Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 212 of 433
Found at i:66104748 original size:27 final size:27
Alignment explanation
Indices: 66104687--66104750 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
66104677 GGCATATTCG
*
66104687 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGA
* *
66104714 TCACTTTACCCTACAGGGGCT-TTACGA
1 TCATTTTACCATACAGGGG-TATTACGA
*
66104741 TCTTTTTACC
1 TCATTTTACC
66104751 TTTTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGA
Found at i:66104852 original size:27 final size:27
Alignment explanation
Indices: 66104804--66104855 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
66104794 GTAAATCAAC
*
66104804 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTCCAGTAATTTTGT
*
66104831 AAACCAATGGTATTCCTA-TAATTTT
1 AAACCAAAGGTATTCC-AGTAATTTT
66104856 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTATTCCAGTAATTTTGT
Found at i:66104932 original size:26 final size:27
Alignment explanation
Indices: 66104867--66104937 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
66104857 AGAAAGTCAA
* * **
66104867 GGGTATTTCTGTAACTTTGTAAATTAG
1 GGGTATTTCGGTAATTTTACAAATTAG
*
66104894 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTCGGTAATTTTACAAATTAG
66104920 GGGTATTTCGGTAATTTT
1 GGGTATTTCGGTAATTTT
66104938 GTAAATCAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 18 0.47
27 20 0.53
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATTAG
Found at i:66104943 original size:26 final size:27
Alignment explanation
Indices: 66104867--66104943 Score: 102
Period size: 26 Copynumber: 2.9 Consensus size: 27
66104857 AGAAAGTCAA
* *
66104867 GGGTATTTCTGTAACTTTGTAAATTAG
1 GGGTATTTCGGTAATTTTGTAAATTAG
* **
66104894 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTCGGTAATTTTGTAAATTAG
66104920 GGGTATTTCGGTAATTTTGTAAAT
1 GGGTATTTCGGTAATTTTGTAAAT
66104944 CAAGGGTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATTAG
Found at i:66104961 original size:27 final size:27
Alignment explanation
Indices: 66104928--66105194 Score: 304
Period size: 27 Copynumber: 9.9 Consensus size: 27
66104918 TGGGGTATTT
* *
66104928 CGGTAATTTTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
** *
66104955 CAATAATTCTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
** *
66104982 TAGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
66105009 TGGTAATTCTGTAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
66105036 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
66105063 CGATAATTATGTAAATCTG-GGGTAAAA
1 CGGTAATTCTGTAAATC-GAGGGTAAAA
* * *
66105090 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* *
66105117 TGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* **
66105144 CGGTAATTTTACAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
66105171 CAGTAATTCTATAAATCGAGGGTA
1 CGGTAATTCTGTAAATCGAGGGTA
66105195 CTTTGGTAAT
Statistics
Matches: 210, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
27 208 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
CGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:66105216 original size:27 final size:27
Alignment explanation
Indices: 66105117--66105422 Score: 244
Period size: 27 Copynumber: 11.4 Consensus size: 27
66105107 AGGGGTAAAA
* * ***
66105117 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTACAAATCGAGGGTATTT
* ***
66105144 CGGTAATTTTACAAATCGAGGGTAAAA
1 TGGTAATTTTACAAATCGAGGGTATTT
** * * *
66105171 CAGTAATTCTATAAATCGAGGGTACTT
1 TGGTAATTTTACAAATCGAGGGTATTT
*
66105198 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAATCGAGGGTATTT
*** **
66105225 CAATAATTTTACAGGTCGAGGGTATTT
1 TGGTAATTTTACAAATCGAGGGTATTT
** * *
66105252 CAGTAATTTCACAAAT-TAGGGGTATTT
1 TGGTAATTTTACAAATCGA-GGGTATTT
*
66105279 TGGTAATTTTACAAA-CTAGGGGTATTT
1 TGGTAATTTTACAAATCGA-GGGTATTT
* *
66105306 TGATAATTTTACAAA-CTAGGGGTATTT
1 TGGTAATTTTACAAATCGA-GGGTATTT
*
66105333 TGGTAATTTTACAAA-CTAGGGGTATTT
1 TGGTAATTTTACAAATCGA-GGGTATTT
* * *
66105360 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAATCGAGGGTATTT
* *
66105387 TAGTAATTTTACAAAGC-AGGGTATTT
1 TGGTAATTTTACAAATCGAGGGTATTT
66105413 TGGTAATTTT
1 TGGTAATTTT
66105423 GTAAACCAAA
Statistics
Matches: 241, Mismatches: 35, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.08
27 220 0.91
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGTAATTTTACAAATCGAGGGTATTT
Found at i:66105244 original size:54 final size:54
Alignment explanation
Indices: 66104905--66105267 Score: 164
Period size: 54 Copynumber: 6.7 Consensus size: 54
66104895 GGTATTTTGG
* * ** *
66104905 TAATTTTACAAATTG-GGGTATTTCGGTAATTTTGTAAATCAAGGGTAAAACAA
1 TAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTAAAACAA
** * ** * * * ***
66104958 TAATTCTGTAAATCAAGGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTACAAATCGAGGGT-ATTTCGGTAATTTTACAAATCGAGGGTAAAACAA
** *** * ** * *
66105012 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGA
1 TAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTAAAACAA
* ** ** * * ***
66105066 TAATTATGTAAATCTG-GGGTAAAAT-GGTAATTATGTA-AATTAG-GGGTAAAATGG
1 TAATTCTACAAATC-GAGGGT-ATTTCGGTAATT-T-TACAAATCGAGGGTAAAACAA
* *** *
66105120 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAG
1 TAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTAAAACAA
* * ***
66105174 TAATTCTATAAATCGAGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTCTACAAATCGAGGGTA-TTTCGGTAATTTTACAAATCGAGGGTAAAACAA
* ** * *
66105228 TAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAAT
1 TAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
66105268 TAGGGGTATT
Statistics
Matches: 246, Mismatches: 51, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
52 2 0.01
53 25 0.10
54 208 0.85
55 10 0.04
56 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (54 bp):
TAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTAAAACAA
Found at i:66105436 original size:26 final size:26
Alignment explanation
Indices: 66105272--66105439 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
66105262 ACAAATTAGG
* *
66105272 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
66105299 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
66105326 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
66105353 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
66105379 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
66105406 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
66105432 AGTATTTT
1 GGTATTTT
66105440 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:66108896 original size:8 final size:8
Alignment explanation
Indices: 66108883--66108908 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
66108873 ATTTATAGGC
66108883 TTTTATTA
1 TTTTATTA
66108891 TTTTATTA
1 TTTTATTA
66108899 TTTTATTA
1 TTTTATTA
66108907 TT
1 TT
66108909 CTGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:66110106 original size:7 final size:7
Alignment explanation
Indices: 66110094--66110127 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
66110084 GGTAATGCTC
66110094 GATAAAT
1 GATAAAT
66110101 GATAAAT
1 GATAAAT
66110108 GATAAAT
1 GATAAAT
66110115 GATAAAT
1 GATAAAT
66110122 GATAAA
1 GATAAA
66110128 AATGTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:66110468 original size:57 final size:57
Alignment explanation
Indices: 66110354--66110497 Score: 159
Period size: 57 Copynumber: 2.5 Consensus size: 57
66110344 TTACAGAAAA
* * *
66110354 GATTTAGCTTCGACTAGTAATCCTGATATAAGCCCTCTTGAGCATATGTACAGATAG
1 GATTTAGCTTAGACAAGTAATCCTGATATAAGCCCTCTTGAGCATATGTACAAATAG
* * * *
66110411 GATTTAGCCTAGACGAGTAATCTTGAT-TAAGCTCT-TGTGAGCATATGTTGA-AAATAG
1 GATTTAGCTTAGACAAGTAATCCTGATATAAGCCCTCT-TGAGCATATG-T-ACAAATAG
* *
66110468 GATTTAGCTTGGACAAGTAATCCTGTTATA
1 GATTTAGCTTAGACAAGTAATCCTGATATA
66110498 TGATATGTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
55 1 0.01
56 17 0.24
57 51 0.71
58 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (57 bp):
GATTTAGCTTAGACAAGTAATCCTGATATAAGCCCTCTTGAGCATATGTACAAATAG
Found at i:66115053 original size:68 final size:68
Alignment explanation
Indices: 66114906--66115061 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
66114896 AGCCGATTTG
* * * * *
66114906 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
66114971 TATC
65 TATA
* *
66114975 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
66115037 ATATAGTA
62 ATATA-TA
66115045 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
66115062 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:66120855 original size:68 final size:68
Alignment explanation
Indices: 66120708--66120863 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
66120698 AGCCGATTTG
* * * * *
66120708 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
66120773 TATC
65 TATA
* *
66120777 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
66120839 ATATAGTA
62 ATATA-TA
66120847 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
66120864 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:66121994 original size:44 final size:42
Alignment explanation
Indices: 66121936--66122101 Score: 131
Period size: 42 Copynumber: 3.9 Consensus size: 42
66121926 GTTTTGATAT
* *
66121936 TGTGCTTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-A
1 TGTGATTTTGTGTAAGACCACGTCTGGGACATTGGCATCGTA
* * *
66121977 CCTGTGATTTATGTGTAAGACCATGTCTGGGAGATTGACATCGTA
1 --TGTGATTT-TGTGTAAGACCACGTCTGGGACATTGGCATCGTA
* * * *
66122022 TTTGATTTTGTGTAAGACC-CTGTCTGGGATAGTGGCATCAATA
1 TGTGATTTTGTGTAAGACCAC-GTCTGGGACATTGGCATC-GTA
* *** * *
66122065 TTTGA-TACATGTAAGACCACTTTTGGGACATTGGCAT
1 TGTGATTTTGTGTAAGACCACGTCTGGGACATTGGCAT
66122102 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
42 49 0.49
43 22 0.22
44 28 0.28
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTGATTTTGTGTAAGACCACGTCTGGGACATTGGCATCGTA
Found at i:66122046 original size:42 final size:43
Alignment explanation
Indices: 66121945--66122050 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
66121935 TTGTGCTTTC
*
66121945 GTGTAAGACCAC-GTCTGGGACATTGGCATCGACCTGTGATTTAT
1 GTGTAAGACC-CTGTCTGGGACATTGACATCGA-CTGTGATTTAT
* * *
66121989 GTGTAAGACCATGTCTGGGAGATTGACATCGTA-TTTGATTT-T
1 GTGTAAGACCCTGTCTGGGACATTGACATCG-ACTGTGATTTAT
66122031 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCCTGTCTGGGA
66122051 TAGTGGCATC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 20 0.36
43 7 0.13
44 27 0.49
45 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGGACATTGACATCGACTGTGATTTAT
Found at i:66129523 original size:40 final size:40
Alignment explanation
Indices: 66129466--66129629 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
66129456 TGAATGATAC
* * * *
66129466 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
66129506 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
66129546 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
66129586 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
66129626 CCGG
1 CCGG
66129630 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:66141540 original size:40 final size:40
Alignment explanation
Indices: 66141495--66141676 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
66141485 ATAACCACAA
* * *
66141495 GCACAATTGCCTTCGGCTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
66141535 GCACAAATACCTTCGGGTCTTAGCCCGGTTATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
66141575 GCACAAATGCCTTCAGGTCTTAACCCGGATATAGCAACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
66141615 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
66141655 GCATAAATGCCTTCGGGGCTTA
1 GCACAAATGCCTTCGGGTCTTA
66141677 GCCTGGGTAT
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 123 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:66141598 original size:80 final size:79
Alignment explanation
Indices: 66141479--66141670 Score: 260
Period size: 80 Copynumber: 2.4 Consensus size: 79
66141469 CGGAATTTAG
* * * *
66141479 CCGGATATAACCACAAGCACAATTGCCTTCGGCTCTTAACCCGGGTATAGCAACTCGCACAAATA
1 CCGGATATAATCACTAGCACAAATGCCTTCGG-TCTTAACCCGGGTATAGCAACTAGCACAAATA
*
66141544 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAAC
* * *
66141559 CCGGTTATAA-CAACTCGCACAAATGCCTTCAGGTCTTAACCCGGATATAGCAACTAGCACAAAT
1 CCGGATATAATC-ACTAGCACAAATGCCTTC-GGTCTTAACCCGGGTATAGCAACTAGCACAAAT
*
66141623 GCCTTCGGGTCTTAAC
64 ACCTTCGGGTCTTAAC
*
66141639 CCGGATATAATCACTAGCATAAATGCCTTCGG
1 CCGGATATAATCACTAGCACAAATGCCTTCGG
66141671 GGCTTAGCCT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
79 3 0.03
80 92 0.94
81 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (79 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGTCTTAACCCGGGTATAGCAACTAGCACAAATAC
CTTCGGGTCTTAAC
Found at i:66145863 original size:22 final size:21
Alignment explanation
Indices: 66145838--66145879 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
66145828 TATGTCTAAA
*
66145838 TTTAATTATTACTTTTAAATTG
1 TTTAATTATTA-ATTTAAATTG
*
66145860 TTTAGTTATTAATTTAAATT
1 TTTAATTATTAATTTAAATT
66145880 ATGATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTAATTATTAATTTAAATTG
Found at i:66148716 original size:57 final size:57
Alignment explanation
Indices: 66148598--66148721 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 57
66148588 CATTACAGAA
* * *
66148598 AGGATTTAGCCTGGACTGGTAATACTGATATAAGGCCTCTTGAGCATATGTACAGAT
1 AGGATTTAGCCCGGACTGGTAATACTGATATAAGGCCTCTTGAGCATATGTACAAAC
66148655 AGGATTTAGCCCGGACTGGTAAT-CTTGAT-TAA-G-CTCTTGTGAGCATATGGTGA-AAAC
1 AGGATTTAGCCCGGACTGGTAATAC-TGATATAAGGCCTC-T-TGAGCATAT-GT-ACAAAC
66148712 AGGATTTAGC
1 AGGATTTAGC
66148722 TTGGAAAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
54 3 0.05
55 2 0.03
56 13 0.22
57 40 0.68
58 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (57 bp):
AGGATTTAGCCCGGACTGGTAATACTGATATAAGGCCTCTTGAGCATATGTACAAAC
Found at i:66151090 original size:14 final size:14
Alignment explanation
Indices: 66151068--66151115 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66151058 ACCTAAACCG
* *
66151068 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
66151082 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
66151096 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
66151110 ACCATT
1 ACCATT
66151116 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:66151504 original size:13 final size:13
Alignment explanation
Indices: 66151488--66151532 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
66151478 AAAAAAAATC
*
66151488 AAAAAAATTTGAA
1 AAAAAAATTCGAA
66151501 AAAAAAATTCGAA
1 AAAAAAATTCGAA
66151514 AAAAAAA-TCGAA
1 AAAAAAATTCGAA
66151526 AAAAAAA
1 AAAAAAA
66151533 AAGAGTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:66151532 original size:12 final size:12
Alignment explanation
Indices: 66151478--66151532 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
66151468 TATACAAGTT
66151478 AAAAAAAATC--
1 AAAAAAAATCGA
* *
66151488 AAAAAAATTTGA
1 AAAAAAAATCGA
66151500 AAAAAAAATTCGA
1 AAAAAAAA-TCGA
66151513 AAAAAAAATCGA
1 AAAAAAAATCGA
66151525 AAAAAAAA
1 AAAAAAAA
66151533 AAGAGTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 8 0.21
12 19 0.50
13 11 0.29
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:66156700 original size:19 final size:19
Alignment explanation
Indices: 66156676--66156715 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
66156666 AGCTCCCATG
66156676 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
66156695 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
66156714 TA
1 TA
66156716 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:66157978 original size:14 final size:14
Alignment explanation
Indices: 66157956--66158003 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66157946 ACCTAAACCG
* *
66157956 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
66157970 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
66157984 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
66157998 ACCATT
1 ACCATT
66158004 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:66168338 original size:31 final size:30
Alignment explanation
Indices: 66168298--66168367 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
66168288 ATTTTCTCGA
* *
66168298 TTTTCTTTTCTTTTTCTTCTTTTTCACTCTC
1 TTTTATTTTCTTTTTCTTATTTTTCACT-TC
* *
66168329 TTTTGTTTTCTTTTTCTTATTTTTCTCTTC
1 TTTTATTTTCTTTTTCTTATTTTTCACTTC
66168359 TTTTATTTT
1 TTTTATTTT
66168368 TTTACAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (30 bp):
TTTTATTTTCTTTTTCTTATTTTTCACTTC
Found at i:66170493 original size:13 final size:14
Alignment explanation
Indices: 66170475--66170510 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
66170465 TAAATCACTT
66170475 TTTTTTTTTC-GAA
1 TTTTTTTTTCGGAA
66170488 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
66170502 TTTTTTTTT
1 TTTTTTTTT
66170511 TCAAACTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:66170493 original size:14 final size:15
Alignment explanation
Indices: 66170474--66170512 Score: 64
Period size: 13 Copynumber: 2.7 Consensus size: 15
66170464 ATAAATCACT
66170474 TTTTTTTTTTC-GAA
1 TTTTTTTTTTCGGAA
66170488 -TTTTTTTTTCGGAA
1 TTTTTTTTTTCGGAA
66170502 TTTTTTTTTTC
1 TTTTTTTTTTC
66170513 AAACTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTTTTTTTCGGAA
Found at i:66173026 original size:32 final size:34
Alignment explanation
Indices: 66172980--66173044 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
66172970 TAACAATGGT
*
66172980 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
66173012 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
66173045 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:66174922 original size:26 final size:26
Alignment explanation
Indices: 66174886--66174967 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
66174876 TGAAATTCCA
66174886 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66174912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
66174938 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66174964 ATCA
1 ATCA
66174968 ATTTGTATTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:66177408 original size:183 final size:184
Alignment explanation
Indices: 66177110--66177511 Score: 529
Period size: 183 Copynumber: 2.2 Consensus size: 184
66177100 TTATCTTTGA
* * * * * * *
66177110 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTTACTTTCTATCACGCTGCCATGGTATCTT
* ** * * * * * **
66177175 TCAACCATGGTCTTATTCTTTTCATGTCATGTTGCCATGGTATCTTTCAACTATGGTCTTATTCA
66 TCAACCATAGTCTTACACATTTCATATCATGTTGCCATGGAATATTTCAACCATGGTCTTACACA
* * * ** * *
66177240 TTTTATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
131 TTTCATATCACGCTGCCATGGAATCTTTCAACCATGGTCTTACACATTTCATAT
*
66177294 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TT-CTTTCATGTCACGCTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTTACTTTC-TATCACGCTGCCATGGTATCT
66177357 TTCAACCATAGTCTTACACATTTCATATCATGTTGCCATGGAATATTTCAACCATGGTCTTACAC
65 TTCAACCATAGTCTTACACATTTCATATCATGTTGCCATGGAATATTTCAACCATGGTCTTACAC
* *
66177422 ATTTCATATCATGTTGCCATGGAATCTTTCAACCATGGTCTTACACATTTCATAT
130 ATTTCATATCACGCTGCCATGGAATCTTTCAACCATGGTCTTACACATTTCATAT
*
66177477 TATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
66177512 ACATTTCATT
Statistics
Matches: 188, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
182 4 0.02
183 154 0.82
184 30 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (184 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTTACTTTCTATCACGCTGCCATGGTATCTT
TCAACCATAGTCTTACACATTTCATATCATGTTGCCATGGAATATTTCAACCATGGTCTTACACA
TTTCATATCACGCTGCCATGGAATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:66177512 original size:46 final size:46
Alignment explanation
Indices: 66177110--66177520 Score: 529
Period size: 46 Copynumber: 9.0 Consensus size: 46
66177100 TTATCTTTGA
* * * * *
66177110 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* * *
66177156 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
66177202 CATGTTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * * *
66177248 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
66177294 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
66177339 CACGCTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
66177385 CATGTTGCCATGGAATATTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
66177431 CATGTTGCCATGGAATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
66177477 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
66177521 TTCAGAGAGC
Statistics
Matches: 330, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 43 0.13
46 287 0.87
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:66181068 original size:47 final size:47
Alignment explanation
Indices: 66180895--66181064 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
66180885 GTTATACGTG
* *
66180895 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* *
66180942 GTAACATGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* * * *
66180990 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATGTGTTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
*
66181037 TAATGTGGTGCTAAGTGGATATACCACG
1 TAACGTGGTGCTAAGTGGATATACCACG
66181065 GTTAAACATG
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 69 0.62
48 43 0.38
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
Found at i:66181092 original size:38 final size:38
Alignment explanation
Indices: 66181041--66181113 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
66181031 ATTCATTAAT
66181041 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
* *
66181079 GTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
66181114 TAATTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
Found at i:66183998 original size:27 final size:27
Alignment explanation
Indices: 66183968--66184161 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
66183958 TACTGAAATG
** *
66183968 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * * *
66183995 CCCTTGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
66184022 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
66184049 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
66184076 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
66184103 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
66184130 CCCTC-AGTTTAAAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
66184157 CCCTC
1 CCCTC
66184162 AATTGTGAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:66184040 original size:54 final size:54
Alignment explanation
Indices: 66183968--66184160 Score: 253
Period size: 54 Copynumber: 3.6 Consensus size: 54
66183958 TACTGAAATG
** * * * * *
66183968 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
*
66184022 CCCTCGATTTACAAAATTATCGTTTTACCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
* * * *
66184076 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
*
66184130 CCCTC-AGTTTAAAAAATTACCGTTTTACCCT
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCT
66184161 CAATTGTGAA
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
Found at i:66184085 original size:81 final size:81
Alignment explanation
Indices: 66183968--66184161 Score: 264
Period size: 81 Copynumber: 2.4 Consensus size: 81
66183958 TACTGAAATG
* * * * *
66183968 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
* *
66184033 CAAAATTATCGTTTTA
66 CAAAATTACCATTTTA
*
66184049 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
66184114 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * *
66184130 CCC-TCAGTTTAAAAAATTACCGTTTTACCCTC
1 CCCTTGA-TTTATAGAATTACCATTTTACCCTC
66184162 AATTGTGAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
80 2 0.02
81 98 0.98
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:66184227 original size:27 final size:27
Alignment explanation
Indices: 66184197--66184347 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
66184187 TGTAGGATAG
66184197 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
66184224 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
66184251 AATTACCGAAATACCACTGGTTTTTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
66184278 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
66184305 AATTACCAAAACACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
66184332 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
66184348 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.05
27 95 0.91
28 4 0.04
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:66184238 original size:54 final size:54
Alignment explanation
Indices: 66184164--66184315 Score: 146
Period size: 54 Copynumber: 2.8 Consensus size: 54
66184154 TTACCCTCAA
* * *
66184164 TTGTGAAATTACTAAAATACCCAT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCATAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
66184218 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
* * * **
66184272 TTTTGAAATTACCGAAATACCC-TCAATTTGTAAAATTACCAAAA
1 TTGTGAAATTACCAAAATACCCAT-AGTAGGTAAAATTACCAAAA
66184316 CACCCCTGAT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 78 0.95
55 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:66184290 original size:81 final size:81
Alignment explanation
Indices: 66184197--66184346 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
66184187 TGTAGGATAG
* * ** *
66184197 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAACACCCCTGA-TTTACAAAATTACAGA
66184260 AATACCACTGGTTTTTGA
64 AATACCACTGGTTTTTGA
*
66184278 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTACAGAAA
66184343 TACC
66 TACC
66184347 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTTTGA
Found at i:66184398 original size:27 final size:27
Alignment explanation
Indices: 66184222--66184410 Score: 87
Period size: 27 Copynumber: 6.9 Consensus size: 27
66184212 CCTAGTTTGT
** * * **
66184222 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* **
66184249 AAAATTACCGAAATACCAC-TGGTTTTT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* * *** **
66184276 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * * *
66184303 AAAATTACCAAAACACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
66184330 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
66184357 TAAAAAT-CATAGAAATACCATTGGTTTAC
1 -AAAATTAC-T-GAAATACCCTTGGTTTAC
66184386 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
66184411 GTAGATTTAC
Statistics
Matches: 127, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 95 0.75
28 18 0.14
29 13 0.10
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:66184528 original size:27 final size:27
Alignment explanation
Indices: 66184464--66184528 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
66184454 ACCCCTAATA
*
66184464 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
66184491 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
66184518 GGTAAAATGAC
1 GGTAAAATGAC
66184529 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:66185306 original size:31 final size:31
Alignment explanation
Indices: 66185268--66185330 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
66185258 CTTTTCATAC
66185268 TTCATATTTCATAATACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
*
66185299 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
66185330 T
1 T
66185331 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAATACTGGGCCGAAGCCTT
Found at i:66185580 original size:24 final size:24
Alignment explanation
Indices: 66185522--66185665 Score: 211
Period size: 24 Copynumber: 6.0 Consensus size: 24
66185512 GCTTTATCAT
* *
66185522 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
66185547 ATAACT-GGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66185570 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66185594 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
66185618 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
66185642 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66185666 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.13
24 89 0.82
25 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:66187057 original size:27 final size:27
Alignment explanation
Indices: 66186957--66187040 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
66186947 GGGCATATTC
* *
66186957 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
66186984 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
66187011 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
66187038 GTC
1 GTC
66187041 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:66187202 original size:27 final size:27
Alignment explanation
Indices: 66187163--66187314 Score: 157
Period size: 27 Copynumber: 5.7 Consensus size: 27
66187153 TAGAAGTCAA
* **
66187163 GGGTATTTT-GTAACTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
66187189 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* * * *
66187215 AGGGTATTTCGGTAATTTCACAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATCAG
66187243 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
* *
66187270 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
66187297 AGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
66187315 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
26 11 0.10
27 94 0.89
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:66187203 original size:81 final size:82
Alignment explanation
Indices: 66187110--66187314 Score: 206
Period size: 81 Copynumber: 2.5 Consensus size: 82
66187100 ACAAACCAAA
* ** * * * **
66187110 GGTA-TTTAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAGTCAAGGGTATTTT-G
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTCTATAATTTTCACAAACCAAGGGTATTTTGG
*
66187173 TAACTTTGTA-AATC-AGG
66 TAA-TTT-TACAAACTAGG
*** * **
66187190 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTCACAAACCAAGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTCTATAATTTTCACAAACCAAGGGTATTTTGG
66187254 TAATTTTACAAACTAGG
66 TAATTTTACAAACTAGG
66187271 GGTATTTTGGTAATTTTACAAACCAAAGGTATTT-TAGTAATTTT
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTCTA-TAATTTT
66187315 GTAAATCGAG
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
79 2 0.02
80 28 0.28
81 66 0.67
82 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (82 bp):
GGTATTTTGGTAATTTTACAAACCAAAGGTATTTCTATAATTTTCACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAGG
Found at i:66187247 original size:54 final size:54
Alignment explanation
Indices: 66187189--66187328 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
66187179 TGTAAATCAG
66187189 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
66187243 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* * ** *
66187297 AGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
66187329 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:66187328 original size:27 final size:27
Alignment explanation
Indices: 66187110--66187382 Score: 151
Period size: 27 Copynumber: 10.1 Consensus size: 27
66187100 ACAAACCAAA
* * *
66187110 GGTA-TTTAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
66187136 GGTATTTCTA-TAATTTT-TAGAAGTCAAG
1 GGTATTT-TAGTAATTTTATA-AA-TCAAG
* * *
66187164 GGTATTTT-GTAACTTTGTAAATCAGG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * **
66187190 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
66187217 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
66187244 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * * *
66187271 GGTATTTTGGTAATTTTACAAACCAAA
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
66187298 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
66187325 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
66187352 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
66187379 GGTA
1 GGTA
66187383 AAATGGTAAT
Statistics
Matches: 204, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
26 19 0.09
27 170 0.83
28 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:66187355 original size:81 final size:81
Alignment explanation
Indices: 66187280--66187509 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 81
66187270 GGGTATTTTG
* *** *
66187280 GTAATTTTACAAACCAAAGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTACAAACCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
66187345 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * * *
66187361 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* *
66187426 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
** * ** * * *
66187441 GATAA-TCATGTAAATCAGGGGTAAAAT-GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCT
1 G-TAATTC-TACAAACCAAAGGTAAAATAGTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCT
66187503 GTAAATC
63 GTAAATC
66187510 GGGGGTACTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 40 0.31
81 86 0.68
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (81 bp):
GTAATTCTACAAACCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAACA
Found at i:66187383 original size:27 final size:27
Alignment explanation
Indices: 66187306--66187516 Score: 243
Period size: 27 Copynumber: 7.9 Consensus size: 27
66187296 AAGGTATTTT
*
66187306 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66187333 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66187360 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66187387 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66187414 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
66187441 -GATAA-TCATGTAAATC-AGGGGTAAAA-
1 AG-TAATTC-TGTAAATCGA-GGGTAAAAC
* * *
66187467 TGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
66187494 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
66187517 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
26 24 0.15
27 137 0.85
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:66187536 original size:107 final size:108
Alignment explanation
Indices: 66187320--66187543 Score: 258
Period size: 107 Copynumber: 2.1 Consensus size: 108
66187310 ATTTTGTAAA
* *
66187320 TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAA
1 TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTATATAAATAGAGGGTAAA
* **
66187385 ATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAG
66 ACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* * *
66187428 TCGAGGGTAAAAC-GATAA-TCATGTAAATCAGGGGTAAAA-TGTAATTATGTAAATTAG-GGGT
1 TCGAGGGTAAAACAG-TAATTC-TGTAAATCAAGGGTAAAACAGTAATTATATAAA-TAGAGGGT
* **** *
66187489 AAAACGGTAATTCTGTAAATCGGGGGTACTTTGGTAATTTTACAAG
63 AAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAG
*
66187535 TCGAAGGTA
1 TCGAGGGTA
66187544 TTTCGGTAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
107 63 0.64
108 35 0.36
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (108 bp):
TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTATATAAATAGAGGGTAAA
ACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAG
Found at i:66187543 original size:27 final size:27
Alignment explanation
Indices: 66187513--66187611 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
66187503 GTAAATCGGG
*
66187513 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
66187540 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
66187567 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
66187593 GGATATTTCGGTAATTTTA
1 GG-TATTTCGGTAATTTTA
66187612 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.12
27 53 0.88
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:66187563 original size:54 final size:54
Alignment explanation
Indices: 66187505--66187611 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
66187495 GTAATTCTGT
* * *
66187505 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAGG-TATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGATATTTCGGTAAATTTAC
* * *
66187559 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGATATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGATATTTCGGTAAATTTA
66187612 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGATATTTCGGTAAATTTAC
Found at i:66187626 original size:27 final size:26
Alignment explanation
Indices: 66187522--66187626 Score: 66
Period size: 27 Copynumber: 3.9 Consensus size: 26
66187512 GGGTACTTTG
* * * *
66187522 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAA-ACTAAAGTATTTCA
* * **
66187549 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAA-CTAAAGTATTTCA
* * *
66187576 GTATTTTTACAAACTAAGGATATTTCG
1 GTAATTTTACAAACTAAAG-TATTTCA
*
66187603 GTAATTTTAGTAAACTAAAGTATT
1 GTAATTTTA-CAAACTAAAGTATT
66187627 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.06
27 51 0.81
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAAACTAAAGTATTTCA
Found at i:66189644 original size:42 final size:42
Alignment explanation
Indices: 66189578--66189669 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
66189568 TAGTCTCCCC
*
66189578 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACACTCATTGACATTACATGTGATATTG
66189620 AAATGGGCTTGCATACAACT-ATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATAC-ACTCATTGACATTACATGTGATATTG
66189662 AAATGGGC
1 AAATGGGC
66189670 ATAAGGGCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACACTCATTGACATTACATGTGATATTG
Found at i:66189728 original size:31 final size:31
Alignment explanation
Indices: 66189693--66189838 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
66189683 CGTTTACAGT
*
66189693 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
66189724 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66189755 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
66189786 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66189817 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
66189839 TCAAGACTAA
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:66197844 original size:15 final size:15
Alignment explanation
Indices: 66197824--66197865 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
66197814 GCTGTAAATG
66197824 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
66197839 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
66197854 GGATTTCCTTAT
1 GGATTTCCTTAT
66197866 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:66200620 original size:38 final size:38
Alignment explanation
Indices: 66200569--66200862 Score: 212
Period size: 38 Copynumber: 7.0 Consensus size: 38
66200559 AATGAAAAAA
* *
66200569 AACGTGATGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
66200607 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* *
66200655 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * *
66200702 AATGTGGTGCTAAGTGGATATACCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
66200740 AACGTGGTGCTAAGTGGATATGCCACGGTTACATGTATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGG-----T-TA-T-A--CATGT
*
66200787 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
66200825 AACGTGGTGCTAAGTGGATATGCCACGATTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
66200863 TAATTTGAAA
Statistics
Matches: 206, Mismatches: 21, Indels: 58
0.72 0.07 0.20
Matches are distributed among these distances:
37 3 0.01
38 88 0.43
39 3 0.01
40 4 0.02
41 4 0.02
42 1 0.00
43 1 0.00
44 4 0.02
45 3 0.01
46 1 0.00
47 58 0.28
48 36 0.17
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:66200675 original size:48 final size:48
Alignment explanation
Indices: 66200599--66200822 Score: 256
Period size: 47 Copynumber: 4.9 Consensus size: 48
66200589 TACCACGGTT
* *
66200599 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
66200647 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
66200695 ATTCAT-TAATGTGGTGCTAAGTGGATATACCACAG-T-----TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* **
66200733 A-ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATGTATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
66200780 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
66200823 GTAACGTGGT
Statistics
Matches: 148, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 3 0.02
38 27 0.18
39 1 0.01
41 2 0.01
44 2 0.01
46 1 0.01
47 60 0.41
48 52 0.35
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:66200756 original size:85 final size:85
Alignment explanation
Indices: 66200649--66200851 Score: 379
Period size: 85 Copynumber: 2.4 Consensus size: 85
66200639 ACATATTGAT
*
66200649 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
66200714 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
*
66200734 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATGTATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
66200799 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACAGTTAA
66200819 ACATGTAACGTGGTGCTAAGTGGATATGCCACG
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACG
66200852 ATTATACATG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGTTAA
Found at i:66206623 original size:20 final size:20
Alignment explanation
Indices: 66206581--66206624 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
66206571 AATCTGACCT
* *
66206581 AGCTCAATTCGAGCTCGTTG
1 AGCTCAATTCGAGCTCATCG
*
66206601 AGCTCAATTCTAGCTCATCG
1 AGCTCAATTCGAGCTCATCG
66206621 AGCT
1 AGCT
66206625 TATTTTCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (20 bp):
AGCTCAATTCGAGCTCATCG
Found at i:66213522 original size:16 final size:17
Alignment explanation
Indices: 66213490--66213522 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66213480 ATACGAATTT
*
66213490 TTTTTTTCTATACTCTA
1 TTTTTTTCTATAATCTA
66213507 TTTTTTTCTA-AATCTA
1 TTTTTTTCTATAATCTA
66213523 CCTCGGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTTCTATAATCTA
Found at i:66215904 original size:30 final size:30
Alignment explanation
Indices: 66215809--66215905 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
66215799 AGCTCACTCC
*
66215809 TAGCTC-ACTTTCAACTCACGAGCTAAA-CTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGC-T
* * * **
66215839 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
66215869 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
66215899 TAGCTCA
1 TAGCTCA
66215906 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
29 2 0.04
30 40 0.80
31 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:66221033 original size:20 final size:21
Alignment explanation
Indices: 66220986--66221033 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
66220976 ATTTTGTCCA
*
66220986 AATTA-GTTAAGTTGTTATTT
1 AATTATGTTAAGTTGCTATTT
*
66221006 AAGT-TGTT-AGTTGCTATTT
1 AATTATGTTAAGTTGCTATTT
66221025 AATTATGTT
1 AATTATGTT
66221034 TAAATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (21 bp):
AATTATGTTAAGTTGCTATTT
Found at i:66224514 original size:42 final size:43
Alignment explanation
Indices: 66224437--66224538 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
66224427 TCTCGGACGT
* * **
66224437 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAA
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAAACAA
* *
66224480 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAAACAA
*
66224522 GGTCTTATACGTAAATC
1 GGTCTTACACGTAAATC
66224539 TCAATCGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAAACAA
Found at i:66229257 original size:44 final size:44
Alignment explanation
Indices: 66229189--66229447 Score: 339
Period size: 44 Copynumber: 6.0 Consensus size: 44
66229179 AGGAACACCG
* *
66229189 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
66229233 ATCTGTCATCTTCTATCTACTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
66229277 ATCTGTTATCTTCGATCTGCTCT-CGACTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCG-CCGCTACAGAGACGCCAA
* ** *
66229321 ATCTGTTATCTTCGATCTGTTCTCCGCCATTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
66229365 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
66229405 ATCTGTTATCTTCGATCTACTCTCCGCCACTACAAAGATGCCA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
66229448 TGTAACACCC
Statistics
Matches: 187, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
40 36 0.19
43 1 0.01
44 148 0.79
45 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:66229406 original size:128 final size:129
Alignment explanation
Indices: 66229189--66229428 Score: 356
Period size: 128 Copynumber: 1.8 Consensus size: 129
66229179 AGGAACACCG
* * * *
66229189 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTCATCTTCTATCTACT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAA--T-TCATCTTCGATCTACT
* *
66229254 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCGACTGCTACAGAGACGCC
63 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCGACTGCTACAGAGACGCC
66229319 AA
128 AA
* * * *
66229321 ATCTGTTATCTTCGATCTGTTCTCCGCCATTACAGAGATGCCAAA-TCATCTTCGATCTGCTCTC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATTCATCTTCGATCTACTCTC
66229385 CGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTC
66 CGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTC
66229429 CGCCACTACA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
128 59 0.60
132 39 0.40
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (129 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATTCATCTTCGATCTACTCTC
CGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCGACTGCTACAGAGACGCCAA
Found at i:66229414 original size:84 final size:85
Alignment explanation
Indices: 66229199--66229447 Score: 349
Period size: 84 Copynumber: 2.9 Consensus size: 85
66229189 ATCTGTTATT
* * * * *
66229199 TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTCATCTTCTATCTACTCTCTGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCACT
*
66229264 ACAGAGACGCCAAATCTGTTATC
66 ACAGAGATGCCAAATC---TATC
* ** *
66229287 TTCGATCTGCTCT-CGACTGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCAT
1 TTCGATCTGCTCTCCG-CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCAC
66229351 TACAGAGATGCCAAATC-ATC
65 TACAGAGATGCCAAATCTATC
66229371 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCACT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCACT
*
66229436 ACAAAGATGCCA
66 ACAGAGATGCCA
66229448 TGTAACACCC
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
84 72 0.50
85 2 0.01
87 1 0.01
88 69 0.48
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.29
Consensus pattern (85 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCACT
ACAGAGATGCCAAATCTATC
Found at i:66230919 original size:40 final size:40
Alignment explanation
Indices: 66230864--66231034 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 40
66230854 CGGATATAGC
* *
66230864 ACTTAGCCCGGATATAGTAATTCGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG
*
66230904 ACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG
66230944 ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG
* * * * *
66230984 ACTTAGTCCAGA-ACTAGTCACTAGCGCAAATGCCTTCGGG
1 ACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGG
66231024 ACTTAGCCCGG
1 ACTTAGCCCGG
66231035 TTATCATCCA
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 120 0.99
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG
Found at i:66239088 original size:40 final size:40
Alignment explanation
Indices: 66239026--66239243 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
66239016 AAGCCAAGTA
* * * *
66239026 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
66239065 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
66239105 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66239145 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
66239185 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
66239225 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66239244 TTGTCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66241181 original size:44 final size:44
Alignment explanation
Indices: 66241087--66241354 Score: 420
Period size: 44 Copynumber: 6.2 Consensus size: 44
66241077 GCTGTCACAC
*
66241087 GCCAAATCTGTTATCTTCGATCTGCTCT-CGCCGCTATAGAGAT
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
* * *
66241130 GCCAAATCTATTATCTTCGATCTGCTCTCCACCGCTACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
* *
66241174 GCTAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGAT
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
*
66241218 GCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGAT
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
*
66241262 GCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGAT
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
*
66241306 GCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
66241346 GCCAAATCT
1 GCCAAATCT
66241355 ATTGTCTGTT
Statistics
Matches: 207, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 38 0.18
43 27 0.13
44 142 0.69
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAT
Found at i:66250665 original size:29 final size:29
Alignment explanation
Indices: 66250631--66250715 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 29
66250621 AGCTCACCCC
66250631 TAGCTCATATTCAGCTCACGAGCTAACCT
1 TAGCTCATATTCAGCTCACGAGCTAACCT
*** * *
66250660 TAGCTCAGT-TTCAGCTTGGGAGTTTAATCT
1 TAGCTCA-TATTCAGCTCACGAG-CTAACCT
*
66250690 TAGCTCA-ACTTTAGCTCACGAGCTAA
1 TAGCTCATA-TTCAGCTCACGAGCTAA
66250716 AGCCTAGCTC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (29 bp):
TAGCTCATATTCAGCTCACGAGCTAACCT
Found at i:66255360 original size:46 final size:46
Alignment explanation
Indices: 66255310--66255485 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
66255300 TGCTTGAGCA
*
66255310 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66255356 TCCAAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
66255403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66255449 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66255486 GCAGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66255466 original size:93 final size:93
Alignment explanation
Indices: 66255307--66255478 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
66255297 GGATGCTTGA
* * *
66255307 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
66255372 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
66255400 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
66255465 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
66255479 CTTATGGGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66260885 original size:46 final size:47
Alignment explanation
Indices: 66260834--66260964 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 47
66260824 ATGGTTGAGC
66260834 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * * * *
66260881 -TCCGAACTCATTGATTTGAGTCCGAGTTCGTGA--GATGTAACTAG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
66260925 TCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 --ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
66260965 GCAGGTTACA
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 1 0.01
45 2 0.03
46 27 0.40
47 27 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Found at i:66262676 original size:31 final size:31
Alignment explanation
Indices: 66262641--66262704 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66262631 TCATAAATCA
66262641 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
66262672 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
66262703 TT
1 TT
66262705 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:66262947 original size:24 final size:24
Alignment explanation
Indices: 66262910--66263038 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
66262900 CTAGAGGCCT
*
66262910 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
66262935 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
66262959 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66262982 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66263006 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
66263030 AGCCCTTTT
1 AGCCCTTTT
66263039 TCACTTCCTC
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:66262973 original size:47 final size:48
Alignment explanation
Indices: 66262910--66263037 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 48
66262900 CTAGAGGCCT
*
66262910 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
**
66262959 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
66263006 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
66263038 TTCACTTCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:66263113 original size:20 final size:20
Alignment explanation
Indices: 66263088--66263148 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
66263078 TTATGATTAC
66263088 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
66263108 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
66263128 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
66263148 A
1 A
66263149 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:66263223 original size:25 final size:25
Alignment explanation
Indices: 66263191--66263238 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66263181 ATACATAAAC
* * *
66263191 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
66263216 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
66263239 CATGGTATAA
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:66264899 original size:27 final size:27
Alignment explanation
Indices: 66264482--66264881 Score: 516
Period size: 27 Copynumber: 14.8 Consensus size: 27
66264472 GGGTATTTTA
* *
66264482 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
66264509 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
66264536 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
66264563 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
66264590 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
66264617 ATAATTATGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
66264644 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
66264671 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
66264698 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
66264725 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
66264752 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
66264779 GTAATTCTGTAAA-CTAAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
66264806 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
66264833 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
66264860 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
66264882 CTTTGGTAAT
Statistics
Matches: 328, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 325 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:66269073 original size:3 final size:3
Alignment explanation
Indices: 66269065--66269153 Score: 128
Period size: 3 Copynumber: 30.0 Consensus size: 3
66269055 AATGAAAATG
66269065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
66269113 ATA ATA ATA ATA AT- ATA A-C ATA GAAA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
66269154 TATGAATAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
2 3 0.04
3 72 0.94
4 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:66269370 original size:39 final size:39
Alignment explanation
Indices: 66269327--66269402 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
66269317 TGATATTAAA
*
66269327 AATATATACATAAAAATA-TAATAAATATATATATAATTT
1 AATATATACAT-AAAATAGTAATAAAAATATATATAATTT
* *
66269366 AATATATACATAATATAGTATTAAAAATATATATAAT
1 AATATATACATAAAATAGTAATAAAAATATATATAAT
66269403 ACATACACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 28 0.85
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (39 bp):
AATATATACATAAAATAGTAATAAAAATATATATAATTT
Found at i:66269485 original size:18 final size:18
Alignment explanation
Indices: 66269464--66269505 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
66269454 TACTTCATAA
66269464 ATATATACATACATATAT
1 ATATATACATACATATAT
* * *
66269482 ATATATACTTATATGTAT
1 ATATATACATACATATAT
66269500 ATATAT
1 ATATAT
66269506 TTATATGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATATACATACATATAT
Found at i:66269495 original size:16 final size:16
Alignment explanation
Indices: 66269464--66269511 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
66269454 TACTTCATAA
*
66269464 ATATATACATAC--AT
1 ATATATATATACTTAT
66269478 ATATATATATACTTAT
1 ATATATATATACTTAT
* *
66269494 ATGTATATATATTTAT
1 ATATATATATACTTAT
66269510 AT
1 AT
66269512 GTAAAGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 11 0.38
16 18 0.62
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATATATACTTAT
Found at i:66269500 original size:14 final size:14
Alignment explanation
Indices: 66269464--66269502 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
66269454 TACTTCATAA
*
66269464 ATATATACATACAT
1 ATATATATATACAT
*
66269478 ATATATATATACTT
1 ATATATATATACAT
*
66269492 ATATGTATATA
1 ATATATATATA
66269503 TATTTATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:66269512 original size:16 final size:16
Alignment explanation
Indices: 66269476--66269514 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
66269466 ATATACATAC
*
66269476 ATATATATATATACTT
1 ATATGTATATATACTT
*
66269492 ATATGTATATATATTT
1 ATATGTATATATACTT
66269508 ATATGTA
1 ATATGTA
66269515 AAGTTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
ATATGTATATATACTT
Found at i:66270506 original size:16 final size:15
Alignment explanation
Indices: 66270485--66270527 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
66270475 TCCGGCTCCT
66270485 CCGCCACCATCCGCCG
1 CCGCCACCAT-CGCCG
*
66270501 CCGCCAGCCATCGTCG
1 CCGCCA-CCATCGCCG
66270517 CCGGCCACCAT
1 CC-GCCACCAT
66270528 GCACGGTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.14, C:0.56, G:0.21, T:0.09
Consensus pattern (15 bp):
CCGCCACCATCGCCG
Found at i:66271143 original size:14 final size:13
Alignment explanation
Indices: 66271124--66271153 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
66271114 AATTTGGGCC
66271124 TTACATGTTTTATA
1 TTACATGTTTTA-A
66271138 TTACATGTTTTAA
1 TTACATGTTTTAA
66271151 TTA
1 TTA
66271154 TGTAATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTACATGTTTTAA
Found at i:66272507 original size:30 final size:30
Alignment explanation
Indices: 66272473--66272570 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
66272463 TAAACTAAAA
66272473 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
66272503 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
66272533 TGAGCTAAG-TTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
66272562 TGAGCTAAG
1 TGAGCTAAG
66272571 AGTGAGCTCG
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
29 20 0.38
30 29 0.56
31 3 0.06
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:66273048 original size:27 final size:26
Alignment explanation
Indices: 66273005--66273074 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
66272995 TTTAATTTTT
66273005 ACAAC-TTAAATGA-GTCTAAATT-AGG
1 ACAACTTTAAAT-ATGTCTAAATTGA-G
* **
66273030 ACATCCTTTAAATATGTCTAGCTTGAG
1 ACA-ACTTTAAATATGTCTAAATTGAG
66273057 ACAACTTTAAATATGTCT
1 ACAACTTTAAATATGTCT
66273075 TGTTTAGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.08
26 16 0.43
27 17 0.46
28 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (26 bp):
ACAACTTTAAATATGTCTAAATTGAG
Found at i:66273085 original size:26 final size:26
Alignment explanation
Indices: 66273025--66273086 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
66273015 TGAGTCTAAA
*
66273025 TTAGGACATCCTTTAAATATGTCTAGC
1 TTAGGACA-ACTTTAAATATGTCTAGC
* *
66273052 TT-GAGACAACTTTAAATATGTCTTGT
1 TTAG-GACAACTTTAAATATGTCTAGC
66273078 TTAGGACAA
1 TTAGGACAA
66273087 ATTAAATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (26 bp):
TTAGGACAACTTTAAATATGTCTAGC
Found at i:66279053 original size:20 final size:20
Alignment explanation
Indices: 66279033--66279071 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66279023 GAGCTGAAAA
66279033 GAGCTAAAATCAAGCTCAAAG
1 GAGCTAAAA-CAAGCTCAAAG
* *
66279054 GAGCTGAAACGAGCTCAA
1 GAGCTAAAACAAGCTCAA
66279072 GTGAGCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (20 bp):
GAGCTAAAACAAGCTCAAAG
Found at i:66280225 original size:22 final size:23
Alignment explanation
Indices: 66280198--66280250 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
66280188 TCAAAACTCT
66280198 TTTTCTTTTCTCTTTCATTTTC-
1 TTTTCTTTTCTCTTTCATTTTCA
* *
66280220 TTTTC-TTTCTTTTTTATTTTCA
1 TTTTCTTTTCTCTTTCATTTTCA
*
66280242 CTTTCTTTT
1 TTTTCTTTT
66280251 TCCACTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCTTTTCTCTTTCATTTTCA
Found at i:66285171 original size:30 final size:30
Alignment explanation
Indices: 66285095--66285172 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
66285085 TTCAACTTAC
* *
66285095 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
** * * *
66285125 GAG-TTTAGCCTCAGCTCAACTTTAGCTCAT
1 GAGCTAAAG-CTTAGCTCAACTTCAGCTCAG
66285155 GAGCTAAAGCTTAGCTCA
1 GAGCTAAAGCTTAGCTCA
66285173 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
Found at i:66291144 original size:10 final size:10
Alignment explanation
Indices: 66291129--66291155 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66291119 TACTCCTTCA
66291129 AGCTCAAATC
1 AGCTCAAATC
66291139 AGCTCAAATC
1 AGCTCAAATC
66291149 AGCTCAA
1 AGCTCAA
66291156 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:66292974 original size:30 final size:30
Alignment explanation
Indices: 66292880--66292976 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
66292870 TAAACTAAAA
* *
66292880 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
66292910 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
*
66292940 TGAGCTAAGGTTTAGCTCGTGAGATGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
66292969 ATGAGCTA
1 -TGAGCTA
66292977 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:66295133 original size:29 final size:29
Alignment explanation
Indices: 66295078--66295161 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
66295068 TTCTTTTGTT
*
66295078 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTC-TTTTCATCTTCTTTTTCAATC
*
66295108 TCAAATTTCTTTTCGT-TTCTTTTTCAATC
1 TC-AATTTCTTTTCATCTTCTTTTTCAATC
* *
66295137 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTC-TTTTCATCTTCTTTTT
66295162 GCTTTTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.11
29 20 0.43
30 16 0.34
31 6 0.13
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTCATCTTCTTTTTCAATC
Found at i:66295168 original size:12 final size:12
Alignment explanation
Indices: 66295137--66295161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66295127 TTTTTCAATC
66295137 TCATTTTCTTTT
1 TCATTTTCTTTT
66295149 TCATTTTCTTTT
1 TCATTTTCTTTT
66295161 T
1 T
66295162 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:66295240 original size:5 final size:5
Alignment explanation
Indices: 66295230--66295302 Score: 69
Period size: 5 Copynumber: 14.0 Consensus size: 5
66295220 CTCTTGCCTC
*
66295230 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTT TGCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-CTTT T-C-TTT
*
66295278 TCTTT TCTTT TCTTT TTTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT
66295303 ACAAGAATGT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 4 0.07
5 37 0.64
6 12 0.21
7 5 0.09
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:66297899 original size:30 final size:30
Alignment explanation
Indices: 66297865--66297961 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
66297855 TAAATTAAAA
66297865 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
66297895 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
66297925 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
66297954 ATGAGCTA
1 -TGAGCTA
66297962 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:66301720 original size:20 final size:20
Alignment explanation
Indices: 66301697--66301744 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
66301687 AGCTCCGTTC
66301697 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
66301717 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
66301737 AGCTCAAC
1 AGCTCAAC
66301745 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:66303800 original size:30 final size:30
Alignment explanation
Indices: 66303715--66303811 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66303705 TAAACTAAAA
* *
66303715 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
66303745 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
66303775 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
66303804 ATGAGCTA
1 -TGAGCTA
66303812 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:66306822 original size:25 final size:26
Alignment explanation
Indices: 66306769--66306822 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
66306759 TGAAAAAGCC
*
66306769 TTTG-AAAAGAAAAAAGAAAATGAGA
1 TTTGAAAAAGAAAAAAGAAAATGAAA
* *
66306794 -TTGAAAAAGAGAAACGAAAA-GAAA
1 TTTGAAAAAGAAAAAAGAAAATGAAA
66306818 TTTGA
1 TTTGA
66306823 GAGTGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (26 bp):
TTTGAAAAAGAAAAAAGAAAATGAAA
Found at i:66306845 original size:31 final size:32
Alignment explanation
Indices: 66306779--66306850 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
66306769 TTTGAAAAGA
* *
66306779 AAAAAGAAA-ATGAGATTGAAAAAGAGAAACG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGAAACG
* *
66306810 -AAAAGAAATTTGAGAGTGAAAAAGA-AGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGAAACG
66306840 AAAAAGAAATT
1 AAAAAGAAATT
66306851 GAAACAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.62, C:0.01, G:0.22, T:0.14
Consensus pattern (32 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAGAAACG
Found at i:66308961 original size:30 final size:31
Alignment explanation
Indices: 66308927--66309023 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
66308917 AGCTCACTCC
*
66308927 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
66308957 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
66308987 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
66309017 TAGCTCA
1 TAGCTCA
66309024 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:66309959 original size:22 final size:20
Alignment explanation
Indices: 66309927--66309975 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
66309917 AATTTATGAA
66309927 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
66309950 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
66309970 TGAACA
1 TGAACA
66309976 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:66312158 original size:30 final size:30
Alignment explanation
Indices: 66312124--66312220 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
66312114 TAAACTAAAA
66312124 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
66312154 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
66312184 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
66312214 TGAGCTA
1 TGAGCTA
66312221 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:66312422 original size:155 final size:154
Alignment explanation
Indices: 66312233--66312542 Score: 505
Period size: 155 Copynumber: 2.0 Consensus size: 154
66312223 AGTGAGCTCG
*
66312233 GTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAAGCTGGAATTGAGCTGGACGGAGCTCGTGGA
1 GTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAAGCTGGAATTGAGCTGGACAGAGCTCGTGGA
* *
66312298 GCTGGAAACGAGATTGGATCATCTTGCCAACATGTCATTGCTCGGCTTGACAGACTTGCTCGATA
66 GCTGGAAACGAGATGGGATCATCTTGCCAACATGTCAATGCTCGGCTTGACAGACTTGCTCGATA
66312363 AAGTTTGCA-GGGCGTGCTCGTATCA
131 AAG-TT-CAGGGGCGTGCTCGTATCA
* * *
66312388 GTTTAGCTCAGGCAAGTTGGATTGAGCTTGAATAAGCTGGATTTGAGCTGGACAGAGCTCGTGGA
1 GTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAAGCTGGAATTGAGCTGGACAGAGCTCGTGGA
* * *
66312453 GCTGGAAACGAGCTGGGATCATCTTGCCAACATGTCAATGCTCGGCTTGACAGACTTGTTCGATG
66 GCTGGAAACGAGATGGGATCATCTTGCCAACATGTCAATGCTCGGCTTGACAGACTTGCTCGATA
66312518 AAGTTCATGGGGCGTGCTCGTATCA
131 AAGTTCA-GGGGCGTGCTCGTATCA
66312543 CAAGTCTAAG
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 2 0.01
154 2 0.01
155 140 0.97
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (154 bp):
GTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAAGCTGGAATTGAGCTGGACAGAGCTCGTGGA
GCTGGAAACGAGATGGGATCATCTTGCCAACATGTCAATGCTCGGCTTGACAGACTTGCTCGATA
AAGTTCAGGGGCGTGCTCGTATCA
Found at i:66316765 original size:10 final size:10
Alignment explanation
Indices: 66316750--66316776 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66316740 TAAGTTGAAG
66316750 TTGAGCTGAT
1 TTGAGCTGAT
66316760 TTGAGCTGAT
1 TTGAGCTGAT
66316770 TTGAGCT
1 TTGAGCT
66316777 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:66319398 original size:14 final size:14
Alignment explanation
Indices: 66319364--66319411 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
66319354 GTACGAATGG
**
66319364 AATGGTAGGAATGA
1 AATGGTAGGAACAA
*
66319378 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66319392 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66319406 ATTGGT
1 AATGGT
66319412 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.21
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66325925 original size:11 final size:11
Alignment explanation
Indices: 66325911--66325950 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
66325901 CACTTTTTTT
66325911 TTTTTTTTCGA
1 TTTTTTTTCGA
66325922 TTTTTTTTCGA
1 TTTTTTTTCGA
66325933 TTTTTTTT-GA
1 TTTTTTTTCGA
66325943 TTTTTTTT
1 TTTTTTTT
66325951 AACTTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:66325950 original size:10 final size:10
Alignment explanation
Indices: 66325904--66325950 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
66325894 CATAAATCAC
66325904 TTTTTTTT--
1 TTTTTTTTGA
*
66325912 TTTTTTTCGA
1 TTTTTTTTGA
66325922 TTTTTTTTCGA
1 TTTTTTTT-GA
66325933 TTTTTTTTGA
1 TTTTTTTTGA
66325943 TTTTTTTT
1 TTTTTTTT
66325951 AACTTGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.21
10 17 0.50
11 10 0.29
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.83
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:66326374 original size:14 final size:14
Alignment explanation
Indices: 66326327--66326374 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66326317 GTACGAATGG
*
66326327 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
66326341 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66326355 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66326369 ATTGGT
1 AATGGT
66326375 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66332276 original size:10 final size:10
Alignment explanation
Indices: 66332261--66332287 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66332251 TAAGTTGAAG
66332261 TTGAGCTGAT
1 TTGAGCTGAT
66332271 TTGAGCTGAT
1 TTGAGCTGAT
66332281 TTGAGCT
1 TTGAGCT
66332288 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:66333358 original size:18 final size:17
Alignment explanation
Indices: 66333326--66333383 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
66333316 AAATGAGATT
*
66333326 GAAAAAGAGAATGAAAAA
1 GAAAAAGAG-TTGAAAAA
66333344 GAAAAAGAGTTTGAACAAA
1 GAAAAAGAG-TTGAA-AAA
*
66333363 -AGAAAAGAGTGGAAAAA
1 GA-AAAAGAGTTGAAAAA
66333380 GAAA
1 GAAA
66333384 TTGAGGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 5 0.15
18 19 0.56
19 10 0.29
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.09
Consensus pattern (17 bp):
GAAAAAGAGTTGAAAAA
Found at i:66334064 original size:14 final size:14
Alignment explanation
Indices: 66334041--66334084 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
66334031 GTAGAAAGAG
* *
66334041 GGGTACGAACGGAA
1 GGGTAGGAACGAAA
*
66334055 TGGTAGGAACGAAA
1 GGGTAGGAACGAAA
66334069 GGGTAGGAAC-AAA
1 GGGTAGGAACGAAA
66334082 GGG
1 GGG
66334085 ATATGAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.39, C:0.09, G:0.43, T:0.09
Consensus pattern (14 bp):
GGGTAGGAACGAAA
Found at i:66334092 original size:14 final size:13
Alignment explanation
Indices: 66334056--66334095 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
66334046 CGAACGGAAT
66334056 GGTAGGAACGAAAG
1 GGTAGGAAC-AAAG
66334070 GGTAGGAACAAAG
1 GGTAGGAACAAAG
*
66334083 GGATATGAACAAA
1 GG-TAGGAACAAA
66334096 TTGGTCGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.47, C:0.07, G:0.35, T:0.10
Consensus pattern (13 bp):
GGTAGGAACAAAG
Found at i:66336736 original size:22 final size:20
Alignment explanation
Indices: 66336704--66336752 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
66336694 ACCGAATTTA
66336704 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
66336727 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
66336747 TGAACA
1 TGAACA
66336753 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Done.