Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 148 of 333
Found at i:48513734 original size:21 final size:21
Alignment explanation
Indices: 48513708--48513760 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
48513698 ATACAGAGTC
48513708 ACACGCCCGTGTGAAATAG-GG
1 ACACGCCCGTGTGAAAT-GTGG
*
48513729 ACACGCTCGTGTGAAATGTGG
1 ACACGCCCGTGTGAAATGTGG
48513750 ACACGCCCGTG
1 ACACGCCCGTG
48513761 CGCTATTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGAAATGTGG
Found at i:48523837 original size:35 final size:35
Alignment explanation
Indices: 48523791--48523955 Score: 102
Period size: 35 Copynumber: 4.7 Consensus size: 35
48523781 ATACACTCTA
* *
48523791 TTTGGTGTGTTTC-GATTGGACTAGCTCTTATGAGC
1 TTTGGTATGTTTCAG-TTGGACTAACTCTTATGAGC
*
48523826 TTTGGTATGTTTCAGTTGGACTAACTCTTATGACC
1 TTTGGTATGTTTCAGTTGGACTAACTCTTATGAGC
* ** * * * *
48523861 ATT-GTAGTGTTTCAGAGGGATTAGCTTTTATAAGC
1 TTTGGTA-TGTTTCAGTTGGACTAACTCTTATGAGC
* * * ** *
48523896 ATTGGTGTG-TTCAGTTGGATTGGCTCTTCTGAGC
1 TTTGGTATGTTTCAGTTGGACTAACTCTTATGAGC
* * * *
48523930 ATCTGGTGTGTTTTAGTTGGATTAAC
1 -TTTGGTATGTTTCAGTTGGACTAAC
48523956 GATGTACTCT
Statistics
Matches: 102, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
34 22 0.22
35 65 0.64
36 15 0.15
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (35 bp):
TTTGGTATGTTTCAGTTGGACTAACTCTTATGAGC
Found at i:48523941 original size:70 final size:70
Alignment explanation
Indices: 48523792--48523942 Score: 155
Period size: 70 Copynumber: 2.2 Consensus size: 70
48523782 TACACTCTAT
* * *
48523792 TTGGTGTGTTTCGATTGGACTAGCTCTTATGAGCTTTGGTATGTTTCAGTTGGACTAACTCTTAT
1 TTGGTGTGTTTCGATGGGACTAGCTCTTATAAGCATTGGTATGTTTCAGTTGGACTAACTCTTAT
48523857 GACCA
66 GACCA
* * * * **
48523862 TT-GTAGTGTTTCAGA-GGGATTAGCTTTTATAAGCATTGGTGTG-TTCAGTTGGATTGGCTCTT
1 TTGGT-GTGTTTC-GATGGGACTAGCTCTTATAAGCATTGGTATGTTTCAGTTGGACTAACTCTT
* *
48523924 CTGAGCA
64 ATGACCA
48523931 TCTGGTGTGTTT
1 T-TGGTGTGTTT
48523943 TAGTTGGATT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
69 24 0.36
70 38 0.58
71 4 0.06
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.42
Consensus pattern (70 bp):
TTGGTGTGTTTCGATGGGACTAGCTCTTATAAGCATTGGTATGTTTCAGTTGGACTAACTCTTAT
GACCA
Found at i:48526373 original size:27 final size:27
Alignment explanation
Indices: 48526351--48526529 Score: 234
Period size: 27 Copynumber: 6.7 Consensus size: 27
48526341 TTAGTTTACC
*
48526351 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
48526378 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
48526405 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
48526432 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
48526459 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
48526486 AAATTACCAAAATACCCTGA-TTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
**
48526512 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
48526530 CGACCTGTAA
Statistics
Matches: 137, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
26 22 0.16
27 115 0.84
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:48526581 original size:27 final size:27
Alignment explanation
Indices: 48526351--48526637 Score: 231
Period size: 27 Copynumber: 10.7 Consensus size: 27
48526341 TTAGTTTACC
*
48526351 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
48526378 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
48526405 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48526432 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48526459 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
48526486 AAATTACCAAAATACCCT-GATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** **
48526512 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
48526539 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48526566 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **** **
48526593 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
**
48526620 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
48526638 TGTAGGGTAG
Statistics
Matches: 216, Mismatches: 38, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.11
27 192 0.89
28 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:48526658 original size:27 final size:27
Alignment explanation
Indices: 48526628--48526866 Score: 246
Period size: 27 Copynumber: 8.9 Consensus size: 27
48526618 CAAAATTACT
*
48526628 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * * *
48526655 GAAATACCCTTGTAGGATACAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACC
*
48526682 AAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
48526709 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* * * *
48526736 AAAATACCCCTATAGGGTAGAATTAAC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
48526763 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
48526790 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* * **
48526817 AAAATACCCCTATAGGGTAGACTTACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
48526844 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAAT
48526867 TACCATTTTG
Statistics
Matches: 176, Mismatches: 36, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
26 2 0.01
27 174 0.99
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACC
Found at i:48526833 original size:54 final size:54
Alignment explanation
Indices: 48526624--48526837 Score: 275
Period size: 54 Copynumber: 4.0 Consensus size: 54
48526614 TTTACAAAAT
* * * * * *
48526624 TACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGATACAAA
1 TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAA
*
48526678 TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAT
1 TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAA
* * * * *
48526732 TACTAAAATACCCCTATAGGGTAGAATTAACGAAATACCCTTGTAGGGTAGAAA
1 TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAA
* * * **
48526786 TACTGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTATAGGGTAGA
1 TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGA
48526838 CTTACCGAGA
Statistics
Matches: 139, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 139 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (54 bp):
TACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAA
Found at i:48526833 original size:81 final size:81
Alignment explanation
Indices: 48526624--48526866 Score: 301
Period size: 81 Copynumber: 3.0 Consensus size: 81
48526614 TTTACAAAAT
* * ** * * * * * *
48526624 TACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGATACAAAT-ACTAAAATA
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAAC-GAAATA
*
48526688 CCCCTGTAGGGTAGAAA
65 CCCTTGTAGGGTAGAAA
* *
48526705 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAACGAAATAC
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAACGAAATAC
48526770 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * *
48526786 TACTGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTATAGGGTAGACTTACCGAGATAC
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAACGAAATAC
*
48526851 CCTTGTGGGGTA-AAA
66 CCTTGTAGGGTAGAAA
48526866 T
1 T
48526867 TACCATTTTG
Statistics
Matches: 141, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 4 0.03
81 135 0.96
82 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAACGAAATAC
CCTTGTAGGGTAGAAA
Found at i:48527159 original size:27 final size:26
Alignment explanation
Indices: 48527115--48527165 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
48527105 CTCGCTGCAA
*
48527115 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
48527142 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
48527166 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:48527248 original size:71 final size:67
Alignment explanation
Indices: 48527096--48527249 Score: 200
Period size: 71 Copynumber: 2.2 Consensus size: 67
48527086 GAGGAAGCGT
* * * * *
48527096 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCAAAA
48527161 TA
66 TA
* * *
48527163 TCTAGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC----ATATATCTATTCTGGTGACCTAGCC
48527228 AAAATA
62 AAAATA
48527234 TCTGGCAGCCTCGCTG
1 TCTGGCAGCCTCGCTG
48527250 TAAATTTCTG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
67 34 0.46
71 40 0.54
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCAAAA
TA
Found at i:48533548 original size:35 final size:35
Alignment explanation
Indices: 48533467--48533550 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
48533457 TACACTTTTT
* * *
48533467 TTGGTGTGTTTCAGTTCGACTAGTTCTAATGAACT
1 TTGGTGTGTTTTAGTTCGACTAGCTCTAATGAACA
*
48533502 TTGGTGTGTTTTAGTTGGACTAGCTC-ATATGAACA
1 TTGGTGTGTTTTAGTTCGACTAGCTCTA-ATGAACA
*
48533537 TTGTTGTGTTTTAG
1 TTGGTGTGTTTTAG
48533551 AGGGATTAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.02
35 42 0.98
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (35 bp):
TTGGTGTGTTTTAGTTCGACTAGCTCTAATGAACA
Found at i:48533561 original size:35 final size:35
Alignment explanation
Indices: 48533495--48533561 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
48533485 ACTAGTTCTA
* **
48533495 ATGAACTTTGGTGTGTTTTAGTTGGACTAGCTCAT
1 ATGAACATTGGTGTGTTTTAGAGGGACTAGCTCAT
* *
48533530 ATGAACATTGTTGTGTTTTAGAGGGATTAGCT
1 ATGAACATTGGTGTGTTTTAGAGGGACTAGCT
48533562 TTTGATGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (35 bp):
ATGAACATTGGTGTGTTTTAGAGGGACTAGCTCAT
Found at i:48534405 original size:12 final size:12
Alignment explanation
Indices: 48534388--48534417 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48534378 ACACAACATA
48534388 GCACATAGCCTG
1 GCACATAGCCTG
48534400 GCACATAGCCTG
1 GCACATAGCCTG
48534412 GCACAT
1 GCACAT
48534418 GGGCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (12 bp):
GCACATAGCCTG
Found at i:48543904 original size:36 final size:36
Alignment explanation
Indices: 48543856--48543928 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
48543846 TCTTTTAGAC
*
48543856 TAAGTTCTGTAAGAAATATATCAGTCAGAGATTTAT
1 TAAGTTCCGTAAGAAATATATCAGTCAGAGATTTAT
*
48543892 TAAGTTCCGTAAGAAATATATTAGTCAGAGATTTAT
1 TAAGTTCCGTAAGAAATATATCAGTCAGAGATTTAT
48543928 T
1 T
48543929 GATCAGAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.37
Consensus pattern (36 bp):
TAAGTTCCGTAAGAAATATATCAGTCAGAGATTTAT
Found at i:48575541 original size:22 final size:22
Alignment explanation
Indices: 48575498--48575542 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48575488 TATACATAAT
* * *
48575498 TTTGCATTTCATTAGGATATTA
1 TTTGCATTTAATTAGCACATTA
*
48575520 TTTGCATTTAATTATCACATTA
1 TTTGCATTTAATTAGCACATTA
48575542 T
1 T
48575543 CGAATGCACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTGCATTTAATTAGCACATTA
Found at i:48576056 original size:43 final size:43
Alignment explanation
Indices: 48576001--48576146 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
48575991 TGCCAATGTC
*
48576001 CCAAAC-GTGGTCTTACATGTAATCACATATCGATACCACTATT
1 CCAAACAG-GGTCTTACATGTAATCACATATCGATGCCACTATT
* *
48576044 CCAAACAGGGTCTTACATG-AATCAAATA-CGATGCCGA-T-GT
1 CCAAACAGGGTCTTACATGTAATCACATATCGATGCC-ACTATT
* * *
48576084 CTCAAACATGGTCTTACATGTAATCACGTATCGATGCCACTATC
1 C-CAAACAGGGTCTTACATGTAATCACATATCGATGCCACTATT
* *
48576128 CCAGATAGGGTCTTACATG
1 CCAAACAGGGTCTTACATG
48576147 AGAACACATA
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
40 2 0.02
41 24 0.28
42 17 0.20
43 40 0.47
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
CCAAACAGGGTCTTACATGTAATCACATATCGATGCCACTATT
Found at i:48576138 original size:84 final size:84
Alignment explanation
Indices: 48575990--48576147 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 84
48575980 ATATCGTACA
* *
48575990 ATGCCAATGTCCCAAACGTGGTCTTACATGTAATCACATATCGATACCACTATTCCAAACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCGATACCACTATCCCAAACAGGGT
48576055 CTTACATGAATCAAATACG
66 CTTACATGAATCAAATACG
* * * * * *
48576074 ATGCCGATGTCTCAAACATGGTCTTACATGTAATCACGTATCGATGCCACTATCCCAGATAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCGATACCACTATCCCAAACAGGGT
48576139 CTTACATGA
66 CTTACATGA
48576148 GAACACATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (84 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCGATACCACTATCCCAAACAGGGT
CTTACATGAATCAAATACG
Found at i:48576833 original size:14 final size:15
Alignment explanation
Indices: 48576814--48576843 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48576804 GAATGAAATT
48576814 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48576828 TTCACACATAATAAA
1 TTCACACATAATAAA
48576843 T
1 T
48576844 AGAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48584104 original size:47 final size:47
Alignment explanation
Indices: 48584053--48584545 Score: 779
Period size: 47 Copynumber: 10.4 Consensus size: 47
48584043 TTGTGATGTG
48584053 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48584100 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
48584147 AGTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48584194 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48584243 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
48584290 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48584337 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48584386 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
48584433 AGTGTATATATGTGATAAGGCCGAATGGGCAATGTGATGAATGTAAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
48584480 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48584527 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
48584546 TCCCGAAGGG
Statistics
Matches: 414, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 326 0.79
49 88 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48584268 original size:143 final size:143
Alignment explanation
Indices: 48584057--48584545 Score: 856
Period size: 143 Copynumber: 3.4 Consensus size: 143
48584047 GATGTGAGTG
48584057 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
48584122 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
48584187 ATGTGAAAGTGTA
131 ATGTGAAAGTGTA
48584200 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
48584265 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
48584330 ATGTGAAAGTGTA
131 ATGTGAAAGTGTA
*
48584343 TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
48584408 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGGCAATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
48584473 ATGTAAAAGTG--
131 ATGTGAAAGTGTA
* * * * * * *
48584484 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48584546 TCCCGAAGGG
Statistics
Matches: 333, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
141 54 0.16
143 279 0.84
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAAAGTGTA
Found at i:48584335 original size:190 final size:188
Alignment explanation
Indices: 48584053--48584545 Score: 797
Period size: 190 Copynumber: 2.6 Consensus size: 188
48584043 TTGTGATGTG
48584053 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
48584118 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATG
66 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATG
48584183 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48584243 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
48584308 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
66 GGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATA
*
48584373 TGGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
129 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * *
48584433 AGTGTATATATGTGATAAGGCCGAATGGGCAATGTGATGAATGTAAAAGTGTATATATGTGATAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * *
48584498 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48584546 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
188 14 0.05
190 226 0.80
192 43 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (188 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48584720 original size:37 final size:37
Alignment explanation
Indices: 48584664--48584742 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48584654 CCGAGCTCTA
* * *
48584664 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48584701 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48584738 AAGAC
1 AAGAC
48584743 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48587007 original size:27 final size:27
Alignment explanation
Indices: 48586977--48587031 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
48586967 ATTGATGACA
*
48586977 TAGTTATTATAGAAAAGATGTAAGAGT
1 TAGTTATTACAGAAAAGATGTAAGAGT
*
48587004 TAGTTATTACAGAAAATATGTAAGAGT
1 TAGTTATTACAGAAAAGATGTAAGAGT
48587031 T
1 T
48587032 GAATGGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.35
Consensus pattern (27 bp):
TAGTTATTACAGAAAAGATGTAAGAGT
Found at i:48590251 original size:40 final size:39
Alignment explanation
Indices: 48590061--48590244 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
48590051 CGAATGATGT
* * * *
48590061 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
48590101 CCGGACTAAGAT-CCGAAGGCATTTGTGCGACTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
48590141 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48590179 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48590220 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48590245 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48590266 original size:79 final size:79
Alignment explanation
Indices: 48590113--48590267 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
48590103 GGACTAAGAT
* **
48590113 CCGAAGGCATTTGTGCGACTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGACTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48590178 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* * *
48590192 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGACTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
48590255 TATATC-CGGTTAA
63 TAAATCTCGGTTAA
48590268 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGACTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:48598254 original size:39 final size:41
Alignment explanation
Indices: 48598153--48598336 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
48598143 TCGAATGATG
* * *
48598153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
48598193 TCCGGACTAAGAT-CCGAAGGCATTAGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
48598233 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
48598272 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
48598312 ACCGGGCTATGTCCC-AAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48598337 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
39 46 0.37
40 70 0.56
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:48598289 original size:79 final size:81
Alignment explanation
Indices: 48598153--48598334 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
48598143 TCGAATGATG
* *
48598153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48598217 AGTGCGAGTTACTA-A
66 AGTGCGAGTTACTATA
* * * **
48598232 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48598294 TTTGTGCGAGTTACTATA
64 TTAGTGCGAGTTACTATA
* *
48598312 ACCGGGCTATGTCCC-AAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48598335 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 66 0.75
80 21 0.24
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
AGTGCGAGTTACTATA
Found at i:48603496 original size:19 final size:20
Alignment explanation
Indices: 48603464--48603506 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
48603454 AATAGGGGTC
48603464 ACACACCTGTGTGGCTTGGG
1 ACACACCTGTGTGGCTTGGG
48603484 ACACACC-GTGTGGCTTGGG
1 ACACACCTGTGTGGCTTGGG
48603503 ACAC
1 ACAC
48603507 GCCCGTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACACCTGTGTGGCTTGGG
Found at i:48605333 original size:6 final size:6
Alignment explanation
Indices: 48605303--48605396 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
48605293 AAGAAACATT
* * *
48605303 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
48605352 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
48605397 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 57 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:48605361 original size:31 final size:31
Alignment explanation
Indices: 48605324--48605396 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
48605314 AATCAAAATG
*
48605324 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
48605355 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
48605386 AAAATCAGAAT
1 AGAATCAGAAT
48605397 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:48605587 original size:33 final size:32
Alignment explanation
Indices: 48605536--48605599 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
48605526 ACAAAGTCAC
* *
48605536 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
48605568 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
48605600 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:48605930 original size:27 final size:27
Alignment explanation
Indices: 48605900--48606203 Score: 367
Period size: 27 Copynumber: 11.2 Consensus size: 27
48605890 TAACACCCTA
* * *
48605900 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48605927 AGGGTAAAA-CGATAATTCTGTAAATCA
1 AGGGTAAAATAG-TAATTCTGTAAATCG
* *
48605954 AGGGTAAAATAGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * * *
48605981 AGAGTAAAACAGTAATTCTATCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * * *
48606008 AGGGTAAAACAATAATTCTATCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
48606035 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
48606062 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
48606089 AGGGTAAAACAGTAATTCTGTCAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48606116 AGGGTAAAATAGTAATTTTTATAAATCG
1 AGGGTAAAATAGTAA-TTCTGTAAATCG
*
48606144 AGGGTAAAATAATAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48606171 AGGGTAAAATAGTAATTTTGTAATTCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
48606198 AGGGTA
1 AGGGTA
48606204 CTTTGATAAT
Statistics
Matches: 242, Mismatches: 32, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 218 0.90
28 23 0.10
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTCTGTAAATCG
Found at i:48605963 original size:54 final size:54
Alignment explanation
Indices: 48605899--48606203 Score: 423
Period size: 54 Copynumber: 5.6 Consensus size: 54
48605889 TTAACACCCT
*
48605899 AAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATC
1 AAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATC
* * *
48605953 AAGGGTAAAATAGTAATTTTATAAATCGAGAGTAAAACAGTAATTCTATCAATC
1 AAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
* * * * *
48606007 GAGGGTAAAACAATAATTCTATCAATCGAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
* * * *
48606061 GAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTCAATC
1 AAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
* *
48606115 AAGGGTAAAATAGTAATTTTTATAAATCGAGGGTAAAATAATAATTCTGTAAATC
1 AAGGGTAAAATAGTAA-TTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
* * *
48606170 GAGGGTAAAATAGTAATTTTGTAATTCGAGGGTA
1 AAGGGTAAAATAGTAATTTTATAAATCGAGGGTA
48606204 CTTTGATAAT
Statistics
Matches: 223, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
54 174 0.78
55 49 0.22
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.30
Consensus pattern (54 bp):
AAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
Found at i:48606227 original size:27 final size:26
Alignment explanation
Indices: 48606197--48606349 Score: 139
Period size: 27 Copynumber: 5.7 Consensus size: 26
48606187 TTTGTAATTC
* **
48606197 GAGGGTACTTTGATAATTTTACAAGTT
1 GAGGGTA-TTTGGTAATTTTACAAACT
* *
48606224 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTT-GGTAATTTTACAAACT
48606251 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTT-GGTAATTTTACAAACT
* *
48606277 CGAGGATATTTGGGTAATTTTATAAACT
1 -GAGGGTATTT-GGTAATTTTACAAACT
*
48606305 GGGGGTACTTTGGTAATTTTAC-AACT
1 GAGGGTA-TTTGGTAATTTTACAAACT
* *
48606331 GTGGGTATTTTAGTAATTT
1 GAGGGTA-TTTGGTAATTT
48606350 GGTAAACTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.23
27 78 0.74
28 4 0.04
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.41
Consensus pattern (26 bp):
GAGGGTATTTGGTAATTTTACAAACT
Found at i:48606239 original size:54 final size:53
Alignment explanation
Indices: 48606181--48606357 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 53
48606171 AGGGTAAAAT
* *
48606181 AGTAATTTTGT-AATTCGAGGGTACTTTGATAATTTTACAAGTTGAGGGTATTTC
1 AGTAATTTTGTAAACT-GAGGGTACTTTGGTAATTTTACAA-TTGAGGGTATTTC
* * * *
48606235 AGTAATTTTGCAAACTGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTGTAAACTGAGGGTACTTT-GGTAATTTTAC-AATTGAGGGTATTTC
* * * * * *
48606289 GGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAACTGTGGGTATTTT
1 AGTAATTTTGTAAACTGAGGGTACTTTGGTAATTTTACAATTGAGGGTATTTC
*
48606342 AGTAATTTGGTAAACT
1 AGTAATTTTGTAAACT
48606358 AAAGTATTCT
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 26 0.26
54 67 0.66
55 8 0.08
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (53 bp):
AGTAATTTTGTAAACTGAGGGTACTTTGGTAATTTTACAATTGAGGGTATTTC
Found at i:48608041 original size:16 final size:17
Alignment explanation
Indices: 48608012--48608043 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48608002 AAGGTCACTT
48608012 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
48608029 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
48608044 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:48608764 original size:9 final size:9
Alignment explanation
Indices: 48608750--48608776 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48608740 TCGAAAATAA
48608750 AATTTATTC
1 AATTTATTC
48608759 AATTTATTC
1 AATTTATTC
48608768 AATTTATTC
1 AATTTATTC
48608777 GATTCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTATTC
Found at i:48611657 original size:48 final size:46
Alignment explanation
Indices: 48611586--48611855 Score: 233
Period size: 48 Copynumber: 5.7 Consensus size: 46
48611576 ATATGTGTGC
*
48611586 AGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--ACATTATGAGAGCT
* * * *
48611634 AGTGTAAGACCATGTTTGGGACATGGCAACGG-CATTAATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACA-T--TATGAGAGCT
* *
48611682 AGTGTAAGATCATGTCTGGGACATGACATCGG-CATTGA-GACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACATT-ATGA-G--AGCT
* * * * *
48611730 AGTGTAAGACCATGTCTAGGACATGGCATCGGTATTAATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-A-CATTATGAGAGCT
* *
48611778 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACATT---ATGAGAGCT
* * *
48611826 AGTGGAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
48611856 AGCAGTTCAC
Statistics
Matches: 181, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
45 6 0.03
46 3 0.02
47 1 0.01
48 166 0.92
50 2 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACATTATGAGAGCT
Found at i:48611850 original size:144 final size:144
Alignment explanation
Indices: 48611586--48611855 Score: 344
Period size: 144 Copynumber: 1.9 Consensus size: 144
48611576 ATATGTGTGC
* * * *
48611586 AGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCTAGTGTAAGACCATGTCT
* * * * * * * *
48611651 GGGACATGGCAACGGCATTAATATGTGTGCTAGTGTAAGATCATGTCTGGGACATGACATCGGCA
66 AGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATCGGCA
48611716 TTGAGACGAAAGCT
131 TTGAGACGAAAGCT
* * * *
48611730 AGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTAATATGTGCGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCTAGTGTAAGACCATGTC
* * * *
48611794 TAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGGAAGACCATGTTTGGAACATGGCATC
65 TAGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATC
48611856 AGCAGTTCAC
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
143 1 0.01
144 104 0.99
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCTAGTGTAAGACCATGTCT
AGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATCGGCA
TTGAGACGAAAGCT
Found at i:48611854 original size:96 final size:95
Alignment explanation
Indices: 48611576--48611855 Score: 379
Period size: 96 Copynumber: 2.9 Consensus size: 95
48611566 CATTTGGGTG
* *
48611576 ATATGTGTGC-AGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCTAGT
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCTAGT
*
48611637 GTAAGACCATGTTTGGGACATGGCAACGGCATTA
63 GTAAGACCATGTTT-GGACATGGCATCGGCATTA
* * *
48611671 ATATGTGTGCTAGTGTAAGATCATGTCTGGGACATGACATCGGCATTGAGACGAAAGCTAGTGTA
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTA
* *
48611736 AGACCATGTCTAGGACATGGCATCGGTATTA
66 AGACCATGT-TTGGACATGGCATCGGCATTA
* * *
48611767 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGGA
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTA
48611832 AGACCATGTTTGGAACATGGCATC
66 AGACCATGTTTGG-ACATGGCATC
48611856 AGCAGTTCAC
Statistics
Matches: 164, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
93 4 0.02
95 13 0.08
96 146 0.89
97 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (95 bp):
ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTA
AGACCATGTTTGGACATGGCATCGGCATTA
Found at i:48613179 original size:15 final size:15
Alignment explanation
Indices: 48613159--48613188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48613149 ATTATGAAAG
48613159 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
48613174 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
48613189 GGTTTTTTGA
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:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:48613887 original size:56 final size:56
Alignment explanation
Indices: 48613808--48613932 Score: 205
Period size: 56 Copynumber: 2.2 Consensus size: 56
48613798 TCAATACATA
* *
48613808 TGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATGTG
1 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
* * *
48613864 TGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATTTATG
1 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
48613920 TGTGCGAGTAAGA
1 TGTGCGAGTAAGA
48613933 TCCTGTCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (56 bp):
TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
Found at i:48613952 original size:56 final size:56
Alignment explanation
Indices: 48613808--48613965 Score: 187
Period size: 56 Copynumber: 2.8 Consensus size: 56
48613798 TCAATACATA
* * * * *
48613808 TGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATGTG
1 TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
* *
48613864 TGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATTTATG
1 TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
* *
48613920 TGTGCGAGTAAGATCC-TGTCTAGGATA-G-TGGCATCGATATGTGATT
1 TGTGCAAGTAAGA-CCACGTCTA--ATACGTTGGCATCGATATGTGATT
48613966 ACATGTAAGA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
56 85 0.93
57 3 0.03
58 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (56 bp):
TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
Found at i:48621384 original size:26 final size:23
Alignment explanation
Indices: 48621358--48621404 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48621348 CATATCCACA
48621358 AAGATTGCAGCAACAAATGCCGAAC
1 AAGATT-CAG-AACAAATGCCGAAC
* *
48621383 AAGCTTTAGAACAAATGCCGAA
1 AAGATTCAGAACAAATGCCGAA
48621405 TTATGTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 2 0.10
25 5 0.25
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (23 bp):
AAGATTCAGAACAAATGCCGAAC
Found at i:48626911 original size:40 final size:39
Alignment explanation
Indices: 48626820--48627082 Score: 296
Period size: 40 Copynumber: 6.6 Consensus size: 39
48626810 TCCTCGTTCA
* * * *
48626820 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
48626859 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
48626898 GAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
48626938 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
48626978 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
48627018 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
48627059 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48627083 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:48627091 original size:41 final size:41
Alignment explanation
Indices: 48627014--48627091 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48627004 TTTGTATCTC
* * *
48627014 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48627055 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48627092 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:48629493 original size:38 final size:38
Alignment explanation
Indices: 48629450--48629531 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
48629440 AGATTAAAGA
*
48629450 CCCGCAAGCTATATGCTGGAAATATATCCGGGTTAATT
1 CCCGCAAGCTATATGCTGGAAATATATCCGGGTTAAAT
* * * * *
48629488 CCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAAGCTATATGCTGGAAATATATCCGGGTTAAAT
48629526 CCCGCA
1 CCCGCA
48629532 GGCCTAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (38 bp):
CCCGCAAGCTATATGCTGGAAATATATCCGGGTTAAAT
Found at i:48629532 original size:38 final size:38
Alignment explanation
Indices: 48629463--48629585 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
48629453 GCAAGCTATA
* * *
48629463 TGCTGGAAATATATCCGGGTTAATTCCCGCAGGCTTTG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
* *
48629501 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
* * *
48629539 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGGTTTTG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTTG
48629579 TGCTGGT
1 TGCTGGT
48629586 GACTGGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 49 0.67
39 6 0.08
40 18 0.25
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
Found at i:48629772 original size:15 final size:15
Alignment explanation
Indices: 48629752--48629784 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48629742 GAATTATTAG
48629752 TATCAGAGAACGATA
1 TATCAGAGAACGATA
48629767 TATCAGAGAACGATA
1 TATCAGAGAACGATA
48629782 TAT
1 TAT
48629785 GTGTGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (15 bp):
TATCAGAGAACGATA
Found at i:48638895 original size:27 final size:28
Alignment explanation
Indices: 48638844--48638898 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
48638834 ATAGCCGAAC
*
48638844 CTAGTTTAAATCACACATTTAGTGCCAAG
1 CTAGATTAAATCACACA-TTAGTGCCAAG
48638873 CTAGATTAAATCACAC-TTAGTGCCAA
1 CTAGATTAAATCACACATTAGTGCCAA
48638899 AACTTCCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (28 bp):
CTAGATTAAATCACACATTAGTGCCAAG
Found at i:48646207 original size:29 final size:29
Alignment explanation
Indices: 48646165--48646224 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
48646155 CAAATAGCTG
*
48646165 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAGTTTAAATCACACACTTAGTGCC
48646194 AAGCTAGTTTAAATCACACACTTAGTGCC
1 AAGCTAGTTTAAATCACACACTTAGTGCC
48646223 AA
1 AA
48646225 AACTTCTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTTAAATCACACACTTAGTGCC
Found at i:48649047 original size:27 final size:27
Alignment explanation
Indices: 48649017--48649081 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
48649007 ATTACCAAAG
* *
48649017 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTACAAAATTACTGTCT
* *
48649044 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTCT
48649071 TACCCTCGATT
1 TACCCTCGATT
48649082 GTGAAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTCT
Found at i:48649096 original size:26 final size:26
Alignment explanation
Indices: 48649059--48649117 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
48649049 TTGATTTACA
* **
48649059 AAATTACTGTTTTACCCTCGATTGTG
1 AAATTACCGTTTTACCCTCGATAATG
*
48649085 AAATTACCGTTTTACCCTCTATAATG
1 AAATTACCGTTTTACCCTCGATAATG
48649111 AAATTAC
1 AAATTAC
48649118 TGAAATACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (26 bp):
AAATTACCGTTTTACCCTCGATAATG
Found at i:48649178 original size:54 final size:54
Alignment explanation
Indices: 48649111--48649237 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 54
48649101 CTCTATAATG
** * *
48649111 AAATTACTGAAATACCCCTA-TAGGGT-AGAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTAGT-GGGTGA-AATTACCAAAATACCCTC-AATTTGTA
* ** *
48649165 AAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCTCAATTTGTA
48649219 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
48649238 GATTTACAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 58 0.95
55 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCTCAATTTGTA
Found at i:48649250 original size:54 final size:54
Alignment explanation
Indices: 48649159--48649319 Score: 153
Period size: 54 Copynumber: 2.9 Consensus size: 54
48649149 ATACCCCTAG
*** *
48649159 TTTGTAAAATTACCAAAATACCACT-AGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGA-TTTACAAAATTACAGAAATACCCTCAA
* * * *
48649213 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCC-TCAA
* *** * * *
48649268 TTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCT
48649320 TGGTTTGTAG
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
54 42 0.48
55 8 0.09
56 37 0.43
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAA
Found at i:48649251 original size:27 final size:27
Alignment explanation
Indices: 48649139--48649237 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
48649129 TATAGGGTAG
*
48649139 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
48649166 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
48649193 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
48649220 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
48649238 GATTTACAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.05
27 55 0.89
28 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:48649322 original size:27 final size:27
Alignment explanation
Indices: 48649228--48649325 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
48649218 AAAATTACCA
* *
48649228 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGGTTTACAAAATTATAG
* *
48649255 AAATACCCTTGACTTT-CTAAAAATTATGG
1 AAATACCCTTG-GTTTAC--AAAATTATAG
*
48649284 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGGTTTACAAAATTA-TAG
48649311 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
48649326 GTAGATTTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 33 0.55
28 7 0.12
29 20 0.33
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTATAG
Found at i:48649409 original size:27 final size:27
Alignment explanation
Indices: 48649379--48649470 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
48649369 ACCCCTATTA
*
48649379 GGTAAAAAGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
48649406 GGTAAAGTGATCATAAAGCCCCTATAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
48649433 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
48649460 GGTAAAATGAC
1 GGTAAAATGAC
48649471 GAATATGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:48650354 original size:52 final size:52
Alignment explanation
Indices: 48650272--48650420 Score: 275
Period size: 52 Copynumber: 2.9 Consensus size: 52
48650262 GAGGAAGTAC
*
48650272 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
48650324 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
48650376 AAAAGGGCTT-TGCCCCAGTTTACCAAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTT
48650421 ATTAAAGAGG
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
50 10 0.10
51 25 0.26
52 61 0.64
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48650395 original size:25 final size:26
Alignment explanation
Indices: 48650272--48650420 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
48650262 GAGGAAGTAC
48650272 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
48650298 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
48650324 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
48650350 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
48650376 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
48650401 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48650421 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 32 0.29
26 80 0.71
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:48650624 original size:42 final size:42
Alignment explanation
Indices: 48650565--48650656 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
48650555 TAGTCTCCCC
* ** *
48650565 AAATGGGCATGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
* *
48650607 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
*
48650649 AAGTGGGC
1 AAATGGGC
48650657 CTATGGGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
Found at i:48650715 original size:31 final size:31
Alignment explanation
Indices: 48650680--48650757 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
48650670 CGTTTACAGT
*
48650680 AAGGCTTCAGCCTAGTGAAATGATTTATGAA
1 AAGGCTTCAGCCCAGTGAAATGATTTATGAA
* *
48650711 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCAGCCCAGTGAAATGATTTATGAA
*
48650742 AAGGCTTCGGCCCAGT
1 AAGGCTTCAGCCCAGT
48650758 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAGGCTTCAGCCCAGTGAAATGATTTATGAA
Found at i:48654283 original size:48 final size:47
Alignment explanation
Indices: 48654208--48654384 Score: 189
Period size: 48 Copynumber: 3.7 Consensus size: 47
48654198 TATGTGCGCT
*
48654208 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGACATTATGAGAGCC
1 AGTGTAAGACCATGTCTTGGACATGGCATCGGCG-CATTATGAGAGCC
* * *
48654256 AGTGTAAGACCATGTCTTGGACTTGGCA-CTG-GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTTGGACATGGCATCGGCGCATT---ATGAGAGCC
* * * ** *
48654304 AGTGTAAGACCATGTCTAGGACATGCCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTTGGACATGGCATCGG-CGCATTATGAGAGCC
48654352 AGTGTAAGACCATGT-TTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTTGG-ACATGGCATCGGC
48654385 AGTTCACCCT
Statistics
Matches: 107, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.04
46 1 0.01
47 6 0.06
48 92 0.86
49 2 0.02
51 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTTGGACATGGCATCGGCGCATTATGAGAGCC
Found at i:48654379 original size:96 final size:96
Alignment explanation
Indices: 48654205--48654379 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
48654195 TGATATGTGC
* * * **
48654205 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
*
48654270 TCTTGGACTTGGCACTGGCATTGAGATGAGA
66 TCTTGGACATGGCACTGGCATTGAGATGAGA
* *
48654301 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCTCAACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
48654366 T-TTGGAACATGGCA
66 TCTTGG-ACATGGCA
48654380 TCGGCAGTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
95 4 0.06
96 66 0.94
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
TCTTGGACATGGCACTGGCATTGAGATGAGA
Found at i:48657810 original size:51 final size:51
Alignment explanation
Indices: 48657688--48657990 Score: 339
Period size: 51 Copynumber: 6.0 Consensus size: 51
48657678 TCTATTGTGA
* * * * *
48657688 GGTCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTA-CCG--AATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT-TT
*
48657737 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
* *
48657788 GATCACATGTGTAGGACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
* * * ** ** *
48657839 GATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAAT-GGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
* * * **
48657889 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA--TT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
* * *
48657938 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
48657989 GG
1 GG
48657991 CTACAAGTGT
Statistics
Matches: 215, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
49 75 0.35
50 43 0.20
51 94 0.44
52 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
Found at i:48658013 original size:150 final size:151
Alignment explanation
Indices: 48657744--48658016 Score: 372
Period size: 150 Copynumber: 1.8 Consensus size: 151
48657734 ATTGGTCGCA
*
48657744 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACATGTGTAGGACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAAC-TTGATCACATGTGTAGGACTAAG
* * * *
48657809 TGCAGGCTACTATGCGTACCCGATAACTTTGATCACATGTGTAGTACTAAGTGCAGGCTACTATG
65 TGCAGGCTACTATGCGTACCAGATAACTTTGATCACAAGTGTAGAAATAAGTGCAGGCTACTATG
48657874 TGTATCAAATGGTTAGGTCACG
130 TGTATCAAATGGTTAGGTCACG
* ** * * *
48657896 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TTGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTGATCACATGTGTAGGACTAAGT
* * *
48657960 GCAGGCTACTATGCGTACCAGATAGCTTTG-GCTACAAGTGT-GAAAATATGTGCAGGC
66 GCAGGCTACTATGCGTACCAGATAACTTTGATC-ACAAGTGTAG-AAATAAGTGCAGGC
48658017 AACTGAGTAT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
149 2 0.02
150 67 0.64
152 36 0.34
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTGATCACATGTGTAGGACTAAGT
GCAGGCTACTATGCGTACCAGATAACTTTGATCACAAGTGTAGAAATAAGTGCAGGCTACTATGT
GTATCAAATGGTTAGGTCACG
Found at i:48661431 original size:56 final size:56
Alignment explanation
Indices: 48661358--48661726 Score: 483
Period size: 56 Copynumber: 6.6 Consensus size: 56
48661348 ATGTGACATT
* * *
48661358 GATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATC
* * *
48661414 GATATGTGATTCCGATATATGTCTGCGAGTAAGTCCAC-ATTACATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGGCATC
* * * *
48661470 GATATGTGACTCTGATATATGTGTACGAGTAACTCCACGTTTAATATGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATC
* *
48661526 GATATGTGATTCTGACATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATC
* * * * *
48661582 GATATGTGATTCCGATACATGTGTGCAAGTAAGTCCAC-ATTACATATGTTGGCATC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGGCATC
** *
48661638 GATATGTGACTT-TGATATATGTGTGCGAGTAAGTCCAAATTTAATACGTTGGCAAC
1 GATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATC
* * *
48661694 GATATGTGATTCCGATATATATGTACGAGTAAG
1 GATATGTGATTCTGATATATGTGTGCGAGTAAG
48661727 ACTGTAACCA
Statistics
Matches: 271, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
55 8 0.03
56 255 0.94
57 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
GATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATC
Found at i:48661636 original size:168 final size:168
Alignment explanation
Indices: 48661358--48661728 Score: 589
Period size: 168 Copynumber: 2.2 Consensus size: 168
48661348 ATGTGACATT
* *
48661358 GATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
* *
48661423 TTCCGATATATGTCTGCGAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATAT
66 TTCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATAT
** * *
48661488 ATGTGTACGAGTAACTCCACGTTTAATATGTTGGCATC
131 ATGTGTACGAGTAACTCCAAATTTAATACGTTGGCAAC
*
48661526 GATATGTGATTCTGACATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
* * *
48661591 TTCCGATACATGTGTGCAAGTAAGTCCACATTACATATGTTGGCATCGATATGTGACTTTGATAT
66 TTCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATAT
* *
48661656 ATGTGTGCGAGTAAGTCCAAATTTAATACGTTGGCAAC
131 ATGTGTACGAGTAACTCCAAATTTAATACGTTGGCAAC
* * *
48661694 GATATGTGATTCCGATATATATGTACGAGTAAGAC
1 GATATGTGATTCTGATATATGTGTGCGAGTAAGAC
48661729 TGTAACCATG
Statistics
Matches: 185, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 185 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (168 bp):
GATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
TTCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATAT
ATGTGTACGAGTAACTCCAAATTTAATACGTTGGCAAC
Found at i:48664919 original size:59 final size:59
Alignment explanation
Indices: 48664853--48664979 Score: 238
Period size: 59 Copynumber: 2.2 Consensus size: 59
48664843 TATAGGTATG
48664853 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
1 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
*
48664912 AGTTGTTAAAGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
1 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
48664971 AGTT-TTAAT
1 AGTTGTTAAT
48664980 ATGCCTTTGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 4 0.06
59 62 0.94
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (59 bp):
AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
Found at i:48664947 original size:29 final size:29
Alignment explanation
Indices: 48664856--48664948 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
48664846 AGGTATGAGT
48664856 TGTTAATGTTGGAATTATGAGAATATGTA
1 TGTTAATGTTGGAATTATGAGAATATGTA
* * * *
48664885 TGTTAGTCTATGAGCATT-TG-GTTATATAGT-
1 TGTTAATGT-TG-GAATTATGAG-AATAT-GTA
*
48664915 TGTTAAAGTTGGAATTATGAGAATATGTA
1 TGTTAATGTTGGAATTATGAGAATATGTA
48664944 TGTTA
1 TGTTA
48664949 GTCTATGAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
28 6 0.12
29 21 0.44
30 15 0.31
31 6 0.12
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (29 bp):
TGTTAATGTTGGAATTATGAGAATATGTA
Found at i:48667400 original size:21 final size:21
Alignment explanation
Indices: 48667376--48667415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48667366 AAATTTAACA
48667376 TCAATTTAATACAATTCATAC
1 TCAATTTAATACAATTCATAC
* *
48667397 TCAATTTAGTCCAATTCAT
1 TCAATTTAATACAATTCAT
48667416 GTCTTAGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAATTCATAC
Found at i:48670120 original size:17 final size:19
Alignment explanation
Indices: 48670094--48670130 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
48670084 TGTATAACTC
48670094 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
48670112 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
48670130 A
1 A
48670131 AGAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:48671789 original size:25 final size:25
Alignment explanation
Indices: 48671761--48671811 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
48671751 GAATTTTGGC
48671761 TTGAGAATTCTATTAGAGGATTCGA
1 TTGAGAATTCTATTAGAGGATTCGA
*
48671786 TTGAGAATTCTATTAGGGGATTCGA
1 TTGAGAATTCTATTAGAGGATTCGA
48671811 T
1 T
48671812 GAGTTATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.37
Consensus pattern (25 bp):
TTGAGAATTCTATTAGAGGATTCGA
Found at i:48676425 original size:17 final size:19
Alignment explanation
Indices: 48676399--48676435 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
48676389 TGTATAACTC
48676399 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
48676417 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
48676435 A
1 A
48676436 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:48682036 original size:40 final size:40
Alignment explanation
Indices: 48681992--48682099 Score: 144
Period size: 41 Copynumber: 2.7 Consensus size: 40
48681982 TGACAAATCA
* *
48681992 GCTATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAACTTCG
* * *
48682032 GCTATATATGGCGCTTAGTGTGCGAGATCGAGATAACTTCG
1 GCTATATATGGCACTTAGTGTGCGA-TTCGACATAACTTCG
* *
48682073 ACTATATATAGCACTTAGTGTGCGATT
1 GCTATATATGGCACTTAGTGTGCGATT
48682100 TAAGGTAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 24 0.41
41 34 0.59
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAACTTCG
Found at i:48683166 original size:12 final size:12
Alignment explanation
Indices: 48683149--48683196 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
48683139 TTTTGGCACG
48683149 GCCTAGCACACA
1 GCCTAGCACACA
*
48683161 GCCTAGCACACG
1 GCCTAGCACACA
* *
48683173 GCCTGGCACACC
1 GCCTAGCACACA
*
48683185 GGCTAG-ACACA
1 GCCTAGCACACA
48683196 G
1 G
48683197 GCGTGTCTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 5 0.17
12 25 0.83
ACGTcount: A:0.27, C:0.40, G:0.25, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACA
Found at i:48683190 original size:24 final size:25
Alignment explanation
Indices: 48683145--48683195 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
48683135 ACAGTTTTGG
48683145 CACGGCCTAGCACACAGCCTAG-CA
1 CACGGCCTAGCACACAGCCTAGACA
* * *
48683169 CACGGCCTGGCACACCGGCTAGACA
1 CACGGCCTAGCACACAGCCTAGACA
48683194 CA
1 CA
48683196 GGCGTGTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.27, C:0.41, G:0.24, T:0.08
Consensus pattern (25 bp):
CACGGCCTAGCACACAGCCTAGACA
Found at i:48685628 original size:6 final size:6
Alignment explanation
Indices: 48685617--48685718 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
48685607 GACCAAAATG
*
48685617 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
48685665 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
48685714 AGAAT
1 AGAAT
48685719 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.07
6 68 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:48685632 original size:30 final size:30
Alignment explanation
Indices: 48685596--48685718 Score: 149
Period size: 30 Copynumber: 4.1 Consensus size: 30
48685586 AAGAAACATT
* * * *
48685596 ATCAGAATTGGGACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
48685626 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
48685656 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
48685686 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
48685717 AT
1 AT
48685719 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
29 1 0.01
30 60 0.74
31 20 0.25
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:48685873 original size:27 final size:26
Alignment explanation
Indices: 48685836--48685901 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
48685826 AGCATGGCTG
*
48685836 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
48685862 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
48685889 CCAGAATCAGATA
1 CCAGAA-CAGATA
48685902 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:48685906 original size:27 final size:27
Alignment explanation
Indices: 48685836--48685909 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
48685826 AGCATGGCTG
* *
48685836 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
48685862 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
48685889 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
48685910 AACCTACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:48686122 original size:22 final size:22
Alignment explanation
Indices: 48686074--48686132 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48686064 GTAAATACGT
*
48686074 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
48686096 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
48686118 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
48686133 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:48686299 original size:27 final size:26
Alignment explanation
Indices: 48686220--48686302 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48686210 TCGATCGGTC
* *
48686220 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAG
48686246 ATACAGATATTGTGACAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* *
48686273 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
48686300 AAC
1 AAC
48686303 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:48686531 original size:27 final size:27
Alignment explanation
Indices: 48686501--48686696 Score: 189
Period size: 27 Copynumber: 7.3 Consensus size: 27
48686491 GGGGCAAAAT
* *
48686501 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
48686528 GGTAATTTTACCATACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
48686555 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
48686582 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
48686609 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
48686636 AGTAA-TCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
48686662 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
48686689 AGTAATTT
1 GGTAATTT
48686697 CACAATCAAG
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 26 0.18
27 113 0.80
28 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:48686669 original size:53 final size:54
Alignment explanation
Indices: 48686501--48686695 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
48686491 GGGGCAAAAT
* * * * * * *
48686501 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
* *
48686555 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTTC
* *
48686609 GGTAATTCTATCCTATAAGGGTATTTCAGTAA-TCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
* *
48686662 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
48686696 TCACAATCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 49 0.40
54 72 0.59
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
Found at i:48686694 original size:80 final size:81
Alignment explanation
Indices: 48686503--48686695 Score: 214
Period size: 80 Copynumber: 2.4 Consensus size: 81
48686493 GGCAAAATGG
* * * * * * * *
48686503 TAATTTTACCCCACAAGGGTATCTCGGTAATTTTA-CC-ATACAGGGGTATTTCGGTATTTCTAC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCCTATA-A-GGGTATTTCAGTATATCTAC
48686566 CCTACAAGGGTATTTCGA
64 CCTACAAGGGTATTTCGA
* **
48686584 TAATTCTACCCTATAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTA-ATCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCCTATAAGGGTATTTCAGTATATCTACCC
* *
48686648 TATAGGGGTATTTCGGA
66 TACAAGGGTATTTC-GA
48686665 -AATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATT
48686696 TCACAATCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 47 0.49
81 42 0.44
82 3 0.03
83 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCCTATAAGGGTATTTCAGTATATCTACCC
TACAAGGGTATTTCGA
Found at i:48686730 original size:27 final size:27
Alignment explanation
Indices: 48686700--48687163 Score: 532
Period size: 27 Copynumber: 17.2 Consensus size: 27
48686690 GTAATTTCAC
* *
48686700 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
48686727 AATCGAGGGTAAGAC-GATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
48686754 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **
48686781 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
48686808 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
48686835 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
48686862 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
48686889 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* **
48686916 AA-CTGAGGGTAAAACAGTAATTTTACA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
48686943 AATCGAGGGTAAAAC-GATAATTCTATA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
48686970 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
48686997 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **
48687024 AATTGAGGGTAATATGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
48687051 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* **
48687078 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
48687105 AATCGAGAGTAAAAC-GATAATTCTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
48687132 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
48687159 AATCG
1 AATCG
48687164 GGAGTACTTT
Statistics
Matches: 378, Mismatches: 43, Indels: 32
0.83 0.09 0.07
Matches are distributed among these distances:
26 7 0.02
27 364 0.96
28 7 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:48692569 original size:40 final size:40
Alignment explanation
Indices: 48692522--48692670 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
48692512 CGATGACAAA
* *
48692522 TCAGCTATATGTGGCACTTAGTGTGCGATTCGACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCT
* * *
48692562 TCGGCTATATATGGCGCTTAGTGTGCGAGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGA-TTCGAGATAGCT
* * **
48692603 TCAGCTATATATAGCACTTAGTGTGTGATTTAAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCT
* ** *
48692643 TCAGCTATGTACAGCACTTAATGTGCGA
1 TCAGCTATATATGGCACTTAGTGTGCGA
48692671 GATATCGAGT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 58 0.63
41 34 0.37
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
TCAGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCT
Found at i:48692623 original size:81 final size:81
Alignment explanation
Indices: 48692522--48692673 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
48692512 CGATGACAAA
* * * * ** * *
48692522 TCAGCTATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGGCGCTTAGTGTG
1 TCAGCTATATATAGCACTTAGTGTGCGATTCAACATAGCTTCAGCTATATACAGCACTTAATGTG
48692587 CGAGATCGAGATAGCT
66 CGAGATCGAGATAGCT
* * * *
48692603 TCAGCTATATATAGCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATGTACAGCACTTAATGTG
1 TCAGCTATATATAGCACTTAGTGTGCGATTCAACATAGCTTCAGCTATATACAGCACTTAATGTG
48692668 CGAGAT
66 CGAGAT
48692674 ATCGAGTATG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (81 bp):
TCAGCTATATATAGCACTTAGTGTGCGATTCAACATAGCTTCAGCTATATACAGCACTTAATGTG
CGAGATCGAGATAGCT
Found at i:48693300 original size:42 final size:42
Alignment explanation
Indices: 48693245--48693330 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
48693235 GATTTATGGA
* *
48693245 GTATAAATTCTTGAGAAATGCCTTGATGAGGTATGATTTTAG
1 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
48693287 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
1 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
48693329 GT
1 GT
48693331 GTTATGTGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (42 bp):
GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
Found at i:48699797 original size:27 final size:27
Alignment explanation
Indices: 48699767--48699944 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48699757 ATATTGAGTC
* * * *
48699767 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48699794 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48699821 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48699849 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48699876 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48699903 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48699930 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48699945 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48699906 original size:82 final size:81
Alignment explanation
Indices: 48699788--48699943 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48699778 TGCTATATAA
* *
48699788 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48699853 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48699870 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48699934 CACTTAGTGC
65 CACTTAGTGC
48699944 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48707775 original size:27 final size:27
Alignment explanation
Indices: 48707744--48707920 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48707734 TATATGAGTC
* * * *
48707744 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
48707771 CGCACACTTAGTGCTAC-TAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48707797 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48707825 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48707852 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48707879 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48707906 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48707921 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 25 0.19
27 81 0.62
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48707909 original size:81 final size:81
Alignment explanation
Indices: 48707765--48707919 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
48707755 TGCTATATAA
*
48707765 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
48707830 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
48707846 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-C-TAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGC
48707909 ACACTTAGTGC
64 ACACTTAGTGC
48707920 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 35 0.52
82 31 0.46
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:48728878 original size:29 final size:29
Alignment explanation
Indices: 48728845--48728904 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
48728835 GCACGATGAG
*
48728845 AATGTGTATAGACTATCAATAGCTCAACA
1 AATGTGTATAGACTATCAACAGCTCAACA
*
48728874 AATGTGTATAGGCTATCAACAGCTCAACA
1 AATGTGTATAGACTATCAACAGCTCAACA
48728903 AA
1 AA
48728905 GTGACTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (29 bp):
AATGTGTATAGACTATCAACAGCTCAACA
Found at i:48730600 original size:23 final size:23
Alignment explanation
Indices: 48730510--48730611 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 23
48730500 GGACTCACCA
*
48730510 CAGCTCGTTTGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* * *
48730536 CAGCTTGTAAGAGCTTACTGTTTT
1 CAGCTCGTATGAGCTTACCG-TTT
* *
48730560 CAACTCAT-TAGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACCGTTT
* *
48730583 TAGCTCGTATGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACCGTTT
48730606 CAGCTC
1 CAGCTC
48730612 AATAAAGCTT
Statistics
Matches: 59, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
23 25 0.42
24 16 0.27
25 1 0.02
26 17 0.29
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:48730620 original size:23 final size:23
Alignment explanation
Indices: 48730545--48730624 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
48730535 TCAGCTTGTA
* *
48730545 AGAGCTTACTGTTTTCAACTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* * *
48730569 AGAGCTTACCGTTTTAGCTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
48730591 ATGAGCTTACTGTTTCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTCAAT
*
48730615 AAAGCTTACT
1 AGAGCTTACT
48730625 ATTCATCAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.04
23 32 0.70
24 12 0.26
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:48730649 original size:26 final size:25
Alignment explanation
Indices: 48730617--48730666 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
48730607 AGCTCAATAA
* *
48730617 AGCTTACTATTCATCAGCTCGAAAGG
1 AGCTTACCAATCAT-AGCTCGAAAGG
*
48730643 AGCTTACCAATCATGGCTCGAAAG
1 AGCTTACCAATCATAGCTCGAAAG
48730667 AGCATAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCTTACCAATCATAGCTCGAAAGG
Found at i:48734848 original size:15 final size:15
Alignment explanation
Indices: 48734828--48734862 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
48734818 GGTTGTGTCT
48734828 CTACCCGTATGTTTA
1 CTACCCGTATGTTTA
48734843 CTACCCGTATGTTTA
1 CTACCCGTATGTTTA
48734858 CTACC
1 CTACC
48734863 ATGCATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.37
Consensus pattern (15 bp):
CTACCCGTATGTTTA
Found at i:48736841 original size:21 final size:22
Alignment explanation
Indices: 48736815--48736855 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48736805 TACTAGATAC
*
48736815 AGGGGC-ACACGCCTGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
48736836 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
48736856 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:48738001 original size:46 final size:46
Alignment explanation
Indices: 48737878--48738087 Score: 180
Period size: 46 Copynumber: 4.5 Consensus size: 46
48737868 GCCAATGTCG
**
48737878 TGTCCCAGACATGATCTTACACT-G-AAACATCTCGTA-GCCGATGCA
1 TGTCCCAGACATG-TCTTACACTAGCACTCATCTCG-AGGCCGATGCA
* * * *
48737923 TGTCCCAGACATGTTTTACA-TTG-ACTTACGTCTCGAGGTCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCAC-T-CATCTCGAGGCCGATGCA
* * * *
48737969 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCTGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGATG-CA
* * * *
48738016 TGTCCCAGACATGATCTTACACTGGCTCTCATAAT-GTGGCCGATGCA
1 TGTCCCAGACATG-TCTTACACTAGCACTCAT-CTCGAGGCCGATGCA
*
48738063 TGTCCTAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
48738088 TCACAATAAC
Statistics
Matches: 135, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 8 0.06
45 14 0.10
46 56 0.41
47 32 0.24
48 23 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGATGCA
Found at i:48744754 original size:30 final size:30
Alignment explanation
Indices: 48744720--48744779 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
48744710 ACTTAACAAG
*
48744720 CAAATACCTCTAAAATAGTAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
48744750 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
48744780 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:48746234 original size:47 final size:44
Alignment explanation
Indices: 48746119--48746245 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
48746109 AGCTTGTTGT
* * *
48746119 GCCGATGCTGTGTCCCAGACATGGTCTTACACTAACACATCTCCTA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACATCTCCAA
48746165 GCCGATGCATGTCCCA-AGCATGTCTTACACTAGCAC-TCGTCTCAA
1 GCCGATGCATGTCCCAGA-CATGTCTTACACTAGCACATC-TC-CAA
*
48746210 TGCTGATGCCATGTCCCAGACATGTCTTACACTAGC
1 -GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
48746246 TCACAGTAAC
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
43 2 0.03
44 17 0.24
45 12 0.17
46 14 0.20
47 25 0.35
48 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCCAA
Found at i:48747847 original size:229 final size:230
Alignment explanation
Indices: 48747446--48747903 Score: 828
Period size: 229 Copynumber: 2.0 Consensus size: 230
48747436 TGACTACGCA
*
48747446 CAAAATCGGGTTGTTACATGGTAAAACCCTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
1 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
*
48747511 TATAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATCAAGAATAACCTTATAAATGACT
66 TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATCAAGAATAACCTTATAAATGACT
*
48747576 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAA-CCCCCTTTTGAAGATGAAAA
131 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
*
48747640 TTGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
196 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
* *
48747675 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTGCAAAATAATCCCCTTCA
1 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
* * *
48747740 TAGAAAGCTTATGTTACAAGGAGTCCAAAATACAAAAATCATCAAGAATAACCTTATAGATGACT
66 TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATCAAGAATAACCTTATAAATGACT
48747805 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
131 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
48747870 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGC
196 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGC
48747904 ATTTTTTTGT
Statistics
Matches: 219, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
229 167 0.76
230 52 0.24
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (230 bp):
CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATCAAGAATAACCTTATAAATGACT
TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
Found at i:48758198 original size:40 final size:40
Alignment explanation
Indices: 48758124--48758334 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
48758114 TCTTCAGAAT
** * *
48758124 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
48758162 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
48758202 TTAGCCCGGATATAGTCGCTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
48758242 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
48758282 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
48758322 TTAGCCCGGATAT
1 TTAGCCCGGATAT
48758335 CATTCGAATA
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 125 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:48768855 original size:28 final size:26
Alignment explanation
Indices: 48768795--48768888 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 26
48768785 TTTGCAACAT
*
48768795 GGCCGCCAGAACAGATATTGTGACAG
1 GGCCACCAGAACAGATATTGTGACAG
* * *
48768821 AGTCACCAGATACAGATAATTGTGGCAG
1 GGCCACCAGA-ACAGAT-ATTGTGACAG
*
48768849 GGCCACCAGAAACAGAT-TTTTGTATCAG
1 GGCCACCAG-AACAGATATTGTG-A-CAG
*
48768877 AGCCACCAGAAC
1 GGCCACCAGAAC
48768889 GCTTCATCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
26 11 0.20
27 9 0.17
28 33 0.61
29 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
GGCCACCAGAACAGATATTGTGACAG
Found at i:48769063 original size:26 final size:26
Alignment explanation
Indices: 48768990--48769064 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
48768980 CAAAATCAAC
* *
48768990 CCTAAGGGTATAATGGTCATCTTGCA
1 CCTAGGGGTATAATGGTCATTTTGCA
48769016 CCTAGGGGTATAATGGTCATTTTGCA
1 CCTAGGGGTATAATGGTCATTTTGCA
* *
48769042 CCTAGGGGTATAGTGGTGATTTT
1 CCTAGGGGTATAATGGTCATTTT
48769065 CATACTTAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTCATTTTGCA
Found at i:48776759 original size:28 final size:28
Alignment explanation
Indices: 48776722--48776819 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
48776712 GATATTGTGA
* *
48776722 CAGAGTCACCAGATACAAATAATTGAGG
1 CAGAGCCACCAGAAACAAATAATTGAGG
* * * *
48776750 CAGGGCCACCAGAAACAGATATTTGTGG
1 CAGAGCCACCAGAAACAAATAATTGAGG
* * * ** *
48776778 CTGAGCCACCAGAAATAGATTTTTGTGG
1 CAGAGCCACCAGAAACAAATAATTGAGG
48776806 CAGAGCCACCAGAA
1 CAGAGCCACCAGAA
48776820 TGCTTCCTCC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
CAGAGCCACCAGAAACAAATAATTGAGG
Found at i:48776982 original size:26 final size:25
Alignment explanation
Indices: 48776926--48776984 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
48776916 ATCAACCCTA
* *
48776926 AGGGTATAATGGTCATTTTGTACCT
1 AGGGTATAATGATCATTTTATACCT
* *
48776951 AGGGGTATAATGATGATTTTCATACTT
1 A-GGGTATAATGATCATTTT-ATACCT
48776978 AGGGTAT
1 AGGGTAT
48776985 TTTAGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.04
26 22 0.79
27 5 0.18
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (25 bp):
AGGGTATAATGATCATTTTATACCT
Found at i:48786002 original size:40 final size:40
Alignment explanation
Indices: 48785904--48786206 Score: 362
Period size: 40 Copynumber: 7.6 Consensus size: 40
48785894 TCCTCGTTCA
* * ** *
48785904 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
48785943 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
48785983 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
**
48786023 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
48786063 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
48786103 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
48786143 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
48786183 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48786207 CAGCATTCAA
Statistics
Matches: 236, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.16
40 191 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:48786104 original size:120 final size:119
Alignment explanation
Indices: 48785902--48786206 Score: 414
Period size: 120 Copynumber: 2.5 Consensus size: 119
48785892 GCTCCTCGTT
* * * *
48785902 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
48785967 TTTAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
48786021 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
* ** *
48786086 ATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
65 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * * * *
48786141 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAATGCCTTCGGGACTTAACCCG
48786205 GA
64 GA
48786207 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 40 0.24
120 119 0.73
121 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:48819232 original size:33 final size:33
Alignment explanation
Indices: 48819168--48819232 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
48819158 ATGCAGTAAT
* * *
48819168 AGTCTGGGCCAGAGCCCTAATCAGTACCAGTAC
1 AGTCTGGGCCAGAGCCCTAAACAGAAACAGTAC
**
48819201 AGTCTGGGCCTTAGCCCTAAACAGAAACAGTA
1 AGTCTGGGCCAGAGCCCTAAACAGAAACAGTA
48819233 TAGGCCTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (33 bp):
AGTCTGGGCCAGAGCCCTAAACAGAAACAGTAC
Found at i:48821294 original size:80 final size:80
Alignment explanation
Indices: 48821132--48821296 Score: 217
Period size: 80 Copynumber: 2.1 Consensus size: 80
48821122 TATTCGGATG
* * ** * *
48821132 ATATCTGGGCTAAGTTCCGAAGGCATTTGTGTAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGTAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
48821197 TTCATGCTAGTGACT
66 TTCATGCGAGTGACT
48821212 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCT-AGTGACTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATG-TAAGTGACTATATCCGGGCTAAGACCCGAAGGC
**
48821276 ATTTGTGCGAGTTG-CT
65 ATTCATGCGAG-TGACT
48821292 ATATC
1 ATATC
48821297 TGGCTAAATC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 71 0.96
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGTAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCATGCGAGTGACT
Found at i:48821296 original size:40 final size:40
Alignment explanation
Indices: 48821132--48821278 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
48821122 TATTCGGATG
* * ** *
48821132 ATATCTGGGCTAAGTTCCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCT-AGTGACT
48821172 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
48821212 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
*
48821252 ATATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATT
48821279 TGTGCGAGTT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
40 99 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
Found at i:48822719 original size:26 final size:26
Alignment explanation
Indices: 48822690--48822767 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
48822680 ACCAATATCA
48822690 TAGCAAAGCTACCAGTAATAATAATG
1 TAGCAAAGCTACCAGTAATAATAATG
* * * * *
48822716 TAGCATAGCTGCCAGAAACAGTGAATG
1 TAGCAAAGCTACCAGTAATAAT-AATG
* *
48822743 TGGCAAAGCCACCAGT-ATCAATAAT
1 TAGCAAAGCTACCAGTAAT-AATAAT
48822768 TGTGACATAG
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
TAGCAAAGCTACCAGTAATAATAATG
Found at i:48822801 original size:27 final size:27
Alignment explanation
Indices: 48822734--48822803 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
48822724 CTGCCAGAAA
* * *
48822734 CAGTGAATGTGGCAAAGCCACCAGTAT
1 CAGTGAATGTGACATAGACACCAGTAT
*
48822761 CAAT-AATTGTGACATAGACACCAGTAT
1 CAGTGAA-TGTGACATAGACACCAGTAT
*
48822788 CAGTGAATGCGACATA
1 CAGTGAATGTGACATA
48822804 ATCACCAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (27 bp):
CAGTGAATGTGACATAGACACCAGTAT
Found at i:48822996 original size:27 final size:26
Alignment explanation
Indices: 48822955--48823095 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
48822945 GGGCATACTA
48822955 GTCA-TTTACCCTACAAGGCCATTACG
1 GTCATTTTACCCTACAAGG-CATTACG
*
48822981 GTCATTTTACCCTACAATGGCATTATG
1 GTCATTTTACCCTACAA-GGCATTACG
* *
48823008 GTCATTTTACCCTACAGAGGCGTTACA
1 GTCATTTTACCCTACA-AGGCATTACG
**
48823035 GTCATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTAC-AAGGCATTACG
* * *
48823062 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACA-AGGCATTACG
48823089 GTCATTT
1 GTCATTT
48823096 CCATCCACTA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.04
27 92 0.93
28 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAAGGCATTACG
Found at i:48823093 original size:54 final size:54
Alignment explanation
Indices: 48822955--48823095 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
48822945 GGGCATACTA
* *
48822955 GTCA-TTTACCCTACA-AGGCCATTACGGTCATTTTACCCTACAATGGCATTATG
1 GTCATTTTACCCTACAGAGG-CATTACGGTCATTTTACCCTACAAGGGCATTACG
* * **
48823008 GTCATTTTACCCTACAGAGGCGTTACAGTCATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
* * *
48823062 GTCATTTTACCCTATAGGGGTATTACGGTCATTT
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTT
48823096 CCATCCACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
53 4 0.05
54 68 0.91
55 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
Found at i:48823250 original size:20 final size:20
Alignment explanation
Indices: 48823220--48823259 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48823210 AAAGGACTCA
48823220 GGTGACAAATATGGCCAAAAT
1 GGTGACAAATA-GGCCAAAAT
*
48823241 GGTG-CAAATAGGCCCAAAT
1 GGTGACAAATAGGCCAAAAT
48823260 CCCATTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (20 bp):
GGTGACAAATAGGCCAAAAT
Found at i:48828711 original size:45 final size:45
Alignment explanation
Indices: 48828616--48828742 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
48828606 TTTTCTCAAA
*
48828616 TCACCGGCATT-TCA-CCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTAT-AGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
48828658 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
48828702 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
48828743 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
42 12 0.16
43 13 0.18
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Done.