Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 185 of 325
Found at i:56923664 original size:17 final size:18
Alignment explanation
Indices: 56923622--56923670 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
56923612 AGTTGAAAAG
56923622 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
56923641 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
56923658 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
56923671 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:56924559 original size:40 final size:40
Alignment explanation
Indices: 56924493--56924659 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56924483 AAATTGAATG
* * *
56924493 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
56924532 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56924572 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56924612 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56924652 ATATCCGG
1 ATATCCGG
56924660 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:56930904 original size:31 final size:30
Alignment explanation
Indices: 56930863--56930926 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
56930853 CCTTTTCATA
* *
56930863 TTTCATATTTCATAACACTGGGTCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAG-CT
**
56930894 TTTCAAATTTCATATTACTGGGCCGAAGCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCT
56930924 TTT
1 TTT
56930927 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (30 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCT
Found at i:56931199 original size:23 final size:23
Alignment explanation
Indices: 56931141--56931353 Score: 282
Period size: 23 Copynumber: 9.1 Consensus size: 23
56931131 CCTAGCCTCT
* *
56931141 TTTAATAACCGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56931164 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
56931188 TTCAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
56931211 TTTTGATAATTGTGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
56931235 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* **
56931258 TTTAATAACTAGGGTGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56931281 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
56931305 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56931328 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56931351 TTT
1 TTT
56931354 TTCACTTCCT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
23 107 0.65
24 57 0.35
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:56931202 original size:47 final size:47
Alignment explanation
Indices: 56931141--56931354 Score: 288
Period size: 47 Copynumber: 4.6 Consensus size: 47
56931131 CCTAGCCTCT
* * *
56931141 TTTAATAACCGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * * * *
56931188 TTCAATAACTGGGGCGTAAGCCCTTTTGATAATTGTGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* **
56931235 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTAGGGTGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
56931281 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
56931328 TTTAATAACTGGGGCGTAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
56931355 TCACTTCCTC
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
46 38 0.26
47 106 0.74
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:56931252 original size:70 final size:70
Alignment explanation
Indices: 56931120--56931354 Score: 346
Period size: 70 Copynumber: 3.3 Consensus size: 70
56931110 GCTTTATTAT
* * * * *
56931120 ATAACTGGAGGCCT-AGCCTCTTTTAATAACCGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCGTAAGCC-CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
*
56931184 GCCCTTCA
63 GCCCTTTA
* *
56931192 ATAACTGGGGCGTAAGCCCTTTTGATAATTGTGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
56931257 CTTTA
66 CTTTA
* *
56931262 ATAACTAGGGTGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
56931327 CTTTA
66 CTTTA
56931332 ATAACTGGGGCGTAAGCCCTTTT
1 ATAACTGGGGCGTAAGCCCTTTT
56931355 TCACTTCCTC
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
70 112 0.76
71 24 0.16
72 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (70 bp):
ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
CTTTA
Found at i:56931431 original size:20 final size:20
Alignment explanation
Indices: 56931406--56931472 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
56931396 TTATGAATAC
56931406 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56931426 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56931446 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56931466 ACCATGT
1 ATCATGT
56931473 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56931437 original size:11 final size:11
Alignment explanation
Indices: 56931406--56931461 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56931396 TTATGAATAC
56931406 ATCATGTGCAT
1 ATCATGTGCAT
*
56931417 ATCA--TACAT
1 ATCATGTGCAT
56931426 ATCATGTGCAT
1 ATCATGTGCAT
*
56931437 ATCA--TACAT
1 ATCATGTGCAT
*
56931446 GTCATGTGCAT
1 ATCATGTGCAT
56931457 ATCAT
1 ATCAT
56931462 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:56931541 original size:25 final size:25
Alignment explanation
Indices: 56931509--56931556 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56931499 ATACATAAAC
* * *
56931509 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56931534 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56931557 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56935132 original size:40 final size:39
Alignment explanation
Indices: 56935088--56935228 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
56935078 TGAAAATTAC
*
56935088 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAG-TAT
* * *
56935128 ATCCGGG-CAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTAG-TAT
* * * *
56935167 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGT-AT
* *
56935207 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGTTAAGACCCGAAGGC
56935229 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.04
39 31 0.37
40 48 0.57
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGTAT
Found at i:56935147 original size:39 final size:39
Alignment explanation
Indices: 56935088--56935198 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
56935078 TGAAAATTAC
* * *
56935088 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGG-CAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
* *
56935128 ATCCGGGCAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGCAAGACCCGAAGGCAATT-GTGCAAGTAGCTAA
*
56935167 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGC-AAGACCCGAAGGCAATTGTGCAA
56935199 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.05
39 31 0.50
40 26 0.42
41 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
Found at i:56943239 original size:40 final size:39
Alignment explanation
Indices: 56943153--56943336 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
56943143 AAATTGAATG
* * * * *
56943153 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
56943193 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
56943233 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
56943273 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
56943312 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56943337 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:56950793 original size:15 final size:15
Alignment explanation
Indices: 56950773--56950802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56950763 TAAAAATAAG
*
56950773 TTTGAATGAGTTTAA
1 TTTGAATAAGTTTAA
56950788 TTTGAATAAGTTTAA
1 TTTGAATAAGTTTAA
56950803 ATCAAGAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TTTGAATAAGTTTAA
Found at i:56952759 original size:2 final size:2
Alignment explanation
Indices: 56952752--56952781 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
56952742 GTATTGTAAT
*
56952752 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56952782 ATTGATGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56954012 original size:43 final size:42
Alignment explanation
Indices: 56953942--56954103 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
56953932 CATAAGCTTG
* * *
56953942 TACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAA
* * * *
56953984 TATCAATGCCACTGTCCCTGATAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
* *
56954027 TACGATGCCAATGTCCCAGACATGGTCTTACACGCAAATTACAAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACG-AAA-T-CAAA
* *
56954072 T-CGATGCCAACGTCCCAGAC-GTGGTCTTACAC
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACAC
56954104 AATAACACAT
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.29
43 36 0.36
44 30 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
Found at i:56954087 original size:44 final size:43
Alignment explanation
Indices: 56953946--56954103 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 43
56953936 AGCTTGTACA
* * * * *
56953946 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATTACAA-ATCG
* * * *
56953989 ATGCC-ACTGTCCCTGATAGGGTCTTACACGAAA-T-CATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATTACAAAT-CG
*
56954031 ATGCCAATGTCCCAGACATGGTCTTACACGCAAATTACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATTACAAATCG
*
56954075 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
56954104 AATAACACAT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 28 0.30
44 30 0.33
45 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATTACAAATCG
Found at i:56956627 original size:49 final size:49
Alignment explanation
Indices: 56956567--56956919 Score: 571
Period size: 49 Copynumber: 7.4 Consensus size: 49
56956557 TACATATGTG
* * * *
56956567 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
56956616 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56956665 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56956714 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56956763 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56956806 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56956852 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56956901 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56956920 TAATGTAAAA
Statistics
Matches: 285, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
40 32 0.11
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 239 0.84
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56956817 original size:89 final size:89
Alignment explanation
Indices: 56956621--56956898 Score: 439
Period size: 89 Copynumber: 3.0 Consensus size: 89
56956611 GTATATGTGA
* * *
56956621 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56956686 ATGTGGTGAATGTGAAAGTGTATGTATATGTG
66 ATGTGGTGAATGTGAAA--G--TG--TA--TG
56956718 ATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
1 -TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
56956783 GATGTGGTGAATGTGAAAGTGTATG
65 GATGTGGTGAATGTGAAAGTGTATG
*
56956808 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56956873 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
56956897 TA
1 TA
56956899 TATGTGATAA
Statistics
Matches: 176, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
89 90 0.51
90 2 0.01
92 2 0.01
94 2 0.01
96 1 0.01
98 79 0.45
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:56956845 original size:138 final size:143
Alignment explanation
Indices: 56956567--56956919 Score: 581
Period size: 138 Copynumber: 2.5 Consensus size: 143
56956557 TACATATGTG
* * * *
56956567 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
56956632 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAA--GGATG-ATATGTGA-GAGGCCTAATGGCCGATGTGGTGAAT
*
56956697 GTGAAAGTGTATGTATA
127 GTAAAAGTGTATGTATA
56956714 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
56956779 GGCCGATGTGGTGAATGTGAAA-G-TG-TATGT-A-AGGCCTAATGGCCGATGTGGTGAATGTAA
66 GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
56956839 AAGTGTATGTATA
131 AAGTGTATGTATA
56956852 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
56956917 GGC
66 GGC
56956920 TAATGTAAAA
Statistics
Matches: 200, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
138 109 0.55
140 1 0.00
141 5 0.03
143 2 0.01
144 1 0.00
147 82 0.41
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (143 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
AAGTGTATGTATA
Found at i:56956925 original size:89 final size:90
Alignment explanation
Indices: 56956643--56956929 Score: 377
Period size: 89 Copynumber: 3.1 Consensus size: 90
56956633 GCCGATGTGA
* * *
56956643 TGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
56956708 TGTATATGTGATAAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
56956734 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
56956799 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
56956830 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
56956895 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
56956920 T-AATGTAAAA
1 TGAATGTAAAA
56956930 TATATGTGTG
Statistics
Matches: 173, Mismatches: 9, Indels: 23
0.84 0.04 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 7 0.04
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:56957071 original size:37 final size:37
Alignment explanation
Indices: 56957021--56957105 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
56957011 GGAATATGTT
*
56957021 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56957058 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56957095 CCGGGTAAGAC
1 CCGGGTAAGAC
56957106 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56958979 original size:40 final size:40
Alignment explanation
Indices: 56958922--56959166 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
56958912 GAGAATTGAG
* *
56958922 AGTGATATATCCAGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
56958962 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
56959002 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
56959042 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
56959082 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
56959122 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
56959162 AGTGA
1 AGTGA
56959167 CGTGTATTCG
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
Found at i:56959373 original size:29 final size:29
Alignment explanation
Indices: 56959340--56959532 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
56959330 CGAATGAATA
56959340 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
56959369 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56959398 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56959427 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
56959456 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
56959485 GAGGCACTACGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
56959514 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
56959533 TTTTTCAACA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:56962876 original size:49 final size:49
Alignment explanation
Indices: 56962816--56963168 Score: 571
Period size: 49 Copynumber: 7.4 Consensus size: 49
56962806 TACATATGTG
* * * *
56962816 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
56962865 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56962914 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56962963 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56963012 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56963055 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56963101 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56963150 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56963169 TAATGTAAAA
Statistics
Matches: 285, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
40 32 0.11
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 239 0.84
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56963066 original size:89 final size:89
Alignment explanation
Indices: 56962870--56963147 Score: 439
Period size: 89 Copynumber: 3.0 Consensus size: 89
56962860 GTATATGTGA
* * *
56962870 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56962935 ATGTGGTGAATGTGAAAGTGTATGTATATGTG
66 ATGTGGTGAATGTGAAA--G--TG--TA--TG
56962967 ATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
1 -TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
56963032 GATGTGGTGAATGTGAAAGTGTATG
65 GATGTGGTGAATGTGAAAGTGTATG
*
56963057 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56963122 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
56963146 TA
1 TA
56963148 TATGTGATAA
Statistics
Matches: 176, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
89 90 0.51
90 2 0.01
92 2 0.01
94 2 0.01
96 1 0.01
98 79 0.45
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:56963094 original size:138 final size:143
Alignment explanation
Indices: 56962816--56963168 Score: 581
Period size: 138 Copynumber: 2.5 Consensus size: 143
56962806 TACATATGTG
* * * *
56962816 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
56962881 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAA--GGATG-ATATGTGA-GAGGCCTAATGGCCGATGTGGTGAAT
*
56962946 GTGAAAGTGTATGTATA
127 GTAAAAGTGTATGTATA
56962963 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
56963028 GGCCGATGTGGTGAATGTGAAA-G-TG-TATGT-A-AGGCCTAATGGCCGATGTGGTGAATGTAA
66 GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
56963088 AAGTGTATGTATA
131 AAGTGTATGTATA
56963101 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
56963166 GGC
66 GGC
56963169 TAATGTAAAA
Statistics
Matches: 200, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
138 109 0.55
140 1 0.00
141 5 0.03
143 2 0.01
144 1 0.00
147 82 0.41
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (143 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
AAGTGTATGTATA
Found at i:56963174 original size:89 final size:90
Alignment explanation
Indices: 56962892--56963178 Score: 377
Period size: 89 Copynumber: 3.1 Consensus size: 90
56962882 GCCGATGTGA
* * *
56962892 TGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
56962957 TGTATATGTGATAAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
56962983 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
56963048 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
56963079 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
56963144 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
56963169 T-AATGTAAAA
1 TGAATGTAAAA
56963179 TATATGTGTG
Statistics
Matches: 173, Mismatches: 9, Indels: 23
0.84 0.04 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 7 0.04
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:56963320 original size:37 final size:37
Alignment explanation
Indices: 56963270--56963354 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
56963260 GGAATATGTT
*
56963270 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56963307 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56963344 CCGGGTAAGAC
1 CCGGGTAAGAC
56963355 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56967453 original size:43 final size:43
Alignment explanation
Indices: 56967342--56967485 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
56967332 AAATATGGTT
* * * * *
56967342 TTACATGTTATCAC-ATATCGATGCCACTGTCCTAGAAAGGGTC
1 TTACATGTAATCACAATA-CGATGCCAATGTCCCAGACACGGTC
* * * *
56967385 TTACACG-AATCACTATATGATGCCAATGTCCCAGACACAGTC
1 TTACATGTAATCACAATACGATGCCAATGTCCCAGACACGGTC
* *
56967427 TTACATGTAATCACAATACAATGCCAATGTCCCAGACATGGTC
1 TTACATGTAATCACAATACGATGCCAATGTCCCAGACACGGTC
56967470 TTACATGTAATCACAA
1 TTACATGTAATCACAA
56967486 CTTGATAACC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 30 0.35
43 55 0.65
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TTACATGTAATCACAATACGATGCCAATGTCCCAGACACGGTC
Found at i:56970801 original size:44 final size:42
Alignment explanation
Indices: 56970734--56970843 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 42
56970724 TGATATGTGT
* * * * *
56970734 TTTCGTGTAAGACCACGTTTGGGACGTTGGCATCA-ACTTATTA
1 TTTCGTGTAAGACCATGTCTGGGACATCGACATCATA-TT-TTA
56970777 TTTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTTA
1 TTT-CGTGTAAGACCATGTCTGGGACATCGACATCATATTTTA
* *
56970820 TTTCATGTAAGACCCTGTCTGGGA
1 TTTCGTGTAAGACCATGTCTGGGA
56970844 TAGTGGAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 19 0.33
43 9 0.16
44 29 0.50
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATCGACATCATATTTTA
Found at i:56970873 original size:43 final size:42
Alignment explanation
Indices: 56970778--56970874 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
56970768 AACTTATTAT
* **
56970778 TTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTTA
1 TTACATGTAAGACCATGTCTGGGACATCGACATCATATTCGA
* * * *
56970820 TTTCATGTAAGACCCTGTCTGGGATAGTGGA-ATCGATATTCGA
1 TTACATGTAAGACCATGTCTGGGACA-TCGACATC-ATATTCGA
56970863 TTACATGTAAGA
1 TTACATGTAAGA
56970875 GCACATCTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGACATCATATTCGA
Found at i:56995428 original size:40 final size:40
Alignment explanation
Indices: 56995383--56995549 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56995373 CGGAATATAA
56995383 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56995423 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56995463 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56995503 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56995542 CCGGATAT
1 CCGGATAT
56995550 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57003429 original size:40 final size:40
Alignment explanation
Indices: 57003384--57003551 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57003374 CGGAATATAA
57003384 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57003424 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57003464 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
57003504 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57003544 CCGGATAT
1 CCGGATAT
57003552 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57012344 original size:23 final size:23
Alignment explanation
Indices: 57012318--57012367 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
57012308 ACCCCATGCA
57012318 ATGCAACATA-ATATCATACATGG-
1 ATGCAACATACATAT-A-ACATGGC
57012341 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
57012364 ATGC
1 ATGC
57012368 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:57014051 original size:10 final size:10
Alignment explanation
Indices: 57014036--57014061 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
57014026 CGGCTAGCAA
57014036 CAAACTTATT
1 CAAACTTATT
57014046 CAAACTTATT
1 CAAACTTATT
57014056 CAAACT
1 CAAACT
57014062 CTTGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:57016177 original size:29 final size:29
Alignment explanation
Indices: 57016144--57016208 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57016134 GTGACGAGAT
57016144 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57016173 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
57016202 CGGCACT
1 TGGCACT
57016209 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57024203 original size:29 final size:29
Alignment explanation
Indices: 57024170--57024234 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57024160 GTGACGAGAT
57024170 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57024199 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
57024228 CGGCACT
1 TGGCACT
57024235 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57040263 original size:40 final size:38
Alignment explanation
Indices: 57040173--57040278 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 38
57040163 ATCACGATTT
*
57040173 GCACAAATGCCTTCGGGTCTTAGCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCGGATAGAATGACTA
*
57040212 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAG-CCGGATAGAATG--ACTA
*
57040252 GCACAATTGCCTTCGGGTCTTAACCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCGG
57040279 GTTATAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.02
39 30 0.51
40 28 0.47
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCGGATAGAATGACTA
Found at i:57044494 original size:165 final size:164
Alignment explanation
Indices: 57044222--57044547 Score: 618
Period size: 165 Copynumber: 2.0 Consensus size: 164
57044212 TCTGATACCA
57044222 ATAAAATTGTAACACCCCGAACCCGAGACCATCGCGGTGTCGGACACGAGGGGTTAGCAAGCCAA
1 ATAAAATTGTAACACCCCGAACCCGAGACCATCGCGGTGTCGGACACGAGGGGTTAGCAAGCCAA
*
57044287 GTTCACTTGTTTTGCCCATCCATTGGACATTTCCAGTCAGGCTGGAAAAACTGCGTCACTGTCGC
66 GTTCACTTGTTTTGCCCATCCATTGGACATTTCCAGTCAGGCTGGAAAAACTGCATCACTGTCGC
57044352 CTTAAAAATCATATCTCTAGTTTCAAAACTCGAGC
131 CTT-AAAATCATATCTCTAGTTTCAAAACTCGAGC
57044387 ATAAAATTGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAGCAAGCCA
1 ATAAAATTGTAACACCCCGAACCCGAGACCATCG-CGGTGTCGGACACGAGGGGTTAGCAAGCCA
57044452 AGTTCACTTGTTTTG-CCATCCATTGGACATTTCCAGTCAGGCTGGAAAAACTGCATCACTGTCG
65 AGTTCACTTGTTTTGCCCATCCATTGGACATTTCCAGTCAGGCTGGAAAAACTGCATCACTGTCG
57044516 CCTTAAAATCATATCTCTAGTTTCAAAACTCG
130 CCTTAAAATCATATCTCTAGTTTCAAAACTCG
57044548 GAAACTGGTT
Statistics
Matches: 159, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
164 28 0.18
165 86 0.54
166 45 0.28
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (164 bp):
ATAAAATTGTAACACCCCGAACCCGAGACCATCGCGGTGTCGGACACGAGGGGTTAGCAAGCCAA
GTTCACTTGTTTTGCCCATCCATTGGACATTTCCAGTCAGGCTGGAAAAACTGCATCACTGTCGC
CTTAAAATCATATCTCTAGTTTCAAAACTCGAGC
Found at i:57050972 original size:28 final size:29
Alignment explanation
Indices: 57050932--57051030 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
57050922 GTAATAAGCC
*
57050932 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
57050960 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
57050988 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
57051017 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57051031 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:57054301 original size:15 final size:16
Alignment explanation
Indices: 57054265--57054301 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
57054255 ACATATCATT
57054265 TATTTCATTATATCAA
1 TATTTCATTATATCAA
57054281 TATTTCA-TATA-CAA
1 TATTTCATTATATCAA
57054295 TAGTTTC
1 TA-TTTC
57054302 CATGTATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:57056298 original size:68 final size:70
Alignment explanation
Indices: 57056226--57056423 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
57056216 ACACCCTGTA
* * * *
57056226 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
57056288 ATAAAT
65 ATAAAT
*
57056294 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
57056359 ATAAAT
65 ATAAAT
*
57056365 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
57056424 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:57056337 original size:41 final size:41
Alignment explanation
Indices: 57056292--57056409 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57056282 TGAAAGATAA
57056292 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57056333 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57056363 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57056404 ATGTAG
1 ATGTAG
57056410 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57056349 original size:71 final size:71
Alignment explanation
Indices: 57056260--57056423 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57056250 GAGATGTATC
57056260 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57056325 AGGACA
66 AGGACA
57056331 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57056396 AGGACA
66 AGGACA
57056402 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57056424 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57059008 original size:30 final size:30
Alignment explanation
Indices: 57058974--57059034 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57058964 TCCTTAACTC
57058974 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
57059004 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
57059034 A
1 A
57059035 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:57071097 original size:37 final size:37
Alignment explanation
Indices: 57071047--57071132 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
57071037 TTATTACGAA
57071047 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
57071084 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
57071121 GTCTCACCCGGA
1 GTCTTACCCGGA
57071133 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:57071264 original size:48 final size:48
Alignment explanation
Indices: 57071181--57071448 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
57071171 ACAACATTCT
* * * * *
57071181 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
57071229 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57071277 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
*
57071325 CATTATCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57071373 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57071421 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
57071449 TACACTTTCA
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:57071492 original size:47 final size:47
Alignment explanation
Indices: 57071426--57071595 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
57071416 TTTCACATTA
* * *
57071426 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57071473 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57071520 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57071567 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
57071596 ACGAGCTGTT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:57071508 original size:96 final size:95
Alignment explanation
Indices: 57071176--57071589 Score: 338
Period size: 96 Copynumber: 4.3 Consensus size: 95
57071166 AGGTTACAAC
* * * * * * * * * * *
57071176 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* *
57071241 GGCTTTACGACATATACACATCTCATATAT
66 GGCTTTACCACATATACACATCTCACATAT
* * * * *
57071271 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTATCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* * *
57071336 CGGCTTTACCACATATACATATCACACATGT
65 CGGCTTTACCACATATACACATCTCACATAT
* * * *
57071367 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
57071432 CGGCTTTACCACATATATACACTTTCACAT-T
65 CGGCTTTACCACATATACACA-TCTCACATAT
* * * ** **
57071463 CA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT-TCA--TCACATCGGCCA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATACACA-TCACACATGT-ATTTCACATTAGCCA
* * * * *
57071524 TTAGGCCTTATCACATATATACACTTTCACAT-T
63 TTCGGCTTTACCACATATACACA-TCTCACATAT
* *
57071557 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
57071590 TACACTACGA
Statistics
Matches: 282, Mismatches: 32, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
94 73 0.26
95 30 0.11
96 172 0.61
97 7 0.02
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (95 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCTCACATAT
Found at i:57071508 original size:144 final size:143
Alignment explanation
Indices: 57071176--57071495 Score: 356
Period size: 144 Copynumber: 2.2 Consensus size: 143
57071166 AGGTTACAAC
* * * * * * * * * * *
57071176 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * *
57071241 GGCTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
66 GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
57071306 ATATCACACATGT
131 ACATCACACATGT
* * * * *
57071319 ATTTCACATTATCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
57071384 CGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* **
57071449 TACACTTTCACAT-T
130 CACA-TCACACATGT
* *
57071463 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
57071496 TACACTTTCA
Statistics
Matches: 151, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 26 0.17
144 118 0.78
145 7 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATGT
Found at i:57075114 original size:40 final size:40
Alignment explanation
Indices: 57075065--57075455 Score: 608
Period size: 40 Copynumber: 9.8 Consensus size: 40
57075055 CCAGCATGAT
* * *
57075065 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * * *
57075105 TGCTCTTCGGGACTTAGTCCGGTTGCCTTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
57075145 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCTA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGC-ACGAA
57075185 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
57075225 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
57075265 TGCTCTTCGGAACTTAAT-CGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
57075304 TGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
57075344 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
57075384 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
57075424 TGCTCTTCGGGATTTAG-CCTGGATATATCACT
1 TGCTCTTCGGAACTTAGTCC-GGATACATCACT
57075456 CTCAATTCTT
Statistics
Matches: 327, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
39 41 0.13
40 285 0.87
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:57075424 original size:199 final size:199
Alignment explanation
Indices: 57075084--57075455 Score: 638
Period size: 199 Copynumber: 1.9 Consensus size: 199
57075074 GGACCTAGCC
* * * * * *
57075084 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGTTGCCTTACTAGCACGAATGCT
1 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAATGCT
57075149 CTTCGGAACTTAGTCCGGATACATCACTAGCTAGAATGCTCTTCGGAACTTAGTCCGGATACATC
66 CTTCGGAACTTAGTCCGGATACATCACTAGCTAGAATGCTCTTCGGAACTTAGTCCGGATACATC
*
57075214 ACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAATGCTCTTCGGAACT
131 ACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATACATCACTAGCACGAATGCTCTTCGGAACT
57075279 TAAT
196 TAAT
57075283 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAATGCT
1 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAATGCT
57075348 CTTCGGAACTTAGTCCGGATACATCACTAGC-ACGAATGCTCTTCGGAACTTAGTCCGGATACAT
66 CTTCGGAACTTAGTCCGGATACATCACTAGCTA-GAATGCTCTTCGGAACTTAGTCCGGATACAT
* * *
57075412 CACTAGCACGAATGCTCTTCGGGATTTAGCCTGGATATATCACT
130 CACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATACATCACT
57075456 CTCAATTCTT
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 1 0.01
199 161 0.99
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (199 bp):
CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAATGCT
CTTCGGAACTTAGTCCGGATACATCACTAGCTAGAATGCTCTTCGGAACTTAGTCCGGATACATC
ACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATACATCACTAGCACGAATGCTCTTCGGAACT
TAAT
Found at i:57077401 original size:37 final size:37
Alignment explanation
Indices: 57077351--57077436 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
57077341 TTATTACGAA
57077351 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
57077388 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
57077425 GTCTCACCCGGA
1 GTCTTACCCGGA
57077437 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:57077568 original size:48 final size:48
Alignment explanation
Indices: 57077485--57077752 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
57077475 ACAACATTCT
* * * * *
57077485 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
57077533 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57077581 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
*
57077629 CATTATCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57077677 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
57077725 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
57077753 TACACTTTCA
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:57077796 original size:47 final size:47
Alignment explanation
Indices: 57077730--57077899 Score: 304
Period size: 47 Copynumber: 3.6 Consensus size: 47
57077720 TTTCACATTA
* * *
57077730 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57077777 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
57077824 GCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
57077871 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
57077900 ATGAGCTGTT
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:57077812 original size:96 final size:95
Alignment explanation
Indices: 57077480--57077893 Score: 329
Period size: 96 Copynumber: 4.3 Consensus size: 95
57077470 AGGTTACAAC
* * * * * * * * * * *
57077480 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* *
57077545 GGCTTTACGACATATACACATCTCATATAT
66 GGCTTTACCACATATACACATCTCACATAT
* * * * *
57077575 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTATCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* * *
57077640 CGGCTTTACCACATATACATATCACACATGT
65 CGGCTTTACCACATATACACATCTCACATAT
* * * *
57077671 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
57077736 CGGCTTTACCACATATATACACTTTCACAT-T
65 CGGCTTTACCACATATACACA-TCTCACATAT
* * * ** **
57077767 CA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT-TCA--TCACATCGGCCA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATACACA-TCACACATGT-ATTTCACATTAGCCA
* * * * * *
57077828 TTAGGCCTTATCACATATATACACTTTCAGAT-T
63 TTCGGCTTTACCACATATACACA-TCTCACATAT
* *
57077861 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
57077894 TACACTATGA
Statistics
Matches: 281, Mismatches: 33, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
94 72 0.26
95 30 0.11
96 172 0.61
97 7 0.02
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (95 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCTCACATAT
Found at i:57077812 original size:144 final size:143
Alignment explanation
Indices: 57077480--57077799 Score: 356
Period size: 144 Copynumber: 2.2 Consensus size: 143
57077470 AGGTTACAAC
* * * * * * * * * * *
57077480 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * *
57077545 GGCTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
66 GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
57077610 ATATCACACATGT
131 ACATCACACATGT
* * * * *
57077623 ATTTCACATTATCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
57077688 CGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* **
57077753 TACACTTTCACAT-T
130 CACA-TCACACATGT
* *
57077767 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
57077800 TACACTTTCA
Statistics
Matches: 151, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 26 0.17
144 118 0.78
145 7 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATGT
Found at i:57091031 original size:28 final size:28
Alignment explanation
Indices: 57090966--57091115 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
57090956 CTATATACGA
*
57090966 CACTTAGTGTGCAAGACATTGAGTA-GG
1 CACTTAGTGTGCGAGACATTGAGTATGG
57090993 CACTTAGTGTGCGAGACATTGAGTATGG
1 CACTTAGTGTGCGAGACATTGAGTATGG
*
57091021 CACTTAGTGTGTGAGACATTGAGTATGG
1 CACTTAGTGTGCGAGACATTGAGTATGG
* * *
57091049 CACTTAGTGTGTGAGACATTGACTATGA
1 CACTTAGTGTGCGAGACATTGAGTATGG
57091077 CACTTAGTGTGCGAGACATTTG-GTATGG
1 CACTTAGTGTGCGAGACA-TTGAGTATGG
*
57091105 AACTTAGTGTG
1 CACTTAGTGTG
57091116 TGAAATATCG
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 86 0.76
29 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATTGAGTATGG
Found at i:57096477 original size:47 final size:47
Alignment explanation
Indices: 57096407--57096536 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 47
57096397 TCAATTGATA
* *
57096407 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
* * *
57096454 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
* *
57096501 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
57096537 TTATTTGCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
Found at i:57101970 original size:42 final size:41
Alignment explanation
Indices: 57101808--57101968 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 41
57101798 ATACCAATGA
* * *
57101808 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACA-CGAAACTCATATCGATGC
* * * * **
57101850 CAATAGCCTAGCTATGGTCTTACATGATTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAACTCATATCGATGC
* * *
57101892 CATGTCCCAGACATGGTCTTACACAAAATCTCATAAT-GATGC
1 CATATCCCAGATATGGTCTTACACGAAA-CTCAT-ATCGATGC
*
57101934 CATATCCCATATATGGTCTTACACGTAAACTCATA
1 CATATCCCAGATATGGTCTTACACG-AAACTCATA
57101969 ATCCTAATGT
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
41 19 0.20
42 53 0.55
43 24 0.25
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAAACTCATATCGATGC
Found at i:57114520 original size:43 final size:43
Alignment explanation
Indices: 57114454--57114612 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
57114444 AGCTTGTACA
** *
57114454 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* *
57114497 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * *
57114539 ATGCCAATGTACCAGATGTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCG
* * *
57114583 ATGCCAACGTCCTAGATGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
57114613 AGAACACATA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 40 0.41
44 31 0.32
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:57118997 original size:49 final size:49
Alignment explanation
Indices: 57118942--57119399 Score: 754
Period size: 49 Copynumber: 9.3 Consensus size: 49
57118932 TCAATACAAA
* *
57118942 TGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
57118991 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
57119040 TGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
57119089 TGAAAATGTATGTATTTGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
57119138 TGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
57119187 CGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
57119236 CGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
57119285 GGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
57119334 TGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
57119383 TGAAAGTGTATATATAT
1 TGAAAATGTATGTATAT
57119400 ATGTGGTAAA
Statistics
Matches: 388, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 388 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:57119523 original size:37 final size:36
Alignment explanation
Indices: 57119468--57119554 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
57119458 AACTTGGAAA
57119468 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATGTT-CGGGT-AGACCCGATGACTACGTGTGGAGAT
57119506 TATGTTCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTTCGGGTA-GACCCGATGACTACGTGTGGAGAT
*
57119543 TATGTCCGGGTA
1 TATGTTCGGGTA
57119555 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.85
38 6 0.13
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTTCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:57121451 original size:18 final size:17
Alignment explanation
Indices: 57121406--57121451 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
57121396 GATTATGTAG
*
57121406 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
57121423 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
57121442 AAAGAAAAAA
1 AAAGAAAAAA
57121452 AAAAGTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:57122810 original size:29 final size:29
Alignment explanation
Indices: 57122777--57122849 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
57122767 GTGACGAGAT
*
57122777 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
57122806 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
57122835 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
57122850 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:57129512 original size:18 final size:18
Alignment explanation
Indices: 57129463--57129512 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
57129453 AGTGGATTAT
*
57129463 ATAG-AAAGAATAAAGAA
1 ATAGAAAAGAAAAAAGAA
*
57129480 AT-GAAAATAATAAAAGAA
1 ATAGAAAAGAA-AAAAGAA
57129498 ATAGAAAAGAAAAAA
1 ATAGAAAAGAAAAAA
57129513 AAAAGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 12 0.44
19 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
ATAGAAAAGAAAAAAGAA
Found at i:57130871 original size:29 final size:29
Alignment explanation
Indices: 57130838--57130910 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
57130828 GTGACGAGAT
*
57130838 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
57130867 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
57130896 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
57130911 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:57133699 original size:26 final size:27
Alignment explanation
Indices: 57133670--57133793 Score: 85
Period size: 26 Copynumber: 4.7 Consensus size: 27
57133660 TTAGTTTACC
**
57133670 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCCAAATACCCCCAGATTGTA
* * *
57133696 AAATTA-CCAAAGTACCCCCGGTTTATA
1 AAATTACCCAAA-TACCCCCAGATTGTA
* **
57133723 AAATTACCCAAATA-TCCTTGATTTGTA
1 AAATTACCCAAATACCCCCAGA-TTGTA
* **
57133750 AAATTACCAAAATACCATC-GATTGTA
1 AAATTACCCAAATACCCCCAGATTGTA
**
57133776 AAATTACTGAAATACCCC
1 AAATTACCCAAATACCCC
57133794 TGTAGGGTAG
Statistics
Matches: 75, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.04
26 36 0.48
27 31 0.41
28 5 0.07
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCCCAGATTGTA
Found at i:57133813 original size:27 final size:27
Alignment explanation
Indices: 57133777--57133938 Score: 225
Period size: 27 Copynumber: 6.0 Consensus size: 27
57133767 TCGATTGTAA
57133777 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57133804 AATTAATGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57133831 AATTACCGAAATACCCTTGTTGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57133858 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57133885 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57133912 AATTACTAAAATACCTCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57133939 GACTACCGAT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57133884 original size:81 final size:81
Alignment explanation
Indices: 57133751--57133926 Score: 248
Period size: 81 Copynumber: 2.2 Consensus size: 81
57133741 TGATTTGTAA
* * * *
57133751 AATTACCAAAATACCATCGATT--GTAAAATTACTGAAATACCCCTGTAGGGTAGAATTAATGAA
1 AATTACCAAAATACCCTTG-TTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAATGAA
57133814 ATACCCCTGTAAGGTAG
65 ATACCCCTGTAAGGTAG
* *
57133831 AATTACCGAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTATTGAAA
1 AATTACCAAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAATGAAA
* *
57133896 TACCCTTGTAGGGTAG
66 TACCCCTGTAAGGTAG
*
57133912 AATTACTAAAATACC
1 AATTACCAAAATACC
57133927 TCTATAGGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 2 0.02
80 16 0.19
81 66 0.79
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAATGAAA
TACCCCTGTAAGGTAG
Found at i:57139738 original size:27 final size:27
Alignment explanation
Indices: 57139685--57139754 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
57139675 ACTTTTTCCT
* *
57139685 CAAAGGCTTTTTTTTTATATTAAGCCA
1 CAAAGGCTTTTCTTTCATATTAAGCCA
* *
57139712 CAAAGGCTTTTCTTTCATTTTACGCCA
1 CAAAGGCTTTTCTTTCATATTAAGCCA
*
57139739 CAAAGACTTTTCTTTC
1 CAAAGGCTTTTCTTTC
57139755 CTGACATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (27 bp):
CAAAGGCTTTTCTTTCATATTAAGCCA
Found at i:57142599 original size:40 final size:40
Alignment explanation
Indices: 57142555--57142734 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
57142545 GCTCGATTGT
* * *
57142555 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
57142595 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
57142635 CTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
57142674 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
57142715 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
57142735 ATCATTCGAA
Statistics
Matches: 114, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 35 0.31
40 50 0.44
41 27 0.24
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:57142662 original size:39 final size:39
Alignment explanation
Indices: 57142583--57142734 Score: 160
Period size: 39 Copynumber: 3.8 Consensus size: 39
57142573 TTATAGTGAT
* *
57142583 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTC-GGAATTAACCCGGATTTAGTAAC
* * * *
57142623 TCGCATAAATGCCTTCGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGAATTAACCCGGATTTAGTAAC
* *
57142662 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTC-GGAATTAACCCGGATTTAGTAAC
* * * *
57142702 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTC-GGAATTAACCCGGAT
57142735 ATCATTCGAA
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 34 0.37
40 32 0.34
41 27 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGAATTAACCCGGATTTAGTAAC
Found at i:57142675 original size:79 final size:81
Alignment explanation
Indices: 57142555--57142732 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 81
57142545 GCTCGATTGT
* * * * * * *
57142555 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* * *
57142619 TAAC-TCGCATAAATGC
65 TAACTTAGCACAAAAGC
57142635 CTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
57142699 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
*
57142715 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
57142733 ATATCATTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 53 0.64
80 18 0.22
81 12 0.14
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:57143448 original size:2 final size:2
Alignment explanation
Indices: 57143441--57143470 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57143431 ATGTGCAAAC
57143441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57143471 GCTAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57150813 original size:41 final size:40
Alignment explanation
Indices: 57150645--57150815 Score: 143
Period size: 40 Copynumber: 4.2 Consensus size: 40
57150635 CTTCGGGACA
* * * *
57150645 TAGCCCGG-TTATAGTGATTCGCACAATTGCCTTCGGGAA-T
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GAAACT
* * **
57150685 TAGCCCTGATTTAGTAACTCGCATAAATGCCTTCGGGACT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGAAACT
* * *
57150725 TAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGAGAA-T
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGA-AACT
* * *
57150765 T-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGAAACT
1 TAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGAAACT
57150806 TAGCCCGGAT
1 TAGCCCGGAT
57150816 ATCATTCGAA
Statistics
Matches: 105, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 73 0.70
41 28 0.27
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGAAACT
Found at i:57152283 original size:29 final size:29
Alignment explanation
Indices: 57152250--57152323 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57152240 AGTGAATCCG
57152250 CACACTTAGTGCTATATATTTTCAGCTCA
1 CACACTTAGTGCTATATATTTTCAGCTCA
*
57152279 CACACTTAGTGCTATATATTTTCAGCTCG
1 CACACTTAGTGCTATATATTTTCAGCTCA
57152308 CACACTTAGTGCTATA
1 CACACTTAGTGCTATA
57152324 GAATCAAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (29 bp):
CACACTTAGTGCTATATATTTTCAGCTCA
Found at i:57152344 original size:28 final size:29
Alignment explanation
Indices: 57152248--57152377 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
57152238 ATAGTGAATC
* * *
57152248 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
* * * *
57152277 CACACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
*
57152306 CGCACACTTAGTGCTATAGAA-TCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
* *
57152334 CGCACACTTAGTGCTATACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA-TTCAAACT
57152364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57152378 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.02
28 23 0.26
29 46 0.51
30 19 0.21
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:57152358 original size:58 final size:57
Alignment explanation
Indices: 57152247--57152377 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 57
57152237 TATAGTGAAT
* * * * * *
57152247 CCGCACACTTAGTGCTATATATTTTCAGCTCACACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAGA-TATCAACTCACACACTTAGTGCTATAAATTTTAAAC
* *
57152305 TCGCACACTTAGTGCTATAGA-ATCAAACTCGCACACTTAGTGCTATACAATTTTAAAC
1 CCGCACACTTAGTGCTATAGATATC-AACTCACACACTTAGTGCTATA-AATTTTAAAC
57152363 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
57152378 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
56 2 0.03
57 20 0.32
58 40 0.65
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATAGATATCAACTCACACACTTAGTGCTATAAATTTTAAAC
Found at i:57161441 original size:15 final size:15
Alignment explanation
Indices: 57161421--57161452 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57161411 GAACACCATT
57161421 TTAGGGATCAAAATA
1 TTAGGGATCAAAATA
57161436 TTAGGGATCAAAATA
1 TTAGGGATCAAAATA
57161451 TT
1 TT
57161453 TGGCCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (15 bp):
TTAGGGATCAAAATA
Found at i:57164483 original size:28 final size:26
Alignment explanation
Indices: 57164391--57164502 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
57164381 AGGAAGCGTC
* *
57164391 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * * *
57164418 CTGCTCGCTCTGCCACATATTTATGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
57164445 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
57164473 CTGGTGACTCTGTCACATTATCAGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
57164499 CTGG
1 CTGG
57164503 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
26 7 0.10
27 45 0.65
28 17 0.25
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:57166681 original size:43 final size:43
Alignment explanation
Indices: 57166459--57166697 Score: 213
Period size: 43 Copynumber: 5.7 Consensus size: 43
57166449 ATATCGTACA
* * * * * *
57166459 ATGCCAACGTCCTAGACGTGGTCATACATGTAATCACATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
57166502 ATGCCACA-GTCCCA-AGCAAGGTCTTACAC-AAATCAAATA-CG
1 ATGCCA-ATGTCCCAGA-CATGGTCTTACACGTAATCACATATCG
* *
57166543 ATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
57166586 ATGCCATAT-TCCTAGATAGGGTCTTACACG-AATCAAATA-CA
1 ATGCCA-ATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
57166627 ATGTCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* **
57166670 ATGCCAATGTCCCAAATGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
57166698 TGAGAACACA
Statistics
Matches: 156, Mismatches: 30, Indels: 20
0.76 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 46 0.29
42 34 0.22
43 70 0.45
44 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:57166693 original size:84 final size:84
Alignment explanation
Indices: 57166455--57166697 Score: 296
Period size: 84 Copynumber: 2.9 Consensus size: 84
57166445 ACACATATCG
* * * * * *
57166455 TACAATGCCAACGTCCTAGACGTGGTCATACATGTAATCACATATAGATGCCACA-GTCCCAAGC
1 TACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCACATGTCCCAA--
*
57166519 A-AGGTCTTACACAAATCAAA
64 ATGGGTCTTACACAAATCAAA
* * * *
57166539 TACGATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCATAT-TCCTAGAT
1 TACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCACATGTCCCAAAT
*
57166603 AGGGTCTTACACGAATCAAA
66 -GGGTCTTACACAAATCAAA
* *
57166623 TACAATGTCGATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA-ATGTCCCAAAT
1 TACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCACATGTCCCAAAT
57166687 GTGGTCTTACA
66 G-GGTCTTACA
57166698 TGAGAACACA
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.01
83 3 0.02
84 133 0.97
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (84 bp):
TACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCACATGTCCCAAAT
GGGTCTTACACAAATCAAA
Found at i:57166894 original size:29 final size:29
Alignment explanation
Indices: 57166857--57166915 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57166847 CACTTTCACA
57166857 TAGTTCATTTCTGCATTTAAAACTCATAT
1 TAGTTCATTTCTGCATTTAAAACTCATAT
57166886 TAGTTCATTTCTGCATTTAAAACTCATAT
1 TAGTTCATTTCTGCATTTAAAACTCATAT
57166915 T
1 T
57166916 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (29 bp):
TAGTTCATTTCTGCATTTAAAACTCATAT
Found at i:57173376 original size:40 final size:40
Alignment explanation
Indices: 57173250--57173415 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
57173240 CGGAATATAA
* *
57173250 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
* * *
57173289 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
* *
57173329 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
57173369 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
57173408 CCGGATAT
1 CCGGATAT
57173416 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 27 0.25
40 80 0.73
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:57174258 original size:17 final size:19
Alignment explanation
Indices: 57174235--57174280 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57174225 AAGAAGCATG
57174235 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57174253 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57174271 AATCATGCTC
1 AATCATGCTC
57174281 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:57181364 original size:40 final size:40
Alignment explanation
Indices: 57181238--57181403 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
57181228 CGGAATATAA
* *
57181238 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
* * *
57181277 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
* *
57181317 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
57181357 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
57181396 CCGGATAT
1 CCGGATAT
57181404 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 27 0.25
40 80 0.73
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:57182248 original size:17 final size:19
Alignment explanation
Indices: 57182225--57182270 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57182215 AAGAAGCATG
57182225 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57182243 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57182261 AATCATGCTC
1 AATCATGCTC
57182271 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:57184256 original size:12 final size:12
Alignment explanation
Indices: 57184226--57184333 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
57184216 AGCCCATTAC
*
57184226 AGAATAAGAAAT
1 AGAATCAGAAAT
** *
57184238 ATTATCAGAACT
1 AGAATCAGAAAT
57184250 AGAATCA-AAAT
1 AGAATCAGAAAT
57184261 GAGAATCA-AAATT
1 -AGAATCAGAAA-T
** *
57184274 AGAATCAGGTGAC
1 AGAATCA-GAAAT
57184287 AGAATCA-AAAT
1 AGAATCAGAAAT
* *
57184298 CAGTATCAGGTAAT
1 -AGAATCA-GAAAT
*
57184312 AGAATCAGAATT
1 AGAATCAGAAAT
57184324 AGAATCAGAA
1 AGAATCAGAA
57184334 TGTGAATGCA
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
11 4 0.06
12 49 0.69
13 14 0.20
14 4 0.06
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (12 bp):
AGAATCAGAAAT
Found at i:57184294 original size:25 final size:25
Alignment explanation
Indices: 57184262--57184331 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
57184252 AATCAAAATG
*
57184262 AGAATCAAAATTAGAATCAGGTGAC
1 AGAATCAAAATTAGAATCAGGTAAC
* * *
57184287 AGAATCAAAATCAGTATCAGGTAAT
1 AGAATCAAAATTAGAATCAGGTAAC
*
57184312 AGAATCAGAATTAGAATCAG
1 AGAATCAAAATTAGAATCAG
57184332 AATGTGAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAATCAAAATTAGAATCAGGTAAC
Found at i:57184321 original size:6 final size:6
Alignment explanation
Indices: 57184241--57184334 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
57184231 AAGAAATATT
* * * * *
57184241 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
57184290 ATCAAA ATCAGT ATCAGGTA AT-AGA ATCAGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT
57184335 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 16, Indels: 16
0.67 0.17 0.17
Matches are distributed among these distances:
5 5 0.08
6 50 0.78
7 6 0.09
8 3 0.05
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:57184535 original size:27 final size:26
Alignment explanation
Indices: 57184456--57184537 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
57184446 CATGGCTGCT
* * *
57184456 AGAACAGATATTGTGACAGAGTCACT
1 AGAACAGATATTGTGGCAGAGCCACC
57184482 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
57184509 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
57184536 AG
1 AG
57184538 CACGCTTCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:57184790 original size:27 final size:27
Alignment explanation
Indices: 57184759--57184885 Score: 123
Period size: 27 Copynumber: 4.7 Consensus size: 27
57184749 TGGTAATTTT
* *
57184759 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
57184786 TACCCTACAGGGGTATTTC-AGTATTTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
*
57184813 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
** * * *
57184840 TACCCTGTAGGGGTATTT-TAGTAACTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
*
57184867 TACCCTACAGGGGTATTTC
1 TACCCTACAAGGGTATTTC
57184886 AACAATTTTG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
26 1 0.01
27 80 0.99
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATTC
Found at i:57184883 original size:54 final size:54
Alignment explanation
Indices: 57184759--57184885 Score: 173
Period size: 54 Copynumber: 2.4 Consensus size: 54
57184749 TGGTAATTTT
* * **
57184759 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAACTC
* ** *
57184813 TACCCTACAAGGGTATTTCGGTAATTCTACCCTGTAGGGGTATTTTAGTAACTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAACTC
*
57184867 TACCCTACAGGGGTATTTC
1 TACCCTACAAGGGTATTTC
57184886 AACAATTTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAACTC
Found at i:57187495 original size:42 final size:41
Alignment explanation
Indices: 57187378--57187527 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 41
57187368 GTCTGAGACA
* *
57187378 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATT--GATT
* *
57187420 TACGTATAAGACCATGTCTGGGACATC-GACATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGATT
* * *
57187463 TCGTGTAAGACCCTGTCTAGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTG-ATT
* * * *
57187506 ACATGTAAGACCACGTCCGGGA
1 TCGTGTAAGACCATGTCTGGGA
57187528 TGTCGGCATT
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
42 29 0.34
43 53 0.62
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGATT
Found at i:57190575 original size:43 final size:44
Alignment explanation
Indices: 57190528--57190757 Score: 221
Period size: 43 Copynumber: 5.4 Consensus size: 44
57190518 AATGCCAACA
* * *
57190528 TCCCAAACGTGGTCTTACATGTAATCATATATCAATGCC-ACTG
1 TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCGACTG
57190571 TCCCAAACAG-GGTCTTACACG-AATCAAATA-CGATGCCGA-TG
1 TCCCAAAC-GTGGTCTTACACGTAATCAAATATCGATGCCGACTG
* * * * *
57190612 TCCCAGACATGGTCTTACACATAATCACATATCGGTGCC-ACTG
1 TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCGACTG
*
57190655 TCCCAGACAG-GGTCTTACACG-AATCAAATAT-GATGCCGA-TG
1 TCCCAAAC-GTGGTCTTACACGTAATCAAATATCGATGCCGACTG
* * * * * * *
57190696 ACCTAGACATGGTCTTACAGGTAATCACATATCGATGCCAAC-G
1 TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCGACTG
57190739 TCCCAAACGTGGTCTTACA
1 TCCCAAACGTGGTCTTACA
57190758 TGAGAACACA
Statistics
Matches: 153, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
41 48 0.31
42 37 0.24
43 67 0.44
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
TCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCGACTG
Found at i:57190665 original size:84 final size:84
Alignment explanation
Indices: 57190528--57190757 Score: 320
Period size: 84 Copynumber: 2.7 Consensus size: 84
57190518 AATGCCAACA
* * * * *
57190528 TCCCAAACGTGGTCTTACATGTAATCATATATCAATGCCACTGTCCCAAACAGGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACACGA
57190593 ATCAAATACGATGCCGATG
66 ATCAAATACGATGCCGATG
* * *
57190612 TCCCAGACATGGTCTTACACATAATCACATATCGGTGCCACTGTCCCAGACAGGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACACGA
*
57190677 ATCAAATATGATGCCGATG
66 ATCAAATACGATGCCGATG
* * *
57190696 ACCTAGACATGGTCTTACAGGTAATCACATATCGATGCCAAC-GTCCCAAAC-GTGGTCTTACA
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACTGTCCCAAACAG-GGTCTTACA
57190758 TGAGAACACA
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 1 0.01
84 126 0.98
85 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (84 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACACGA
ATCAAATACGATGCCGATG
Found at i:57194786 original size:16 final size:16
Alignment explanation
Indices: 57194765--57194800 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
57194755 ACAAAGGCTA
*
57194765 AAAAGCCAAAAAGCCG
1 AAAAGCAAAAAAGCCG
*
57194781 AAAAGCAAAAAAGTCG
1 AAAAGCAAAAAAGCCG
57194797 AAAA
1 AAAA
57194801 TTGGGTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.17, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAGCAAAAAAGCCG
Found at i:57199022 original size:46 final size:46
Alignment explanation
Indices: 57198855--57199023 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
57198845 CCCACCCCTA
* * * *
57198855 AGTGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCAT
* * *
57198900 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-ATTTGCATCCAT
* * *
57198948 CA-CGAATTCGGACTCAACTCAACAAGTTC-AGACATTTGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCAT
57198993 AGGTGAACTCGGACTCAACTCAACGAGTTCG
1 A-GTGAACTCGGACTCAACTCAACGAGTTCG
57199024 GATGCTCAAC
Statistics
Matches: 97, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
43 6 0.06
44 4 0.04
45 2 0.02
46 52 0.54
47 25 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCAT
Found at i:57199482 original size:30 final size:30
Alignment explanation
Indices: 57199448--57199507 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57199438 ATTTAATACG
57199448 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57199478 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57199508 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:57212141 original size:31 final size:30
Alignment explanation
Indices: 57212084--57212144 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
57212074 ACTAGATTGG
**
57212084 CTAAAAAATCATCATAAGTATCTCCAAATA
1 CTAAAAAATCATCATAAAAATCTCCAAATA
57212114 CTAAAAAATCATCCATAAAAA-CTTCCAAATA
1 CTAAAAAATCAT-CATAAAAATC-TCCAAATA
57212145 TTTCTCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.25
Consensus pattern (30 bp):
CTAAAAAATCATCATAAAAATCTCCAAATA
Found at i:57214629 original size:40 final size:40
Alignment explanation
Indices: 57214563--57214729 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57214553 AAATTGAATG
* * *
57214563 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57214602 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
57214642 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57214682 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57214722 ATATCCGG
1 ATATCCGG
57214730 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:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57222664 original size:40 final size:40
Alignment explanation
Indices: 57222562--57222728 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57222552 AAATTGAATG
* * * * *
57222562 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
57222602 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
57222642 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * *
57222682 CTATCC-GGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
57222721 ATATCCGG
1 ATATCCGG
57222729 TTATATTCCA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 34 0.32
40 70 0.67
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:57230450 original size:21 final size:20
Alignment explanation
Indices: 57230421--57230459 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57230411 AACTATGAGT
*
57230421 TTTATGAAGTTTGATGTTAG
1 TTTATGAAGCTTGATGTTAG
57230441 TTTATGGAAGCTTGATGTT
1 TTTAT-GAAGCTTGATGTT
57230460 GGGTCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTATGAAGCTTGATGTTAG
Found at i:57231209 original size:43 final size:43
Alignment explanation
Indices: 57231052--57231212 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 43
57231042 TATGTGATAT
* *
57231052 CATGTAAGACCACATTTGGGACGTTGGCATTGACT-TATGATTTA
1 CATGTAAGACCACGTTTGGGACGTTGGCATTGA-TATTTGA-TTA
* * ** * *
57231096 CATGTAAGACCATGTTTGGGACATCAGCATCG-TATTTGATTT
1 CATGTAAGACCACGTTTGGGACGTTGGCATTGATATTTGATTA
** * *
57231138 TGTGTAAGACC-CTGTTTGGGATAG-TGGCATTGATATTTGACTA
1 CATGTAAGACCAC-GTTTGGGA-CGTTGGCATTGATATTTGATTA
*
57231181 CATGTAAGACCACGTCTGGGACGTTGGCATTG
1 CATGTAAGACCACGTTTGGGACGTTGGCATTG
57231213 TATGAGCTTT
Statistics
Matches: 89, Mismatches: 22, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
42 26 0.29
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
CATGTAAGACCACGTTTGGGACGTTGGCATTGATATTTGATTA
Found at i:57233533 original size:33 final size:33
Alignment explanation
Indices: 57233496--57233566 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
57233486 ACTCAACTCG
57233496 TTCGTTTCCTAAGGTTCAACGGGACTTTCCTCA
1 TTCGTTTCCTAAGGTTCAACGGGACTTTCCTCA
*
57233529 TTCGTTTCCTAAGGTTCAACGGGACTTTCCTCG
1 TTCGTTTCCTAAGGTTCAACGGGACTTTCCTCA
57233562 TTCGT
1 TTCGT
57233567 AGTCCTTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (33 bp):
TTCGTTTCCTAAGGTTCAACGGGACTTTCCTCA
Found at i:57236046 original size:41 final size:39
Alignment explanation
Indices: 57235996--57236111 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 39
57235986 AGAGCCTTCC
* *
57235996 ATAGCCGAAGCTATCTCAGTCTCGCACGCTAAGTGCTATAT
1 ATAG-CGAAGCTATCTCAAT-TCGCACACTAAGTGCTATAT
* *
57236037 ATAGTCGAAGCTAT-TCCAATTCGTACACTAAGTGCTTTAT
1 ATAG-CGAAGCTATCT-CAATTCGCACACTAAGTGCTATAT
* *
57236077 ATAGCTGAAGTTATCTCGATAT-GCACACTAAGTGC
1 ATAGC-GAAGCTATCTCAAT-TCGCACACTAAGTGC
57236112 CAAACATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.02
40 44 0.70
41 18 0.29
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (39 bp):
ATAGCGAAGCTATCTCAATTCGCACACTAAGTGCTATAT
Found at i:57237889 original size:15 final size:17
Alignment explanation
Indices: 57237853--57237890 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
57237843 TTATAAACAA
57237853 ATATCAATTATTTCATT
1 ATATCAATTATTTCATT
57237870 ATATCAA-TATTTCA-T
1 ATATCAATTATTTCATT
57237885 ATATCA
1 ATATCA
57237891 TAGTTTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATCAATTATTTCATT
Found at i:57239014 original size:50 final size:50
Alignment explanation
Indices: 57238890--57239087 Score: 229
Period size: 49 Copynumber: 4.0 Consensus size: 50
57238880 GTAGCCAAAC
* * * *
57238890 TATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
57238939 TATCTGGTACACATAGTAGCCTGCACTTAGTACTATACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
57238989 TATCTGATACACGTAGTAGCCTGCACTTAGTATTACAAACGTGA-TTACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA-A-T
* * * *
57239040 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA
57239088 GCTACATATA
Statistics
Matches: 123, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 43 0.35
50 42 0.34
51 36 0.29
52 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:57243506 original size:50 final size:49
Alignment explanation
Indices: 57243375--57243515 Score: 192
Period size: 49 Copynumber: 2.9 Consensus size: 49
57243365 TATGTAGTGA
* * * **
57243375 AACTATCTGATACGCATACTAGCCTGCACTTAGTACTACACATGCGACC
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACACGACC
* * * *
57243424 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACC
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACACGACC
57243473 TAACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
1 -AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
57243516 TGTGATCACA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 40 0.51
50 39 0.49
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (49 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACACGACC
Found at i:57243593 original size:101 final size:99
Alignment explanation
Indices: 57243375--57243575 Score: 269
Period size: 99 Copynumber: 2.0 Consensus size: 99
57243365 TATGTAGTGA
* * * *
57243375 AACTATCTGATACGCATACTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACA
*
57243440 TAGTAGCCTGCACTTAGTACTACACACATGACCT
66 TAGTAGCCTGCACTTAGTACTACACACACGACCT
* * *
57243474 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGTT-TTCGAGTAC
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCG-GTAC
* **
57243538 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
63 ACATAGTAGCCTGCACTTAGTACTACACACACGACCT
57243575 A
1 A
57243576 GCTACATATA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 43 0.49
100 4 0.05
101 41 0.47
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACACGACCT
Found at i:57248365 original size:90 final size:90
Alignment explanation
Indices: 57248212--57248378 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
57248202 GAATGCCAAA
* * * * * *
57248212 GCCATGTCCCAGACATAGTCTTACATGGGTCTACCTATTGATGCCGTATCCTAGATATGGTCTTA
1 GCCATGTCCCAGACACAGTCTTACATGGGCCTACCTATCGATGCCATATCCCAGACATGGTCTTA
*
57248277 TACGAAATCTCAAGTCAGTGCCGAT
66 TACAAAATCTCAAGTCAGTGCCGAT
* *
57248302 GCCATGTCCCAGACACGGTCTTACATGGGACCT-CAC-ATCGATGCCATGTCCCAGACATGGTCT
1 GCCATGTCCCAGACACAGTCTTACATGGG-CCTAC-CTATCGATGCCATATCCCAGACATGGTCT
57248365 TATACAAAATCTCA
64 TATACAAAATCTCA
57248379 TATCAACGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
90 63 0.95
91 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (90 bp):
GCCATGTCCCAGACACAGTCTTACATGGGCCTACCTATCGATGCCATATCCCAGACATGGTCTTA
TACAAAATCTCAAGTCAGTGCCGAT
Found at i:57248417 original size:42 final size:42
Alignment explanation
Indices: 57248302--57248422 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
57248292 CAGTGCCGAT
* ** * * * *
57248302 GCCATGTCCCAGACACGGTCTTACATGGGACCTCACATCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
* **
57248344 GCCATGTCCCAGACATGGTCTTATACAAAATCTCATATCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
* * *
57248386 GCCATATCCCAGATATGGTCTTACATGAAATCACATA
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATA
57248423 CCGGGGCCGA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
Found at i:57248469 original size:27 final size:27
Alignment explanation
Indices: 57248431--57248482 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
57248421 TACCGGGGCC
57248431 GATGCCATATCCCAAATATGGTCTTCG
1 GATGCCATATCCCAAATATGGTCTTCG
*
57248458 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATATCCCAAATATGGTCTT
57248483 ACATTGGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
GATGCCATATCCCAAATATGGTCTTCG
Found at i:57248509 original size:75 final size:75
Alignment explanation
Indices: 57248386--57248530 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 75
57248376 TCATATCAAC
** *
57248386 GCCATATCCCAGATATGGTCTTACATGAAATCACATACCGGGGCCGATGCCATATCCCAAATATG
1 GCCATATCCCAGATATGGTCTTACATGAAATCACATACCAAGACCGATGCCATATCCCAAATATG
57248451 GTCTTCGGAT
66 GTCTTCGGAT
** * * * *
57248461 GCCATATCCCAGATATGGTCTTACATTGGCA-CACATATCAATACCGATGCCATGTCCTAAATAT
1 GCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCAAGACCGATGCCATATCCCAAATAT
57248525 GGTCTT
65 GGTCTT
57248531 ATAGTGGCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
75 57 0.95
76 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (75 bp):
GCCATATCCCAGATATGGTCTTACATGAAATCACATACCAAGACCGATGCCATATCCCAAATATG
GTCTTCGGAT
Found at i:57248529 original size:48 final size:48
Alignment explanation
Indices: 57248458--57248587 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 48
57248448 ATGGTCTTCG
* * * *
57248458 GATGCCATATCCCAGATATGGTCTTACATTGGC-ACACATATCAATACC
1 GATGCCATGTCCCAAATATGGTCTTACAGTGGCTA-ACATATCAACACC
* * * *
57248506 GATGCCATGTCCTAAATATGGTCTTATAGTGGCTATCATATCAACCCC
1 GATGCCATGTCCCAAATATGGTCTTACAGTGGCTAACATATCAACACC
* * * *
57248554 GATGCCATGTCCCAGACATAGTCTTACACTGGCT
1 GATGCCATGTCCCAAATATGGTCTTACAGTGGCT
57248588 CTCATTAATC
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 66 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAATATGGTCTTACAGTGGCTAACATATCAACACC
Found at i:57255153 original size:29 final size:29
Alignment explanation
Indices: 57255142--57255214 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
57255132 TTTTCAGCTT
*
57255142 GCACACATAGTGTCATATTTTTCCAGCAC
1 GCACACATAGTGCCATATTTTTCCAGCAC
* *
57255171 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACATAGTGCCATATTTTTCCAGCAC
*
57255200 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
57255215 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
GCACACATAGTGCCATATTTTTCCAGCAC
Found at i:57259902 original size:40 final size:40
Alignment explanation
Indices: 57259817--57259967 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
57259807 AAATTGATGA
* * * * *
57259817 TATCCAGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57259857 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57259898 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57259937 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57259968 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57259981 original size:40 final size:40
Alignment explanation
Indices: 57259854--57259983 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
57259844 ATGCTGGAAA
* * *
57259854 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
57259894 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
57259934 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
57259974 TTATATCCGG
1 TTATATCCGG
57259984 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:57262275 original size:43 final size:43
Alignment explanation
Indices: 57262222--57262391 Score: 216
Period size: 43 Copynumber: 4.0 Consensus size: 43
57262212 ACATAGAATT
* *
57262222 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACTTTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* *
57262265 TCGATTTGTGATTTGCATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCA
* * * * *
57262309 TCG-TATATGAGTTCGTGTAAGACCCTGTCTGGGACAATGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * *
57262351 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGG
57262392 TATTGTACAA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 28 0.26
43 49 0.46
44 29 0.27
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
Done.