Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 120 of 378
Found at i:33623409 original size:17 final size:18
Alignment explanation
Indices: 33623387--33623420 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33623377 CACATTGAAG
33623387 TGTTTT-AATGAAAACCT
1 TGTTTTCAATGAAAACCT
*
33623404 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
33623421 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCT
Found at i:33624602 original size:29 final size:29
Alignment explanation
Indices: 33624535--33624659 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
33624525 AAGTCTACAT
*
33624535 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
33624563 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
33624592 ACATTCGTATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* **
33624621 ACATTCCTATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
33624650 ACATTCATAT
1 ACATTCATAT
33624660 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 22 0.26
29 64 0.74
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:33624893 original size:16 final size:16
Alignment explanation
Indices: 33624869--33624903 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33624859 GTAGCCAAAC
33624869 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
33624885 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
33624901 TTT
1 TTT
33624904 TAGGATTTGC
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:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:33626734 original size:26 final size:27
Alignment explanation
Indices: 33626683--33626775 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
33626673 CATGGTTTGC
* *
33626683 CACAAAGGCTTTCAATTCATTTTACGT
1 CACAAAGGCTTTCATTTCATATTACGT
33626710 CACAAAGGCTTTC-TTTCATATTACGT
1 CACAAAGGCTTTCATTTCATATTACGT
* * * *
33626736 TACAAAGG-TTATCTTTTCATATTATGC
1 CACAAAGGCTT-TCATTTCATATTACGT
33626763 CACAAAGGCTTTC
1 CACAAAGGCTTTC
33626776 CTTATCTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 20 0.35
27 33 0.58
28 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (27 bp):
CACAAAGGCTTTCATTTCATATTACGT
Found at i:33629543 original size:40 final size:39
Alignment explanation
Indices: 33629383--33629576 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
33629373 TGTGTATGAA
* * *
33629383 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
33629422 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33629461 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33629500 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
33629540 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
33629577 GTTTGAACAG
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 96 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33637472 original size:40 final size:39
Alignment explanation
Indices: 33637312--33637505 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
33637302 TGTGTATGAA
* * *
33637312 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
33637351 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33637390 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33637429 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
33637469 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
33637506 GTTTGAACGA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 96 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33640293 original size:43 final size:42
Alignment explanation
Indices: 33640231--33640384 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
33640221 TACCACACCA
**
33640231 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
* * *
33640273 ATGCCAATAGCCCAGCTATGGTATTACATGAAATCTCGTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
* * *
33640316 ATGCCATATCCCAGATATAGTCTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGT-ATCG
*
33640358 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
33640385 CATAGTCTCG
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 58 0.60
43 39 0.40
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
Found at i:33644429 original size:16 final size:16
Alignment explanation
Indices: 33644408--33644445 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
33644398 AATGTTCTAA
33644408 ATGAATAGTGACTTGC
1 ATGAATAGTGACTTGC
33644424 ATGAATAGTGACTTGC
1 ATGAATAGTGACTTGC
33644440 ATGAAT
1 ATGAAT
33644446 TAATTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (16 bp):
ATGAATAGTGACTTGC
Found at i:33650786 original size:40 final size:40
Alignment explanation
Indices: 33650695--33650872 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
33650685 GAATGGTGTT
* * *
33650695 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAAC
* * *
33650736 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAAC
* * *
33650776 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAAC
* * * * *
33650816 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAAC
33650856 CGGGC-AATGTCCCGAAG
1 CGGGCTAA-GTCCCGAAG
33650873 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 91 0.78
41 24 0.21
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAAC
Found at i:33650893 original size:40 final size:41
Alignment explanation
Indices: 33650695--33650898 Score: 150
Period size: 40 Copynumber: 5.1 Consensus size: 41
33650685 GAATGGTGTT
** * * * *
33650695 CGGGCTAA-GTCCCGAAGGCTTTTGTGCTAAGTGACTAAAAC
1 CGGGCTAATGTCCCGAAGGCAATCGTGC-GAGTCACTATAAC
* * * * * * *
33650736 CGGGTTAA-GTCCCAAAGGCATTTGTGCGAGTTACCAAAAC
1 CGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAAC
* * *
33650776 CGGGTTAA-GTCCCGAAGGCATTCGTGCGAGTTACTA-AATC
1 CGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA-C
* *
33650816 CGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAAC
1 CGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAAC
* * * *
33650856 CGGGC-AATGTCCCGAAGACAATCGAGCGAGTCGCTATATC
1 CGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAAC
33650896 CGG
1 CGG
33650899 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.04
40 108 0.78
41 26 0.19
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
CGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAAC
Found at i:33650897 original size:80 final size:80
Alignment explanation
Indices: 33650728--33650898 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
33650718 GTGCTAAGTG
* * * * * *
33650728 ACTAAAACCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
* * * *
33650793 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTC
* * * *
33650808 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAA
1 ACTAAATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAA
33650872 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTC
* *
33650888 GCTATATCCGG
1 ACTAAATCCGG
33650899 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
79 2 0.03
80 72 0.97
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (80 bp):
ACTAAATCCGGGCTAAGTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:33653206 original size:25 final size:23
Alignment explanation
Indices: 33653178--33653234 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
33653168 AAGCTCCTCC
33653178 TGAGCTGATGAACAATAAGCTCTAT
1 TGAGCTGA--AACAATAAGCTCTAT
* *
33653203 TGAGCTGAAGCGATAAGCTCTAT
1 TGAGCTGAAACAATAAGCTCTAT
*
33653226 CGAGCTGAA
1 TGAGCTGAA
33653235 TAGTAATCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.72
25 8 0.28
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAATAAGCTCTAT
Found at i:33653940 original size:16 final size:16
Alignment explanation
Indices: 33653921--33653951 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33653911 CTTCTTCACT
33653921 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33653937 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33653952 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33653957 original size:20 final size:20
Alignment explanation
Indices: 33653918--33653957 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33653908 AAACTTCTTC
* *
33653918 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
33653938 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
33653958 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:33654324 original size:54 final size:53
Alignment explanation
Indices: 33654143--33654388 Score: 231
Period size: 54 Copynumber: 4.7 Consensus size: 53
33654133 ACACGGGTAC
* * * * *
33654143 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATG-AA
* *
33654192 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATGAA
* * *
33654245 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-ACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTAT-G-AA
* * *
33654299 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC-TTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-GTACCTTTGCCTTATG-AA
*
33654352 CCTTACCAATTGCCATGCCTTTG-CATGGTCTTACATG
1 -CTTACCAA-TGCCATGTC-TTGACATGGTCTTACATG
33654389 ATATCCTTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
49 35 0.21
52 12 0.07
53 39 0.23
54 46 0.28
55 30 0.18
56 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATGAA
Found at i:33654332 original size:107 final size:109
Alignment explanation
Indices: 33654190--33654388 Score: 305
Period size: 107 Copynumber: 1.8 Consensus size: 109
33654180 ATCCTTTTGA
* * *
33654190 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
33654253 -TGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
* * *
33654297 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
33654362 TGCCATGCCTTTGCATGGTCTTACATG
66 TGCCATGCCTTGGCATGGTCTTACATG
33654389 ATATCCTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 1 0.01
107 48 0.59
108 7 0.09
109 26 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
Found at i:33662720 original size:23 final size:20
Alignment explanation
Indices: 33662669--33662731 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 20
33662659 TTAGGGGCTT
*
33662669 TAAAATTTAT-AAAATAAAA
1 TAAAATTAATAAAAATAAAA
33662688 TAAAATTAATAAAAATAAAA
1 TAAAATTAATAAAAATAAAA
33662708 TATTTAAATTAATAAAAATAAAA
1 TA---AAATTAATAAAAATAAAA
33662731 T
1 T
33662732 TATACTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 9 0.23
20 11 0.28
23 19 0.49
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTAATAAAAATAAAA
Found at i:33667031 original size:48 final size:47
Alignment explanation
Indices: 33666961--33667322 Score: 294
Period size: 48 Copynumber: 7.6 Consensus size: 47
33666951 GTGTGCTAAA
*
33666961 GTAAGA-CATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATC-GCCACATTATGAGAGCTAGT
* * *
33667008 GTAAGACCATATCTAGGACATGGCATCG--ACATTGAGACGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGCCACATT---ATGAGAGCTAGT
* * ** * * *
33667056 GTAAGACCATGTCTAGAACATGGCATCAGCCTTGA-TATGTGAGCCAGC
1 GTAAGACCATGTCTGGGACATGGCATC-GCC-ACATTATGAGAGCTAGT
* *
33667104 GTAAGACCATGTCTGGGATATGGCATCG--GCATTGAT-ATGTATGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGCCACATT-ATGA-G-A-GCTAGT
* * *
33667152 GTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGTGAGCTTGT
1 GTAAGACCATGTCTGGGACATGGCA-TCGCCACATTATGAGAGCTAGT
* * *
33667200 GTAAGACCATGTCTAGGACATGGCATCG--GCATTAAGACGAGAACTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGCCACATTATGA-GAG--CTAGT
* * * * *
33667248 ATAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATC-GCCAC-ATTATGAGAGCTAGT
33667296 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGACCATGTCTGGGACATGGCATC
33667323 AGCAGTTTAC
Statistics
Matches: 252, Mismatches: 39, Indels: 47
0.75 0.12 0.14
Matches are distributed among these distances:
44 1 0.00
45 12 0.05
46 6 0.02
47 11 0.04
48 201 0.80
49 5 0.02
50 6 0.02
51 8 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGCCACATTATGAGAGCTAGT
Found at i:33667131 original size:96 final size:96
Alignment explanation
Indices: 33666961--33667322 Score: 453
Period size: 96 Copynumber: 3.8 Consensus size: 96
33666951 GTGTGCTAAA
* *
33666961 GTAAGA-CATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATATCTAGG
1 GTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGTGAGCCAGTGTAAGACCATGTCTAGG
*
33667025 ACATGGCATCGACATTGAGACGAGAGCTAGT
66 ACATGGCATCGGCATTGAGACGAGAGCTAGT
* * ** * *
33667056 GTAAGACCATGTCTAGAACATGGCATCAGCCTTGA-TATGTGAGCCAGCGTAAGACCATGTCTGG
1 GTAAGACCATGTCTGGGACATGGCATCAGCC-ACATTATGTGAGCCAGTGTAAGACCATGTCTAG
* * * *
33667120 GATATGGCATCGGCATTGATATGTA-TGCTAGT
65 GACATGGCATCGGCATTGAGACG-AGAGCTAGT
** **
33667152 GTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGTGAGCTTGTGTAAGACCATGTCTAGG
1 GTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGTGAGCCAGTGTAAGACCATGTCTAGG
* *
33667217 ACATGGCATCGGCATTAAGACGAGAACTAGT
66 ACATGGCATCGGCATTGAGACGAGAGCTAGT
* * * * *
33667248 ATAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCAGTGTAAGACCATGTCTGG
1 GTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATGTGAGCCAGTGTAAGACCATGTCTAG
33667312 GACATGGCATC
65 GACATGGCATC
33667323 AGCAGTTTAC
Statistics
Matches: 225, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
95 8 0.04
96 214 0.95
97 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (96 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGTGAGCCAGTGTAAGACCATGTCTAGG
ACATGGCATCGGCATTGAGACGAGAGCTAGT
Found at i:33667253 original size:144 final size:144
Alignment explanation
Indices: 33666962--33667321 Score: 392
Period size: 144 Copynumber: 2.5 Consensus size: 144
33666952 TGTGCTAAAG
* * * * *
33666962 TAAGA-CATGTCTGGGACATGGCATCAGCCA-C-ATTATGAGAGCCAGTGTAAGACCATATCTAG
1 TAAGACCATGTCTGGGACATGGCATC-GGCATCGA-CATGTGAGCCAGTGTAAGACCATGTCTGG
* * *
33667024 GACATGGCA-T--CGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTAGAACATGGCATCAGC
64 GACATGGCATTGGCCACATT---ATGTGAGCTAGTGTAAGACCATGTCTAGAACATGGCATCAGC
* * * * * * *
33667086 CTTGATATGTGAGCCAGCG
126 ATTAAGACGAGAACCAGCA
* * * *
33667105 TAAGACCATGTCTGGGATATGGCATCGGCATTGATATGT-ATGCTAGTGTAAGACCATGTCTGGG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGA-GCCAGTGTAAGACCATGTCTGGG
* * *
33667169 ACATGGCATTGGCCACATTATGTGAGCTTGTGTAAGACCATGTCTAGGACATGGCATCGGCATTA
65 ACATGGCATTGGCCACATTATGTGAGCTAGTGTAAGACCATGTCTAGAACATGGCATCAGCATTA
* *
33667234 AGACGAGAACTAGTA
130 AGACGAGAACCAGCA
*
33667249 TAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGGA
33667314 CATGGCAT
66 CATGGCAT
33667322 CAGCAGTTTA
Statistics
Matches: 182, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
143 9 0.05
144 164 0.90
145 3 0.02
147 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (144 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATTGGCCACATTATGTGAGCTAGTGTAAGACCATGTCTAGAACATGGCATCAGCATTAA
GACGAGAACCAGCA
Found at i:33670109 original size:28 final size:29
Alignment explanation
Indices: 33670078--33670149 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
33670068 AAAATTGTAC
*
33670078 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATGTATAT
33670106 AGCACTAAGTGTGCGAGCTGAATGTATAT
1 AGCACTAAGTGTGCGAGCTGAATGTATAT
33670135 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33670150 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATGTATAT
Found at i:33680675 original size:18 final size:18
Alignment explanation
Indices: 33680649--33680685 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33680639 CATGGGGCGC
*
33680649 ACCCGTATTGTTTGTGAA
1 ACCCATATTGTTTGTGAA
33680667 ACCCATATTGTTTGTGAA
1 ACCCATATTGTTTGTGAA
33680685 A
1 A
33680686 AAGGGAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (18 bp):
ACCCATATTGTTTGTGAA
Found at i:33684751 original size:24 final size:24
Alignment explanation
Indices: 33684719--33684781 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
33684709 AATCTCAAAT
33684719 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33684743 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33684767 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
33684782 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:33688110 original size:14 final size:15
Alignment explanation
Indices: 33688082--33688110 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33688072 CTCTTTCAAG
33688082 GACAAGAATAATCCA
1 GACAAGAATAATCCA
33688097 GACAAGAA-AATCCA
1 GACAAGAATAATCCA
33688111 TATGAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (15 bp):
GACAAGAATAATCCA
Found at i:33688777 original size:15 final size:15
Alignment explanation
Indices: 33688737--33688774 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
33688727 AAAGCCCAGA
33688737 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
33688752 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
33688767 AT-AAGAAA
1 ATAAAGAAA
33688775 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:33690624 original size:16 final size:17
Alignment explanation
Indices: 33690603--33690637 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33690593 GCTTTGGAGA
33690603 GTCACA-CGCCCGTGTG
1 GTCACACCGCCCGTGTG
33690619 GTCACACCCGCCCGTGTG
1 GTCACA-CCGCCCGTGTG
33690637 G
1 G
33690638 CTTGGGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.11, C:0.40, G:0.31, T:0.17
Consensus pattern (17 bp):
GTCACACCGCCCGTGTG
Found at i:33698655 original size:2 final size:2
Alignment explanation
Indices: 33698648--33698691 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33698638 TTTTGGTTTG
33698648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33698690 TA
1 TA
33698692 AGCCATGCGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33701517 original size:7 final size:7
Alignment explanation
Indices: 33701505--33701537 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
33701495 AACTTATAAC
33701505 CCTACCT
1 CCTACCT
33701512 CCTACCT
1 CCTACCT
33701519 CCTACCT
1 CCTACCT
*
33701526 CTTA-CT
1 CCTACCT
33701532 CCTACC
1 CCTACC
33701538 ATCCGTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.15, C:0.55, G:0.00, T:0.30
Consensus pattern (7 bp):
CCTACCT
Found at i:33706799 original size:27 final size:27
Alignment explanation
Indices: 33706769--33706922 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
33706759 ATAGTGAATC
33706769 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
33706796 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
33706824 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
33706851 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
33706880 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
33706909 TGCACACTTAGTGC
1 CGCACACTTAGTGC
33706923 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:33706816 original size:29 final size:28
Alignment explanation
Indices: 33706769--33706922 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
33706759 ATAGTGAATC
33706769 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
33706796 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
33706824 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
33706851 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
33706880 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
33706909 TGCACACTTAGTGC
1 CGCACACTTAGTGC
33706923 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:33706840 original size:55 final size:55
Alignment explanation
Indices: 33706769--33706872 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
33706759 ATAGTGAATC
33706769 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
33706824 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
33706873 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:33714622 original size:27 final size:27
Alignment explanation
Indices: 33714592--33714745 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
33714582 ATAGTGAATC
33714592 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
33714619 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
33714647 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
33714674 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
33714703 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
33714732 TGCACACTTAGTGC
1 CGCACACTTAGTGC
33714746 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:33714639 original size:29 final size:28
Alignment explanation
Indices: 33714592--33714745 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
33714582 ATAGTGAATC
33714592 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
33714619 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
33714647 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
33714674 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
33714703 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
33714732 TGCACACTTAGTGC
1 CGCACACTTAGTGC
33714746 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:33714663 original size:55 final size:55
Alignment explanation
Indices: 33714592--33714695 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
33714582 ATAGTGAATC
33714592 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
33714647 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
33714696 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:33719306 original size:29 final size:28
Alignment explanation
Indices: 33719269--33719341 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
33719259 TGAATGTAAC
*
33719269 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-T
* *
33719298 TGGGCCTAATGGACCATATGAATATGAT
1 TGGGCCTAATGGGCCATATAAATATGAT
* *
33719326 TGGGCTTAAGGGGCCA
1 TGGGCCTAATGGGCCA
33719342 GATATAGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 14 0.37
29 24 0.63
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATATGAT
Found at i:33720468 original size:17 final size:19
Alignment explanation
Indices: 33720426--33720469 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33720416 ATGAAATTTT
*
33720426 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33720445 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33720463 AA-TATTA
1 AATTATTA
33720470 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33722291 original size:28 final size:28
Alignment explanation
Indices: 33722259--33722327 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33722249 GCGTAGATCA
33722259 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
33722287 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
33722315 CGATA-TACCCCTA
1 CGAAATTACCCCTA
33722328 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:33724749 original size:17 final size:19
Alignment explanation
Indices: 33724707--33724750 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33724697 ATGAAATTTT
*
33724707 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33724726 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33724744 AA-TATTA
1 AATTATTA
33724751 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33726576 original size:28 final size:28
Alignment explanation
Indices: 33726544--33726612 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33726534 GCGTAGATCA
33726544 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
33726572 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
33726600 CGATA-TACCCCTA
1 CGAAATTACCCCTA
33726613 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:33732443 original size:20 final size:20
Alignment explanation
Indices: 33732418--33732458 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33732408 TGTTAGAGAA
33732418 CAGCATATTGGACTGACCCG
1 CAGCATATTGGACTGACCCG
33732438 CAGCATATTGGACTGACCCG
1 CAGCATATTGGACTGACCCG
33732458 C
1 C
33732459 TATGAGTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (20 bp):
CAGCATATTGGACTGACCCG
Found at i:33736054 original size:21 final size:19
Alignment explanation
Indices: 33736029--33736078 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
33736019 AATATAGACT
33736029 TATATTCTAAAATTTAAAATA
1 TATATT-TAAAA-TTAAAATA
* *
33736050 TATATTTTAAATTAGAATA
1 TATATTTAAAATTAAAATA
*
33736069 TATATATAAA
1 TATATTTAAA
33736079 TAAAGATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.60
20 4 0.16
21 6 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TATATTTAAAATTAAAATA
Found at i:33736951 original size:105 final size:110
Alignment explanation
Indices: 33736767--33736965 Score: 336
Period size: 105 Copynumber: 1.8 Consensus size: 110
33736757 AATTATCATA
33736767 ATTTAAATATGTATTGAAAAATCTTTATATATATATATATATATATTCTAACTTAAAATATATAT
1 ATTTAAATATGTATTGAAAAATC-TTATATATATATATATATATATTCTAACTTAAAATATATAT
33736832 TTTAAAATTTCAAAATTCATAAATGTTACATTTAAACTAGTCTTAC
65 TTTAAAATTTCAAAATTCATAAATGTTACATTTAAACTAGTCTTAC
* *
33736878 ATTTAAGTATGTATTGAAAAATC-T-T-TAT-T-TATATATATATTCTAATTTAAAATATATATT
1 ATTTAAATATGTATTGAAAAATCTTATATATATATATATATATATTCTAACTTAAAATATATATT
33736938 TTAAAATTTCAAAATTCATAAATGTTAC
66 TTAAAATTTCAAAATTCATAAATGTTAC
33736966 TGTAACGCCC
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
105 58 0.67
106 1 0.01
107 3 0.03
108 1 0.01
109 1 0.01
111 22 0.26
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (110 bp):
ATTTAAATATGTATTGAAAAATCTTATATATATATATATATATATTCTAACTTAAAATATATATT
TTAAAATTTCAAAATTCATAAATGTTACATTTAAACTAGTCTTAC
Found at i:33737816 original size:54 final size:54
Alignment explanation
Indices: 33737733--33737878 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 54
33737723 GGATAAGTTG
* * *
33737733 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGA
* *
33737787 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGA
* * * *
33737841 TAAAATTACCGAGATACCCTTGTGGGGTAAAAATTACC
1 TAGAATTACCGAAATACCCTTGTAGGGT-AGAATTACC
33737879 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 74 0.91
55 7 0.09
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGA
Found at i:33737868 original size:27 final size:27
Alignment explanation
Indices: 33737736--33737878 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
33737726 TAAGTTGTAG
* *
33737736 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
* *
33737763 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAA
*
33737790 AATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCCTGTAGGGTA-A
*
33737818 AA-TACCGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
* * *
33737844 AATTACCGAGATACCCTTGTGGGGTAAA
1 AATTACCGAAATACCCCTGTAGGGT-AA
33737872 AATTACC
1 AATTACC
33737879 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 88 0.86
28 11 0.11
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAA
Found at i:33740079 original size:53 final size:53
Alignment explanation
Indices: 33739999--33740206 Score: 184
Period size: 53 Copynumber: 3.9 Consensus size: 53
33739989 TTCCTTTTTA
* *
33739999 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACTTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACTTTATG
* * * * * * * *
33740052 AACTCACCATTGCCACGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACTTTAT-G
** * * * * * *
33740106 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA-A
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT-ACTT-TATG
* * *
33740161 AACTTACCAATGCCATGCCTTGGCATGGCCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
33740207 AACCCTAATG
Statistics
Matches: 118, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 33 0.28
56 2 0.02
57 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACTTTATG
Found at i:33751101 original size:27 final size:27
Alignment explanation
Indices: 33751077--33751153 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
33751067 AATACCCTGG
*
33751077 TTTGTAAAATTACTAAAATACCCCTTA
1 TTTGTAAAATTACTAAAATACCCCTAA
*
33751104 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACTAAAATACCCCTAA
* *
33751131 TTTGTGAAATTACTGAAATACCC
1 TTTGTAAAATTACTAAAATACCC
33751154 TCGACCTGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.34
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAATACCCCTAA
Found at i:33751167 original size:27 final size:27
Alignment explanation
Indices: 33751137--33751211 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
33751127 CTAATTTGTG
33751137 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
33751164 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
33751191 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
33751212 TTTACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:33751177 original size:54 final size:54
Alignment explanation
Indices: 33751055--33751207 Score: 141
Period size: 54 Copynumber: 2.9 Consensus size: 54
33751045 TTTAGTTTAC
** * **
33751055 TAAAATTATCGAAATA-CCCTGGTTTGTAAAATTACTAAAATACCCCTTATTTG
1 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACTAAAATACCCCTGACCTG
* * * *
33751108 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACCTG
1 TAAAATTATCGAAATACCCCTAATTTGTAAAATTACTAAAATACCCCT-GACCTG
* * * * *
33751162 TAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 TAAAATTATCGAAATACCCCT-AATTTGTAAAATTACTAAAATACCC
33751208 TCGATTTACA
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 22 0.28
54 54 0.69
55 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTATCGAAATACCCCTAATTTGTAAAATTACTAAAATACCCCTGACCTG
Found at i:33751260 original size:27 final size:27
Alignment explanation
Indices: 33751137--33751262 Score: 101
Period size: 27 Copynumber: 4.7 Consensus size: 27
33751127 CTAATTTGTG
* **
33751137 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* **
33751164 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* *
33751191 AAATTAC-CAAAGTACCCTCGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* * *** * *
33751218 GAATTACCGTTTTACCCTCAATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
33751245 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
33751263 TGTAGGGTAG
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:33751276 original size:27 final size:27
Alignment explanation
Indices: 33751246--33751385 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
33751236 CAATTTACAA
33751246 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
33751273 AATTACCG-AATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
33751299 AATTACTGAAATACCCTTGTATGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* ** *
33751326 AAATACCAAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
33751353 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCTTGTAGGGTAG
33751380 AATTAC
1 AATTAC
33751386 CATTTTGCCC
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 23 0.25
27 68 0.75
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:33751309 original size:53 final size:54
Alignment explanation
Indices: 33751246--33751387 Score: 189
Period size: 54 Copynumber: 2.6 Consensus size: 54
33751236 CAATTTACAA
* *
33751246 AATTACTGAAATACCCTTGTAGGGTAGAATTACC-GAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCATATAGGGTAG
* * *
33751299 AATTACTGAAATACCCTTGTATGGTAGAAATACCAAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCATATAGGGTAG
* * *
33751353 AATTA-TCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCA
33751388 TTTTGCCCCT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 33 0.43
54 44 0.57
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCATATAGGGTAG
Found at i:33751672 original size:24 final size:24
Alignment explanation
Indices: 33751590--33751695 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 24
33751580 AGGAAGTGCT
33751590 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
33751615 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTAT-G
* *
33751640 AAAAGGGCTTTGCCCTAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
33751663 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
33751690 ATAAAG
1 A-AAAG
33751696 CAGCTATGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.07
24 12 0.17
25 43 0.62
26 1 0.01
27 4 0.06
28 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:33755371 original size:40 final size:40
Alignment explanation
Indices: 33755316--33755574 Score: 473
Period size: 40 Copynumber: 6.5 Consensus size: 40
33755306 CATTTGAATG
* *
33755316 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
*
33755356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
* *
33755396 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
33755436 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
33755476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
33755516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
33755556 ATATCCGGGCTAAGACCCG
1 ATATCCGGGCTAAGACCCG
33755575 TTATATCCGG
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTT
Found at i:33755579 original size:21 final size:21
Alignment explanation
Indices: 33755553--33755595 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
33755543 TGTGCCAGTT
33755553 GTTATATCCGGGCTAAGACCC
1 GTTATATCCGGGCTAAGACCC
33755574 GTTATATCCGGGCTAAGACCC
1 GTTATATCCGGGCTAAGACCC
33755595 G
1 G
33755596 AAGGCATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (21 bp):
GTTATATCCGGGCTAAGACCC
Found at i:33755608 original size:61 final size:61
Alignment explanation
Indices: 33755513--33755635 Score: 201
Period size: 61 Copynumber: 2.0 Consensus size: 61
33755503 TGTGCCAGTT
* *
33755513 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTTATATCCGGGCTAAGACCC
1 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCC
* * *
33755574 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCAGGTTAAGACCC
1 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCC
33755635 G
1 G
33755636 AAGGCAATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (61 bp):
GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCC
Found at i:33755655 original size:101 final size:100
Alignment explanation
Indices: 33755473--33755668 Score: 302
Period size: 101 Copynumber: 1.9 Consensus size: 100
33755463 TGTGCCAGTT
* *
33755473 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTTATATCCGGGCTAAGACCCGAAG
1 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCCGAAG
* *
33755538 GCATTTGTGCCAGTTGTTATATCCGGGCTAAGACCC
66 GCAATTGGGCCAGTTGTTATATCC-GGCTAAGACCC
* * *
33755574 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCAGGTTAAGACCCGAAG
1 GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCCGAAG
**
33755639 GCAATTGGGCGTGTTGTTATATCCGGCTAA
66 GCAATTGGGCCAGTTGTTATATCCGGCTAA
33755669 ATCCCGAAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 6 0.07
101 80 0.93
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (100 bp):
GTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCTATATCCAGGCTAAGACCCGAAG
GCAATTGGGCCAGTTGTTATATCCGGCTAAGACCC
Found at i:33762839 original size:40 final size:40
Alignment explanation
Indices: 33762780--33762978 Score: 389
Period size: 40 Copynumber: 5.0 Consensus size: 40
33762770 CATTTGAATG
*
33762780 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
33762820 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
33762860 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
33762900 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
33762940 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT
33762979 GCTAAGAGTT
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:33770947 original size:31 final size:31
Alignment explanation
Indices: 33770910--33770971 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33770900 ATCTGGGCTA
33770910 AGCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 AGCCCGAAGGCATTTGTGCGAGTTGTTATAT
33770941 AGCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 AGCCCGAAGGCATTTGTGCGAGTTGTTATAT
33770972 CTGGGCTACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (31 bp):
AGCCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:33770998 original size:40 final size:40
Alignment explanation
Indices: 33770943--33771187 Score: 370
Period size: 40 Copynumber: 6.2 Consensus size: 40
33770933 TGTTATATAG
* *
33770943 CCCGAAGGCATTTGTGCGAGTTGTTATATCTGGGCTACGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
33770983 CCCGAAGGCATTTGTGC-AGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
*
33771022 CCCGAAGGCATTTGTGCCAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
33771062 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
* * *
33771102 CCCGAAGGCATTTGTGCGAGTTGCTATGTCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
* * * *
33771142 CCCGAAGGCAATTGGGCGTGTGGTTATATCC-GGCTAA-A
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
33771180 TCCCGAAG
1 -CCCGAAG
33771188 AAACTTGGGT
Statistics
Matches: 190, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 49 0.26
40 140 0.74
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
Found at i:33771177 original size:119 final size:119
Alignment explanation
Indices: 33770943--33771187 Score: 368
Period size: 119 Copynumber: 2.1 Consensus size: 119
33770933 TGTTATATAG
* * *
33770943 CCCGAAGGCATTTGTGCGAGTTGTTATATCTGGGCTACGACCCGAAGGCATTTGTGCAGTTGTTA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTTGCTA
* * *
33771008 TATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGTTATATCCGGGCTAAGA-
66 TATCCGGGCTAAGACCCGAAGGCAATTGGGCCAGTGGTTATATCCGGGCTAA-AT
33771062 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTTGCT
* * **
33771127 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCC-GGCTAAAT
65 ATATCCGGGCTAAGACCCGAAGGCAATTGGGCCAGTGGTTATATCCGGGCTAAAT
33771181 CCCGAAG
1 CCCGAAG
33771188 AAACTTGGGT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
118 1 0.01
119 68 0.60
120 45 0.39
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (119 bp):
CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTTGCTA
TATCCGGGCTAAGACCCGAAGGCAATTGGGCCAGTGGTTATATCCGGGCTAAAT
Found at i:33776287 original size:12 final size:13
Alignment explanation
Indices: 33776264--33776289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33776254 CTTAGTCCCG
33776264 TTTTTAATTTTTT
1 TTTTTAATTTTTT
33776277 TTTTTAATTTTTT
1 TTTTTAATTTTTT
33776290 GAAGTTGTTA
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:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTAATTTTTT
Found at i:33780892 original size:65 final size:64
Alignment explanation
Indices: 33780751--33780932 Score: 190
Period size: 64 Copynumber: 2.8 Consensus size: 64
33780741 CAATAGTTCG
** * * * * *
33780751 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTCTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCCCGT
33780813 A
64 A
* * * *
33780814 GCTCTCTTGTCTACATGGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGT-CTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
* * *
33780879 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTCTACACATAGAACCACCCATGCGACCTAGCTACAT
33780933 CATAATGTCT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.01
63 17 0.17
64 51 0.52
65 28 0.28
66 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTCTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:33786584 original size:40 final size:40
Alignment explanation
Indices: 33786538--33786669 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
33786528 TTCGCACGGT
* *
33786538 CTTAGCCCGGATAGAATAACTCGCACGAA-TGCCTTCGGGC
1 CTTAGCCCGGATAGAACAACTAGCAC-AATTGCCTTCGGGC
* * *
33786578 CTTAGCCCGGATATAACCACTAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATAGAACAACTAGCACAATTGCCTTCGGGC
* * *** * * *
33786618 CTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGG-
1 CTTAGCCCGGATAGAACAACTAGCACAATTGCCTTCGGGC
33786657 CTTAGCCCGGATA
1 CTTAGCCCGGATA
33786670 TCATTCAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 14 0.18
40 64 0.82
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTAGCCCGGATAGAACAACTAGCACAATTGCCTTCGGGC
Found at i:33787519 original size:17 final size:19
Alignment explanation
Indices: 33787496--33787541 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
33787486 AAGAAGCATG
33787496 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
33787514 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
33787532 AATCATGCTC
1 AATCATGCTC
33787542 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:33788595 original size:48 final size:48
Alignment explanation
Indices: 33788422--33788592 Score: 229
Period size: 48 Copynumber: 3.6 Consensus size: 48
33788412 TGAGATTCTA
*
33788422 TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* * *
33788470 TGTAAGACTATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* * * * *
33788518 TGGAAGACCATGCCTGGGACATGGCATTGGCGATGATATGTG-GATTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTG--CCAG
33788566 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
33788593 TGGTACTTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
Found at i:33800278 original size:38 final size:38
Alignment explanation
Indices: 33800227--33800658 Score: 542
Period size: 38 Copynumber: 11.3 Consensus size: 38
33800217 ATATTCGATG
* * * *
33800227 TATATTCGGGTTAAATCCTGTAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800265 TATATCCGGGTTAAATCCCGCAAGCTTCCTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
33800303 TATATTCAGGTTAAATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800341 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800379 TATATTCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800417 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800455 TATATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAT
* *
33800495 AATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
33800533 TATATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
33800573 AATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTGT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
33800611 TATATCCGGGATAAATCTTC-CAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATC-CCGCAGGCTTCGTGCTGGTAT
*
33800649 TATATTCGGG
1 TATATCCGGG
33800659 CCTTCGTGCC
Statistics
Matches: 341, Mismatches: 48, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
38 267 0.78
39 15 0.04
40 59 0.17
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:33802567 original size:20 final size:21
Alignment explanation
Indices: 33802524--33802569 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
33802514 ACTGTTTTGT
33802524 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
33802544 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
33802563 TATGGGC
1 TATGGGC
33802570 AAGGCCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:33803443 original size:48 final size:48
Alignment explanation
Indices: 33803368--33803547 Score: 279
Period size: 48 Copynumber: 3.8 Consensus size: 48
33803358 GGGTGTTACA
*
33803368 ATGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
33803416 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
33803464 ATGTGCCAGTGTAAGGCCATGTCTAGGACATGGCATCAGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
33803512 ATGTGTCAATGTAAGACCATGTCTGGGACATGGCAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
33803548 TGGTACTTTA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:33804812 original size:19 final size:19
Alignment explanation
Indices: 33804788--33804826 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33804778 TAGAGAGTTA
33804788 CATGTCAAGGGCACACGGG
1 CATGTCAAGGGCACACGGG
33804807 CATGTCAAGGGCACACGGG
1 CATGTCAAGGGCACACGGG
33804826 C
1 C
33804827 GTACCCTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.28, G:0.36, T:0.10
Consensus pattern (19 bp):
CATGTCAAGGGCACACGGG
Found at i:33811585 original size:43 final size:43
Alignment explanation
Indices: 33811524--33811636 Score: 174
Period size: 43 Copynumber: 2.6 Consensus size: 43
33811514 AGTACAGGGG
*
33811524 ACACATGGCCTAACCACATGCCCGTGTTACCAGGCCATGTGTC
1 ACACACGGCCTAACCACATGCCCGTGTTACCAGGCCATGTGTC
* *
33811567 ACACACGGCCTAACCACATGCCTGTGTTACCATGCCATGTGTC
1 ACACACGGCCTAACCACATGCCCGTGTTACCAGGCCATGTGTC
*
33811610 ACACACGGTCTAGA-CACATGCCCGTGT
1 ACACACGGCCTA-ACCACATGCCCGTGT
33811637 GTCTGCCTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (43 bp):
ACACACGGCCTAACCACATGCCCGTGTTACCAGGCCATGTGTC
Found at i:33812155 original size:14 final size:14
Alignment explanation
Indices: 33812136--33812163 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33812126 CTTAGTAAGT
33812136 TTGTATAATAGAAA
1 TTGTATAATAGAAA
33812150 TTGTATAATAGAAA
1 TTGTATAATAGAAA
33812164 CTAAACCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TTGTATAATAGAAA
Found at i:33813224 original size:20 final size:20
Alignment explanation
Indices: 33813201--33813239 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33813191 ATTTTTACAT
33813201 AAAATTTAAGAATTTTTCCC
1 AAAATTTAAGAATTTTTCCC
* *
33813221 AAAATTTTAGTATTTTTCC
1 AAAATTTAAGAATTTTTCC
33813240 TTTAATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAATTTAAGAATTTTTCCC
Found at i:33816276 original size:40 final size:40
Alignment explanation
Indices: 33816231--33816395 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
33816221 CGGAATATAA
33816231 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33816271 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
33816311 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
33816349 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
33816388 CCGGATAT
1 CCGGATAT
33816396 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.29
39 14 0.14
40 59 0.57
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33816379 original size:78 final size:77
Alignment explanation
Indices: 33816247--33816394 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
33816237 ATAATCACGT
*
33816247 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
33816312 CGGATAGCCACTA
65 CGGATAGCCACTA
* * ** * *
33816325 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
33816388 CCGGATA
64 CCGGATA
33816395 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAGCCACTA
Found at i:33824279 original size:40 final size:40
Alignment explanation
Indices: 33824234--33824398 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
33824224 CGGAATATAA
33824234 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33824274 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
33824314 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
33824352 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
33824391 CCGGATAT
1 CCGGATAT
33824399 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.29
39 14 0.14
40 59 0.57
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33824382 original size:78 final size:77
Alignment explanation
Indices: 33824250--33824397 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
33824240 ATAATCACGT
*
33824250 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
33824315 CGGATAGCCACTA
65 CGGATAGCCACTA
* * ** * *
33824328 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
33824391 CCGGATA
64 CCGGATA
33824398 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAGCCACTA
Found at i:33834109 original size:17 final size:17
Alignment explanation
Indices: 33834077--33834110 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33834067 TGAATGGTGG
33834077 ACACATAAACCGAAAAC
1 ACACATAAACCGAAAAC
33834094 ACACGATAAACC-AAAAC
1 ACAC-ATAAACCGAAAAC
33834111 CATGCCATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.29, G:0.06, T:0.06
Consensus pattern (17 bp):
ACACATAAACCGAAAAC
Found at i:33837392 original size:43 final size:42
Alignment explanation
Indices: 33837329--33837450 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
33837319 TAAGATGCCA
* *
33837329 ATGCCATATCCCAGATATGGTCTTACATGGGATCACGTATCG
1 ATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCG
* * * * *
33837371 ATGCCGATAG-CCTAGTTATGGTCTTACACGATG-TCTCATATCG
1 ATGCC-AT-GTCCCAGATATGGTCTTACATG-GGATCACATATCG
*
33837414 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGATATGGTCTTACATGGGATCACA
33837451 AATAACCCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCG
Found at i:33839214 original size:9 final size:9
Alignment explanation
Indices: 33839200--33839232 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
33839190 ATGAATTTAA
33839200 TCATACATT
1 TCATACATT
33839209 TCATACATT
1 TCATACATT
33839218 TCATACATT
1 TCATACATT
33839227 TCATAC
1 TCATAC
33839233 TTAGACAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (9 bp):
TCATACATT
Found at i:33840731 original size:46 final size:47
Alignment explanation
Indices: 33840587--33840803 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 47
33840577 TGTGTAAGAT
* * * **
33840587 AGTGTAAGACATGTATGGGGCATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAT-AGAGCC
* * * * * *
33840633 AGTGTAAGACCATATTTGGGACATGGCATTGACACT-GAGAC-TAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGACATAGAGCC
33840681 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAGAGCC
* *
33840727 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAG--AT-GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACATAGAGCC
33840771 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33840804 ACAGATATAG
Statistics
Matches: 141, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 13 0.09
45 18 0.13
46 63 0.45
47 25 0.18
48 19 0.13
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAGAGCC
Found at i:33840836 original size:50 final size:45
Alignment explanation
Indices: 33840632--33840855 Score: 188
Period size: 46 Copynumber: 4.8 Consensus size: 45
33840622 TTATGAGAGC
* * * *
33840632 CAGTGTAAGACCATATTTGGGACATGGCATTGACACTGAGACTAGTG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAGA-T-GTGA
* ** *
33840679 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAG--ATGTGA
*
33840726 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAGATGTGA
*
33840770 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATAGTAGAA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAGAT-GT-G-A
* *
33840819 CTTGTGTAAGACCATGTCTAGGACATGGCATCGGCAC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
33840856 CTGACTCCAT
Statistics
Matches: 149, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
44 13 0.09
45 17 0.11
46 55 0.37
47 19 0.13
48 11 0.07
49 1 0.01
50 33 0.22
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGTGA
Found at i:33842916 original size:42 final size:43
Alignment explanation
Indices: 33842843--33842944 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
33842833 CACAAAAGAT
* *
33842843 CATGACTTTTAGCGGCGTTTGTGGGAAAAGCGTC-ACTAAAAGC
1 CATGGCTTTTAGTGGCGTTTGTGGGAAAAGCG-CAACTAAAAGC
*** *
33842886 CATGGC-TTTAGTGGCGTTTGTGGTTCAAGCGCAACTAAAAGT
1 CATGGCTTTTAGTGGCGTTTGTGGGAAAAGCGCAACTAAAAGC
*
33842928 CATGTCTTTTAGTGGCG
1 CATGGCTTTTAGTGGCG
33842945 CTATTATTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 34 0.68
43 15 0.30
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
CATGGCTTTTAGTGGCGTTTGTGGGAAAAGCGCAACTAAAAGC
Found at i:33842967 original size:43 final size:43
Alignment explanation
Indices: 33842920--33843009 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
33842910 TCAAGCGCAA
33842920 CTAAAAGTCATGTCTTTTAGTGGCGCTATTATTACAAACGCCG
1 CTAAAAGTCATGTCTTTTAGTGGCGCTATTATTACAAACGCCG
* * *
33842963 CTAAAAGTCATGTCTTTTAGTTGCGCTTTTGTTACAAACGCCG
1 CTAAAAGTCATGTCTTTTAGTGGCGCTATTATTACAAACGCCG
33843006 CTAA
1 CTAA
33843010 TTTTGGCAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (43 bp):
CTAAAAGTCATGTCTTTTAGTGGCGCTATTATTACAAACGCCG
Found at i:33843838 original size:13 final size:14
Alignment explanation
Indices: 33843812--33843843 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
33843802 ACTAACGACG
33843812 AATTAAACCATTAT
1 AATTAAACCATTAT
33843826 AATTAAA-CATTAT
1 AATTAAACCATTAT
33843839 AATTA
1 AATTA
33843844 TTTATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:33849012 original size:17 final size:18
Alignment explanation
Indices: 33848970--33849018 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
33848960 AGTTGAAAAG
33848970 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
33848989 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
33849006 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
33849019 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:33849906 original size:40 final size:40
Alignment explanation
Indices: 33849840--33850006 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33849830 AAATTGAATG
* * *
33849840 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
33849879 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
33849919 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
33849959 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
33849999 ATATCCGG
1 ATATCCGG
33850007 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:33857015 original size:17 final size:18
Alignment explanation
Indices: 33856973--33857021 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
33856963 AGTTGAAAAG
33856973 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
33856992 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
33857009 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
33857022 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:33857909 original size:40 final size:40
Alignment explanation
Indices: 33857843--33858009 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33857833 AAATTGAATG
* * *
33857843 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
33857882 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
33857922 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
33857962 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
33858002 ATATCCGG
1 ATATCCGG
33858010 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:33860110 original size:9 final size:9
Alignment explanation
Indices: 33860096--33860290 Score: 89
Period size: 9 Copynumber: 21.7 Consensus size: 9
33860086 TAAGTATAAT
33860096 TAAGTTATG
1 TAAGTTATG
*
33860105 TAAGTTATAA
1 TAAGTTAT-G
* * *
33860115 TATGATATA
1 TAAGTTATG
*
33860124 T-ATTTATG
1 TAAGTTATG
33860132 T-A-TTATG
1 TAAGTTATG
33860139 TAAGTTATG
1 TAAGTTATG
*
33860148 TAAATTATG
1 TAAGTTATG
33860157 TAAGTTATG
1 TAAGTTATG
* * *
33860166 AAATTTTATCTT
1 TAA-GTTA--TG
**
33860178 TAAACTATG
1 TAAGTTATG
*
33860187 TAAGTTGTG
1 TAAGTTATG
33860196 T-A-TTATG
1 TAAGTTATG
33860203 TAAGTTATG
1 TAAGTTATG
* *
33860212 TAAATTATA
1 TAAGTTATG
33860221 TAAGTTATG
1 TAAGTTATG
* * *
33860230 AAATTTGATCTT
1 TAAGTT-A--TG
*
33860242 TAAATTATG
1 TAAGTTATG
33860251 TAAGTTATG
1 TAAGTTATG
33860260 T-A-TTATG
1 TAAGTTATG
*
33860267 TAAATTATG
1 TAAGTTATG
*
33860276 TAAATTATG
1 TAAGTTATG
*
33860285 TGAGTT
1 TAAGTT
33860291 GCTGGTGAAC
Statistics
Matches: 140, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
7 17 0.12
8 10 0.07
9 92 0.66
10 10 0.07
11 3 0.02
12 8 0.06
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:33860187 original size:30 final size:30
Alignment explanation
Indices: 33860148--33860259 Score: 111
Period size: 30 Copynumber: 3.6 Consensus size: 30
33860138 GTAAGTTATG
33860148 TAAATTATGTAAGTTATGAAATTTTATCTT
1 TAAATTATGTAAGTTATGAAATTTTATCTT
* * *
33860178 TAAACTATGTAAGTTGTG-TATTATGTAAGT-TAT
1 TAAATTATGTAAGTTATGAAATT-T-T-A-TCT-T
* *
33860211 GTAAATTATATAAGTTATGAAATTTGATCTT
1 -TAAATTATGTAAGTTATGAAATTTTATCTT
33860242 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
33860260 TATTATGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
29 3 0.05
30 34 0.52
31 3 0.05
32 4 0.06
33 2 0.03
34 16 0.25
35 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTTATCTT
Found at i:33860205 original size:64 final size:64
Alignment explanation
Indices: 33860127--33860290 Score: 274
Period size: 64 Copynumber: 2.6 Consensus size: 64
33860117 TGATATATAT
*
33860127 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTTATCTTTAAACTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAACTATGTAAG
* * *
33860191 TTGTGTATTATGTAAGTTATGTAAATTATATAAGTTATGAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAACTATGTAAG
* *
33860255 TTATGTATTATGTAAATTATGTAAATTATGTGAGTT
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTT
33860291 GCTGGTGAAC
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAACTATGTAAG
Found at i:33860492 original size:99 final size:99
Alignment explanation
Indices: 33860384--33860762 Score: 431
Period size: 99 Copynumber: 3.7 Consensus size: 99
33860374 AATTAAATTA
*
33860384 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAAT-TGAAA
*
33860448 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
65 ATAAAATAAAATATTGAAATTAATTTTAGTGATTC
* * * *
33860483 AAATAAAATAAAAAATTTAAAATGAAACTTTAAATATATTTTAATTTAATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAATTGAAAA
*** * * * *
33860548 TAAAATTAAAGA-AAACAAAATATTTTTTGTGATTAAATTAAAGTG
66 TAAAA-TAAA-ATATTGAAATTAATTTTAGTG-----A-T----TC
* *
33860593 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATATT-AAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAA-ATTGAAA
* *
33860657 ATAAAATAAAATATTGAAATTAATTTTAGTAATTT
65 ATAAAATAAAATATTGAAATTAATTTTAGTGATTC
* * *
33860692 AAATAAAATAAAATATTTAAAATGAATCTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAATTGAAAA
33860757 TAAAAT
66 TAAAAT
33860763 TAAAGAAAAC
Statistics
Matches: 233, Mismatches: 31, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
98 3 0.01
99 124 0.53
100 20 0.09
101 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
106 1 0.00
108 1 0.00
109 16 0.07
110 61 0.26
111 3 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.37
Consensus pattern (99 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAATTGAAAA
TAAAATAAAATATTGAAATTAATTTTAGTGATTC
Found at i:33860671 original size:18 final size:18
Alignment explanation
Indices: 33860648--33860714 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
33860638 TTAATTATGT
33860648 AATATTAAAATAAAATAA
1 AATATTAAAATAAAATAA
* * * **
33860666 AATATTGAAATTAATTTT
1 AATATTAAAATAAAATAA
* *
33860684 AGTAATTTAAATAAAATAA
1 AAT-ATTAAAATAAAATAA
33860703 AATATTTAAAAT
1 AATA-TTAAAAT
33860715 GAATCTTTAA
Statistics
Matches: 34, Mismatches: 13, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
18 16 0.47
19 18 0.53
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATATTAAAATAAAATAA
Found at i:33860673 original size:209 final size:209
Alignment explanation
Indices: 33860305--33860802 Score: 870
Period size: 209 Copynumber: 2.4 Consensus size: 209
33860295 GTGAACTTGA
* *
33860305 AAATAGAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
* *
33860370 ATTAAATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATT
66 ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
* * *
33860435 AGGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAAAATT
131 AGGTAATATTAAAATAAAATAAAATATTGAAATTAATTTTAGTAATTCAAATAAAATAAAAAATT
33860500 TAAAATGAAACTTT
196 TAAAATGAAACTTT
*
33860514 AAATATATTTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
*
33860579 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
* * *
33860644 ATGTAATATTAAAATAAAATAAAATATTGAAATTAATTTTAGTAATTTAAATAAAATAAAATATT
131 AGGTAATATTAAAATAAAATAAAATATTGAAATTAATTTTAGTAATTCAAATAAAATAAAAAATT
*
33860709 TAAAATGAATCTTT
196 TAAAATGAAACTTT
33860723 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
*
33860788 ATTAAATTAATGTAA
66 ATTAAATTAAAGTAA
33860803 CAGCCCTAAT
Statistics
Matches: 273, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
209 273 1.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (209 bp):
AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTGTG
ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
AGGTAATATTAAAATAAAATAAAATATTGAAATTAATTTTAGTAATTCAAATAAAATAAAAAATT
TAAAATGAAACTTT
Found at i:33860735 original size:42 final size:37
Alignment explanation
Indices: 33860647--33860724 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
33860637 TTTAATTATG
* * *
33860647 TAAT-ATTAAAATAAAATAAAATATTGAAATTAATTT
1 TAATAATTTAAATAAAATAAAATATTAAAATGAATTT
*
33860683 TAGTAATTTAAATAAAATAAAATATTTAAAATGAATCTT
1 TAATAATTTAAATAAAATAAAATA-TTAAAATGAAT-TT
33860722 TAA
1 TAA
33860725 ATATAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 3 0.09
37 18 0.53
38 9 0.26
39 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (37 bp):
TAATAATTTAAATAAAATAAAATATTAAAATGAATTT
Found at i:33862327 original size:24 final size:24
Alignment explanation
Indices: 33862295--33862355 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
33862285 AATCTCAAAT
33862295 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33862319 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33862343 GCACTATGTGTGC
1 GCACTATGTGTGC
33862356 AACATTCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:33874805 original size:28 final size:28
Alignment explanation
Indices: 33874740--33874840 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33874730 ATAGTGAATC
*
33874740 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33874769 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33874797 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33874827 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33874841 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33882755 original size:28 final size:28
Alignment explanation
Indices: 33882690--33882790 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33882680 ATAGTGAATC
*
33882690 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33882719 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33882747 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33882777 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33882791 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33888476 original size:84 final size:83
Alignment explanation
Indices: 33888386--33888602 Score: 312
Period size: 84 Copynumber: 2.6 Consensus size: 83
33888376 GAAATATATG
*
33888386 AAAACGACGCCGTTTTCGTTAAGCTACTATGTTTTTTTGCGGCGTTTTTTTAAAAAATGT-CGCT
1 AAAACGACGCCGTTTTCGTTAA-CTACTATGTTTTTTTGCGGCGTTTTTTCAAAAAAT-TCCGCT
*
33888450 AATCCCCTAAATCTTCAATT
64 AATCCCCTAAATCTCCAATT
* * *
33888470 AAAACGACGCCGTTTTCGTTATACTATTTTGTTTTCTTGCGGCGTTTTTTCAAAAAATTCCGCTA
1 AAAACGACGCCGTTTTCGTTA-ACTACTATGTTTTTTTGCGGCGTTTTTTCAAAAAATTCCGCTA
33888535 ATCCCCTAAATCTCCAATT
65 ATCCCCTAAATCTCCAATT
* * *
33888554 AAAACAATGCCGTTTTCGTTAAACTACTATG-TTTTTTGCGGCCTTTTTT
1 AAAACGACGCCGTTTTCGTT-AACTACTATGTTTTTTTGCGGCGTTTTTT
33888603 AAATCTCCAA
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
83 17 0.14
84 100 0.84
85 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (83 bp):
AAAACGACGCCGTTTTCGTTAACTACTATGTTTTTTTGCGGCGTTTTTTCAAAAAATTCCGCTAA
TCCCCTAAATCTCCAATT
Found at i:33888615 original size:61 final size:61
Alignment explanation
Indices: 33888541--33888665 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 61
33888531 GCTAATCCCC
** * *
33888541 TAAATCTCCAATTAAAACAATGCCGTTTTCGTTAAACTACTATGTTTTTTGCGGCCTTTTT
1 TAAATCTCCAATTAAAACAATAACATTTTCGTTAAACTACTATGTTTTTTGCGACCTTTTT
* * *
33888602 TAAATCTCCAATTAAAACGATAACATTTTCGTTAAACTATTATGTTTTTTGCGACGTTTTT
1 TAAATCTCCAATTAAAACAATAACATTTTCGTTAAACTACTATGTTTTTTGCGACCTTTTT
33888663 TAA
1 TAA
33888666 GAAATGCCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (61 bp):
TAAATCTCCAATTAAAACAATAACATTTTCGTTAAACTACTATGTTTTTTGCGACCTTTTT
Found at i:33889047 original size:7 final size:7
Alignment explanation
Indices: 33889011--33889106 Score: 68
Period size: 7 Copynumber: 13.4 Consensus size: 7
33889001 ATCCCATGCA
*
33889011 TAAACAC
1 TAAACCC
**
33889018 TAAACTT
1 TAAACCC
33889025 TAAACCC
1 TAAACCC
* *
33889032 TATATCC
1 TAAACCC
33889039 TAAACCC
1 TAAACCC
33889046 TAAACCC
1 TAAACCC
*
33889053 TTAACCC
1 TAAACCC
33889060 TAAACCC
1 TAAACCC
*
33889067 TTAA-CC
1 TAAACCC
33889073 TATAACCC
1 TA-AACCC
* *
33889081 TTAGACTC
1 -TAAACCC
*
33889089 TAAACCA
1 TAAACCC
33889096 TAAACCTC
1 TAAACC-C
33889104 TAA
1 TAA
33889107 CCGTTAACCC
Statistics
Matches: 67, Mismatches: 18, Indels: 7
0.73 0.20 0.08
Matches are distributed among these distances:
6 3 0.04
7 54 0.81
8 8 0.12
9 2 0.03
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCC
Found at i:33889115 original size:14 final size:15
Alignment explanation
Indices: 33889041--33889115 Score: 70
Period size: 14 Copynumber: 5.3 Consensus size: 15
33889031 CTATATCCTA
33889041 AACC-CTAAACCCTT
1 AACCTCTAAACCCTT
33889055 AACC-CTAAACCCTT
1 AACCTCTAAACCCTT
*
33889069 AACCTAT-AACCCTT
1 AACCTCTAAACCCTT
* *
33889083 AGA-CTCTAAACCATA
1 A-ACCTCTAAACCCTT
*
33889098 AACCTCT-AACCGTT
1 AACCTCTAAACCCTT
33889112 AACC
1 AACC
33889116 CCAAAACCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
14 39 0.76
15 12 0.24
ACGTcount: A:0.37, C:0.37, G:0.03, T:0.23
Consensus pattern (15 bp):
AACCTCTAAACCCTT
Found at i:33889178 original size:15 final size:15
Alignment explanation
Indices: 33889143--33889180 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
33889133 AACTGTTAAA
33889143 TCATAAA-CCATAAT
1 TCATAAACCCATAAT
* *
33889157 CCCTAAACCCATAAT
1 TCATAAACCCATAAT
33889172 TCATAAACC
1 TCATAAACC
33889181 TTCAAATAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (15 bp):
TCATAAACCCATAAT
Found at i:33889240 original size:14 final size:14
Alignment explanation
Indices: 33889195--33889248 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
33889185 AATAGTAACT
*
33889195 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* * *
33889209 CCTACACCATATAT
1 CCTAAACCATAAAC
33889223 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
33889237 CCTAAACTATAA
1 CCTAAACCATAA
33889249 TGATAATTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:33889696 original size:40 final size:39
Alignment explanation
Indices: 33889614--33889765 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
33889604 ATAATTTATT
* * * *
33889614 GCGGCGTTTTTAGGAAAGCGCCGCTAATGGTGGACCTATA
1 GCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGATCTATA
* *
33889654 GCGGCGTTTCTGAAAATGCGCCGCTAATGCTCGATCTTTA
1 GCGGCGTTTTTGAAAA-GCGCCGCTAATGCTCGATCTATA
* * * *
33889694 GCGGCGATTTTAT-ATAAGCCCCGGTAATACTCGATCTATA
1 GCGGCG-TTTT-TGAAAAGCGCCGCTAATGCTCGATCTATA
* *
33889734 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTC
1 GCGGCGTTTTT-GAAAAGCGCCGCTAATGCTC
33889766 AGTATAAAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 8 0.09
40 74 0.82
41 6 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
GCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:33889705 original size:80 final size:80
Alignment explanation
Indices: 33889614--33889765 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 80
33889604 ATAATTTATT
* * ** * * *
33889614 GCGGCGTTTTTAGGA-AAGCGCCGCTAATGGTGGACCTATAGCGGCGTTTCTGAAAATGCGCCGC
1 GCGGCGATTTTA-GATAAGCCCCGCTAATACTCGACCTATAGCGGCGTTTCTAAAAAAGCGCCGC
*
33889678 TAATGCTCGATCTTTA
65 TAAAGCTCGATCTTTA
* * * *
33889694 GCGGCGATTTTATATAAGCCCCGGTAATACTCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCT
1 GCGGCGATTTTAGATAAGCCCCGCTAATACTCGACCTATAGCGGCGTTTCTAAAAAAGCGCCGCT
33889759 AAAGCTC
66 AAAGCTC
33889766 AGTATAAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
GCGGCGATTTTAGATAAGCCCCGCTAATACTCGACCTATAGCGGCGTTTCTAAAAAAGCGCCGCT
AAAGCTCGATCTTTA
Found at i:33893129 original size:16 final size:17
Alignment explanation
Indices: 33893110--33893154 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
33893100 TTAACAATAC
33893110 TTTTAT-CTCAAACATATT
1 TTTTATCCT-AAACATA-T
33893128 TTTTATCCTAAACATAT
1 TTTTATCCTAAACATAT
*
33893145 TTTAATCCTA
1 TTTTATCCTA
33893155 TAAGTAGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTATCCTAAACATAT
Found at i:33893147 original size:17 final size:18
Alignment explanation
Indices: 33893110--33893147 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
33893100 TTAACAATAC
33893110 TTTTAT-CTCAAACATATT
1 TTTTATCCT-AAACATATT
33893128 TTTTATCCTAAACATATT
1 TTTTATCCTAAACATATT
33893146 TT
1 TT
33893148 AATCCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTATCCTAAACATATT
Found at i:33893152 original size:17 final size:18
Alignment explanation
Indices: 33893119--33893154 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33893109 CTTTTATCTC
*
33893119 AAACATATTTTTTATCCT
1 AAACATATTTTTAATCCT
33893137 AAACATA-TTTTAATCCT
1 AAACATATTTTTAATCCT
33893154 A
1 A
33893155 TAAGTAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
AAACATATTTTTAATCCT
Found at i:33893584 original size:17 final size:17
Alignment explanation
Indices: 33893562--33893619 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
33893552 TAAAAATTAT
33893562 TTTTTAAAATATTTCTA
1 TTTTTAAAATATTTCTA
* *
33893579 TTTTTAAAA-AATTAT-
1 TTTTTAAAATATTTCTA
33893594 TTTTTAAAATATTTCTA
1 TTTTTAAAATATTTCTA
33893611 TTTTTAAAA
1 TTTTTAAAA
33893620 AATTAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.26
16 8 0.23
17 18 0.51
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAAATATTTCTA
Found at i:33893591 original size:32 final size:32
Alignment explanation
Indices: 33893553--33893624 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
33893543 TAAAAAAATT
33893553 AAAAATTATTTTTTAAAATATTTCTATTTTTA
1 AAAAATTATTTTTTAAAATATTTCTATTTTTA
33893585 AAAAATTATTTTTTAAAATATTTCTATTTTTA
1 AAAAATTATTTTTTAAAATATTTCTATTTTTA
33893617 AAAAATTA
1 AAAAATTA
33893625 ATTAATTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (32 bp):
AAAAATTATTTTTTAAAATATTTCTATTTTTA
Found at i:33897626 original size:14 final size:14
Alignment explanation
Indices: 33897607--33897633 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33897597 TCTTTTGAAA
33897607 ATTTTAATTTTAAT
1 ATTTTAATTTTAAT
33897621 ATTTTAATTTTAA
1 ATTTTAATTTTAA
33897634 ATTAATTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTTAATTTTAAT
Found at i:33899254 original size:42 final size:42
Alignment explanation
Indices: 33899207--33899290 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
33899197 GTAAGGAAGA
33899207 GTAAGATAAGTTATGAAGTTCAATGACATTTATTGTCAATCC
1 GTAAGATAAGTTATGAAGTTCAATGACATTTATTGTCAATCC
33899249 GTAAGATAAGTTATGAAGTTCAATGACATTTATTGTCAATCC
1 GTAAGATAAGTTATGAAGTTCAATGACATTTATTGTCAATCC
33899291 TCACTATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (42 bp):
GTAAGATAAGTTATGAAGTTCAATGACATTTATTGTCAATCC
Found at i:33912937 original size:30 final size:30
Alignment explanation
Indices: 33912903--33912963 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33912893 TCCTTAACTC
33912903 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
33912933 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
33912963 A
1 A
33912964 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:33920532 original size:5 final size:6
Alignment explanation
Indices: 33920519--33920565 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
33920509 ATAATTTAAT
*
33920519 AAATAA AAATAA AAATCTAA AAGTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
33920566 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:33920566 original size:20 final size:20
Alignment explanation
Indices: 33920519--33920559 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33920509 ATAATTTAAT
**
33920519 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
33920539 AAGTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
33920559 A
1 A
33920560 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:33920599 original size:9 final size:9
Alignment explanation
Indices: 33920585--33920643 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
33920575 TTTATACAAA
33920585 TAATTCGGT
1 TAATTCGGT
33920594 TAATTCGGT
1 TAATTCGGT
*
33920603 TAATTTGAG-
1 TAATTCG-GT
33920612 TAATTCGGT
1 TAATTCGGT
*
33920621 TAATTCGAT
1 TAATTCGGT
*
33920630 TAATTCGAT
1 TAATTCGGT
33920639 TAATT
1 TAATT
33920644 TTATACTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
8 1 0.02
9 43 0.96
10 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:33920623 original size:27 final size:27
Alignment explanation
Indices: 33920585--33920643 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
33920575 TTTATACAAA
* *
33920585 TAATTCGGTTAATTCGGTTAATTTGAG
1 TAATTCGGTTAATTCGATTAATTCGAG
*
33920612 TAATTCGGTTAATTCGATTAATTCGAT
1 TAATTCGGTTAATTCGATTAATTCGAG
33920639 TAATT
1 TAATT
33920644 TTATACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCGATTAATTCGAG
Found at i:33931817 original size:28 final size:28
Alignment explanation
Indices: 33931748--33931848 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33931738 GACAAGATTG
* * * *
33931748 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
33931778 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33931806 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
33931835 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33931849 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33931842 original size:29 final size:28
Alignment explanation
Indices: 33931777--33931848 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
33931767 AAAATTGTAC
*
33931777 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
33931805 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
33931834 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33931849 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Done.