Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 132 of 135
Found at i:47479366 original size:16 final size:16
Alignment explanation
Indices: 47479345--47479375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47479335 TTTATAGCCG
47479345 AAAAATAAAAAATCTA
1 AAAAATAAAAAATCTA
*
47479361 AAAAATCAAAAATCT
1 AAAAATAAAAAATCT
47479376 CACTTGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAATCTA
Found at i:47480399 original size:44 final size:44
Alignment explanation
Indices: 47480351--47481326 Score: 231
Period size: 44 Copynumber: 22.2 Consensus size: 44
47480341 ACTACTGCTT
*
47480351 AGGGAGATAAGATCTATAATCTTCAATCTATTCTACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
* * * *
47480395 AGGGAGAT-AGCAT-TACT-AGCTTTAATGTATTCCACTG-TAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
** * ** ** * ** * **
47480439 AGGGAGGGAAAATCTGCCAGCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCTGCCC
*
47480483 AGGGAGATAAGATCTATAATCTTCAATCTATTCTACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
* * * *
47480527 AGGGAGAT-AGCAT-TACT-AGCTTTAATGTATTCCACTG-TAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
** * ** ** * ** * **
47480571 AGGGAGGGAAAATCTGCCAGCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCTGCCC
*
47480615 AGGGAGATAAGATCTATAATCTTCAATCTATTCTACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
* * * *
47480659 AGGGAGAT-AGCAT-TACT-AGCTTTAATGTATTCCACTG-TAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
** * ** ** * ** * **
47480703 AGGGAGGGAAAATCTGCCAGCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCTGCCC
47480747 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
* * * * *
47480791 AGGGAGAT-AGCAT-TACT-AGCTTTAATGTACTCCACTG-TAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
* * ** ** * ** * **
47480835 AGGGAGGTAAAATCTGCCAGCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCTGCCC
* *
47480879 AGGGCGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
** * * * *
47480923 AGGGAGAT-AGAAT-TACT-GGCTTCAATGTACTCCACT-ATAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
* * **** * ** * **
47480967 AGGGAGGTAAAATCCGCCATCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTATAAT-CTTCAATCTATTCCACTGCTGCCC
* *
47481011 AGGGCGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
* * * * *
47481055 AGGGAGAT-AGCAT-TACT-AGCTTTAATGTACTCCACTG-TAACCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT-GCC-C
* * *** * ** * **
47481099 AGGGAGGTAAAATCTGCCATCCTT-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTATAAT-CTTCAATCTATTCCACTGCTGCCC
* *
47481143 AGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
** * * *
47481187 AGGGAGAT-AGAAT-TAGT-GGCTTCAATGTACTCCACTG-TAAGCTC
1 AGGGAGATAAG-ATCTA-TAATCTTCAATCTATTCCACTGCT--GCCC
* * * * ** ** * **
47481231 AGGGAGGTAAAAT-TCGTCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCTGCCC
* *
47481275 AGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
47481319 AGGGAGAT
1 AGGGAGAT
47481327 TGAATTACTG
Statistics
Matches: 638, Mismatches: 225, Indels: 138
0.64 0.22 0.14
Matches are distributed among these distances:
42 7 0.01
43 169 0.26
44 347 0.54
45 90 0.14
46 25 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCC
Found at i:47480434 original size:132 final size:132
Alignment explanation
Indices: 47480248--47481399 Score: 1867
Period size: 132 Copynumber: 8.7 Consensus size: 132
47480238 TCTTCGATAG
* * * * *
47480248 ATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
*
47480313 GGAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47480378 CT
131 CT
* *
47480380 ATTCTACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTATTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
*
47480445 GGAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47480510 CT
131 CT
* *
47480512 ATTCTACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTATTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
*
47480577 GGAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47480642 CT
131 CT
* *
47480644 ATTCTACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTATTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
*
47480709 GGAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47480774 CT
131 CT
47480776 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
* *
47480841 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGCGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47480906 CT
131 CT
* * * *
47480908 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
* * * *
47480973 GTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGCGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47481038 CT
131 CT
47481040 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
* *
47481105 GTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
47481170 CT
131 CT
* * * * * *
47481172 ATTCTACTGCTGCCCAGGGAGATAGAATTAGTGGCTTCAATGTACTCCACTGTAAGCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
* * * *
47481237 GTAAAAT-TCGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
66 GTAAAATCT-GCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAA
*
47481301 TTT
130 TCT
* * * * *
47481304 ATTCCACTGCTGCCCAGGGAGATTGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
* *
47481369 GTAAAAT-TCGCCATCCTTGATTTGCTCCACT
66 GTAAAATCT-GCCAGCCTTGATCTGCTCCACT
47481400 GCCACCGAGA
Statistics
Matches: 978, Mismatches: 41, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
131 1 0.00
132 977 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAAT
CT
Found at i:47482755 original size:21 final size:21
Alignment explanation
Indices: 47482731--47482772 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47482721 TTAGCCTCTC
47482731 CATTTTTA-CTTTTTCATTTTT
1 CATTTTTATC-TTTTCATTTTT
47482752 CATTTTTATCTTTTCATTTTT
1 CATTTTTATCTTTTCATTTTT
47482773 TCACATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTATCTTTTCATTTTT
Found at i:47482775 original size:8 final size:7
Alignment explanation
Indices: 47482731--47482772 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
47482721 TTAGCCTCTC
47482731 CATTTTT
1 CATTTTT
47482738 -ACTTTTT
1 CA-TTTTT
47482745 CATTTTT
1 CATTTTT
47482752 CATTTTT
1 CATTTTT
47482759 -ATCTTTT
1 CAT-TTTT
47482766 CATTTTT
1 CATTTTT
47482773 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.10
7 25 0.81
8 3 0.10
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:47485661 original size:19 final size:20
Alignment explanation
Indices: 47485637--47485676 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47485627 AACTTTGTTT
* *
47485637 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
47485656 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
47485676 A
1 A
47485677 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:47485727 original size:13 final size:13
Alignment explanation
Indices: 47485709--47485734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47485699 TTTTCAATTT
47485709 TTTACTAGAAAAC
1 TTTACTAGAAAAC
47485722 TTTACTAGAAAAC
1 TTTACTAGAAAAC
47485735 AAATATCTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:47488190 original size:16 final size:16
Alignment explanation
Indices: 47488166--47488200 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47488156 GGCTTTTTAT
*
47488166 ATCTGAAAAATCAAAA
1 ATCTAAAAAATCAAAA
47488182 ATCTAAAAAATCAAAA
1 ATCTAAAAAATCAAAA
47488198 ATC
1 ATC
47488201 CCACTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (16 bp):
ATCTAAAAAATCAAAA
Found at i:47489152 original size:20 final size:20
Alignment explanation
Indices: 47489129--47489166 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47489119 TTAATAATAA
*
47489129 TTAAGAAAAATATCATAAAT
1 TTAAAAAAAATATCATAAAT
47489149 TTAAAAAAAATATCATAA
1 TTAAAAAAAATATCATAA
47489167 GAATTAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
TTAAAAAAAATATCATAAAT
Found at i:47492543 original size:29 final size:31
Alignment explanation
Indices: 47492488--47492545 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
47492478 AATATACATA
47492488 TTATAAAAAATAATTTATATGTATTTTAAAG
1 TTATAAAAAATAATTTATATGTATTTTAAAG
47492519 TTATAACAAAA-AA-TTATAT-TATTTTAA
1 TTATAA-AAAATAATTTATATGTATTTTAA
47492546 TCCTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.31
30 6 0.23
31 8 0.31
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
TTATAAAAAATAATTTATATGTATTTTAAAG
Found at i:47493877 original size:27 final size:27
Alignment explanation
Indices: 47493847--47493898 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47493837 AGGGGTGGTG
* *
47493847 CCTACCTGATAGGCGGCACTAGTGACC
1 CCTACCTGATAAGCGGCACCAGTGACC
* *
47493874 CCTATCTGATAAGTGGCACCAGTGA
1 CCTACCTGATAAGCGGCACCAGTGA
47493899 AGCAGTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (27 bp):
CCTACCTGATAAGCGGCACCAGTGACC
Found at i:47494167 original size:105 final size:107
Alignment explanation
Indices: 47494041--47494324 Score: 304
Period size: 115 Copynumber: 2.6 Consensus size: 107
47494031 TTTATTGTTG
*
47494041 TTTTTATGTTATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
1 TTTTTAT-TAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
* * **
47494106 -TGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAA-A
65 AGGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
* ** * *
47494147 TTTTTATTAATTTTTAATTTATTTTAAAATTATTTTGTTAGTAAGTTTTGTGATTAGGTTAATTG
1 TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTG-T--T-AG-TTACT-ATTA--TAAATTA
* *
47494212 TTTGTTTAGGGTTTAGGGTTTATTGTGATTTGTTAGGTTATGAATACAATC
58 TTTGTTTA-GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
* * * * *
47494263 TTTTTA-TATTTTTTAATTTATTTGAAAGTTATTTTGGTAGTAACTATTATAAATTAATTGTT
1 TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTT
47494325 AGTTAGTGAA
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
105 28 0.19
106 8 0.06
107 10 0.07
108 1 0.01
109 6 0.04
110 5 0.03
111 6 0.04
112 1 0.01
113 12 0.08
115 62 0.43
116 6 0.04
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.57
Consensus pattern (107 bp):
TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTA
GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
Found at i:47502871 original size:25 final size:25
Alignment explanation
Indices: 47502843--47502891 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47502833 TCTTTGCATT
47502843 TGAGCCAA-TATTCTTTCATTCTTTG
1 TGAG-CAATTATTCTTTCATTCTTTG
*
47502868 TGAGTAATTATTCTTTCATTCTTT
1 TGAGCAATTATTCTTTCATTCTTT
47502892 TGGACTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.53
Consensus pattern (25 bp):
TGAGCAATTATTCTTTCATTCTTTG
Found at i:47503625 original size:14 final size:14
Alignment explanation
Indices: 47503606--47503635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47503596 AATTATTTCG
47503606 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
*
47503620 AAAAGAAAAGAAGA
1 AAAAGAAAAAAAGA
47503634 AA
1 AA
47503636 GAAAATGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:47503627 original size:19 final size:18
Alignment explanation
Indices: 47503605--47503640 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47503595 AAATTATTTC
47503605 GAAAAGAAAAAAAGAAAAA
1 GAAAAG-AAAAAAGAAAAA
*
47503624 GAAAAGAAGAAAGAAAA
1 GAAAAGAAAAAAGAAAA
47503641 TGGAGAGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAAAGAAAAA
Found at i:47503630 original size:11 final size:12
Alignment explanation
Indices: 47503608--47503640 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
47503598 TTATTTCGAA
47503608 AAGAAA-AAAAG
1 AAGAAAGAAAAG
47503619 AA-AAAGAAAAG
1 AAGAAAGAAAAG
47503630 AAGAAAGAAAA
1 AAGAAAGAAAA
47503641 TGGAGAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 9 0.45
12 8 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:47504964 original size:44 final size:44
Alignment explanation
Indices: 47504869--47505806 Score: 391
Period size: 44 Copynumber: 21.7 Consensus size: 44
47504859 ATATGGCAAG
* * **
47504869 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCAGAT-A-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--ACCTCAGA
* *
47504913 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * **
47504957 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCCTCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTC-AGA
* * * * * *
47504997 TTTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAAGTAAGC-AAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTCAGA
* * * * ***
47505041 TCTTATC-CTTCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-A
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTCAGA
* * *
47505085 GTCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAGCCGAT-A-A
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TCAGA
* * * * * *
47505130 TCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * *** * *
47505174 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-TTTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * **
47505214 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATA-GACA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGA
* *
47505257 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGAT-A-A
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TCAGA
* * * * *
47505302 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * * *** * *
47505346 TCTTATCTCTCTGAAGTTACAG-AGAGCAGA-TCGCA-TTTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* **
47505386 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATA-GGCA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGA
* * *** * *
47505429 GTCTTATC-CTCCTGAAGTTACAG-AGAGCA-A-TCGCATCTAAG-
1 -TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * * * *
47505470 TTTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAGTAAGC-AAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTCAGA
* * * ***
47505514 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACA-A
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAACCTCAGA
* *
47505558 GTCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-A-A
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TCAGA
* * * * *
47505603 TCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * * * ** *
47505647 TCTTATCTCCCTGAACTTGCAGTGGGGCATACTAAATA-AACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGA
* * *
47505691 TCTTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * ** *
47505735 TCTTATCTCTCTGAAGTTACAGT--AG-AG-TATATCACATC-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAACCTCAGA
*
47505775 GTCTTATATCCCTGAAGTTGCAGTGGAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
47505807 CTCAAGAAAG
Statistics
Matches: 670, Mismatches: 161, Indels: 125
0.70 0.17 0.13
Matches are distributed among these distances:
40 85 0.13
41 63 0.09
42 15 0.02
43 43 0.06
44 397 0.59
45 62 0.09
46 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
Found at i:47505262 original size:84 final size:84
Alignment explanation
Indices: 47505174--47505712 Score: 421
Period size: 84 Copynumber: 6.3 Consensus size: 84
47505164 AAGCCTTAGA
*
47505174 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGA
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGG
47505239 AGCAGACTAAATAGACAAG
66 AGCAGACTAAATAGACAAG
* * *** * * *
47505258 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCTTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATTTAGTCTTATCTCCCTGAAGTTGCA
* * * *
47505323 GTGGAGCGGA-TTAA-AGCCTTAG
62 GTGGAGCAGACTAAATAGAC-AAG
*
47505345 ATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTG
1 -TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTG
*
47505410 GAGCAGACTAAATAGGCAAG
65 GAGCAGACTAAATAGACAAG
* * * *
47505430 TCTTATC-CTCCTGAAGTTACAGAGAGCA-ATCGCATCTAAGTTTTATCTCCCTGAAATTGCAGT
1 TCTTATCTCT-CTGAAGTTGCAGAGAGCAGATCGCAT-TTAGTCTTATCTCCCTGAAGTTGCAGT
*
47505493 GGAGCAGACTAAGTA-AGCAAG
64 GGAGCAGACTAAATAGA-CAAG
* * * ** *
47505514 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGA-CTGAAGATGACAAGTCTTATCGCCCTGAAGTT
1 TCTTATCTCT-CTGAAGTTGCAG-AGAGCAGATC-G--CAT--TTAGTCTTATCTCCCTGAAGTT
* ** *
47505577 GCAGTGGAGCAGATTAAAGCCGATAA-
59 GCAGTGGAGCAGACTAAA-TAGACAAG
* * * * * * * *
47505603 TCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGC-CTTAGATCTTATCTCCCTGAACTTGC
1 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATTTAG-TCTTATCTCCCTGAAGTTGC
* * * *
47505667 AGTGGGGCATACTAAATAAACAAA
61 AGTGGAGCAGACTAAATAGACAAG
* *
47505691 TCTTGTCTCCCTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAG
47505713 TGGAGCGGAT
Statistics
Matches: 362, Mismatches: 67, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
83 9 0.02
84 141 0.39
85 18 0.05
86 10 0.03
87 18 0.05
88 103 0.28
89 58 0.16
90 3 0.01
91 1 0.00
92 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (84 bp):
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGG
AGCAGACTAAATAGACAAG
Found at i:47505277 original size:217 final size:217
Alignment explanation
Indices: 47504848--47505372 Score: 684
Period size: 217 Copynumber: 2.4 Consensus size: 217
47504838 ATCGACAGCG
* * * *
47504848 GAGCAGATTGAATATGGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCAGATAA
1 GAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATAA
*
47504913 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCA
66 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCA
* * * *
47504978 GAGAGCAGATCGCCTCTAGTTTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTC
131 GAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAAGCAAGTC
*
47505043 TTATCCTTCTAAAGTTGCAGT-
196 TTATCCTCCTAAAGTTGCAGTA
* *
47505064 GAGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAGCCGATA
1 GA-GCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATA
* * *
47505129 ATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTGC
65 ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGC
* * *
47505194 AGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAT-AGACAAG
130 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAAG-CAAG
*
47505258 TCTTAT-CTCCCTGAAGTTGCAGTA
194 TCTTATCCT-CCTAAAGTTGCAGTA
* ** ** * * ** *
47505282 GAGCAGATTAAAGCCGATAA-TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCC-TTAG
1 GAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATA-
* * *
47505345 ATCTTATCTCTCTGAAGTTACAG-AGAGC
65 ATCCTATCTCCCTGAAGTTGCAGTAGAGC
47505373 AGATCGCATT
Statistics
Matches: 269, Mismatches: 35, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
215 7 0.03
216 59 0.22
217 201 0.75
218 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
GAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATAA
TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCA
GAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAAGCAAGTC
TTATCCTCCTAAAGTTGCAGTA
Found at i:47505297 original size:172 final size:172
Alignment explanation
Indices: 47505054--47505457 Score: 661
Period size: 172 Copynumber: 2.3 Consensus size: 172
47505044 TATCCTTCTA
* * * *
47505054 AAGTTGCAGTGAGGCAGACTGAAGAT-GGCAAGTCTTATCTCCCTGAAGTTGCAATGGAGAAGAT
1 AAGTTGCAGTGAAGCAGACT-AA-ATAGGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
*
47505118 TAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTC
64 TAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTC
*
47505183 TCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
129 TCTGAAGTTACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
*
47505227 AAGTTGCAGTGAAGCAGACTAAATAGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTA
1 AAGTTGCAGTGAAGCAGACTAAATAGGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTA
* *
47505292 AAGCCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCCTTAGATCTTATCTCTC
66 AAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTC
47505357 TGAAGTTACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
131 TGAAGTTACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
* *
47505399 AAGTTGCAGTGGAGCAGACTAAATAGGCAAGTCTTATC-CTCCTGAAGTTACAG-AGAGCA
1 AAGTTGCAGTGAAGCAGACTAAATAGGCAAGTCTTATCTC-CCTGAAGTTGCAGTAGAGCA
47505458 ATCGCATCTA
Statistics
Matches: 217, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
171 9 0.04
172 189 0.87
173 19 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (172 bp):
AAGTTGCAGTGAAGCAGACTAAATAGGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTA
AAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTC
TGAAGTTACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
Found at i:47505612 original size:389 final size:385
Alignment explanation
Indices: 47504865--47505808 Score: 1032
Period size: 389 Copynumber: 2.4 Consensus size: 385
47504855 TTGAATATGG
* * *
47504865 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCAGATAATCCTATCTCCCTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
* *
47504930 TGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCCTCT
66 TGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* * * * * *
47504995 AGTTTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTTCTAAAGTTG
131 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTAAAGTTA
* * * *
47505060 CAGTGAGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAGCC
196 CAGAGAGGCAGACTG-ACAT-GCAAGTCTTATCTCCCTGAAATTGCAATGGAGAAGATAAAAGCC
* * * * * * *
47505125 GATAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAG
259 GATAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATGAAAGACTAAGATCTTATCGCCCTGAAG
* ** * * *
47505190 TTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAGA
324 TTGCAGAGAGCAGATAGCAGATAATCCTATCTCCCTAAAGTTGCAGTGAAGCAGA-TAAA-AGA
* *
47505254 CAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCTTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
* * *
47505319 TGCAGTGGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATTT
66 TGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* *
47505384 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAGGCAAGTCTTATCCTCCTGAAGTTA
131 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTAAAGTTA
* * *
47505449 CAGAGA-GCA-A-TCG-CAT-CTAAGTTTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAGTAA
196 CAGAGAGGCAGACT-GACATGC-AAGTCTTATCTCCCTGAAATTGCAATGGAGAAGA-TAA--AA
* * * *
47505509 G-C-A-AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGAC-AAG-TCTTATCGC
256 GCCGATAATCCTATCTC-CCTGAAGTTGCAGTAGAGCAGA-TGAA-A-GACTAAGATCTTATCGC
* * * *
47505568 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGG
317 CCTGAAGTTGCAG-AGAGCAGA-T--AGCAGATAATCCTATCTCCCTAAAGTTGCAGTGAAGCAG
* *
47505633 ATTAAAGC
378 ATAAAAGA
* * * * * ** * *
47505641 CTTAGATCTTATCTCCCTGAACTTGCAGTGGGGCATACTAAATAAAC-A-AATCTTGTCTCCCTG
1 C-AAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AGCCGATAATCCTATCTCCCTG
* * * *
47505704 AAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTATATCA
62 AAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCG
* *
47505769 CATCGAGTCTTATATCCCTGAAGTTGCAGTGGAGCAGACT
126 CATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
47505809 CAAGAAAGCA
Statistics
Matches: 469, Mismatches: 68, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
383 2 0.00
384 55 0.12
385 28 0.06
386 12 0.03
387 11 0.02
388 8 0.02
389 302 0.64
390 49 0.10
391 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (385 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
TGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTAAAGTTA
CAGAGAGGCAGACTGACATGCAAGTCTTATCTCCCTGAAATTGCAATGGAGAAGATAAAAGCCGA
TAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATGAAAGACTAAGATCTTATCGCCCTGAAGTT
GCAGAGAGCAGATAGCAGATAATCCTATCTCCCTAAAGTTGCAGTGAAGCAGATAAAAGA
Found at i:47505700 original size:88 final size:88
Alignment explanation
Indices: 47505472--47505882 Score: 279
Period size: 88 Copynumber: 4.7 Consensus size: 88
47505462 CATCTAAGTT
* * * * * *
47505472 TTATCTCCCTGAAATTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAG
1 TTATCTCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAATCTTGTCTC-CCTGAAGTTGCAG
* * * *
47505536 TGGGGCAGACTGAAGATGAC-AAG-TC
65 TGGAGCGGA-TTAA-A-GCCAAAGATC
* * * * * ** * * *
47505561 TTATCGCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AGCCGATAATCCTATCTCCCTAAAGTTGCA
1 TTATCTCCCTGAAATTGCAGTGGGGCATACTAAATAAAC-A-AATCTTGTCTCCCTGAAGTTGCA
**
47505624 GTGGAGCGGATTAAAGCCTTAGATC
64 GTGGAGCGGATTAAAGCCAAAGATC
*
47505649 TTATCTCCCTGAACTTGCAGTGGGGCATACTAAATAAACAAATCTTGTCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAATCTTGTCTCCCTGAAGTTGCAGT
* *
47505714 GGAGCGGATTAAAACCACAGATC
66 GGAGCGGATTAAAGCCAAAGATC
* * * * * * * * * * *
47505737 TTATCTCTCTGAAGTTACAGTAGAGTATA-TCACAT---CGAGTCTTATATCCCTGAAGTTGCAG
1 TTATCTCCCTGAAATTGCAGTGGGGCATACT-AAATAAACAAATCTTGTCTCCCTGAAGTTGCAG
* * *
47505798 TGGAGCAGACTCAAG--AAAGCAATCC
65 TGGAGCGGATTAAAGCCAAAG--AT-C
* *
47505823 TTATCCCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAATCCTGTCTCCC-GAAGTTG
1 TTATCTCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAATCTTGTCTCCCTGAAGTTG
47505883 TACTAGAGTT
Statistics
Matches: 251, Mismatches: 56, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
83 3 0.01
85 35 0.14
86 28 0.11
87 7 0.03
88 108 0.43
89 67 0.27
90 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAATCTTGTCTCCCTGAAGTTGCAGT
GGAGCGGATTAAAGCCAAAGATC
Found at i:47506246 original size:21 final size:21
Alignment explanation
Indices: 47506201--47506276 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
47506191 ATCTTCGAGG
47506201 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
47506220 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
47506241 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
47506262 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
47506277 AGATATGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
19 19 0.35
21 35 0.65
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:47506298 original size:23 final size:24
Alignment explanation
Indices: 47506202--47506300 Score: 96
Period size: 21 Copynumber: 4.6 Consensus size: 24
47506192 TCTTCGAGGA
47506202 TATGCAATCTT---AGATATGA--
1 TATGCAATCTTAGAAGATATGATT
*
47506221 TATGCAATCTT---AGATATGATA
1 TATGCAATCTTAGAAGATATGATT
47506242 TATGCAATCTT---AGATATGATT
1 TATGCAATCTTAGAAGATATGATT
47506263 TATGCAATCTTAGAAGATATGATT
1 TATGCAATCTTAGAAGATATGATT
*
47506287 T-TGTAATCTTAGAA
1 TATGCAATCTTAGAA
47506301 ATTTAATTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
19 19 0.26
21 31 0.42
23 12 0.16
24 11 0.15
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (24 bp):
TATGCAATCTTAGAAGATATGATT
Found at i:47506977 original size:23 final size:23
Alignment explanation
Indices: 47506927--47506984 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
47506917 ATATAATTAT
*
47506927 TATTTTTATTTATTTATATGTAAC
1 TATTTTT-TTTATCTATATGTAAC
47506951 TATTTTTTTTATCTATATGTATA-
1 TATTTTTTTTATCTATATGTA-AC
*
47506974 TATTTATTTTA
1 TATTTTTTTTA
47506985 GTATACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (23 bp):
TATTTTTTTTATCTATATGTAAC
Found at i:47508338 original size:20 final size:20
Alignment explanation
Indices: 47508315--47508353 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
47508305 ATAAATCAAA
47508315 AACAAATAAAATTACATTAT
1 AACAAATAAAATTACATTAT
47508335 AACAAATAAAATTACATTA
1 AACAAATAAAATTACATTA
47508354 AACTAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AACAAATAAAATTACATTAT
Found at i:47508497 original size:111 final size:108
Alignment explanation
Indices: 47508312--47508696 Score: 463
Period size: 111 Copynumber: 3.6 Consensus size: 108
47508302 CAAATAAATC
* * * *
47508312 AAAAACAAATAAAATTACATT-ATAACAAAT-A-AAATTACATTAAACT-AA-ACAAATAATTTA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCACAAA--ACACTAAACTAAACACAAAAAATTTA
*
47508372 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAA
64 TAACCTAATAATAAATTACTAACAAAATAACTTTAAAATAATTT-A
47508418 AAAACACAAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTA
1 AAAA-AC-AAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTA
*
47508483 TAACCTAATAATAAATTACTAACAAAATAACTTTCAAATAA-TT-
64 TAACCTAATAATAAATTACTAACAAAATAACTTTAAAATAATTTA
* * * * * *
47508526 ------AAAAAAATTTAAATTAATAAAAATTCACAATAAACACTAAACTAAACACAAACAATATA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAAAAATTTA
* * *
47508585 TAACCTAATTATAAATTACAAACAAAATAACTTTAAAATCATTTA
64 TAACCTAATAATAAATTACTAACAAAATAACTTTAAAATAATTTA
*
47508630 GAAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAGAATTTAT
1 -AAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTAT
47508695 AA
65 AA
47508697 TAATTACTAA
Statistics
Matches: 239, Mismatches: 22, Indels: 33
0.81 0.07 0.11
Matches are distributed among these distances:
100 24 0.10
101 1 0.00
102 63 0.26
103 2 0.01
106 4 0.02
107 2 0.01
108 14 0.06
109 46 0.19
110 6 0.03
111 77 0.32
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.25
Consensus pattern (108 bp):
AAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTATA
ACCTAATAATAAATTACTAACAAAATAACTTTAAAATAATTTA
Found at i:47508548 original size:19 final size:21
Alignment explanation
Indices: 47508494--47508548 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 21
47508484 AACCTAATAA
*
47508494 TAAATTACTAACAAAATAACTT
1 TAAATTAATAA-AAAATAACTT
*
47508516 TCAAA-TAATTAAAAA-AA-TT
1 T-AAATTAATAAAAAATAACTT
47508535 TAAATTAATAAAAA
1 TAAATTAATAAAAA
47508549 TTCACAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 2 0.07
21 4 0.14
22 5 0.18
23 3 0.11
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATTAATAAAAAATAACTT
Found at i:47508577 original size:102 final size:100
Alignment explanation
Indices: 47508426--47508696 Score: 317
Period size: 102 Copynumber: 2.6 Consensus size: 100
47508416 AAAAAACACA
* * *
47508426 AAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTATAACCTAA
1 AAAAAAAATTAAATTAATAAAAAATCACAAAACACTAAACTAAACACAAAAAATATATAACCTAA
* *
47508491 TAATAAATTACTAACAAAATAACTTTCAAATAATT
66 TAATAAATTACAAACAAAATAACTTTAAAATAATT
* * *
47508526 AAAAAAATTTAAATTAATAAAAATTCACAATAAACACTAAACTAAACACAAACAATATATAACCT
1 AAAAAAAATTAAATTAATAAAAAATCAC-A-AAACACTAAACTAAACACAAAAAATATATAACCT
* *
47508591 AATTATAAATTACAAACAAAATAACTTTAAAATCATTT
64 AATAATAAATTACAAACAAAATAACTTTAAAAT-AATT
* * * *
47508629 AGAAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAGAATTTA
1 --------AAAAAAAATTAAATTAATAAAAAATCACAAAACACTAAACTAAACACAAAAAATATA
47508694 TAA
58 TAA
47508697 TAATTACTAA
Statistics
Matches: 144, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
100 24 0.17
101 1 0.01
102 62 0.43
103 3 0.02
109 29 0.20
110 1 0.01
111 24 0.17
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (100 bp):
AAAAAAAATTAAATTAATAAAAAATCACAAAACACTAAACTAAACACAAAAAATATATAACCTAA
TAATAAATTACAAACAAAATAACTTTAAAATAATT
Found at i:47508774 original size:27 final size:26
Alignment explanation
Indices: 47508718--47508785 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
47508708 AAAACAACAT
* *
47508718 AAAAAAATAACTAATCCCTTCTATTTA
1 AAAAAAAT-ACTAACCCCTTCTATTAA
47508745 AAAAAAATACTAACCCCTT-TAAATTAA
1 AAAAAAATACTAACCCCTTCT--ATTAA
47508772 AAAAAAATACTAAC
1 AAAAAAATACTAAC
47508786 AAACATACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
27 26 0.70
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAAAATACTAACCCCTTCTATTAA
Found at i:47521266 original size:21 final size:21
Alignment explanation
Indices: 47521215--47521258 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
47521205 TTTATATTTA
47521215 ATAATAAA-ATTTTAATTAATT
1 ATAA-AAATATTTTAATTAATT
47521236 ATAAAAATATTTTAATT-ATT
1 ATAAAAATATTTTAATTAATT
47521256 ATA
1 ATA
47521259 TTATATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAAATATTTTAATTAATT
Found at i:47521896 original size:19 final size:19
Alignment explanation
Indices: 47521868--47521917 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
47521858 AACATAATAT
*
47521868 AATATAATTTAA-TTAATTA
1 AATAT-ATTTAACTAAATTA
*
47521887 ATTAATATTTAACTAAATTA
1 AAT-ATATTTAACTAAATTA
47521907 AATATATTTAA
1 AATATATTTAA
47521918 AATATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATTTAACTAAATTA
Found at i:47531059 original size:30 final size:29
Alignment explanation
Indices: 47531026--47531240 Score: 159
Period size: 29 Copynumber: 7.4 Consensus size: 29
47531016 TCATCGACCA
* * *
47531026 ATGAAAAGGGACACCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * * *
47531055 AATGAAAAGGGATATCTTTGTCTATCAATT
1 -ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
47531085 ATGAAAAAGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
47531114 ATGAAAAAGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * ** * * *
47531143 ATGAAAA-GGAT-GGTGACTACAATCAACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGATT
* * * * *
47531171 ATGAACAA-GGAT-GGTGACGACCATCGAAT
1 ATGAA-AAGGGATAGCT-TCGGCTATCGATT
47531200 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
47531229 ATGAAAAGGGAT
1 ATGAAAAGGGAT
47531241 GGTAACGACC
Statistics
Matches: 154, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.01
28 17 0.11
29 108 0.70
30 27 0.18
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:47531181 original size:86 final size:87
Alignment explanation
Indices: 47531107--47531284 Score: 243
Period size: 86 Copynumber: 2.1 Consensus size: 87
47531097 AGCTTCGGTT
* * * *
47531107 ATCGATTATGAAAAAGGATAGCTTCGGTTATCGATTATGAAAA-GGATGGTGACTACAATCAACT
1 ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
* *
47531171 ATGAACAAGGATGGTGACGACC
66 ATGAAAAAGGATGCTGACGACC
* *
47531193 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACCATCAACT
1 ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
* *
47531258 ATG-AAAAGCGATGGTGATGACC
66 ATGAAAAAG-GATGCTGACGACC
47531280 ATCGA
1 ATCGA
47531285 TTAATCAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 44 0.54
87 38 0.46
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
ATGAAAAAGGATGCTGACGACC
Found at i:47531202 original size:29 final size:28
Alignment explanation
Indices: 47531136--47531284 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 28
47531126 AGCTTCGGTT
* * *
47531136 ATCGATTATGAAAAGGATGGTGACTACA
1 ATCGAATATGAAAAGGATGGTGACGACC
47531164 ATC-AACTATGAACAAGGATGGTGACGACC
1 ATCGAA-TATGAA-AAGGATGGTGACGACC
* * * *
47531193 ATCGAATATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAA-GGAT-GGTGACGACC
* *
47531222 ATCGATTATGAAAAGGGATGGTAACGACC
1 ATCGAATATGAAAA-GGATGGTGACGACC
*
47531251 ATC-AACTATGAAAAGCGATGGTGATGACC
1 ATCGAA-TATGAAAAG-GATGGTGACGACC
47531280 ATCGA
1 ATCGA
47531285 TTAATCAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.01
28 15 0.15
29 76 0.78
30 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (28 bp):
ATCGAATATGAAAAGGATGGTGACGACC
Found at i:47531284 original size:58 final size:57
Alignment explanation
Indices: 47531136--47531302 Score: 137
Period size: 58 Copynumber: 2.9 Consensus size: 57
47531126 AGCTTCGGTT
* * * *
47531136 ATCGATTATGAAAAGGATGGTGACT-ACAATCAACTATGAACAA-GGATGGTGACGACC
1 ATCGAATATGAAAAGGATGGTGA-TGACAATCGATTATGAA-AAGGGATGGTAACGACC
* * *
47531193 ATCGAATATGAAAAGGGATAGCT--TCGGCTATCGATTATGAAAAGGGATGGTAACGACC
1 ATCGAATATGAAAA-GGAT-GGTGAT-GACAATCGATTATGAAAAGGGATGGTAACGACC
* * *
47531251 ATC-AACTATGAAAAGCGATGGTGATGACCATCGATTAATCAAAAGGGTTGGT
1 ATCGAA-TATGAAAAG-GATGGTGATGACAATCGATT-ATGAAAAGGGATGGT
47531303 TTTGACCATT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
56 1 0.01
57 20 0.23
58 51 0.58
59 16 0.18
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (57 bp):
ATCGAATATGAAAAGGATGGTGATGACAATCGATTATGAAAAGGGATGGTAACGACC
Found at i:47531309 original size:30 final size:30
Alignment explanation
Indices: 47531222--47531371 Score: 101
Period size: 30 Copynumber: 5.1 Consensus size: 30
47531212 AGCTTCGGCT
* ***
47531222 ATCGATT-ATGAAAAGGGATGGTAACGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * * **
47531251 ATCAACT-ATGAAAAGCGATGGTGATGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
*
47531280 ATCGATTAATCAAAAGGGTTGGTTTTGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * *
47531310 ATTGATTAATGAAAATGGATGTTTTTGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * *
47531340 ATCGAAT-AT-GAAAGGGACGGTTATGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
47531368 ATCG
1 ATCG
47531372 TTTAGCACAC
Statistics
Matches: 96, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
28 18 0.19
29 31 0.32
30 47 0.49
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
ATCGATTAATCAAAAGGGATGGTTTTGACC
Found at i:47531350 original size:29 final size:30
Alignment explanation
Indices: 47531189--47531371 Score: 133
Period size: 29 Copynumber: 6.3 Consensus size: 30
47531179 GGATGGTGAC
* * * *
47531189 GACCATCGAAT-ATGAAAAGGGATAGCTTC
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * ***
47531218 GGCTATCGATT-ATGAAAAGGGATGGTAAC
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * * **
47531247 GACCATCAACT-ATGAAAAGCGATGGTGAT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* *
47531276 GACCATCGATTAATCAAAAGGGTTGGTTTT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * *
47531306 GACCATTGATTAATGAAAATGGATGTTTTT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * *
47531336 GACCATCGAAT-ATG-AAAGGGACGGTTAT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
47531364 GACCATCG
1 GACCATCG
47531372 TTTAGCACAC
Statistics
Matches: 121, Mismatches: 32, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
28 18 0.15
29 56 0.46
30 47 0.39
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.26
Consensus pattern (30 bp):
GACCATCGATTAATGAAAAGGGATGGTTTT
Found at i:47540895 original size:19 final size:20
Alignment explanation
Indices: 47540859--47540910 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
47540849 TATTATTAAT
* **
47540859 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
47540878 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
47540899 ATATTTAATATT
1 ATATTTATTATT
47540911 TTCAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:47542594 original size:42 final size:42
Alignment explanation
Indices: 47542472--47542583 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
47542462 ATTTATAAGC
* * *
47542472 CACAAGGCCTAGACACACGCCCATGTCCTTGCTTGTGTGGCT
1 CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
*
47542514 CACACAGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
1 CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
* *
47542556 CACACGGCCTGGACA-ATGCCCATGTCCT
1 CACACGGCCTAGACACACGCCCATGTCCT
47542584 CTGACCGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 12 0.19
42 51 0.81
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (42 bp):
CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
Found at i:47542687 original size:42 final size:42
Alignment explanation
Indices: 47542619--47542739 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
47542609 ATAATGAGTT
*
47542619 ACACAGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
* * * *
47542661 ACACGGCCTGGACACACGCTCTTGTCCTTGCTCGTGTAACTC
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
* ** *
47542703 ACACGGCCTAGACA-ATGCCCATGTCCTCTGACCGTGT
1 ACACGGCCTGGACACACACCCATGTCCT-TGCCCGTGT
47542740 GGTTCTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 10 0.15
42 57 0.85
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
Found at i:47542755 original size:146 final size:146
Alignment explanation
Indices: 47542478--47542780 Score: 471
Period size: 146 Copynumber: 2.1 Consensus size: 146
47542468 AAGCCACAAG
* ** **
47542478 GCCTAGACACACGCCCATGTCCTTGCTTGTGTGGCTCACACAGCCTAGACACACGCCCATGTCCT
1 GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
* * *
47542543 TGCTCGTGTGACTCACACGGCCTGGACAATGCCCATGTCCTCTGACCGTGTGGTTCTCAAACGTA
66 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
47542608 AATAATGAGTTACACA
131 AATAATGAGTTACACA
* * * * *
47542624 GCCTGGACACACACCCATGTCCTTGCCCGTGTAACTCACACGGCCTGGACACACGCTCTTGTCCT
1 GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
*
47542689 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAATGTA
66 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
47542754 AATAATGAGTTACACA
131 AATAATGAGTTACACA
*
47542770 TCCTAGACACA
1 GCCTAGACACA
47542781 TGCCCGTGTG
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (146 bp):
GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
AATAATGAGTTACACA
Found at i:47544137 original size:8 final size:9
Alignment explanation
Indices: 47544121--47544164 Score: 56
Period size: 8 Copynumber: 5.0 Consensus size: 9
47544111 TGAAACAATT
47544121 TTCTCTCTC
1 TTCTCTCTC
47544130 TT-TCTCTC
1 TTCTCTCTC
*
47544138 ATGCTCTCTC
1 -TTCTCTCTC
47544148 TTC-CTCTC
1 TTCTCTCTC
47544156 TTCTCTCTC
1 TTCTCTCTC
47544165 CAACTGTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 14 0.47
9 10 0.33
10 6 0.20
ACGTcount: A:0.02, C:0.43, G:0.02, T:0.52
Consensus pattern (9 bp):
TTCTCTCTC
Found at i:47548168 original size:114 final size:113
Alignment explanation
Indices: 47547964--47548516 Score: 635
Period size: 114 Copynumber: 4.9 Consensus size: 113
47547954 AAAATAAAAA
* * * * * * **
47547964 TTAGCAGCATTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTATCAAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
* * *
47548028 TCGGAGATTTAATGGGGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* * *
47548077 TTAGCGGCATTTTTCATAAAGCACCGCAAAAAAACCTAAGGCAAACGATGACATTTTTTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
*
47548142 TCGGGGATTTAGTGGC-TTTTTAAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTT-AAGAAAGCGCCACTAATGCTCAGGGAT
* * * *
47548191 TTAGCGGCGTTTTTTATAAAGCGCCGCAAAAAAACCTAAGCCAAACGACATTGTTTTTTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGA-CGTTTTTTGAGCTT
* *
47548256 TCGGGGATTTAGTGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* * * * ** *
47548305 TTAGCGGCGTTTTTGAGAAAGCGCTGCAAAAAAACCTAAGCCAAACGACGTTGTTTTCTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
* * * ** *
47548370 TCGGGGATTTAGCGGCGTTTTTTAGAAAGCGTCACTAATGCTCAAAGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* *** * * *
47548419 TTAGCAGCATTTTTGGGGATA-TGCCGCAAAAAAACCTAAGCCAAACGACACCGTTTTTTGAGCT
1 TTAGCGGCATTTTT-CATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGA-CGTTTTTTGAGCT
* *
47548483 TTCGGGCATTTAGTGGCGTTTTTGAGAAAGCGCC
64 TTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCC
47548517 GCAAAAAACC
Statistics
Matches: 381, Mismatches: 52, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
113 29 0.08
114 343 0.90
115 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (113 bp):
TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGACGTTTTTTGAGCTTT
CGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
Found at i:47548553 original size:72 final size:73
Alignment explanation
Indices: 47548441--47548587 Score: 215
Period size: 72 Copynumber: 2.0 Consensus size: 73
47548431 TTGGGGATAT
* * **
47548441 GCCGCAAAAAAACCTAAGCCAAACGACACCGTTTTTTGAGCTTTCGGGCATTTAGTGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
47548506 GAGAAAGC
66 GAGAAAGC
* * *
47548514 GCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAACGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
*
47548578 TAGAAAGC
66 GAGAAAGC
47548586 GC
1 GC
47548588 GGCTAATTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 61 0.92
73 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (73 bp):
GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
GAGAAAGC
Found at i:47548647 original size:116 final size:114
Alignment explanation
Indices: 47548486--47548950 Score: 623
Period size: 113 Copynumber: 4.1 Consensus size: 114
47548476 TTGAGCTTTC
* * * * *
47548486 GGGCATTTAGTGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCT
1 GGGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCT
* * *
47548550 GAGCTTTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCA
65 GAGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
47548600 GGGCTTTAG-GGTGTTTTTGGG-AAGTGCCGCAAAAAATAAAAACTAAGCCCAACGGTGCCGTTT
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGC---AAA-AAAAACTAAGCCCAACGGCGCCGTTT
* * *
47548663 TCTGAGCTATCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
62 TCTGAGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* *
47548716 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCGAACGGCACCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
* * *
47548781 AACTTTTGGGGATTTAACGGCATTTTTAA-AAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * * *
47548829 GGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCTAAAGGCGCCGTTTTCTA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
* *
47548894 AGCTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
*
47548943 GGGATTTA
1 GGGCTTTA
47548951 AAATAATTTA
Statistics
Matches: 310, Mismatches: 33, Indels: 16
0.86 0.09 0.04
Matches are distributed among these distances:
111 8 0.03
112 10 0.03
113 108 0.35
114 82 0.26
115 5 0.02
116 78 0.25
117 11 0.04
118 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
Found at i:47548775 original size:302 final size:300
Alignment explanation
Indices: 47548189--47548819 Score: 757
Period size: 302 Copynumber: 2.1 Consensus size: 300
47548179 ATGCTCAGGG
* *** *
47548189 ATTTAGCGGCGTTTTTTATAAAGCGCCGCAAAAAAACCTAAGCCAAACGACATTGTTTTTTGAGC
1 ATTTAGCGGCG-TTTTTAAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGC
**
47548254 TTTCGGGGATTTAGTGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
65 TTTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
* * ** *
47548319 GAGAAAGCGCTGCAAAAAAACCTAAGCCAAACGACGTTGTTTTCTGAGCTTTCGGGGATTTAGCG
130 GAGAAAGCGCCGCAAAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGCG
* * * * *
47548384 GCGTTTTTTAGAAAGCGTCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGATATGCCGCAAA
195 GCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAACGCCGCAAA
* * *
47548449 AAAACCTAAGCCAAACGACACCGTTTTTTGAGCTTTCGGGC
260 AAAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
* * * *
47548490 ATTTAGTGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGC
1 ATTTAGCGGCGTTTTT-AAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGC
* * * * * *
47548554 TTTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCAGGGCTTTAG-GGTGTTTTT
65 TTTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT
* * * **
47548618 G-GGAAGTGCCGCAAAAAATAAAAACTAAGCCCAACGGTGCCGTTTTCTGAGCTATCGGGGATTT
130 GAGAAAGCGCCGC---AAA-AAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTT
* ** * *
47548682 AGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GGGAAAGCGCC
191 AGCGGCATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAA-CGCC
* * * *
47548746 GCAAAAAAAACTAAGCCGAACGGCACCGTTTTCTGAACTTTTGGGG
255 GCAAAAAAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
* *
47548792 ATTTAACGGCATTTTTAAAAAGCGCCGC
1 ATTTAGCGGCGTTTTTAAAAAGCGCCGC
47548820 TAATGCTCAG
Statistics
Matches: 277, Mismatches: 47, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
298 8 0.03
299 9 0.03
300 82 0.30
301 40 0.14
302 138 0.50
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (300 bp):
ATTTAGCGGCGTTTTTAAAAAGCGCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCT
TTCGGGGATTTAACGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
AGAAAGCGCCGCAAAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTATCGGGGATTTAGCGG
CATTTTTAAGAAAGCGCCACTAATGCTCAAAGCTTTAGCAGCATTTTTGGGGAAACGCCGCAAAA
AAAACTAAGCCAAACGACACCGTTTTCTGAACTTTCGGGC
Found at i:47549242 original size:16 final size:16
Alignment explanation
Indices: 47549207--47549251 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
47549197 AGTGTTATGT
*
47549207 TTTAGGGGTTAGGGGGA
1 TTTAGGGGTTA-GAGGA
*
47549224 TTTATGGGTTAGAGGA
1 TTTAGGGGTTAGAGGA
47549240 TTTAGGGGTTAG
1 TTTAGGGGTTAG
47549252 GGGTTAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (16 bp):
TTTAGGGGTTAGAGGA
Found at i:47549273 original size:22 final size:24
Alignment explanation
Indices: 47549220--47549275 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
47549210 AGGGGTTAGG
*
47549220 GGGATTTATGGGTTAGAGGATTTA
1 GGGATTTAGGGGTTAGAGGATTTA
*
47549244 GGG-GTTAGGGGTTAG-GGATTT-
1 GGGATTTAGGGGTTAGAGGATTTA
47549265 GGGATTTAGGG
1 GGGATTTAGGG
47549276 TTTCAACAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
23 10 0.36
24 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (24 bp):
GGGATTTAGGGGTTAGAGGATTTA
Found at i:47553115 original size:43 final size:43
Alignment explanation
Indices: 47553051--47553322 Score: 350
Period size: 43 Copynumber: 6.3 Consensus size: 43
47553041 TTTTCATGAC
* * * *
47553051 CTTTAGCGGCGTTTGTCGTAAAAGCGTCGCTAAAGGTCCTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* *
47553094 CTTTAGCGGTGTTTGTGGTAAAAGCGCCG-TCAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCCGGCT
* **
47553137 CTTTAGCGGCGTTTGTGGGAAAAGTGCTACTAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
*
47553180 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* * * * **
47553223 CTTTAGCTGCGTTTTTGGGAAATGCGCCGCTAAAAGTCTTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
* *
47553266 CTTTAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCCCGG-T
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CCGGCT
47553309 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
47553323 ATTTCCAAAA
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.00
43 196 0.98
44 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCGGCT
Found at i:47553416 original size:22 final size:22
Alignment explanation
Indices: 47553386--47553427 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47553376 CGGCGCTTCT
* *
47553386 AAAAGCGCCGCTAAAGGCCTAG
1 AAAAACGCCGCTAAAAGCCTAG
47553408 AAAAACGCCGCTAAAAGCCT
1 AAAAACGCCGCTAAAAGCCT
47553428 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAG
Found at i:47555243 original size:13 final size:13
Alignment explanation
Indices: 47555225--47555250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47555215 AACAGCTAAG
47555225 GCCTTCCTTATAC
1 GCCTTCCTTATAC
47555238 GCCTTCCTTATAC
1 GCCTTCCTTATAC
47555251 TCTTAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (13 bp):
GCCTTCCTTATAC
Found at i:47558340 original size:18 final size:17
Alignment explanation
Indices: 47558317--47558351 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
47558307 GAATAGATTT
47558317 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
47558335 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
47558352 ACCCTAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:47559198 original size:16 final size:17
Alignment explanation
Indices: 47559159--47559201 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
47559149 ATTTAGGGTT
47559159 TAAATTT-TTTAATTAA
1 TAAATTTATTTAATTAA
47559175 TTAAATTTATTTAATTAA
1 -TAAATTTATTTAATTAA
47559193 -AAATTTATT
1 TAAATTTATT
47559202 CTCATCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTAATTAA
Found at i:47561431 original size:29 final size:29
Alignment explanation
Indices: 47561398--47561483 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
47561388 AAAAGACCGT
47561398 TGAACGATTCCATAACAAATGCCCTCCCC
1 TGAACGATTCCATAACAAATGCCCTCCCC
47561427 TGAACAGGA-TCC-T------TGCCCTCCCC
1 TGAAC--GATTCCATAACAAATGCCCTCCCC
47561450 TGAACGATTCCATAACAAATGCCCTCCCC
1 TGAACGATTCCATAACAAATGCCCTCCCC
47561479 TGAAC
1 TGAAC
47561484 AAATGCTCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 16 0.34
29 21 0.45
30 3 0.06
31 2 0.04
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (29 bp):
TGAACGATTCCATAACAAATGCCCTCCCC
Found at i:47561494 original size:16 final size:17
Alignment explanation
Indices: 47561463--47561499 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
47561453 ACGATTCCAT
47561463 AACAAATGCCCTCCCCTG
1 AACAAATG-CCTCCCCTG
47561481 AACAAATG-CTCCCCTG
1 AACAAATGCCTCCCCTG
47561497 AAC
1 AAC
47561500 GATTCCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.41, G:0.11, T:0.16
Consensus pattern (17 bp):
AACAAATGCCTCCCCTG
Found at i:47561513 original size:11 final size:11
Alignment explanation
Indices: 47561497--47561521 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47561487 TGCTCCCCTG
47561497 AACGATTCCAT
1 AACGATTCCAT
47561508 AACGATTCCAT
1 AACGATTCCAT
47561519 AAC
1 AAC
47561522 ACTACCGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (11 bp):
AACGATTCCAT
Found at i:47568807 original size:206 final size:206
Alignment explanation
Indices: 47568453--47568854 Score: 531
Period size: 206 Copynumber: 2.0 Consensus size: 206
47568443 ATGCGGTGTG
* * * ** * *
47568453 CGTCGTAGAGGGCTTGAGCTGTGTCTTCCTCTCTGGGTAGTATGCTGAGTTTGGATACGAGTGAG
1 CGTCGTAGAGGGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGAG
*
47568518 ACACCGATTTCACCCACTACTGAGACAGGGTCTTAAAGCCACTCGACTAGGGACGATGCACTGTC
66 ACACCGATTTCACCCACTACTGAGACAGGGTCTCAAAGCCACTCGACTAGGGACGATGCACTGTC
* * *
47568583 CCAAGCCATGCTGAGAGTTTTGGAGAGGGTCACTGGACCCTATTCTGGATCTGGGGGTCGTGGGT
131 CCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTGGGT
47568648 CGATAAGTGAA
196 CGATAAGTGAA
* * *
47568659 CGTCGTAG-GAGGCTCGAGTTGAGTCTTTCTCTTTGGGCAGTATGCCAAATTTCGATACGAGTGA
1 CGTCGTAGAG-GGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGA
** * * * * *
47568723 GACACCGATTTCACGTACTACTGAGACTA-GGTCTCACAA-CCGCTTGGCTGGGGACGATGCATT
65 GACACCGATTTCACCCACTACTGAGAC-AGGGTCTCA-AAGCCACTCGACTAGGGACGATGCACT
* * * *
47568786 GTCTCAAGTCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTTTGGATCTGGGGGCCGTT
128 GTCCCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTG
47568851 GGTC
193 GGTC
47568855 AGTAACTGAA
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
205 1 0.01
206 164 0.98
207 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (206 bp):
CGTCGTAGAGGGCTCGAGCTGAGTCTTCCTCTCTGGGCAGTATGCCAAATTTCGATACGAGTGAG
ACACCGATTTCACCCACTACTGAGACAGGGTCTCAAAGCCACTCGACTAGGGACGATGCACTGTC
CCAAGCCATGCTGAGAGTTTTGGAAAGGGTCACTGGACCCAATTCTGGATCTGGGGGCCGTGGGT
CGATAAGTGAA
Found at i:47575818 original size:18 final size:18
Alignment explanation
Indices: 47575772--47575824 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
47575762 TAAAGATAAC
* * *
47575772 TAAAAATAAACATAAACA
1 TAAAAACAAAAATAAAAA
*
47575790 TAAAAATAAAAATAAAAA
1 TAAAAACAAAAATAAAAA
* *
47575808 TAAAACCAAAAAGAAAA
1 TAAAAACAAAAATAAAA
47575825 CAAATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (18 bp):
TAAAAACAAAAATAAAAA
Found at i:47575824 original size:6 final size:6
Alignment explanation
Indices: 47575772--47575812 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
47575762 TAAAGATAAC
* *
47575772 TAAAAA TAAACA TAAACA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
47575813 CCAAAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:47586214 original size:39 final size:40
Alignment explanation
Indices: 47586077--47586194 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 40
47586067 TGCGTTTGGA
* *
47586077 TAAAAAAAGCCGCTAAAAATCA-AGCATTAGCGGCGCTTTT
1 TAAAAAACGCCACTAAAAAT-AGAGCATTAGCGGCGCTTTT
* * *
47586117 TAAAAAACGCCACTAAAGATAGAGTATTAGCAGCGCTTTT
1 TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
47586157 TAAAAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TTTT
1 TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
47586195 CCAAAAAGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.06
39 13 0.19
40 52 0.75
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTT
Found at i:47586370 original size:42 final size:41
Alignment explanation
Indices: 47586254--47586373 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
47586244 TTTGGGTGCA
*
47586254 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* *
47586295 TTAGTGGCGTTTATGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
47586336 TTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGCTCAG
1 TTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCAG
47586374 ATTTATCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 46 0.64
42 26 0.36
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:47590071 original size:23 final size:23
Alignment explanation
Indices: 47590045--47590325 Score: 179
Period size: 23 Copynumber: 12.3 Consensus size: 23
47590035 TTAATTGGTA
*
47590045 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
47590068 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
47590091 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
47590114 CGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * *
47590137 TGCTT-AGTTGTTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
47590159 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
47590182 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
*
47590205 TCTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
47590228 TGTTT-AGTTGCTGAAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
47590250 ATGTTTTA-TCGCTG-TAATTGATG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * **
47590273 TGTATGAA-TGTTGTTAATTGATA-
1 TGT-TTAAGTGCTGCAAATTGA-AG
*
47590296 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
47590319 TGTTTAA
1 TGTTTAA
47590326 ATTTAACTTT
Statistics
Matches: 202, Mismatches: 37, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
22 39 0.19
23 161 0.80
24 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (23 bp):
TGTTTAAGTGCTGCAAATTGAAG
Found at i:47590194 original size:45 final size:45
Alignment explanation
Indices: 47590145--47590299 Score: 141
Period size: 45 Copynumber: 3.4 Consensus size: 45
47590135 AGTGCTTAGT
* *
47590145 TGTTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAA
1 TGTTGTAAATTGAGATGTTTTATCGCTGTAATTGAAGTGTATAAA
* * * * * * **
47590190 TGTTGTTAATTGATATCTTTAAGT-GCTGCAAATTGAAGTGTTTAGT
1 TGTTGTAAATTGAGATGTTTTA-TCGCTG-TAATTGAAGTGTATAAA
* * * *
47590236 TGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATGAA
1 TGTTGTAAATTGAGATGTTTTATCGCTGTAATTGAAGTGTATAAA
* *
47590281 TGTTGTTAATTGATATGTT
1 TGTTGTAAATTGAGATGTT
47590300 AAAGTGCTGC
Statistics
Matches: 81, Mismatches: 26, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
45 48 0.59
46 33 0.41
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (45 bp):
TGTTGTAAATTGAGATGTTTTATCGCTGTAATTGAAGTGTATAAA
Found at i:47590321 original size:91 final size:91
Alignment explanation
Indices: 47590119--47590324 Score: 349
Period size: 91 Copynumber: 2.3 Consensus size: 91
47590109 TGAAGCGTTT
* * *
47590119 AAGTGCTGCAAATTGAAGTGCTTAGTTGTTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
1 AAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
*
47590184 TATAAATGTTGTTAATTGATATCTTT
66 TATAAATGTTGTTAATTGATATCTTA
*
47590210 AAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTG
1 AAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
* *
47590275 TATGAATGTTGTTAATTGATATGTTA
66 TATAAATGTTGTTAATTGATATCTTA
47590301 AAGTGCTGCAAATTGAAGTGTTTA
1 AAGTGCTGCAAATTGAAGTGTTTA
47590325 AATTTAACTT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 108 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (91 bp):
AAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
TATAAATGTTGTTAATTGATATCTTA
Found at i:47590933 original size:10 final size:11
Alignment explanation
Indices: 47590910--47590935 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47590900 TGGAATAGCG
47590910 TTTTTATAATT
1 TTTTTATAATT
47590921 TTTTTATAATT
1 TTTTTATAATT
47590932 TTTT
1 TTTT
47590936 GTGACCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:47591031 original size:43 final size:43
Alignment explanation
Indices: 47590941--47591124 Score: 242
Period size: 43 Copynumber: 4.3 Consensus size: 43
47590931 TTTTTGTGAC
* * * * *
47590941 CTTTAGTGGCGTTTTTTGGGGAATGCGCCGCTAAAAGTCCTGAT
1 CTTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* *
47590985 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* * *
47591028 CTTTACCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTAAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
* * *
47591071 CTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
47591114 CTTTAGCGGCG
1 CTTTAGCGGCG
47591125 ACGCGATCTT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 111 0.92
44 10 0.08
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAT
Found at i:47591218 original size:22 final size:22
Alignment explanation
Indices: 47591190--47591232 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47591180 TAGCGTCGCT
*
47591190 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
47591212 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
47591233 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:47592556 original size:2 final size:2
Alignment explanation
Indices: 47592510--47592548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
47592500 TTTGTGTCTT
47592510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47592549 GCATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47595117 original size:30 final size:30
Alignment explanation
Indices: 47595073--47595141 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
47595063 CCCCTCTCTT
47595073 TTCTTTTC-TTTTCTGGTATGAAAATATTA
1 TTCTTTTCTTTTTCTGGTATGAAAATATTA
47595102 TTCTTTTCTTTTTCTGGTATGAAAATATTA
1 TTCTTTTCTTTTTCTGGTATGAAAATATTA
47595132 TTCTTTTCTT
1 TTCTTTTCTT
47595142 CCATAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
29 8 0.21
30 31 0.79
ACGTcount: A:0.20, C:0.12, G:0.09, T:0.59
Consensus pattern (30 bp):
TTCTTTTCTTTTTCTGGTATGAAAATATTA
Found at i:47596064 original size:24 final size:24
Alignment explanation
Indices: 47596032--47596079 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
47596022 TCTTCAGCCA
*
47596032 AAGACAATTTTATTAATCTCAAAC
1 AAGAAAATTTTATTAATCTCAAAC
47596056 AAGAAAATTTTATTAATCTCAAAC
1 AAGAAAATTTTATTAATCTCAAAC
47596080 GGAAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (24 bp):
AAGAAAATTTTATTAATCTCAAAC
Found at i:47597429 original size:12 final size:11
Alignment explanation
Indices: 47597398--47597427 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
47597388 TTAAGTAAAC
47597398 AAATAAATATT
1 AAATAAATATT
47597409 AAATGAAATATT
1 AAAT-AAATATT
47597421 AAATAAA
1 AAATAAA
47597428 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AAATAAATATT
Found at i:47599143 original size:44 final size:43
Alignment explanation
Indices: 47599095--47599591 Score: 213
Period size: 44 Copynumber: 11.6 Consensus size: 43
47599085 GTTTTAATCC
*
47599095 GCTCCACTGCAAATTCAGGGAGATAAGATTGGTTTCTATCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * * * *
47599139 GCTCCACTGCAACTTCAGAGAAATAAGACTAGATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
* * * *
47599180 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTTTTTAATC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCT-ATCTCT
* * *
47599225 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * *
47599269 GCTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTACT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCT-CT
* ** *
47599313 -CT--ACTGCAACTCCAGAAAGATGAGATCTATGGTTT-TAATC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCT-ATCTCT
* * * * * *
47599354 GCTCCACTGCAACTTCAGGGGGATAGGGTTGATTTATTTCATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATC-TCT
* * * * *
47599398 GCTCCACTGCAACTTCAAGGAGATAAGACTGGATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
* * *
47599439 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTTT-TAGTC-C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCTA-TCTCT
* * * * ** * *
47599483 GCTCTACTGTAACTTTAGGGAGATAGGATTGACTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTC-TATCTCT
* ** * * *
47599527 GCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGA--TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTATCTCT
* *
47599567 GTTCTACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
47599592 GGATCTGTCA
Statistics
Matches: 328, Mismatches: 92, Indels: 69
0.67 0.19 0.14
Matches are distributed among these distances:
40 13 0.04
41 95 0.29
42 14 0.04
43 22 0.07
44 156 0.48
45 27 0.08
46 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTATCTCT
Found at i:47599295 original size:130 final size:129
Alignment explanation
Indices: 47599085--47599590 Score: 708
Period size: 129 Copynumber: 3.9 Consensus size: 129
47599075 ATGATTCATC
* * * *
47599085 GTTTTAATCCGCTCCACTGCAAATTCAGGGAGATAAGATTGGTTTCTATCGTCTGCTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
* * *
47599150 ACTTCAGAGAAATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * *
47599214 GTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCAGCTCCACTGT
1 G-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGC
* * *
47599279 AACTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTCCAGAAAGATGAGATCTATG
65 AACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * *
47599344 GTTTTAATCCGCTCCACTGCAACTTCAGGGGGATAGGGTTGATTTATTTCATCTGCTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
*
47599409 ACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * * * * * * * *
47599473 GTTTTAGTCCGCTCTACTGTAACTTTAGGGAGATAGGATTGACTTCTTTTGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
* * * *
47599538 GCTT-AGGGAGATAAGACTTGATGCGATCTGTTCTACTGCAACTTCAGGGAGAT
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
47599591 AGGATCTGTC
Statistics
Matches: 337, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
128 45 0.13
129 174 0.52
130 118 0.35
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (129 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTTCGTCTGCTCCACTGCA
ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
Found at i:47600015 original size:99 final size:99
Alignment explanation
Indices: 47599826--47600603 Score: 848
Period size: 99 Copynumber: 7.8 Consensus size: 99
47599816 AGATAGGATC
* * * * * *
47599826 CGCCATTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAACACGATT-AGCCGTTGTAGCTTC
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCA-CCATCGTAGCTTC
* *
47599890 AATC-AGTTCCACTGCACCACCAAGG-AAGTAAGATT
65 AATCTA-CTCCACTGCACCGCC-AGGAAAGTAAGATT
* * ** *
47599925 CACCGTTGCGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACTGTCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
47599990 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
47600025 CGCTGTTGCGACTTTAATCTTTTAAATTGCAATGTTGGGGAACGAGATTCACCATTGTAGCTTCA
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
*
47600090 ATCTGA-TCCACTGCATCGCCAGGAAAGTAAGATT
66 ATCT-ACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
47600124 CGTCGTTGCGGCTTCAATCTTTTTAAATGCAATGTTGGGGAAGCAAGATTCGCCACCGTAGTTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* * * *
47600189 AATCTGCCCCACTGCACTGCCAGAAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
47600224 CACTGTTGCGACTTCAATCTTTTTAATTGTAATGTCGGGGAACGAGATTCGCCATTGTAGCTTCA
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
*
47600289 ATCTGA-TCCACTGCATCGCCAGGAAAGTAAGATT
66 ATCT-ACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * * * *
47600323 CACCGTTGCGGCTTTAATCTTTTAAATTACAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* *
47600388 AATCTGCTCCACTGCATCGCCAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * *
47600423 CGCCGTTGTGTCTTCAATCTTTTTAATTACAATGTCGGGGAACGAGATTCACCGTTC-TAGCTTC
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACC-ATCGTAGCTTC
* * *
47600487 AATCTAATCCACTGCATCGCTAGGAAAGTAAGATT
65 AATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
* * * * *
47600522 CGCCGTTGCAGCTTCAATATTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTT
1 CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATCGTAGCTTC
* *
47600587 AACCTGCTCCACTGCAC
65 AATCTACTCCACTGCAC
47600604 TACCAAGGAA
Statistics
Matches: 573, Mismatches: 93, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
99 294 0.51
100 277 0.48
101 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (99 bp):
CGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATCGTAGCTTCA
ATCTACTCCACTGCACCGCCAGGAAAGTAAGATT
Found at i:47600133 original size:199 final size:199
Alignment explanation
Indices: 47599837--47600603 Score: 1092
Period size: 199 Copynumber: 3.9 Consensus size: 199
47599827 GCCATTGTGG
* * * *
47599837 CTTCAATCTTTTTAATTGTAATGTCGGGGAAC-ACGATT-AGCCGTTGTAGCTTCAATCAGTTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGA-GATTCA-CCATTGTAGCTTCAATCTGATCC
* * * *
47599900 ACTGCACCACCAAGG-AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGTAATGTCGGG
64 ACTGCATCGCC-AGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGG
* ** *
47599964 GAAGCAAGATTCACTGTCGTAGCTTTAATCTACTCCACTGCACCGCCAGGAAAGTAAGATTCGCT
128 GAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCT
47600029 GTTGCGA
193 GTTGCGA
* * *
47600036 CTTTAATCTTTTAAATTGCAATGTTGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
** *
47600101 TGCATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAAA-TGCAATGTTGGGGA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATC-TTTTAAATTGCAATGTCGGGGA
* * * * * *
47600165 AGCAAGATTCGCCACCGTAGTTTTAATCTGCCCCACTGCACTGCCAGAAAAGTAAGATTCACTGT
130 AGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGT
47600230 TGCGA
195 TGCGA
* *
47600235 CTTCAATCTTTTTAATTGTAATGTCGGGGAACGAGATTCGCCATTGTAGCTTCAATCTGATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
* *
47600300 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTACAATGTCGGGGAA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* * *
47600365 GCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTT
131 GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGTT
* *
47600430 GTGT
196 GCGA
* * * *
47600434 CTTCAATCTTTTTAATTACAATGTCGGGGAACGAGATTCACCGTTCTAGCTTCAATCTAATCCAC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
* * * *
47600499 TGCATCGCTAGGAAAGTAAGATTCGCCGTTGCAGCTTCAATATTTTAAATTGCAATGTCGGGGAA
66 TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
*
47600564 GCAAGATTCGCCATCGTAGCTTTAACCTGCTCCACTGCAC
131 GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
47600604 TACCAAGGAA
Statistics
Matches: 503, Mismatches: 60, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
198 10 0.02
199 485 0.96
200 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (199 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAACGAGATTCACCATTGTAGCTTCAATCTGATCCAC
TGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
GCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGTT
GCGA
Found at i:47600570 original size:50 final size:50
Alignment explanation
Indices: 47599836--47600575 Score: 212
Period size: 50 Copynumber: 14.9 Consensus size: 50
47599826 CGCCATTGTG
* * * * *
47599836 GCTTCAATCTTTTTAATTGTAATGTCGGGGAA-CACGATTAGCCGTTGTA
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
** ** * **** ** * * *
47599885 GCTTCAATCAGTTCCACTGCACCACCAAGGAAGTAAGATTCACCGTTGCG
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* * * * * *
47599935 GCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACTGTCGTA
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* ** ** * ** * * * * *
47599985 GCTTTAATCTACTCCACTGCACCGCCAGGAAAGTAAGATTCGCTGTTGC-
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* * * * * *
47600034 GACTTTAATCTTTTAAATTGCAATGTTGGGGAA-CGAGATTCACCATTGTA
1 G-CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
** ** * * * * * * *
47600084 GCTTCAATCTGATCCACTGC-ATCGCCAGGAAAGTAAGATTCGTCGTTGCG
1 GCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGCA
* *** *
47600134 GCTTCAATCTTTTTAAA-TGCAATGTTGGGGAAGCAAGATTCGCCACCGTA
1 GCTTCAATC-TTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* * ***** * * * * ** * * *
47600184 GTTTTAATCTGCCCCACTGCACTGCCAGAAAAGTAAGATTCACTGTTGC-
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* * * * *
47600233 GACTTCAATCTTTTTAATTGTAATGTCGGGGAA-CGAGATTCGCCATTGTA
1 G-CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
** ** * * * * * * *
47600283 GCTTCAATCTGATCCACTGC-ATCGCCAGGAAAGTAAGATTCACCGTTGCG
1 GCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGCA
* * * *
47600333 GCTTTAATCTTTTAAATTACAATGTCGGGGAAGCAAGATTCGCCGTCGTA
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
* ** ** * * * * * *
47600383 GCTTTAATCTGCTCCACTGC-ATCGCCAGGAAAGTAAGATTCGCCGTTG-T
1 GCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGCA
* * * *
47600432 GTCTTCAATCTTTTTAATTACAATGTCGGGGAA-CGAGATTCACCGTT-CTA
1 G-CTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGC-A
** ** * * * *
47600482 GCTTCAATCTAATCCACTGC-ATCG-CTAGGAAAGTAAGATTCGCCGTTGCA
1 GCTTCAATCTTTTAAATTGCAAT-GTC-GGGGAAGCAAGATTCGCCGTTGCA
*
47600532 GCTTCAATATTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
47600576 ATCGTAGCTT
Statistics
Matches: 451, Mismatches: 216, Indels: 47
0.63 0.30 0.07
Matches are distributed among these distances:
48 7 0.02
49 113 0.25
50 318 0.71
51 13 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGCA
Found at i:47600955 original size:24 final size:24
Alignment explanation
Indices: 47600898--47600955 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
47600888 TGGATTGCCC
47600898 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
** * *
47600922 CTGCTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
*
47600946 CCACTATAAT
1 CCACTGTAAT
47600956 TTTAGGACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:47601832 original size:7 final size:7
Alignment explanation
Indices: 47601820--47601871 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
47601810 TTGGCCTCTC
47601820 CTTTTTT
1 CTTTTTT
47601827 CTTTTTTGTT
1 C--TTTT-TT
47601837 CTTCTTTT
1 CTT-TTTT
47601845 CTTTTTT
1 CTTTTTT
47601852 C-TTTTT
1 CTTTTTT
47601858 CTTTTTT
1 CTTTTTT
*
47601865 GTTTTTT
1 CTTTTTT
47601872 TTCAAGTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.15
7 17 0.44
8 7 0.18
9 6 0.15
10 3 0.08
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:47601846 original size:18 final size:18
Alignment explanation
Indices: 47601823--47601862 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47601813 GCCTCTCCTT
*
47601823 TTTTCTTTTTTGTTCTTC
1 TTTTCTTTTTTCTTCTTC
*
47601841 TTTTCTTTTTTCTTTTTC
1 TTTTCTTTTTTCTTCTTC
47601859 TTTT
1 TTTT
47601863 TTGTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTCTTCTTC
Found at i:47606925 original size:23 final size:23
Alignment explanation
Indices: 47606890--47606934 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47606880 TGGAGTATAA
* *
47606890 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
47606913 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
47606935 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:47608621 original size:26 final size:27
Alignment explanation
Indices: 47608585--47608638 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
47608575 TACTGAATGT
47608585 CTGTTCTAAGTTCTG-TTGATTAGTAA
1 CTGTTCTAAGTTCTGTTTGATTAGTAA
47608611 CTGTTCTAAGTTCTGTTTTGATTAGTAA
1 CTGTTCTAAGTTCTG-TTTGATTAGTAA
47608639 TGCCTCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 15 0.58
28 11 0.42
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (27 bp):
CTGTTCTAAGTTCTGTTTGATTAGTAA
Found at i:47623654 original size:15 final size:15
Alignment explanation
Indices: 47623636--47623691 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
47623626 TAATTTTGAC
*
47623636 GTGTCTGGTAGTGAT
1 GTGTCTGATAGTGAT
* *
47623651 GTGTCTGTTAGTTAT
1 GTGTCTGATAGTGAT
* *
47623666 GTATCTGAAAGTGAT
1 GTGTCTGATAGTGAT
*
47623681 GTGTCTAATAG
1 GTGTCTGATAG
47623692 GATAAGGGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.41
Consensus pattern (15 bp):
GTGTCTGATAGTGAT
Found at i:47634084 original size:25 final size:25
Alignment explanation
Indices: 47634049--47634103 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
47634039 GTCACATGAC
*
47634049 TGTTTTAGTGAGTATTTTTTAATAT
1 TGTTTTAGTGACTATTTTTTAATAT
* * *
47634074 TGTTTTGGTGACTATTTTTTAGTTT
1 TGTTTTAGTGACTATTTTTTAATAT
47634099 TGTTT
1 TGTTT
47634104 CATCACATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (25 bp):
TGTTTTAGTGACTATTTTTTAATAT
Found at i:47634160 original size:20 final size:20
Alignment explanation
Indices: 47634135--47634174 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47634125 GGTATCAGGT
47634135 TGAATATGGTCTAGACAGTC
1 TGAATATGGTCTAGACAGTC
*
47634155 TGAATATGGTCTAGGCAGTC
1 TGAATATGGTCTAGACAGTC
47634175 AGCACATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TGAATATGGTCTAGACAGTC
Found at i:47634183 original size:20 final size:20
Alignment explanation
Indices: 47634140--47634184 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47634130 CAGGTTGAAT
* *
47634140 ATGGTCTAGACAGTCTGAAT
1 ATGGTCTAGACAGTCAGAAC
* *
47634160 ATGGTCTAGGCAGTCAGCAC
1 ATGGTCTAGACAGTCAGAAC
47634180 ATGGT
1 ATGGT
47634185 GGACTTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
ATGGTCTAGACAGTCAGAAC
Found at i:47635228 original size:25 final size:25
Alignment explanation
Indices: 47635162--47635231 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 25
47635152 CATATTCTCC
*
47635162 TATTACAATTTGTAAGCAACAACAA
1 TATTACAATTTGTAAGAAACAACAA
* * *
47635187 TAGTACAA----AACATAAACAACAA
1 TATTACAATTTGTA-AGAAACAACAA
47635209 TATTACAATTTGTAAGAAACAAC
1 TATTACAATTTGTAAGAAACAAC
47635232 CACATATTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
21 1 0.03
22 16 0.48
25 15 0.45
26 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (25 bp):
TATTACAATTTGTAAGAAACAACAA
Found at i:47635732 original size:3 final size:3
Alignment explanation
Indices: 47635724--47635761 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
47635714 TTCTCTTTTC
*
47635724 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT ATT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
47635762 ACTGCATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:47638646 original size:42 final size:42
Alignment explanation
Indices: 47638592--47638740 Score: 217
Period size: 42 Copynumber: 3.5 Consensus size: 42
47638582 TTATTTCTAT
* * * *
47638592 AAACGCTGCTATAGGTCATGACCTTTAGCGGCGCTTCTCCAA
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAA
* *
47638634 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAA
* *
47638676 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAA
*
47638718 GAACGCCGCTATAGATCAGGACC
1 AAACGCCGCTATAGATCAGGACC
47638741 ACAGACCTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAA
Found at i:47638850 original size:24 final size:23
Alignment explanation
Indices: 47638809--47638862 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
47638799 ATAATTTTTT
*
47638809 TAAATAATATTTATTTTT-ATGA
1 TAAATAATATTTATTTTTAAGGA
*
47638831 TAAATATTATATTATGTTTTAAGGA
1 TAAATAATAT-TTAT-TTTTAAGGA
47638856 TAAATAA
1 TAAATAA
47638863 AAAATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 4 0.15
25 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
TAAATAATATTTATTTTTAAGGA
Found at i:47638936 original size:35 final size:35
Alignment explanation
Indices: 47638897--47638963 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
47638887 CTACGAAAAT
*
47638897 TTTAATTTTA-AAACTAAATATAAAAAATTAATGAA
1 TTTAAATTTAGAAACTAAA-ATAAAAAATTAATGAA
** *
47638932 TTTAAATTTAGAATTTAAAATAATAAATTAAT
1 TTTAAATTTAGAAACTAAAATAAAAAATTAAT
47638964 AATACAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.78
36 6 0.22
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (35 bp):
TTTAAATTTAGAAACTAAAATAAAAAATTAATGAA
Found at i:47643202 original size:18 final size:21
Alignment explanation
Indices: 47643179--47643233 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
47643169 CAAAACACGT
47643179 AAAAAACTGAACC-AG-A-TA
1 AAAAAACTGAACCGAGTACTA
*
47643197 AAAAAAATGAACCGAGTACTA
1 AAAAAACTGAACCGAGTACTA
*
47643218 AAAATACTGAACCGAG
1 AAAAAACTGAACCGAG
47643234 AAGGGATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.39
19 2 0.06
20 1 0.03
21 16 0.52
ACGTcount: A:0.56, C:0.16, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAAACTGAACCGAGTACTA
Found at i:47643410 original size:20 final size:21
Alignment explanation
Indices: 47643385--47643423 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47643375 CTAGTTAATC
47643385 TAAACCCT-AAACCATAAATT
1 TAAACCCTAAAACCATAAATT
47643405 TAAACCCTAAAACCATAAA
1 TAAACCCTAAAACCATAAA
47643424 CCCTTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAATT
Found at i:47643481 original size:21 final size:21
Alignment explanation
Indices: 47643433--47643481 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
47643423 ACCCTTAACA
*
47643433 CATAACCTCTAAACCTTAAAC
1 CATAACCTCTAAACCATAAAC
** *
47643454 CCCAACCTTTAAACCATAAAC
1 CATAACCTCTAAACCATAAAC
47643475 CATAACC
1 CATAACC
47643482 CATAATCCCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
CATAACCTCTAAACCATAAAC
Found at i:47643498 original size:15 final size:15
Alignment explanation
Indices: 47643463--47643511 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
47643453 CCCCAACCTT
*
47643463 TAAA-CCATAAACCA
1 TAAACCCATAATCCA
*
47643477 T-AACCCATAATCCC
1 TAAACCCATAATCCA
47643491 TAAACCCATAATCCA
1 TAAACCCATAATCCA
47643506 TAAACC
1 TAAACC
47643512 TTAAAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 18 0.60
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:47643951 original size:41 final size:41
Alignment explanation
Indices: 47643896--47644132 Score: 361
Period size: 41 Copynumber: 5.8 Consensus size: 41
47643886 CCTGAGCATT
* *
47643896 ATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
* *
47643937 ATTAGCGGCACTTTCCCAAAAACGCCACTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
47643978 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA-GCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCC-TGGGC
*
47644019 ATTAGCGGCGCTTTCCCAAAATCGCCGCTAAA-GCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCC-TGGGC
* *
47644060 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
* *
47644101 ATTAGCGGCGCTTTCCTAAACACGCCGCTAAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
47644133 TCCCCGAAAG
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 3 0.02
41 177 0.97
42 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGGGC
Found at i:47644255 original size:39 final size:40
Alignment explanation
Indices: 47644197--47644297 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
47644187 ATTGAAAATG
* * *
47644197 CCGCTAATGCT-TATTTTTAGCGGCG-TTTCCATAAAGCA
1 CCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
*
47644235 CCGCTAAAT-CTCGATCTTTAGCGGCGTTTTCCAAAAAGCG
1 CCGCT-AATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
*
47644275 CCGCTAATGCTCGATTTTTAGCG
1 CCGCTAATGCTCGATCTTTAGCG
47644298 ACATTTTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 7 0.13
39 18 0.33
40 29 0.54
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
CCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCA
Found at i:47645442 original size:20 final size:20
Alignment explanation
Indices: 47645414--47645452 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47645404 AAGCAGAAGC
* *
47645414 AAAAGTAGAGAAAGAAAAAG
1 AAAAATAGAAAAAGAAAAAG
*
47645434 AAAAATAGAAAAATAAAAA
1 AAAAATAGAAAAAGAAAAA
47645453 TATTTGTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAATAGAAAAAGAAAAAG
Found at i:47652198 original size:44 final size:44
Alignment explanation
Indices: 47652150--47652335 Score: 153
Period size: 44 Copynumber: 4.1 Consensus size: 44
47652140 TGGAGTAAGA
*
47652150 TGAAGCTACAAATCTTATACCCCTGTAGTTACAGTGGGTCAGAT
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
* *
47652194 TGAAGTTACCATAGTGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA-
1 TGAAGCTA-CA-A---A-TCTTATAC-CCCTGAAGTTACAGTGG-GTC-AGAT
* * **
47652244 TGAAGCTACAAATCTTATATCCCTAAAGTTACAGTGCATCAGAT
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
* * * * * *
47652288 TGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAA
1 TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
47652332 TGAA
1 TGAA
47652336 ATTAGAATGG
Statistics
Matches: 111, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
43 3 0.03
44 66 0.59
45 3 0.03
46 1 0.01
48 1 0.01
49 4 0.04
50 29 0.26
51 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TGAAGCTACAAATCTTATACCCCTGAAGTTACAGTGGGTCAGAT
Found at i:47652236 original size:94 final size:94
Alignment explanation
Indices: 47652065--47652292 Score: 323
Period size: 94 Copynumber: 2.4 Consensus size: 94
47652055 GTGAAACAAT
** * *
47652065 AAATCTTATACCCCTAAAGTTGTAGTGGGTC-GAATTGAACTTACCATAGCGAGTCTTATCTCCT
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAG-ATTGAAGTTACCATAGCGAGTCTTATCTCCC
* * *
47652129 TGAATTTGTAGTGGAGTAAGATGAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATGAAGCTAC
** *
47652159 AAATCTTATACCCCTGTAGTTACAGTGGGTCAGATTGAAGTTACCATAGTGAGTCTTATCTCCCT
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
47652224 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* **
47652253 AAATCTTATATCCCTAAAGTTACAGTGCATCAGATTGAAG
1 AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAG
47652293 ATACAATTCC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
94 117 0.99
95 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
AAATCTTATACCCCTAAAGTTACAGTGGGTCAGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
GAAGTTGCAGTGGAGCAAGATGAAGCTAC
Found at i:47652248 original size:50 final size:49
Alignment explanation
Indices: 47652100--47652248 Score: 125
Period size: 50 Copynumber: 3.1 Consensus size: 49
47652090 TGGGTCGAAT
* * * * *
47652100 TGAACTTACCATAGCGAGTCTTATCTCCTTGAATTTGTAGTGGAGTAAGA
1 TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
* * *
47652150 TGAAGCTA-CA-A--A-TCTTATAC-CCCTGTAGTTACAGTGG-GTC-AGA
1 TGAAGTTACCATAGGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA
47652193 TTGAAGTTACCATAGTGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
1 -TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
47652244 TGAAG
1 TGAAG
47652249 CTACAAATCT
Statistics
Matches: 76, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
43 4 0.05
44 25 0.33
45 4 0.05
46 1 0.01
48 1 0.01
49 4 0.05
50 33 0.43
51 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (49 bp):
TGAAGTTACCATAGGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
Found at i:47652369 original size:138 final size:137
Alignment explanation
Indices: 47652215--47652542 Score: 417
Period size: 138 Copynumber: 2.4 Consensus size: 137
47652205 TAGTGAGTCT
* *
47652215 TATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCTTATATCCCTAAAGT-TACAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTCTA-A-T
* * *
47652279 GCATCAGATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTAGAAT
64 GCATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAAT
47652344 GGCAAATCC
129 GGCAAATCC
* * * *
47652353 TATTTTCCTAAAGTTGCAGTGAAGCAAGATGAAGCTTCAAATCCTATATCCCTAAAGTCGTAATG
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTC-TAATG
* * * *
47652418 GATCAAATTGAATATACAATTCCTATACCGTTGAAGTTGTAGTGGGTCAGAATGAAACTACAATG
65 CATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAATG
**
47652483 GTGAATCC
130 GCAAATCC
* ** * * * *
47652491 TATCTCCCTGAAGTTATAGTAGAACAAGATAAAGCTACAAATACTATA-CCCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCT
47652543 TGAAGTTGCA
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
137 4 0.02
138 155 0.96
139 1 0.01
140 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (137 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTCTAATGC
ATCAAATTGAAGATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGG
CAAATCC
Found at i:47652783 original size:44 final size:44
Alignment explanation
Indices: 47652735--47652882 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
47652725 TCTCCCTGAG
47652735 GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
1 GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
* * * *
47652779 GTTACTGTGG-GTC-AGAATGAAACTACAATGGTGAATCTTATCTCCCTAAA
1 GTTACAGTGGAG-CAAG-ATGAAACTAC-A-----AATCCTATATCTCTAAA
** * * *
47652829 GTTGTAATGAAGCAAGATGAAGA-TACAAATCCTATACCTCTAAA
1 GTTACAGTGGAGCAAGATGAA-ACTACAAATCCTATATCTCTAAA
*
47652873 GTTGCAGTGG
1 GTTACAGTGG
47652883 GTCGGATTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
43 3 0.04
44 40 0.52
45 1 0.01
49 1 0.01
50 28 0.36
51 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (44 bp):
GTTACAGTGGAGCAAGATGAAACTACAAATCCTATATCTCTAAA
Found at i:47652893 original size:232 final size:231
Alignment explanation
Indices: 47652302--47652894 Score: 636
Period size: 232 Copynumber: 2.6 Consensus size: 231
47652292 GATACAATTC
* * * * * * *
47652302 CTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTAGAATGGCAAATCCTATTTTCCTAAAGT
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAGT
* * * * * *
47652367 TGCAGTGAAGCAAGATGAAGCTTCAAATCCTATATCCCTAAAGTCGTAATGGATCAAATTGAATA
66 TGCAGTGAAGCAAGATGAAGATACAAATCCTATA-CCCTAAAGTTGTAGTGGATCAGATTGAAGA
** * * * *
47652432 TACAATTCCTATACCGTTGAAGTTGTAGTGGGTCAGAATGAAACTACAATGGTGAATCCTATCTC
130 TACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCTC
*
47652497 CCTGAAGTTATAGTAGAACAAGATAAAGCTACAAATA
195 CCTGAAGTTACAGTAGAACAAGATAAAGCTACAAATA
* * * * * *
47652534 CTATACCCTTGAAGTTGCAGTGGGTC-GAATTAGAGTTATC-ATAGTTAATCTTATCTCCCTAAA
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGA-AATTA-CAATGGTAAATCTTATCTCCCTAAA
* * * * * *
47652597 GTTGCAGTGGAGCAAGATGAAGTTACAAATCCTATATCACTGATGTTATAGTGGATCAGATTGAA
64 GTTGCAGTGAAGCAAGATGAAGATACAAATCCTATA-CCCTAAAGTTGTAGTGGATCAGATTGAA
* * * * * *
47652662 GATATAATTTCTATGCCCCTAAAGTTGCAATGGGTCGGAATGAAATTACACTGGCGAATCCTATC
128 GATACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATC
* * * *
47652727 TCCCTGAGGTTACAGTGGAGCAAGATGAAA-CTACAAATC
193 TCCCTGAAGTTACAGTAGAACAAGAT-AAAGCTACAAATA
* * * *
47652766 CTATA-TCTCTAAAGTTACTGTGGGTCAGAATGAAACTACAATGGTGAATCTTATCTCCCTAAAG
1 CTATACCCT-TAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAG
* * * * *
47652830 TTGTAATGAAGCAAGATGAAGATACAAATCCTATACCTCTAAAGTTGCAGTGGGTCGGATTGAAG
65 TTGCAGTGAAGCAAGATGAAGATACAAATCCTATACC-CTAAAGTTGTAGTGGATCAGATTGAAG
47652895 CTACCATGGT
Statistics
Matches: 297, Mismatches: 57, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
231 9 0.03
232 280 0.94
233 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (231 bp):
CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTAAATCTTATCTCCCTAAAGT
TGCAGTGAAGCAAGATGAAGATACAAATCCTATACCCTAAAGTTGTAGTGGATCAGATTGAAGAT
ACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCTCC
CTGAAGTTACAGTAGAACAAGATAAAGCTACAAATA
Found at i:47652940 original size:94 final size:95
Alignment explanation
Indices: 47652680--47652952 Score: 304
Period size: 94 Copynumber: 2.9 Consensus size: 95
47652670 TTCTATGCCC
* * * * *
47652680 CTAAAGTTGCAATGGGTCGGAATGAAATTA-CACTGGCGAATCCTATCTCCCTGAGGTTACAGTG
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCA-TGGTGAATCTTATCTCCCTAAGGTTACAGTG
*
47652744 GAGCAAGATGAA-ACTACAAATCCTATATCT
65 GAGCAAGATGAAGACTACAAATCCTATACCT
* * * * * ** * *
47652774 CTAAAGTTACTGTGGGTCAGAATGAAACTACAATGGTGAATCTTATCTCCCTAAAGTTGTAATGA
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGGTTACAGTGG
47652839 AGCAAGATGAAGA-TACAAATCCTATACCT
66 AGCAAGATGAAGACTACAAATCCTATACCT
* * * *
47652868 CTAAAGTTGCAGTGGGTCGGATTGAAGCTACCATGGTAAATCTTATCTCTCTAAGGATT-CAGTG
1 CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGG-TTACAGTG
* *
47652932 GAGTAAGATGAAG-CCACAAAT
65 GAGCAAGATGAAGACTACAAAT
47652953 ATTATATCCC
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
94 142 0.97
95 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (95 bp):
CTAAAGTTGCAGTGGGTCGGAATGAAACTACCATGGTGAATCTTATCTCCCTAAGGTTACAGTGG
AGCAAGATGAAGACTACAAATCCTATACCT
Found at i:47654146 original size:37 final size:37
Alignment explanation
Indices: 47654105--47654190 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
47654095 AGGGTCTAAT
47654105 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
1 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
47654142 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
1 ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
* *
47654179 ACGATGTCGTTT
1 ATGACGTCGTTT
47654191 AAGGACCGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (37 bp):
ATGACGTCGTTTTGGGTTTGACTTCTAGACGCCCAAA
Found at i:47655865 original size:13 final size:13
Alignment explanation
Indices: 47655847--47655872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47655837 TAAATCTAAC
47655847 ATTTTATTAAAAT
1 ATTTTATTAAAAT
47655860 ATTTTATTAAAAT
1 ATTTTATTAAAAT
47655873 GACTAAGTTT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTATTAAAAT
Found at i:47657537 original size:18 final size:16
Alignment explanation
Indices: 47657514--47657561 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 16
47657504 AACAATTTCC
47657514 TTTAATTAACTTAGAAAA
1 TTTAATTAA-TTA-AAAA
47657532 TTTAATTAATT--AAA
1 TTTAATTAATTAAAAA
47657546 TTTAATTAATTAAAAA
1 TTTAATTAATTAAAAA
47657562 ATCAAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.50
16 3 0.11
17 2 0.07
18 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAATTAATTAAAAA
Found at i:47664584 original size:43 final size:42
Alignment explanation
Indices: 47664356--47664727 Score: 419
Period size: 42 Copynumber: 9.0 Consensus size: 42
47664346 TGTGCTTACA
* * * *
47664356 GAAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCACTAAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
47664398 AAAATAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCCTAG
1 GAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
**
47664441 G-AAAAACTGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCGG
1 GAAAAAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
47664483 GAAAAAACGCCGCTAAAGAT-ATGTTCTTTAGCGGCGCTTGG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
47664524 GAAAAAACGACGCTAAAGATCATGTTCTTTAGCGGTGGTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
47664566 GAAGAAAACGCCGCTAAAGATCATG-------GCGGCGCTTGG
1 GAA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
47664602 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
47664644 GAAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGTGCTT-G
1 GAA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG
*
47664686 GTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 G-AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
47664728 TTTCACAAAC
Statistics
Matches: 285, Mismatches: 28, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
35 21 0.07
36 11 0.04
41 44 0.15
42 118 0.41
43 91 0.32
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (42 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:47664616 original size:78 final size:78
Alignment explanation
Indices: 47664442--47664661 Score: 309
Period size: 78 Copynumber: 2.7 Consensus size: 78
47664432 AGCGCCTAGG
**
47664442 AAAAACTGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCGGGAA-AAAACGCCGCTAAAGATATG
1 AAAAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATATG
47664506 TTCTTTAGCGGCGCTTGGGA
65 -----T-GCGGCGCTTGGGA
* * *
47664526 AAAAACGACGCTAAAGATCATGTTCTTTAGCGGTGGTTAGGAAGAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGAT-ATG
47664591 -GCGGCGCTTGGGA
65 TGCGGCGCTTGGGA
47664604 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA
47664662 AGTAATGTTC
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
78 68 0.54
83 32 0.25
84 23 0.18
85 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (78 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATATGT
GCGGCGCTTGGGA
Found at i:47665147 original size:21 final size:21
Alignment explanation
Indices: 47665123--47665191 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
47665113 CCTCTACTTG
*
47665123 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCCT
47665144 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* **
47665165 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
47665186 CTGCTT
1 CTGCTT
47665192 TAAGTTGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.01, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:47672379 original size:16 final size:16
Alignment explanation
Indices: 47672358--47672390 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47672348 ATTAAAAAAA
47672358 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47672374 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47672390 T
1 T
47672391 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:47672450 original size:65 final size:65
Alignment explanation
Indices: 47672374--47673035 Score: 1290
Period size: 65 Copynumber: 10.2 Consensus size: 65
47672364 TTATGTAAGT
*
47672374 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672439 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672504 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672569 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672634 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672699 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672764 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672829 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47672894 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* *
47672959 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAAGTTATGTATAATACT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
47673023 TGTAAGTTATGTA
1 TGTAAGTTATGTA
47673036 TTATATAATA
Statistics
Matches: 594, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
64 14 0.02
65 580 0.98
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (65 bp):
TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:47674107 original size:89 final size:89
Alignment explanation
Indices: 47673996--47676525 Score: 5024
Period size: 89 Copynumber: 28.4 Consensus size: 89
47673986 CGGGAAGAAA
* **
47673996 TTGACTGCCTATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATTAATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
*
47674061 CTGGATTAAACATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674085 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674150 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674174 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674239 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674263 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674328 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674352 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674417 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674441 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674506 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674530 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674595 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674619 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674684 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674708 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674773 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674797 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674862 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674886 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47674951 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47674975 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675040 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675064 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675129 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675153 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675218 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675242 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675307 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675331 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675396 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675420 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675485 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675509 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675574 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675598 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675663 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675687 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675752 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675776 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675841 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675865 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47675930 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47675954 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676019 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676043 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676108 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676132 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676197 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676221 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676286 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676310 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676375 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676399 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
47676464 CTGGATTAAGCATTTCTATATTAT
66 CTGGATTAAGCATTTCTATATTAT
47676488 TTGACTGCATATGACCAATGAATTTTGTCATATAAACA
1 TTGACTGCATATGACCAATGAATTTTGTCATATAAACA
47676526 GGGAGATTCG
Statistics
Matches: 2437, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 2437 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (89 bp):
TTGACTGCATATGACCAATGAATTTTGTCATATAAACAAATAAGATGTTTCATCCATGAAATGCA
CTGGATTAAGCATTTCTATATTAT
Found at i:47677872 original size:13 final size:14
Alignment explanation
Indices: 47677837--47677877 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
47677827 CAAACCCCTA
*
47677837 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
47677850 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
47677864 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
47677877 A
1 A
47677878 TCTTTGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:47683812 original size:35 final size:35
Alignment explanation
Indices: 47683772--47683842 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
47683762 GAAAAAACAC
47683772 ATAGACAAATCAACATACAAAAATAGAACACAGTA
1 ATAGACAAATCAACATACAAAAATAGAACACAGTA
*
47683807 ATAGACAAATCAGCATACAAAAATAGAACACAGTA
1 ATAGACAAATCAACATACAAAAATAGAACACAGTA
47683842 A
1 A
47683843 CAACCAATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (35 bp):
ATAGACAAATCAACATACAAAAATAGAACACAGTA
Found at i:47688554 original size:27 final size:27
Alignment explanation
Indices: 47688515--47688778 Score: 322
Period size: 27 Copynumber: 9.8 Consensus size: 27
47688505 ATAACATTAA
47688515 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* *
47688541 GCATAATAGTCATTTTATAACATAGTG
1 GCATAACAGTCATTTTATAACATAGGG
47688568 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* * *
47688595 GCATAATAGTCA-TTT-TACCATGTGAGG
1 GCATAACAGTCATTTTATAACAT-AG-GG
47688622 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* *
47688649 GCATAACCGTCATTTTATAAAATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
47688676 GCATAACCA-TCATTTCATAACATAGGG
1 GCATAA-CAGTCATTTTATAACATAGGG
* ** *
47688703 GCATAATAGTCATTTTACCACGT-GAGG
1 GCATAACAGTCATTTTATAACATAG-GG
* *
47688730 GCATAACAGTTATTTTATAACTTAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
47688757 GCATAATAGTCATTTTATAACA
1 GCATAACAGTCATTTTATAACA
47688779 GTTTGGGGGT
Statistics
Matches: 201, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.02
26 10 0.05
27 175 0.87
28 6 0.03
29 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:47688579 original size:54 final size:54
Alignment explanation
Indices: 47688515--47688778 Score: 356
Period size: 54 Copynumber: 4.9 Consensus size: 54
47688505 ATAACATTAA
47688515 GCAT-ACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACAT-AGTG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAG-G
** **
47688568 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCATGTGAGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
** *
47688622 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAAAAT-AGGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGA-GG
* ** *
47688676 GCATAACCA-TCATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
1 GCATAA-CAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
* *
47688730 GCATAACAGTTATTTTATAACTTAGGGGCATAATAGTCATTTTATAACA
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACA
47688779 GTTTGGGGGT
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
53 7 0.04
54 170 0.93
55 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (54 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATGAGG
Found at i:47688708 original size:108 final size:108
Alignment explanation
Indices: 47688515--47688776 Score: 429
Period size: 108 Copynumber: 2.4 Consensus size: 108
47688505 ATAACATTAA
* *
47688515 GCAT-ACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATAGTGGCATAACAGTC
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAACAGTC
* *
47688579 ATTTTATAACATAGGGGCATAATAGTCATTTTACCATGTGAGG
66 ATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
**
47688622 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAAAATAGGGGCATAACCA-T
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAA-CAGT
47688686 CATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
65 CATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
* *
47688730 GCATAACAGTTATTTTATAACTTAGGGGCATAATAGTCATTTTATAA
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAA
47688777 CAGTTTGGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
107 4 0.03
108 137 0.96
109 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (108 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAAAATAGGGGCATAACAGTC
ATTTCATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
Found at i:47695542 original size:21 final size:21
Alignment explanation
Indices: 47695516--47695555 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47695506 AAATTAGGAT
* *
47695516 ATAAAAATTAAATTAAAAACA
1 ATAAAAATAAAAATAAAAACA
47695537 ATAAAAATAAAAATAAAAA
1 ATAAAAATAAAAATAAAAA
47695556 ATGGCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAACA
Done.