment explanation
Indices: 47642594--47643627 Score: 1423
Period size: 132 Copynumber: 7.8 Consensus size: 132
47642584 TACACCGCCA
* * * * * *
47642594 GGGAAG-TAATATTCACCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATA-AGCTCTACCAT
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAAT
* * * * **
47642657 CTTCAACCTACTCCACTACTGCTCAGGGAGATATGACTAGT-ACTTTCGATCTGCTTCACTGCCA
65 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGC-TTAAATCTGCTT--CT-CCA
* *
47642721 GTATAGTAT
126 CTAT-CT-T
* * * * * *
47642730 AGGAAGATAAGA-TCTGCCGTCTTCAATCTGCTCCACTACTGTTTAGGGAGACAGGATCTGCAAT
1 GGGAAGATAAGATTC-ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
47642794 CTTCAACCTACTCCACTACTGCTTA-GGAGATAGGACTAATGGCTTAAATCTGCTTC-CTCACTA
65 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTC-CACTA
47642857 TCTT
129 TCTT
* *
47642861 GGGAAGATAAGATTCACCATCTTTGATCTGCTCTACTACTGCTACTGCTTAGGGAGACATAATCT
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTC--C-A---CTACTGCTTAGGGAGACAGAATCT
*
47642926 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCC
60 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC
47642991 ACTATCTT
125 ACTATCTT
* * * *
47642999 GGGAAGATAAGATTCACTATCTTCGATCTACTCCACTACTGCTTAGGGAGACATAATCTACAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
*
47643064 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATAGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
47643129 TT
131 TT
* * ** *
47643131 GGGAAGATAAGATTCGCCATCTTCAATCTATTCCACTACTACTTAGGGAGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* *
47643196 TTCAACCTACTCCACTACTGCTTAGGGAAATAGGACTAATGGCTTAAATCTACTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
47643261 TT
131 TT
* * * *
47643263 GGGAAGATAAGATTCGCCATATTCGATCTGCTCCACTATTGCTTAAGGAGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* *
47643328 TTCAACCTACTCCACTAGTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
47643393 TT
131 TT
* * *
47643395 GGGAAGATAAGATTCACAATCTTCGATCTGTTCCACTACTGCTTAGGAAGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* *
47643460 TTCAACCTATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCATTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
47643525 TT
131 TT
* * *
47643527 GGGAAAATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* * *
47643592 TTCGACCTACTCCGCTACTGCTTAGAGAGATAGGAC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGAC
47643628 CAGTGGTTTC
Statistics
Matches: 807, Mismatches: 77, Indels: 32
0.88 0.08 0.03
Matches are distributed among these distances:
131 26 0.03
132 553 0.69
133 6 0.01
134 2 0.00
135 1 0.00
136 31 0.04
137 118 0.15
138 69 0.09
139 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
TT
Found at i:47643714 original size:45 final size:45
Alignment explanation
Indices: 47643639--47643770 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 45
47643629 AGTGGTTTCG
* * * *
47643639 ATCTGATTCGCTGTCAGTACAAGAAGACAAGATCTCCTATCTTCA
1 ATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGCTATCTTCA
* * * * *
47643684 GTCTGCTTCACTGTCAGTACAGGAATACAAG-GCTGGTGTCTTCA
1 ATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGCTATCTTCA
* *
47643728 ATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTT
1 ATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGCTATCTT
47643771 TACTGATCTG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 36 0.51
45 34 0.49
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
ATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGCTATCTTCA
Found at i:47650341 original size:22 final size:21
Alignment explanation
Indices: 47650315--47650367 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
47650305 ATAGAAATAC
47650315 ATACATATATACATATAAAAAT
1 ATACATATATA-ATATAAAAAT
* *
47650337 ATACATATTTTAATATATAAAT
1 ATACATA-TATAATATAAAAAT
*
47650359 ATATATATA
1 ATACATATA
47650368 CGAATAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.85
23 3 0.12
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
ATACATATATAATATAAAAAT
Found at i:47650609 original size:3 final size:3
Alignment explanation
Indices: 47650583--47650671 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
47650573 ATATAAGGGA
* * * *
47650583 AAT AAC AAT AAT ATT AAT ACT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
47650631 AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47650672 AATTACTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47651793 original size:33 final size:33
Alignment explanation
Indices: 47651751--47651816 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47651741 ATCTTGATTG
47651751 ACCATCTCGCATTTAATATCCTATCGGATTATC
1 ACCATCTCGCATTTAATATCCTATCGGATTATC
47651784 ACCATCTCGCATTTAATATCCTATCGGATTATC
1 ACCATCTCGCATTTAATATCCTATCGGATTATC
47651817 TATGATACCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (33 bp):
ACCATCTCGCATTTAATATCCTATCGGATTATC
Found at i:47652016 original size:45 final size:44
Alignment explanation
Indices: 47651952--47652083 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 44
47651942 CAAGTTTTCA
*
47651952 CATGATGTCCTAACATCTTTCAGCTATGGTCTTACTCATTTCTAT
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTT-TAT
* * *
47651997 CATGATGTCATAACATCTTTTAGTTATTGTCTTACT-AGTTTTAT
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACTCA-TTTTAT
**** *
47652041 CATGATGTCATAGTGCCTTTCAGGTATGGTCTTACTCATTTTA
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTA
47652084 AGCGTATAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 38 0.51
45 36 0.49
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (44 bp):
CATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTAT
Found at i:47653396 original size:3 final size:3
Alignment explanation
Indices: 47653388--47653438 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
47653378 AGACCAATTG
47653388 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47653436 ATA
1 ATA
47653439 GTAAGTCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47653498 original size:2 final size:2
Alignment explanation
Indices: 47653487--47653523 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
47653477 ATAACTAATT
47653487 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47653524 AGCATGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:47658355 original size:109 final size:108
Alignment explanation
Indices: 47658187--47658444 Score: 399
Period size: 109 Copynumber: 2.4 Consensus size: 108
47658177 GGGTACGACC
* *
47658187 TTCTCGAATTTCCAAACGCAAGACATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGCTATTT
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAGGATATTTGGCTATTT
*
47658252 GGTCGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTT
66 GGTCAAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTT
*
47658295 TTCTCGAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTGGCTATT
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA-TTTTAAAAGGATATTTGGCTATT
* * *
47658360 TGGTCAAACGAGAAAAGTCGAAACCCAGCACATTATGGCACGTT
65 TGGTCAAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTT
* * * * *
47658404 TTCTCAAATTTCCAAATGCAAAATATTACCTTATTTAGAAA
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
47658445 AATTTTCCTT
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
108 38 0.28
109 98 0.72
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (108 bp):
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAGGATATTTGGCTATTT
GGTCAAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTT
Found at i:47658774 original size:22 final size:26
Alignment explanation
Indices: 47658748--47658810 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 26
47658738 AAAATACGAG
* *
47658748 AAAAATATGTATATAT-ATA-TTT-T
1 AAAAGTATGTATATATAAAAGTTTAT
* *
47658771 AAAATTAT-TAAATATAAAAGTTTAT
1 AAAAGTATGTATATATAAAAGTTTAT
47658796 AAAAGTATGTATATA
1 AAAAGTATGTATATA
47658811 CACGTTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.19
23 9 0.29
24 3 0.10
25 8 0.26
26 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
AAAAGTATGTATATATAAAAGTTTAT
Found at i:47658834 original size:15 final size:16
Alignment explanation
Indices: 47658801--47658834 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47658791 TTTATAAAAG
*
47658801 TATGTATATACACGTT
1 TATGTATATACAAGTT
47658817 TATGTATATA-AAGTT
1 TATGTATATACAAGTT
47658832 TAT
1 TAT
47658835 AAAAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
TATGTATATACAAGTT
Found at i:47658914 original size:42 final size:40
Alignment explanation
Indices: 47658823--47658919 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 40
47658813 CGTTTATGTA
* * *
47658823 TATAAAGTTTATAAAAAAACATATAAGTATGTATATATAT
1 TATAAAATATATAAAAAAACATATAAGTATGTATATAAAT
* * * *
47658863 TCGTAAAAATGTATATAAATACATATATAGATATGTATATAAAT
1 T-AT-AAAATATATAAAAAAACATATA-AG-TATGTATATAAAT
47658907 TATAAAATATATA
1 TATAAAATATATA
47658920 GAATATATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 27 0.60
43 3 0.07
44 13 0.29
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (40 bp):
TATAAAATATATAAAAAAACATATAAGTATGTATATAAAT
Found at i:47659044 original size:15 final size:14
Alignment explanation
Indices: 47658995--47659055 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
47658985 ATATATGTGT
47658995 ATATATATATTATAA
1 ATATATATA-TATAA
* *
47659010 AAATATATGTATAA
1 ATATATATATATAA
*
47659024 CGTATATATATATAA
1 -ATATATATATATAA
*
47659039 ATTATAAAGTATATAA
1 A-TATATA-TATATAA
47659055 A
1 A
47659056 GTGTAGAAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 5 0.14
15 23 0.64
16 8 0.22
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:47659195 original size:29 final size:29
Alignment explanation
Indices: 47659145--47659221 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 29
47659135 AATAATATTA
*
47659145 ATAATAATAATAGCAATAATAATAGTAGTAAT-
1 ATAA-AATAATAGTAATAAT-AT-G-AGTAATG
47659177 AGTAAAAATAA-AGTAATAATATGAGTAATG
1 A-T-AAAATAATAGTAATAATATGAGTAATG
47659207 ATAAAATAATAGTAA
1 ATAAAATAATAGTAA
47659222 GAGAAGTGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
28 7 0.17
29 12 0.30
30 2 0.05
31 2 0.05
32 9 0.22
33 6 0.15
34 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.12, T:0.29
Consensus pattern (29 bp):
ATAAAATAATAGTAATAATATGAGTAATG
Found at i:47664915 original size:18 final size:17
Alignment explanation
Indices: 47664894--47664936 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
47664884 ACCTGAAGCT
47664894 GCGAGCTCATCCAAAGAC
1 GCGAGCTCAT-CAAAGAC
**
47664912 GCGAGCTCATCAAAGTT
1 GCGAGCTCATCAAAGAC
47664929 GCGAGCTC
1 GCGAGCTC
47664937 GACCTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (17 bp):
GCGAGCTCATCAAAGAC
Found at i:47664932 original size:17 final size:17
Alignment explanation
Indices: 47664893--47664959 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
47664883 TACCTGAAGC
*
47664893 TGCGAGCTCATCCAAAGA
1 TGCGAGCTCAT-CAAAGT
*
47664911 CGCGAGCTCATCAAAGT
1 TGCGAGCTCATCAAAGT
* *
47664928 TGCGAGCTCGACCTAAGT
1 TGCGAGCTC-ATCAAAGT
* *
47664946 TGTGAGCACATCAA
1 TGCGAGCTCATCAA
47664960 GTGTGAGCTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 16 0.41
18 23 0.59
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (17 bp):
TGCGAGCTCATCAAAGT
Found at i:47673913 original size:36 final size:36
Alignment explanation
Indices: 47673826--47673915 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
47673816 GAGCCATTAA
** * *
47673826 TGTGTTTCAAATGTATTAGCTCTTATGAGCATCTAG
1 TGTGTTTCGGATGGATTAGCTCTTACGAGCATCTAG
* *
47673862 TTTGTTTCGGATGGATTAGCTCTTACGAGCATCTTG
1 TGTGTTTCGGATGGATTAGCTCTTACGAGCATCTAG
* *
47673898 TGTGTTTTGGTTGGATTA
1 TGTGTTTCGGATGGATTA
47673916 TCGATGTACT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.44
Consensus pattern (36 bp):
TGTGTTTCGGATGGATTAGCTCTTACGAGCATCTAG
Found at i:47676760 original size:13 final size:13
Alignment explanation
Indices: 47676742--47676766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47676732 ATAAAACAAA
47676742 GGTGGCTATGTCT
1 GGTGGCTATGTCT
47676755 GGTGGCTATGTC
1 GGTGGCTATGTC
47676767 CGGTCTCTCT
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:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (13 bp):
GGTGGCTATGTCT
Found at i:47685597 original size:2 final size:2
Alignment explanation
Indices: 47685585--47685617 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
47685575 TCTACTTTTC
47685585 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47685618 AACACAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:47686108 original size:21 final size:19
Alignment explanation
Indices: 47686083--47686130 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
47686073 CATTTTTCAA
47686083 AATTTTTTATGAACTTTTAT
1 AATTTTTTATGAA-TTTTAT
* *
47686103 ATATTTTAATATTAATTTTAT
1 A-ATTTT-TTATGAATTTTAT
47686124 AATTTTT
1 AATTTTT
47686131 GAATTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTATGAATTTTAT
Found at i:47687310 original size:20 final size:20
Alignment explanation
Indices: 47687285--47687381 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 20
47687275 TAAAAAAAAT
47687285 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
47687305 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
*
47687322 TACATAAGTCCTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
47687342 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
47687359 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
47687379 TAC
1 TAC
47687382 CTAATTTAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 25 0.47
20 28 0.53
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:47687327 original size:17 final size:17
Alignment explanation
Indices: 47687305--47687365 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
47687295 TTTGAATCAC
47687305 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
47687322 TACATAAGTCCTTGAATCAC
1 TACATAA-T--TAAAAACAT
47687342 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
47687359 TACATAA
1 TACATAA
47687366 GTCTTTGAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 19 0.58
18 1 0.03
19 1 0.03
20 12 0.36
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:47687411 original size:37 final size:37
Alignment explanation
Indices: 47687258--47687408 Score: 257
Period size: 37 Copynumber: 4.0 Consensus size: 37
47687248 TTTAACCGAA
*
47687258 TTGAATCACTACATAATTAAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATT-AAAAACATTACATAAGTCT
*
47687296 TTGAATCACTACATAATTAAAAACATTACATAAGTCC
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
47687333 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
47687370 TTGAATCACTACCTAATTTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAA-TTAAAAACATTACATAAGTCT
47687408 T
1 T
47687409 GAAATTAACA
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
37 68 0.63
38 40 0.37
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:47687422 original size:75 final size:75
Alignment explanation
Indices: 47687258--47687425 Score: 252
Period size: 75 Copynumber: 2.2 Consensus size: 75
47687248 TTTAACCGAA
*
47687258 TTGAATCACTACATAATTAAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATT
1 TTGAATAACTACATAATTAAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATT
47687323 ACATAAGTCC
66 ACATAAGTCC
* * *
47687333 TTGAATCACTACATAATT-AAAAACATTACATAAGTCTTTGAATCACTACCTAATTTAAAAACAT
1 TTGAATAACTACATAATTAAAAAAAATTACATAAGTCTTTGAATCACTACATAA-TTAAAAACAT
47687397 TACATAAGT-C
65 TACATAAGTCC
47687407 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
47687426 GAAATGTAAG
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
74 37 0.43
75 47 0.54
76 3 0.03
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (75 bp):
TTGAATAACTACATAATTAAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATT
ACATAAGTCC
Found at i:47688339 original size:12 final size:12
Alignment explanation
Indices: 47688324--47688353 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47688314 TTTAAAAAAA
*
47688324 AAAAAAAAATTC
1 AAAAAAAAATAC
47688336 AAAAAAAAATAC
1 AAAAAAAAATAC
47688348 AAAAAA
1 AAAAAA
47688354 TAGAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAAAATAC
Found at i:47688406 original size:29 final size:30
Alignment explanation
Indices: 47688358--47688511 Score: 181
Period size: 30 Copynumber: 5.2 Consensus size: 30
47688348 AAAAAATAGA
* *
47688358 AAATTACATTTTGGCTCCTAAACTTTT-TG
1 AAATTACATTTTGACCCCTAAACTTTTCTG
* *
47688387 AAATTTCATTTTGACCCCTAAA-TTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTT-CTG
* *
47688417 AAATTATATTTTGACCCCTAAACTTTTCCG
1 AAATTACATTTTGACCCCTAAACTTTTCTG
* *
47688447 AAATTACATTTTGACCCATAAACTTTT-TT
1 AAATTACATTTTGACCCCTAAACTTTTCTG
*
47688476 AAATTACATTATGACCCCTAAA-TTTTCTCG
1 AAATTACATTTTGACCCCTAAACTTTTCT-G
47688506 AAATTA
1 AAATTA
47688512 TGTTTTGGCC
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
28 8 0.08
29 40 0.38
30 53 0.50
31 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAACTTTTCTG
Found at i:47688480 original size:59 final size:59
Alignment explanation
Indices: 47688357--47688511 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 59
47688347 CAAAAAATAG
* * * * *
47688357 AAAATTACATTTTGGCTCCTAAACTTTT-TGAAATTTCATTTTGACCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAACTTTTCCGAAATTACATTTTGACCCATAAATTTT-CT
*
47688416 AAAATTATATTTTGACCCCTAAACTTTTCCGAAATTACATTTTGACCCATAAACTTTT-T
1 AAAATTACATTTTGACCCCTAAACTTTTCCGAAATTACATTTTGACCCATAAA-TTTTCT
* *
47688475 TAAATTACATTATGACCCCTAAA-TTTTCTCGAAATTA
1 AAAATTACATTTTGACCCCTAAACTTTTC-CGAAATTA
47688512 TGTTTTGGCC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
58 5 0.06
59 54 0.64
60 21 0.25
61 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (59 bp):
AAAATTACATTTTGACCCCTAAACTTTTCCGAAATTACATTTTGACCCATAAATTTTCT
Found at i:47688912 original size:12 final size:12
Alignment explanation
Indices: 47688870--47688908 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47688860 ACTAAGGCGT
*
47688870 GAAGAGGAAGGAG
1 GAAGAAGAA-GAG
47688883 GAAGAAGAAGAG
1 GAAGAAGAAGAG
47688895 GAAGAAGAA-AG
1 GAAGAAGAAGAG
47688906 GAA
1 GAA
47688909 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 5 0.20
12 12 0.48
13 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAG
Found at i:47689210 original size:11 final size:10
Alignment explanation
Indices: 47689189--47689241 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 10
47689179 GCAGGCCAGC
47689189 AGAAAAAAAA
1 AGAAAAAAAA
47689199 AGAAAAAGAAA
1 AGAAAAA-AAA
47689210 AGAAAAAAGAGA
1 AGAAAAAA-A-A
47689222 A-AAAAGAAAA
1 AGAAAA-AAAA
47689232 AGGAAAAAAA
1 A-GAAAAAAA
47689242 GGAGGAGCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.27
11 19 0.51
12 8 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:47689215 original size:21 final size:22
Alignment explanation
Indices: 47689195--47689242 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
47689185 CAGCAGAAAA
47689195 AAAAAG-AAAAAG-AAAAGAAA
1 AAAAAGAAAAAAGAAAAAGAAA
* *
47689215 AAAGAGAAAAAAGAAAAAGGAA
1 AAAAAGAAAAAAGAAAAAGAAA
47689237 AAAAAG
1 AAAAAG
47689243 GAGGAGCTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 12 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAGAAAAAGAAA
Found at i:47689217 original size:7 final size:7
Alignment explanation
Indices: 47689194--47689240 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
47689184 CCAGCAGAAA
47689194 AAAAAAG
1 AAAAAAG
47689201 -AAAAAG
1 AAAAAAG
47689207 AAAAGAA-
1 AAAA-AAG
*
47689214 AAAAGAG
1 AAAAAAG
47689221 AAAAAAG
1 AAAAAAG
*
47689228 AAAAAGG
1 AAAAAAG
47689235 AAAAAA
1 AAAAAA
47689241 AGGAGGAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 7 0.21
7 24 0.73
8 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:47689710 original size:35 final size:33
Alignment explanation
Indices: 47689645--47689716 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 33
47689635 ATGTAATTTA
47689645 TCAAAATTTTCGAGTTTCAAAATTTCTCGTGTT
1 TCAAAATTTTCGAGTTTCAAAATTTCTCGTGTT
*
47689678 TCAAAATTTCTCGTGTTTTCAAAAATTT-TCGTGTT
1 TCAAAATTT-TCGAG-TTTC-AAAATTTCTCGTGTT
47689713 TCAA
1 TCAA
47689717 TAAATTCACG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 9 0.26
34 4 0.11
35 15 0.43
36 7 0.20
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (33 bp):
TCAAAATTTTCGAGTTTCAAAATTTCTCGTGTT
Found at i:47689722 original size:18 final size:17
Alignment explanation
Indices: 47689645--47689716 Score: 103
Period size: 17 Copynumber: 4.2 Consensus size: 17
47689635 ATGTAATTTA
*
47689645 TCAAAATTT-TCGAGTT
1 TCAAAATTTCTCGTGTT
47689661 TCAAAATTTCTCGTGTT
1 TCAAAATTTCTCGTGTT
47689678 TCAAAATTTCTCGTGTTT
1 TCAAAATTTCTCGTG-TT
47689696 TCAAAAATTT-TCGTGTT
1 TC-AAAATTTCTCGTGTT
47689713 TCAA
1 TCAA
47689717 TAAATTCACG
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
16 11 0.21
17 25 0.48
18 9 0.17
19 7 0.13
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (17 bp):
TCAAAATTTCTCGTGTT
Found at i:47689731 original size:35 final size:35
Alignment explanation
Indices: 47689659--47689731 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
47689649 AATTTTCGAG
* *
47689659 TTTCAAAATTTCTCGTGTTTCAAAATTTCTCGTGT
1 TTTCAAAATTTCTCGTGTTTCAAAAATTCACGTGT
47689694 TTTCAAAAATTT-TCGTGTTTCAATAAATTCACG-GT
1 TTTC-AAAATTTCTCGTGTTTCAA-AAATTCACGTGT
47689729 TTT
1 TTT
47689732 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 20 0.59
36 14 0.41
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (35 bp):
TTTCAAAATTTCTCGTGTTTCAAAAATTCACGTGT
Found at i:47695917 original size:11 final size:10
Alignment explanation
Indices: 47695897--47695951 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
47695887 TATTATGCCT
47695897 AAAAAAAAAC
1 AAAAAAAAAC
47695907 AAAACAAAAAC
1 AAAA-AAAAAC
47695918 --AAAAAAAC
1 AAAAAAAAAC
47695926 AAAAAATAAA-
1 AAAAAA-AAAC
*
47695936 AAAAATAAAAT
1 AAAAA-AAAAC
47695947 AAAAA
1 AAAAA
47695952 GAACAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 16 0.41
11 15 0.38
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:47695924 original size:14 final size:13
Alignment explanation
Indices: 47695898--47695957 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 13
47695888 ATTATGCCTA
47695898 AAAAAAAACAAAAC
1 AAAAAAAA-AAAAC
47695912 AAAAACAAAAAAAC
1 AAAAA-AAAAAAAC
*
47695926 AAAAAATAAAAAAA
1 AAAAAA-AAAAAAC
47695940 ATAAAATAAAAAGAAC
1 A-AAAA-AAAAA-AAC
47695956 AA
1 AA
47695958 TCAAGATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 22 0.56
15 12 0.31
16 4 0.10
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:47696986 original size:79 final size:78
Alignment explanation
Indices: 47696820--47697483 Score: 749
Period size: 79 Copynumber: 8.5 Consensus size: 78
47696810 GTTTTTTTTT
* ** * *
47696820 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG-GTCATGCCGAGATATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
47696884 TT-TGGTTTTTCAA
66 TTCT-GTTTTTCAA
* * * * *
47696897 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCGCATGCTGAGGTATTTTCTTCTATA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTA-TTTCTTTTAAA
47696962 TTTCTGTTTTTCAA
65 TTTCTGTTTTTCAA
*
47696976 AAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCTGAGGTATTTCTTTT-AA
* * **
47697041 ATTTTTATTTTTTTA
64 ATTTCTGTTTTTCAA
* * ** *
47697056 AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG-GTCATACTGAGGTA-TTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
47697119 TTCTGTTTTTCAA
66 TTCTGTTTTTCAA
* * *
47697132 AAATCAACTCATATTGC--GAGG-AAG-TGAGCCTCGGACACATGCCGATGTATTTCTTTTAAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTATTTCTTTT-AAA
*
47697193 TTTATGTTTTTTCATAAAAA
65 TTTCTG-TTTTTC-----AA
47697213 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATG-TCGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCT-GAGGTATTTCTTTTAAA
***
47697277 TTTCTGTTTTTTTTC
65 TTTCTG-TTTTTCAA
*
47697292 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
*
47697357 TTCTGTTTTT-TA
66 TTCTGTTTTTCAA
* * * * * *
47697369 AAATCAACTTATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA--TCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCTGAGGTATTTCTTTTAAA
*
47697432 TTTATGTTTTTCAA
65 TTTCTGTTTTTCAA
* * * * *
47697446 AAATCAACTCATAATGCTAAAGGTGAGTTAAACCTCGG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
47697484 GTCACACGCC
Statistics
Matches: 506, Mismatches: 59, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
72 10 0.02
73 11 0.02
74 11 0.02
75 8 0.02
76 55 0.11
77 108 0.21
78 40 0.08
79 132 0.26
80 62 0.12
81 19 0.04
83 4 0.01
84 16 0.03
85 30 0.06
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (78 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
TTCTGTTTTTCAA
Found at i:47697112 original size:156 final size:155
Alignment explanation
Indices: 47696820--47697502 Score: 767
Period size: 156 Copynumber: 4.4 Consensus size: 155
47696810 GTTTTTTTTT
* ** *
47696820 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG-GTCATGCCGAGATATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAAT
* ** * * *
47696884 TTTGGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCGCATGCTGAGGT
66 TTTTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTC-CATACTGAGGT
* *
47696949 ATTTTCTTCTATATTTCTGTTTTTCAA
130 A-TTTCTTTTAAATTTCTGTTTTTCAA
* *
47696976 AAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGACACATGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTTCTTTT-AA
* *
47697041 ATTTTTATTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT-CATACTGAG
64 ATTTTTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCCATACTGAG
47697105 GTA-TTCTTTTAAATTTCTGTTTTTCAA
128 GTATTTCTTTTAAATTTCTGTTTTTCAA
* *
47697132 AAATCAACTCATATTGC--GAGG-AAG-TGAGCCTCGGACACATGCCGATGTATTTCTTTTAAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTT-AAA
* * *
47697193 TTTATGTTTTTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT-
65 TTTTTGTTTTTT--T----AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTC-CATA
* ***
47697257 GTCGAGGTATTTCTTTTAAATTTCTGTTTTTTTTC
123 CT-GAGGTATTTCTTTTAAATTTCTG-TTTTTCAA
* *
47697292 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGACACATGCTGAGGTATTTCTTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAAT
* * * *
47697357 TTCTG-TTTTTTAAAATCAACTTATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGG
66 TTTTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTC-CATACTGAGG
*
47697421 TA--TCTTTTAAATTTATGTTTTTCAA
129 TATTTCTTTTAAATTTCTGTTTTTCAA
* * * * * * * *
47697446 AAATCAACTCATAATGCTAAAGGTGAGTTAAACCTCGGGTCACACGCCAAGGTATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTT
47697503 TCAATTTCTG
Statistics
Matches: 453, Mismatches: 52, Indels: 45
0.82 0.09 0.08
Matches are distributed among these distances:
151 37 0.08
152 8 0.02
153 3 0.01
154 40 0.09
155 30 0.07
156 109 0.24
157 51 0.11
158 38 0.08
159 62 0.14
160 26 0.06
162 9 0.02
163 10 0.02
164 30 0.07
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (155 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAAT
TTTTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCCATACTGAGGTA
TTTCTTTTAAATTTCTGTTTTTCAA
Found at i:47697255 original size:236 final size:234
Alignment explanation
Indices: 47696798--47697489 Score: 870
Period size: 236 Copynumber: 2.9 Consensus size: 234
47696788 TAAGAAATAT
* *
47696798 TTTTCAATTTCTGTTTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT
1 TTTTAAATTTCTGTTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT
* *
47696863 GCCGAGATATTTCTTTTAAATTT-TGGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
66 GCTGAGGTATTTCTTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAG--GTGAGTTG
* * * * *
47696927 AGCCTCGGTCGCATGCTGAGGTATTTTCTTCTATATTTCTG-TTTTTCAAAAATCAACTCATATT
128 AGCCTCGGTCACATGCCGAGGTA-TTTCTTTTAAATTTATGTTTTTTCAAAAATCAACTCATATT
*
47696991 GCGAGATGTGAGTTGAGCCTCGGGACACATG-CTGAGGTATTTC
192 GCGAGAGGTGAGTTGAGCCTCGGGACACATGTC-GAGGTATTTC
*
47697034 TTTTAAAATTT-T-TATTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTT-AAATTTCTGT-TTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
47697097 ATACTGAGGTA-TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGG-AAG-TGA
64 ATGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGGTGAGTTGA
* *
47697159 GCCTCGGACACATGCCGATGTATTTCTTTTAAAATTTATGTTTTTTCATAAAAAAAATCAACTCA
129 GCCTCGGTCACATGCCGAGGTATTTCTTTT-AAATTTATGTTTTTTC-----AAAAATCAACTCA
47697224 TATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGTCGAGGTATTTC
188 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACATGTCGAGGTATTTC
* * * **
47697270 TTTTAAATTTCTGTTTTTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGACACA
1 TTTTAAATTTCTGTTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG-GTCA
* * *
47697335 TGCTGAGGTATTTCTTTTAAATTTCTGTTTTT-TAAAATCAACTTATAATGCAAGAGGTGAGTTG
65 TGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGC--GAGGTGAGTTG
* *
47697399 AGCCTCGGGTCACATACCGAGGTA--TCTTTTAAATTTATG-TTTTTCAAAAATCAACTCATAAT
128 AGCCTC-GGTCACATGCCGAGGTATTTCTTTTAAATTTATGTTTTTTCAAAAATCAACTCATATT
* * * * *
47697461 GCTAAAGGTGAGTTAAACCTCGGGTCACA
192 GCGAGAGGTGAGTTGAGCCTCGGGACACA
47697490 CGCCAAGGTA
Statistics
Matches: 400, Mismatches: 35, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
230 7 0.02
231 28 0.07
232 8 0.02
233 34 0.09
234 6 0.01
235 49 0.12
236 127 0.32
237 71 0.18
238 27 0.07
239 13 0.03
240 8 0.02
241 8 0.02
242 14 0.04
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (234 bp):
TTTTAAATTTCTGTTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT
GCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGGTGAGTTGAGC
CTCGGTCACATGCCGAGGTATTTCTTTTAAATTTATGTTTTTTCAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCGGGACACATGTCGAGGTATTTC
Found at i:47697673 original size:10 final size:10
Alignment explanation
Indices: 47697658--47697683 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
47697648 TGTTTTTTTT
47697658 AAAAAAATAC
1 AAAAAAATAC
47697668 AAAAAAATAC
1 AAAAAAATAC
47697678 AAAAAA
1 AAAAAA
47697684 TATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:47697758 original size:30 final size:29
Alignment explanation
Indices: 47697688--47697841 Score: 195
Period size: 30 Copynumber: 5.2 Consensus size: 29
47697678 AAAAAATATA
*
47697688 AAATTACATTTTGGCCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
* *
47697717 AAATTACATTTTGACCCTTAAA-TTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTT--TG
*
47697747 AAATTATATTTTGACCCCTAAACTTTTTTG
1 AAATTACATTTTGACCCCTAAAC-TTTTTG
*
47697777 AAATTACATTTTGACCCATAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
*
47697806 AAATTACATTATGACCCCTAAA-TTTTCTCG
1 AAATTACATTTTGACCCCTAAACTTTT-T-G
47697836 AAATTA
1 AAATTA
47697842 TGTTTTGGCC
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.07
29 47 0.43
30 50 0.46
32 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTTTG
Found at i:47697848 original size:59 final size:58
Alignment explanation
Indices: 47697686--47697841 Score: 208
Period size: 59 Copynumber: 2.6 Consensus size: 58
47697676 ACAAAAAATA
* *
47697686 TAAAATTACATTTTGGCCCCTAAACTTTTTGAAATTACATTTTGACCCTTAAATTTTCC
1 TAAAATTACATTTTGACCCCTAAACTTTTTGAAATTACATTTTGACCCATAAATTTT-C
*
47697745 TAAAATTATATTTTGACCCCTAAACTTTTTTGAAATTACATTTTGACCCATAAACTTTT-
1 TAAAATTACATTTTGACCCCTAAAC-TTTTTGAAATTACATTTTGACCCATAAA-TTTTC
* *
47697804 TGAAATTACATTATGACCCCTAAA-TTTTCTCGAAATTA
1 TAAAATTACATTTTGACCCCTAAACTTTT-T-GAAATTA
47697842 TGTTTTGGCC
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
57 4 0.05
58 1 0.01
59 51 0.59
60 27 0.31
61 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (58 bp):
TAAAATTACATTTTGACCCCTAAACTTTTTGAAATTACATTTTGACCCATAAATTTTC
Found at i:47698225 original size:22 final size:23
Alignment explanation
Indices: 47698199--47698241 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
47698189 ACTAAGGCGT
*
47698199 GAAGAGGAAGGAGG-AGGAAAAA
1 GAAGAGGAAGAAGGAAGGAAAAA
47698221 GAAGAGGAAGAAGGAAGGAAA
1 GAAGAGGAAGAAGGAAGGAAA
47698242 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (23 bp):
GAAGAGGAAGAAGGAAGGAAAAA
Found at i:47698492 original size:26 final size:25
Alignment explanation
Indices: 47698463--47698512 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
47698453 CCCAGCAGTG
47698463 CAACAGCCCAAACCAGCGCAGCCCAA
1 CAACAGCCCAAACCAG-GCAGCCCAA
* *
47698489 CAACAGCCCACAGCAGGCAGCCCA
1 CAACAGCCCAAACCAGGCAGCCCA
47698513 GCAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (25 bp):
CAACAGCCCAAACCAGGCAGCCCAA
Found at i:47698537 original size:14 final size:14
Alignment explanation
Indices: 47698518--47698584 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 14
47698508 GCCCAGCAAA
47698518 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
47698532 AAAAAAAGAAAAAAG
1 AAAAAAA-AGAAAAG
47698547 AGAAAAAAAG-AAAG
1 A-AAAAAAAGAAAAG
*
47698561 AGAAAAAAGAAAAAG
1 AAAAAAAAG-AAAAG
*
47698576 GAAAAAAAG
1 AAAAAAAAG
47698585 GAGGAGCTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.16
14 12 0.27
15 19 0.43
16 6 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:47698561 original size:29 final size:29
Alignment explanation
Indices: 47698519--47698584 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
47698509 CCCAGCAAAA
47698519 AAAAAAAGAAAAGA-AAAAAAGAAAAAAGAG
1 AAAAAAAGAAAAGAGAAAAAAG-AAAAAG-G
47698549 AAAAAAAG-AAAGAGAAAAAAGAAAAAGG
1 AAAAAAAGAAAAGAGAAAAAAGAAAAAGG
47698577 AAAAAAAG
1 AAAAAAAG
47698585 GAGGAGCTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.26
29 11 0.31
30 15 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAAAAGAGAAAAAAGAAAAAGG
Found at i:47698586 original size:9 final size:8
Alignment explanation
Indices: 47698515--47698584 Score: 68
Period size: 9 Copynumber: 8.0 Consensus size: 8
47698505 GCAGCCCAGC
*
47698515 AAAAAAAA
1 AAAAAAAG
47698523 AAAGAAAAG
1 AAA-AAAAG
47698532 AAAAAAAG
1 AAAAAAAG
47698540 AAAAAAGAG
1 AAAAAA-AG
47698549 AAAAAAAG
1 AAAAAAAG
*
47698557 AAAGAGAAAA
1 AAA-A-AAAG
47698567 AAGAAAAAGG
1 AA-AAAAA-G
47698577 AAAAAAAG
1 AAAAAAAG
47698585 GAGGAGCTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 20 0.38
9 24 0.45
10 8 0.15
11 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:47699021 original size:17 final size:16
Alignment explanation
Indices: 47698990--47699044 Score: 83
Period size: 16 Copynumber: 3.2 Consensus size: 16
47698980 ATGTAATTTA
47698990 TCAAAATTTTCGTGTT
1 TCAAAATTTTCGTGTT
47699006 TCAAAATTTCTCGTGTTT
1 TCAAAATTT-TCGTG-TT
47699024 TCAAAAATTTTCGTGTT
1 TC-AAAATTTTCGTGTT
47699041 TCAA
1 TCAA
47699045 TAAATTCACG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.31
17 9 0.25
18 9 0.25
19 7 0.19
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (16 bp):
TCAAAATTTTCGTGTT
Found at i:47699049 original size:18 final size:17
Alignment explanation
Indices: 47698992--47699050 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
47698982 GTAATTTATC
47698992 AAAATTTTCGTGTTTC-
1 AAAATTTTCGTGTTTCA
47699008 AAAATTTCTCGTGTTTTCA
1 AAAATTT-TCGTG-TTTCA
47699027 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
47699044 ATAAATT
1 A-AAATT
47699051 CACGGTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.18
17 11 0.28
18 14 0.36
19 7 0.18
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:47699059 original size:35 final size:35
Alignment explanation
Indices: 47698992--47699059 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
47698982 GTAATTTATC
* *
47698992 AAAATTTTCGTGTTTCAAAATTTCTCGTGTTTTCA
1 AAAATTTTCGTGTTTCAAAAATTCACGTGTTTTCA
47699027 AAAATTTTCGTGTTTCAATAAATTCACG-GTTTT
1 AAAATTTTCGTGTTTCAA-AAATTCACGTGTTTT
47699060 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (35 bp):
AAAATTTTCGTGTTTCAAAAATTCACGTGTTTTCA
Found at i:47700462 original size:6 final size:6
Alignment explanation
Indices: 47700451--47700477 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47700441 ATAAAATATC
47700451 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
47700478 AAAATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:47714509 original size:50 final size:50
Alignment explanation
Indices: 47714455--47714829 Score: 303
Period size: 50 Copynumber: 7.5 Consensus size: 50
47714445 GCAGCAGAAC
*
47714455 AGATTGAGGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * * * * ** *
47714505 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCTCAGA-AATGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATC-TAGTTTCC-CTGATATTGCAATTAAAA
*
47714555 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * * * * * ** *
47714605 AGATTGAAGCCACAACGGCGGATCTTACTTT--CTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGA-TATTGCAATTAAAA
*
47714655 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * * * * * ** *
47714705 AGATTGAAGCCACAACGGCGGATCTTA-CTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGA-TATTGCAATTAAAA
* * *
47714755 AGATTGAAGCTACGGCGGCAGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * *
47714805 AGATTAAAGCCACAACGGCAGATCT
1 AGATTGAAGCTACGACGGCGGATCT
47714830 TACTTCTCTA
Statistics
Matches: 243, Mismatches: 70, Indels: 24
0.72 0.21 0.07
Matches are distributed among these distances:
49 16 0.07
50 210 0.86
51 17 0.07
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
Found at i:47714533 original size:100 final size:100
Alignment explanation
Indices: 47714400--47714897 Score: 800
Period size: 100 Copynumber: 5.0 Consensus size: 100
47714390 GGTTGAAAAG
* ** *
47714400 TAAAAAGATTGAAGCCACAACGGCGGATTTTACTTCCTTAGCAGTGCAGCAGAACAGATTGAGGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
47714465 TACGACGGCGGATCTAGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * *
47714500 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTCAGAAATGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
47714565 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
47714600 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
47714665 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
47714700 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
47714765 TACGGCGGCAGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * * * *
47714800 TAAAAAGATTAAAGCCACAACGGCAGATCTTACTT-CTCTAACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCT-TAGCAGTGCAGTGGAACAGATTGAAG
* * * *
47714864 CCACGACGGCGGATCTAGTTTCCCCGACATTGCA
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCA
47714898 GTTGAGCAAA
Statistics
Matches: 371, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
99 2 0.01
100 369 0.99
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:47714911 original size:50 final size:50
Alignment explanation
Indices: 47714451--47714913 Score: 264
Period size: 50 Copynumber: 9.3 Consensus size: 50
47714441 CAGTGCAGCA
* * * * *
47714451 GAACAGATTGAGGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
* * * * * *
47714501 -AAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCTCAGA-AATGCAGTG
1 GAACAA-ATTGAAGCCACGACGGCGGATC-TAGTTTCC-CTGACATTGCAGTT
* * * * *
47714551 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
* * * * * *
47714601 -AAAAAGATTGAAGCCACAACGGCGGATCTTACTTT--CTTAGCAGTGCAGTG
1 GAACAA-ATTGAAGCCACGACGGCGGATC-TAGTTTCCCTGA-CATTGCAGTT
* * * * *
47714651 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
* * * * * *
47714701 -AAAAAGATTGAAGCCACAACGGCGGATCTTA-CTT-CCTTAGCAGTGCAGTG
1 GAACAA-ATTGAAGCCACGACGGCGGATC-TAGTTTCCCTGA-CATTGCAGTT
* * * * * * *
47714751 GAACAGATTGAAGCTACGGCGGCAGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
* * * * * * * ** * *
47714801 -AAAAAGATTAAAGCCACAACGGCAGATCTTA-CTTCTCTAACGGTGCGGTG
1 GAACAA-ATTGAAGCCACGACGGCGGATC-TAGTTTCCCTGACATTGCAGTT
* *
47714851 GAACAGATTGAAGCCACGACGGCGGATCTAGTTTCCCCGACATTGCAGTT
1 GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
*
47714901 GAGCAAATTGAAG
1 GAACAAATTGAAG
47714914 ATTACAGATC
Statistics
Matches: 294, Mismatches: 97, Indels: 44
0.68 0.22 0.10
Matches are distributed among these distances:
49 30 0.10
50 234 0.80
51 30 0.10
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (50 bp):
GAACAAATTGAAGCCACGACGGCGGATCTAGTTTCCCTGACATTGCAGTT
Found at i:47718175 original size:21 final size:21
Alignment explanation
Indices: 47718149--47718188 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47718139 ACCTTAAACC
47718149 TTAAGGTTTAGGATTTAGGAT
1 TTAAGGTTTAGGATTTAGGAT
*
47718170 TTAAGGTTTATGATTTAGG
1 TTAAGGTTTAGGATTTAGG
47718189 GTTATGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
TTAAGGTTTAGGATTTAGGAT
Found at i:47718285 original size:21 final size:20
Alignment explanation
Indices: 47718238--47718292 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
47718228 TGGGTTTGGG
*
47718238 TTTAGGGTTCTAGATTTTGGA
1 TTTAGGGTT-TAGATTTTAGA
* *
47718259 TCTAGGGTTTGAGATTTTATA
1 TTTAGGGTTT-AGATTTTAGA
47718280 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
47718293 GTAAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGATTTTAGA
Found at i:47718663 original size:12 final size:12
Alignment explanation
Indices: 47718646--47718673 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47718636 AAATAATAAG
47718646 TTTGGAGAAATT
1 TTTGGAGAAATT
47718658 TTTGGAGAAATT
1 TTTGGAGAAATT
47718670 TTTG
1 TTTG
47718674 AACCAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (12 bp):
TTTGGAGAAATT
Found at i:47719164 original size:63 final size:64
Alignment explanation
Indices: 47719008--47719188 Score: 240
Period size: 63 Copynumber: 2.8 Consensus size: 64
47718998 TCTCCTTATT
** *
47719008 ACTATATTTATTAATTATTAATTTATTTTATGTACTTCCACCCACCAAGTTGACGTCCTACTTG
1 ACTATATTTATTAATTATTAATTTATTTTATGTACTTCCACCCACCAACCTGACCTCCTACTTG
* * * *
47719072 ACTATATTTATTAATTATTAA-TTAGTTTTATGTGCTTCCACCCATCAACCT-ACCTCTTAGTTG
1 ACTATATTTATTAATTATTAATTTA-TTTTATGTACTTCCACCCACCAACCTGACCTCCTACTTG
* * * *
47719135 GCTATATTTATTAATTATTAATTTCTTTTATGTACTTCCAACTACCAACCTGAC
1 ACTATATTTATTAATTATTAATTTATTTTATGTACTTCCACCCACCAACCTGAC
47719189 GTCTTAATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
63 54 0.53
64 47 0.47
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (64 bp):
ACTATATTTATTAATTATTAATTTATTTTATGTACTTCCACCCACCAACCTGACCTCCTACTTG
Found at i:47719901 original size:19 final size:19
Alignment explanation
Indices: 47719873--47719970 Score: 133
Period size: 19 Copynumber: 5.1 Consensus size: 19
47719863 CTGGGCTCAC
* **
47719873 ATATGGTATGCAATCCAAG
1 ATATGATATGCAATCTTAG
47719892 ATATGATATGTGCAATCTTAG
1 ATATGATA--TGCAATCTTAG
47719913 ATATGATATGCAATCTTAG
1 ATATGATATGCAATCTTAG
**
47719932 ATATGATATATAATCTTAG
1 ATATGATATGCAATCTTAG
47719951 ATATGATATGCAATCTTAG
1 ATATGATATGCAATCTTAG
47719970 A
1 A
47719971 ATATATGATT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 53 0.76
21 17 0.24
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATGATATGCAATCTTAG
Found at i:47721930 original size:63 final size:64
Alignment explanation
Indices: 47721819--47721951 Score: 178
Period size: 63 Copynumber: 2.1 Consensus size: 64
47721809 NNNNACTTGA
* * * * *
47721819 CTATATTTATTAATTATTAATTAGTTTTATGTGCTTCCACCCATCAACCT-ACCTCTTAGTTGG
1 CTATATTTATTAATTATTAATTACTTTTATGTACTTCCAACCACCAACCTGACCTCTTAATTGG
* * * *
47721882 CTATATTTATTAATTATTAATTTCTTTTATGTACTTCCAACTACCAACCTGACGTCTTAATTTG
1 CTATATTTATTAATTATTAATTACTTTTATGTACTTCCAACCACCAACCTGACCTCTTAATTGG
47721946 CTATAT
1 CTATAT
47721952 AGTTCCATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 44 0.73
64 16 0.27
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.46
Consensus pattern (64 bp):
CTATATTTATTAATTATTAATTACTTTTATGTACTTCCAACCACCAACCTGACCTCTTAATTGG
Found at i:47729040 original size:29 final size:29
Alignment explanation
Indices: 47728998--47729055 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47728988 TCTAGGTGGG
47728998 AGCATTTGATTCATTTTGATCATGCCATC
1 AGCATTTGATTCATTTTGATCATGCCATC
47729027 AGCATTTGATTCATTTTGATCATGCCATC
1 AGCATTTGATTCATTTTGATCATGCCATC
47729056 CTAATCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (29 bp):
AGCATTTGATTCATTTTGATCATGCCATC
Found at i:47729298 original size:44 final size:44
Alignment explanation
Indices: 47729250--47729428 Score: 104
Period size: 44 Copynumber: 4.1 Consensus size: 44
47729240 GGAGAAGGTT
47729250 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
* ** * *
47729294 GAAGA-CGGCGA-CTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 GAAGATTGTAGATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGA-TC
* * * * * * * * *
47729337 G-AGCCACT-AAG-CCTTGTCTCCCTGAGTAGCAGTGGAGAAGGTT
1 GAAG--ATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
*
47729380 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
*
47729424 AAAGA
1 GAAGA
47729429 CGGCGAATCT
Statistics
Matches: 96, Mismatches: 25, Indels: 28
0.64 0.17 0.19
Matches are distributed among these distances:
40 4 0.04
41 3 0.03
42 19 0.20
43 16 0.17
44 48 0.50
45 3 0.03
46 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
Found at i:47729439 original size:44 final size:44
Alignment explanation
Indices: 47729391--47729839 Score: 145
Period size: 44 Copynumber: 10.2 Consensus size: 44
47729381 AAGATTGTAG
*
47729391 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
** ** ** *
47729435 ATCTTATCT-TTTCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AAGCAGTAGT-GG-AGCAGATCGAAGACGGCGA
* * * * * * * * * ** *
47729478 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
47729522 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* ** ** *
47729567 ATCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATCGAAGACGGCGA
* * * * * * * * ** *
47729610 AGCCTTGTCTCCCTAAGTAGCAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
*
47729654 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* * ** ** *
47729699 ATCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCGA
* * * ** * * * ** *
47729742 AGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
*
47729786 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
47729831 ATCTTATCT
1 ATCTTATCT
47729840 TCCCAAGATA
Statistics
Matches: 279, Mismatches: 96, Indels: 60
0.64 0.22 0.14
Matches are distributed among these distances:
42 14 0.05
43 26 0.09
44 210 0.75
45 20 0.07
46 9 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
Found at i:47729943 original size:132 final size:132
Alignment explanation
Indices: 47729154--47729930 Score: 1326
Period size: 132 Copynumber: 5.9 Consensus size: 132
47729144 CCGACAGCGA
*
47729154 AGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
*
47729219 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
47729284 GG
131 GG
* *
47729286 AGCAGATCGAAGACGGCG-A-CTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCACTAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
47729349 CTTGTCTCCCTGAGTAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
47729414 GG
131 GG
* *
47729416 AGCAGATCAAAGACGGCGAATCTTATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
*
47729481 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
47729546 GG
131 GG
*
47729548 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
47729613 CTTGTCTCCCTAAGTAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
47729678 GG
131 GG
* *
47729680 AGCAGATCGAAGTCGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
47729745 CTTGTCTCCCTGAGCAACAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
47729810 GG
131 GG
* *
47729812 AACAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTGGGAAGCA-ATTTAAGCCACCAAGC
1 AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * * *
47729876 CTTGTTTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATGGCAAATCTTATCTCCCT
66 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
47729931 GAATTTGCAG
Statistics
Matches: 608, Mismatches: 35, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
130 123 0.20
131 68 0.11
132 417 0.69
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:47729970 original size:44 final size:43
Alignment explanation
Indices: 47729917--47730209 Score: 219
Period size: 44 Copynumber: 6.7 Consensus size: 43
47729907 GAAGATGGCA
*
47729917 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTAGAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC-AT
* * ** * ** *
47729961 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCAT
* * *
47730004 AGATCTTATCTCTCTGAAGTTGCAGT-GAGCAGA-TCGCA-TC-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAG-AGCCAT
* *
47730045 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG--AGCCAT
* * *
47730089 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-TAGA-GCCAT
*
47730134 AATCTTATCTCTCC-GAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAGAGCC-AT
* *
47730178 AATCCTATCTCCCTGAAATTGCAGTGGAGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
47730210 GTTAAAAATA
Statistics
Matches: 203, Mismatches: 28, Indels: 36
0.76 0.10 0.13
Matches are distributed among these distances:
40 22 0.11
41 8 0.04
42 5 0.02
43 18 0.09
44 115 0.57
45 29 0.14
46 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCAT
Found at i:47730073 original size:84 final size:84
Alignment explanation
Indices: 47729966--47730121 Score: 210
Period size: 84 Copynumber: 1.8 Consensus size: 84
47729956 CCGATAATCC
* ** * *
47729966 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAA-AATCACAGATCTTAT-CTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG-TCTTATCCTC-CTGAAGTTGCAG
47730029 TGA-GCAGATCGCATCTAGTCT
63 TGAGGCAGATCGCATCTAGTCT
47730050 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
47730115 AGGCAGA
65 AGGCAGA
47730122 CTGAAGATGG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
84 49 0.78
85 10 0.16
86 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGA
GGCAGATCGCATCTAGTCT
Found at i:47730616 original size:132 final size:132
Alignment explanation
Indices: 47730219--47731057 Score: 1493
Period size: 132 Copynumber: 6.4 Consensus size: 132
47730209 GGTTAAAAAT
47730219 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
47730284 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730349 AA
131 AA
* *
47730351 AGTAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTT-CTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
47730415 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730480 AA
131 AA
47730482 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
*
47730547 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAA
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730612 AA
131 AA
47730614 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
* *
47730679 TTAGTAGGGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730744 AA
131 AA
* * * *
47730746 AGCAGATGTTGTCTTCATGTATTCGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATG
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
* *
47730811 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC-TCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730875 AA
131 AA
*
47730877 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
* * * *
47730942 TTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTTGATCGAA
66 TTAGTAG-GGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
47731007 GAA
130 GAA
* *
47731010 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAAATAGCA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
47731058 AATTTTGTTC
Statistics
Matches: 681, Mismatches: 23, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
131 228 0.33
132 377 0.55
133 76 0.11
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AA
Found at i:47730852 original size:263 final size:264
Alignment explanation
Indices: 47730219--47731057 Score: 1502
Period size: 263 Copynumber: 3.2 Consensus size: 264
47730209 GGTTAAAAAT
47730219 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
47730284 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
* *
47730349 AAAGTAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTT-CTA
131 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
*
47730413 TATTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
196 TATTAGTAGGGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
47730478 AGAA
261 AGAA
47730482 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
*
47730547 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAA
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
47730612 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
131 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
*
47730677 TATTAGTAGGGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
196 TATTAGTAGGGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
47730742 AGAA
261 AGAA
* * * *
47730746 AGCAGATGTTGTCTTCATGTATTCGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATG
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
* *
47730811 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC-TCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
*
47730875 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
131 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * *
47730940 TATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTTGATCG
196 TATTAGTAG-GGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
47731005 AAGAA
260 AAGAA
* *
47731010 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAAATAGCA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
47731058 AATTTTGTTC
Statistics
Matches: 553, Mismatches: 21, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
263 288 0.52
264 265 0.48
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (264 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATA
TTAGTAGGGAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
TATTAGTAGGGAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
AGAA
Found at i:47731357 original size:19 final size:19
Alignment explanation
Indices: 47731333--47731445 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
47731323 AATTTTTGAG
47731333 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
47731352 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
47731371 GATATATGCAATCTTAGATAA
1 G--ATATGCAATCTTAGATAT
47731392 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
47731411 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
47731430 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
47731446 ATATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
19 65 0.80
21 16 0.20
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47731378 original size:40 final size:40
Alignment explanation
Indices: 47731334--47731439 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
47731324 ATTTTTGAGG
47731334 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
* **
47731374 ATATGCAATCTTAGATAAGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
47731414 ATAT--AATCTTAGATATGATATGCAAT
1 ATATGCAATCTTAGATATGATATGCAAT
47731440 ATTAGAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 21 0.34
40 41 0.66
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:47733032 original size:98 final size:98
Alignment explanation
Indices: 47732899--47733087 Score: 333
Period size: 98 Copynumber: 1.9 Consensus size: 98
47732889 TAAAAAATAA
* * * *
47732899 TAAATGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
47732964 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
47732997 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
47733062 TTAAATCTTGGATAAGTGGATGTTCT
66 TTAAATCTTGGATAAGTGGATGTTCT
47733088 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:47737327 original size:13 final size:13
Alignment explanation
Indices: 47737309--47737334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47737299 TCGCCTAAAC
47737309 CATACAAATACGA
1 CATACAAATACGA
47737322 CATACAAATACGA
1 CATACAAATACGA
47737335 GAGAAGGAAA
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:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
CATACAAATACGA
Found at i:47738895 original size:45 final size:43
Alignment explanation
Indices: 47738841--47738946 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 43
47738831 AAGAAAATGA
*
47738841 ATAAGATTATAAAAAAAGTA-AAAGATATATGTATGTACATAAATAT
1 ATAA-ATTATAAAAAAA-TATAAAGATATAAGTATGT--ATAAATAT
* * * *
47738887 ATAAATTATAAGATAATATATATATATATAAGTATGTATATATAT
1 ATAAATTATAA-A-AAAATATAAAGATATAAGTATGTATAAATAT
47738932 ATAAATTATAAAAAA
1 ATAAATTATAAAAAA
47738947 TGTGTACGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.04
44 1 0.02
45 25 0.49
46 7 0.14
47 16 0.31
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.35
Consensus pattern (43 bp):
ATAAATTATAAAAAAATATAAAGATATAAGTATGTATAAATAT
Found at i:47740676 original size:115 final size:115
Alignment explanation
Indices: 47740471--47740706 Score: 339
Period size: 115 Copynumber: 2.1 Consensus size: 115
47740461 TCGTTCCAGC
* * * *
47740471 CCACTGTGTCTTGTTGCGTCAATCCACTCTACTGTACTTTAAAGAGATACGGCTTGTAGCTTCAA
1 CCACTGTGTCTCGTTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAA
* *
47740536 TCCACTCTGCTGTAACTTTAAGGGGACAAGATTTGTGGTTTTAGTCTGCT
66 TCCACTCTGCAGCAACTTTAAGGGGACAAGATTTGTGGTTTTAGTCTGCT
* * *
47740586 CCACTGTGTCTCGTTGCTTCAATCCACTCTACTGCACTTTAAAGAGATATGACTTGTAACTTTAA
1 CCACTGTGTCTCGTTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAA
** * *
47740651 TCTTCT-TCGCAGCAACTTTAGGGGGACGAGATTTGTGGTTTTAGTCTGCT
66 TCCACTCT-GCAGCAACTTTAAGGGGACAAGATTTGTGGTTTTAGTCTGCT
47740701 CCACTG
1 CCACTG
47740707 AACGTCAGGG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
114 1 0.01
115 106 0.99
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (115 bp):
CCACTGTGTCTCGTTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAA
TCCACTCTGCAGCAACTTTAAGGGGACAAGATTTGTGGTTTTAGTCTGCT
Found at i:47740842 original size:44 final size:44
Alignment explanation
Indices: 47740794--47740878 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
47740784 TCAGTCTACT
* *
47740794 CCACTGTAACTTCAGGGTGATAAGACTTGCATA-TTCAACCTGCC
1 CCACTGCAACTTCAGGGGGATAAGACTTGC-TACTTCAACCTGCC
**
47740838 CCACTGCAACTTCAGGGGGATAAGGTTTGCTACTTCAACCT
1 CCACTGCAACTTCAGGGGGATAAGACTTGCTACTTCAACCT
47740879 ACACTACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGGATAAGACTTGCTACTTCAACCTGCC
Found at i:47740892 original size:44 final size:44
Alignment explanation
Indices: 47740801--47740893 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
47740791 ACTCCACTGT
* * * *
47740801 AACTTCAGGGTGATAAGACTTGCATATTCAACCTGCCCCACTGC
1 AACTTCAGGGGGATAAGACTTGCATATTCAACCTACACCACTAC
** *
47740845 AACTTCAGGGGGATAAGGTTTGC-TACTTCAACCTACACTACTAC
1 AACTTCAGGGGGATAAGACTTGCATA-TTCAACCTACACCACTAC
47740889 AACTT
1 AACTT
47740894 TAGAGACATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
AACTTCAGGGGGATAAGACTTGCATATTCAACCTACACCACTAC
Found at i:47741166 original size:45 final size:45
Alignment explanation
Indices: 47741042--47741561 Score: 356
Period size: 45 Copynumber: 12.0 Consensus size: 45
47741032 GTGTATTCGA
* * * *
47741042 TCTGTTTCGCTGTCAGTACAAGAAGGCAAGATCTATTATCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * * * *
47741087 TATTCTCCGCTGTCAGTAAAAGAAGGCAATATCTGTTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* *
47741132 TCTGCTCCGCTGTCAGTACAAGAAGGCAAGATCTG----CTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * ** * *
47741172 -CTG--TCAG-T-ACAGGA-AGGCAAGATATGTTATCT-TTAGTCTGC--
1 TCTGCTTC-GCTGTCAGTACAGG-AAGGCAAG--ATCTGTTA-TCTTCAG
* * * * *
47741213 TCTGC-TG----TCAGTACATGAAGGCAAGGT-TGGTGTCTTCA-
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* *
47741251 TCTGTTTCGCTGTCAGTATAGGAAGGCAAGATCTGTTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * *
47741296 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * ** **
47741339 ATCTGCTTCACTGTCATTGTAGGAAGGCAAGATCTACTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * * *
47741385 TATGCTCCGCTGTCAGTACAGGAAGGCATAG--CTGGTGTCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCA-AGATCTGTTATCTTCAG
*
47741429 TCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGTTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * *
47741474 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
** **
47741517 ATCTGCTTTACTGTCAGTACAGGAAGGCAAGATCTACTATCTTCA
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCA
47741562 CTGATCTGTT
Statistics
Matches: 368, Mismatches: 77, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
35 2 0.01
36 9 0.02
37 7 0.02
38 11 0.03
39 4 0.01
40 10 0.03
41 6 0.02
42 6 0.02
43 22 0.06
44 115 0.31
45 173 0.47
46 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
Found at i:47741174 original size:31 final size:31
Alignment explanation
Indices: 47741132--47741194 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
47741122 TTATCTTCAG
47741132 TCTGCTCCGCTGTCAGTACAAGAAGGCAAGA
1 TCTGCTCCGCTGTCAGTACAAGAAGGCAAGA
* *
47741163 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
1 TCTGCTCCGCTGTCAGTACAAGAAGGCAAGA
47741194 T
1 T
47741195 ATGTTATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (31 bp):
TCTGCTCCGCTGTCAGTACAAGAAGGCAAGA
Found at i:47741220 original size:121 final size:119
Alignment explanation
Indices: 47741040--47741285 Score: 303
Period size: 121 Copynumber: 2.1 Consensus size: 119
47741030 TGGTGTATTC
* * *
47741040 GATCTGTTTCGCTGTCAGTACAAGAAGGCAAGATCTATTATCTTCAATATTCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATATATTATCTTCAATATGCTCCGCTGTCAGTA
* *
47741105 AAAGAAGGCAATATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTACAAGAAGGCAA
66 AAAGAAGGCAAGAT-TGGTATCTTCA-TCTGCTCCGCTGTCAGTACAAGAAGGCAA
* * * * * *
47741161 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATATGTTATCTTTAGTCTGCTCTGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATATATTATCTTCAATATGCTCCGCTGTCAGTA
* * * * * * * *
47741226 CATGAAGGCAAGGTTGGTGTCTTCATCTGTTTCGCTGTCAGTATAGGAAGGCAA
66 AAAGAAGGCAAGATTGGTATCTTCATCTGCTCCGCTGTCAGTACAAGAAGGCAA
47741280 GATCTG
1 GATCTG
47741286 TTATCTTCAG
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 31 0.29
120 9 0.08
121 66 0.62
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (119 bp):
GATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATATATTATCTTCAATATGCTCCGCTGTCAGTA
AAAGAAGGCAAGATTGGTATCTTCATCTGCTCCGCTGTCAGTACAAGAAGGCAA
Found at i:47741396 original size:89 final size:89
Alignment explanation
Indices: 47741161--47741561 Score: 581
Period size: 89 Copynumber: 4.5 Consensus size: 89
47741151 AAGAAGGCAA
* * *
47741161 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATATGTTATCTTTAGTCTGCTCTGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTA
* *
47741226 CATGAAGGCAAGGTTGGTGTCTTC
66 CAGGAAGGCAAGGCTGGTGTCTTC
* * *
47741250 -ATCTGTTTCGCTGTCAGTATAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTTCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTA
47741314 CAGGAAGGCAAGGCTGGTGTCTTC
66 CAGGAAGGCAAGGCTGGTGTCTTC
* * ** ** *
47741338 GATCTGCTTCACTGTCATTGTAGGAAGGCAAGATCTACTATCTTCAGTATGCTCCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTA
47741403 CAGGAAGGCATA-GCTGGTGTCTTC
66 CAGGAAGGCA-AGGCTGGTGTCTTC
* * *
47741427 AATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTTCGCTGTCAGTA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTA
47741492 CAGGAAGGCAAGGCTGGTGTCTTC
66 CAGGAAGGCAAGGCTGGTGTCTTC
** **
47741516 GATCTGCTTTACTGTCAGTACAGGAAGGCAAGATCTACTATCTTCA
1 GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCA
47741562 CTGATCTGTT
Statistics
Matches: 277, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
88 81 0.29
89 195 0.70
90 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (89 bp):
GATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTA
CAGGAAGGCAAGGCTGGTGTCTTC
Found at i:47742681 original size:580 final size:580
Alignment explanation
Indices: 47741581--47742740 Score: 2140
Period size: 580 Copynumber: 2.0 Consensus size: 580
47741571 TCTCTAGGGA
* *
47741581 ACATGACCTGTATAATCTATTTTATGAACCTAATTATGCCTAGTGATTAGGATGACATGATCAGA
1 ACATGACCTGTATAATCTATTTTATGAACCTAATTATACCTAGTGATTAGCATGACATGATCAGA
47741646 ATGAATCAAATGCTCCTAACTAGACGTGTATGAATGACATTTGAATGAATGCAGAATGTTATTTT
66 ATGAATCAAATGCTCCTAACTAGACGTGTATGAATGACATTTGAATGAATGCAGAATGTTATTTT
47741711 TTCGAGAACGATCCTTCTTTATCACTTAGGTTATCATTACTCAAAGTTTATTAAGGTTTTATCAT
131 TTCGAGAACGATCCTTCTTTATCACTTAGGTTATCATTACTCAAAGTTTATTAAGGTTTTATCAT
* *
47741776 TGACGCGCTACAACACCTTCTTGCTCGGCTGGTATATCCAAAGAAAACTCTTAATCAGATTGCCC
196 TGACGCGCTACAACACCTTCTTGCTCGGCTGGCATATCCAAAGAAAACACTTAATCAGATTGCCC
*
47741841 CCCATTATGAACGTCAAAGTTCAATCCACTGGGACGCAAAATTTGTATCATCATTCTCCCACTGT
261 CCCACTATGAACGTCAAAGTTCAATCCACTGGGACGCAAAATTTGTATCATCATTCTCCCACTGT
* *
47741906 AACTCAAGGGTAAAAAAATATGGCTTTTTATCAATCCTCTCTTATCGCAATTTAAGGATAAAGAA
326 AACTCAAGGGTAAAAAAATATGGCTTTTTATCAATCCTCTCCTATCGCAATTCAAGGATAAAGAA
47741971 TGTGAAGCTCTTTGGTCTTTTACCCCATTCCCAGGGTGTCATACCAAATGCTCATGCACCAATGA
391 TGTGAAGCTCTTTGGTCTTTTACCCCATTCCCAGGGTGTCATACCAAATGCTCATGCACCAATGA
*
47742036 AGAATTTTCTGCTCCCAAGAAACCTTTTCTTATTGCTTGGTGAACATCGCTTGTTTGTTCATTGA
456 AGAATTTTCTGCTCCCAAGAAACCTTTTCTTATTGCTTGGTGAACACCGCTTGTTTGTTCATTGA
*
47742101 AGCTCTGGCATCTTGTCATTTTGTTCAATCAATGTTTTGATGACAAAATCCAAAAGGATG
521 AGCTCTAGCATCTTGTCATTTTGTTCAATCAATGTTTTGATGACAAAATCCAAAAGGATG
47742161 ACATGACCTGTATAATCTATTTTATGAACCTAATTATACCTAGTGATTAGCATGACATGATCAGA
1 ACATGACCTGTATAATCTATTTTATGAACCTAATTATACCTAGTGATTAGCATGACATGATCAGA
47742226 ATGAATCAAATGCTCCTAACTAGACGTGTATGAATGACATTTGAATGAATGCAGAATGTTATTTT
66 ATGAATCAAATGCTCCTAACTAGACGTGTATGAATGACATTTGAATGAATGCAGAATGTTATTTT
47742291 TTCGAGAACGATCCTTCTTTATCACTTAGGTTATCATTACTCAAAGTTTATTAAGGTTTTATCAT
131 TTCGAGAACGATCCTTCTTTATCACTTAGGTTATCATTACTCAAAGTTTATTAAGGTTTTATCAT
*
47742356 TGACGCGCTACAACGCCTTCTTGCTCGGCTGGCATATCCAAAGAAAACACTTAATCAGATTGCCC
196 TGACGCGCTACAACACCTTCTTGCTCGGCTGGCATATCCAAAGAAAACACTTAATCAGATTGCCC
* * * *
47742421 TCTACTGTGAACGTCAAAGTTCAATCCACTGGGACTCAAAATTTGTATCATCATTCTCCCACTGT
261 CCCACTATGAACGTCAAAGTTCAATCCACTGGGACGCAAAATTTGTATCATCATTCTCCCACTGT
* *
47742486 AACTCAAGGGTAGAAAAATATGGCTTTTTATCAATCTTCTCCTATCGCAATTCAAGGATAAAGAA
326 AACTCAAGGGTAAAAAAATATGGCTTTTTATCAATCCTCTCCTATCGCAATTCAAGGATAAAGAA
* *
47742551 TGTGAAGCTCTTTGGTTTTTTACCCCATTCCTAGGGTGTCATACCAAATGCTCATGCACCAATGA
391 TGTGAAGCTCTTTGGTCTTTTACCCCATTCCCAGGGTGTCATACCAAATGCTCATGCACCAATGA
* *
47742616 AGAATTTTCTTCTCCCAGGAAACCTTTTCTTATTGCTTGGTGAACACCGCTTGTTTGTTCATTGA
456 AGAATTTTCTGCTCCCAAGAAACCTTTTCTTATTGCTTGGTGAACACCGCTTGTTTGTTCATTGA
47742681 AGCTCTAGCATCTTGTCATTTTGTTCAATCAATGTTTTGATGACAAAATCCAAAAGGATG
521 AGCTCTAGCATCTTGTCATTTTGTTCAATCAATGTTTTGATGACAAAATCCAAAAGGATG
47742741 GTCTTAATTT
Statistics
Matches: 560, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
580 560 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (580 bp):
ACATGACCTGTATAATCTATTTTATGAACCTAATTATACCTAGTGATTAGCATGACATGATCAGA
ATGAATCAAATGCTCCTAACTAGACGTGTATGAATGACATTTGAATGAATGCAGAATGTTATTTT
TTCGAGAACGATCCTTCTTTATCACTTAGGTTATCATTACTCAAAGTTTATTAAGGTTTTATCAT
TGACGCGCTACAACACCTTCTTGCTCGGCTGGCATATCCAAAGAAAACACTTAATCAGATTGCCC
CCCACTATGAACGTCAAAGTTCAATCCACTGGGACGCAAAATTTGTATCATCATTCTCCCACTGT
AACTCAAGGGTAAAAAAATATGGCTTTTTATCAATCCTCTCCTATCGCAATTCAAGGATAAAGAA
TGTGAAGCTCTTTGGTCTTTTACCCCATTCCCAGGGTGTCATACCAAATGCTCATGCACCAATGA
AGAATTTTCTGCTCCCAAGAAACCTTTTCTTATTGCTTGGTGAACACCGCTTGTTTGTTCATTGA
AGCTCTAGCATCTTGTCATTTTGTTCAATCAATGTTTTGATGACAAAATCCAAAAGGATG
Found at i:47743399 original size:3 final size:3
Alignment explanation
Indices: 47743386--47743473 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
47743376 CCTCTCCTTT
47743386 TTC TT- TTC TTC TTC TTC TTTC TTTC TTTC TTC TTTC TTC TTC TT- TT-
1 TTC TTC TTC TTC TTC TTC -TTC -TTC -TTC TTC -TTC TTC TTC TTC TTC
* * *
47743432 TTC TTTC TT- TTC TTC TT- TT- TTC TTT TTC TTT TTT TTC TTC TT
1 TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
47743474 TTTTTGAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
2 12 0.16
3 45 0.61
4 17 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (3 bp):
TTC
Found at i:47743409 original size:4 final size:4
Alignment explanation
Indices: 47743400--47743456 Score: 63
Period size: 4 Copynumber: 15.5 Consensus size: 4
47743390 TTTCTTCTTC
47743400 TTCT TTCT TTCT TTC- TTCT TTC- TTC- TTCT TT-T TTCT TTCT TT-T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
47743443 CTTCT TT-T TTCT TT
1 -TTCT TTCT TTCT TT
47743457 TTCTTTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
3 16 0.34
4 30 0.64
5 1 0.02
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:47743411 original size:22 final size:21
Alignment explanation
Indices: 47743383--47743475 Score: 100
Period size: 19 Copynumber: 4.2 Consensus size: 21
47743373 TAGCCTCTCC
47743383 TTTTTCTTTTCTTCTTCTTCT
1 TTTTTCTTTTCTTCTTCTTCT
47743404 TTCTTTCTTTCTTCTTTCTTCTTCT
1 TT-TTTC-TT-TTC-TTCTTCTTCT
47743429 TTTTTC-TTTCTT-TTCTTCT
1 TTTTTCTTTTCTTCTTCTTCT
* *
47743448 TTTTTCTTTTTCTTTTTTTTCT
1 TTTTTC-TTTTCTTCTTCTTCT
47743470 TCTTTT
1 T-TTTT
47743476 TTTGAAATAT
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
19 13 0.21
20 2 0.03
21 11 0.17
22 12 0.19
23 6 0.10
24 7 0.11
25 12 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTCTTTTCTTCTTCTTCT
Found at i:47743422 original size:28 final size:28
Alignment explanation
Indices: 47743382--47743474 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 28
47743372 TTAGCCTCTC
47743382 CTTT-TTCTTTTCTTCTTCTTCTTTCTTT
1 CTTTCTTC-TTTCTTCTTCTTCTTTCTTT
*
47743410 CTTTCTTCTTTCTTCTTCTTTTTTCTTT
1 CTTTCTTCTTTCTTCTTCTTCTTTCTTT
* *
47743438 CTTTTCTTCTTTTTTCTTTTTC-TT-TTT
1 C-TTTCTTCTTTCTTCTTCTTCTTTCTTT
47743465 -TTTCTTCTTT
1 CTTTCTTCTTT
47743475 TTTTGAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.17
27 3 0.05
28 26 0.44
29 20 0.34
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (28 bp):
CTTTCTTCTTTCTTCTTCTTCTTTCTTT
Found at i:47743428 original size:25 final size:24
Alignment explanation
Indices: 47743385--47743474 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 24
47743375 GCCTCTCCTT
47743385 TTTCTTTTCTTCTTCTTCTTTCTTTC
1 TTTC-TTT-TTCTTCTTCTTTCTTTC
47743411 TTTCTTCTTTCTTCTTCTTT-TTTC
1 TTTCTT-TTTCTTCTTCTTTCTTTC
*
47743435 TTTC-TTTTCTTCTTTTTTC-TT-
1 TTTCTTTTTCTTCTTCTTTCTTTC
*
47743456 TTTCTTTTTTTTCTTCTTT
1 TTTCTTTTTCTTCTTCTTT
47743475 TTTTGAAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.07
22 26 0.45
23 1 0.02
24 8 0.14
25 14 0.24
26 5 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCTTTTTCTTCTTCTTTCTTTC
Found at i:47743475 original size:25 final size:24
Alignment explanation
Indices: 47743383--47743477 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 24
47743373 TAGCCTCTCC
47743383 TTTTTCTTTTCTTCTTCTTCTTTCTTT
1 TTTTTCTTTT-TT-TTCTT-TTTCTTT
*
47743410 CTTTCTTCTTTCTTCTTCTTTTTTCTTT
1 -TTT-TTCTTT-TTTTTC-TTTTTCTTT
*
47743438 CTTTTCTTCTTTTTTCTTTTTCTTT
1 TTTTTCTT-TTTTTTCTTTTTCTTT
47743463 TTTTTCTTCTTTTTT
1 TTTTTCTT-TTTTTT
47743478 TGAAATATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
25 23 0.39
26 10 0.17
27 3 0.05
28 13 0.22
29 9 0.15
30 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTTTTTCTTTTTCTTT
Found at i:47743579 original size:14 final size:15
Alignment explanation
Indices: 47743556--47743588 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47743546 ATTAACGTTT
*
47743556 TTCCAGATAAGGT-C
1 TTCCACATAAGGTCC
47743570 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
47743585 TTCC
1 TTCC
47743589 CAGTTGGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:47744997 original size:41 final size:41
Alignment explanation
Indices: 47744937--47745200 Score: 429
Period size: 41 Copynumber: 6.4 Consensus size: 41
47744927 AGATTCACTA
* * *
47744937 GCACTTGGCCCTGTTAGGCTTAAAGCCTGATTCAGATCACCG
1 GCACTTAG-CCTGCTAGGCTTATAGCCTGATTCAGATCACCG
* * *
47744979 ACACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
*
47745020 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
47745061 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
* *
47745102 GCACTTAGCCTGCTTGGCTTATAGCCTTATTCAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
*
47745143 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
47745184 GCACTTAGCCTGCTAGG
1 GCACTTAGCCTGCTAGG
47745201 TTTTAAAACC
Statistics
Matches: 206, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
41 200 0.97
42 6 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
Found at i:47746144 original size:2 final size:2
Alignment explanation
Indices: 47746139--47746178 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47746129 TTATATAAGC
47746139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47746179 TCGAACACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.