Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 58 of 204
Found at i:16955329 original size:79 final size:81
Alignment explanation
Indices: 16955193--16955377 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
16955183 TTGAATGATG
*
16955193 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16955257 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
16955272 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
16955334 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
16955352 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16955378 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:16955391 original size:40 final size:40
Alignment explanation
Indices: 16955194--16955377 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
16955184 TGAATGATGT
* * * *
16955194 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
16955234 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
16955274 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16955312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16955353 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16955378 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:16955399 original size:79 final size:79
Alignment explanation
Indices: 16955246--16955410 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
16955236 GGACTAAGAT
* **
16955246 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16955311 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
16955325 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
16955388 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16955404 CCGAAGG
1 CCGAAGG
16955411 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16962750 original size:25 final size:24
Alignment explanation
Indices: 16962722--16962770 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
16962712 TAAAAGGAGG
*
16962722 TAAGGCATTTCGTATGAAATTTTAA
1 TAAGGCATTTCGGATG-AATTTTAA
16962747 TAAGGCATTTCGGATGAATTTTAA
1 TAAGGCATTTCGGATGAATTTTAA
16962771 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAGGCATTTCGGATGAATTTTAA
Found at i:16971011 original size:20 final size:20
Alignment explanation
Indices: 16970986--16971027 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
16970976 GCTAATATAT
16970986 CTCTTCAACAATAAGAGCAA
1 CTCTTCAACAATAAGAGCAA
16971006 CTCTTCAACAATAAGAGCAA
1 CTCTTCAACAATAAGAGCAA
16971026 CT
1 CT
16971028 GACTCTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (20 bp):
CTCTTCAACAATAAGAGCAA
Found at i:16974992 original size:20 final size:21
Alignment explanation
Indices: 16974964--16975002 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16974954 AAAAAATTAA
*
16974964 TTAATTAATTTAA-ATGATAT
1 TTAAATAATTTAATATGATAT
16974984 TTAAATAATTTAATATGAT
1 TTAAATAATTTAATATGAT
16975003 CATACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTAAATAATTTAATATGATAT
Found at i:16985437 original size:30 final size:30
Alignment explanation
Indices: 16985401--16985466 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 30
16985391 AATAGTAAAG
*
16985401 TAAGAGTTTTGATATATTTGTTGGCGAATA
1 TAAGAGTTTTGATATATTTATTGGCGAATA
*
16985431 TAAGAG--TTGATATATTTATTGGCTAATA
1 TAAGAGTTTTGATATATTTATTGGCGAATA
16985459 TAAGAGTT
1 TAAGAGTT
16985467 CCTTTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 26 0.81
30 6 0.19
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (30 bp):
TAAGAGTTTTGATATATTTATTGGCGAATA
Found at i:16988352 original size:54 final size:54
Alignment explanation
Indices: 16988287--16988670 Score: 456
Period size: 54 Copynumber: 7.1 Consensus size: 54
16988277 ATTTGTGGGC
* *
16988287 AAATGACTGAAATACCCTCGAAGGATAAAATGATCGAAATACCCCTAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTA
* * *
16988341 AAATGATTGAAATACCCTC-AAGGGGTAAAATGATCGAAATACCCCTAAAGGATA
1 AAATGACTGAAATACCCTCGAA-GGGTAAAATGACCGAAATACCCCTAAAGGGTA
* *
16988395 AAATGACTGAAATACCCTCGATGGGTAAAATGACCGAAATA-CCCTGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTA
* * ** *
16988448 AAATGATTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGAGGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTA
* * ** **
16988502 AAATGACCGAAATACCC-CCATAGGGTAAAATGACTAAAATACCTTTAAAGGGTA
1 AAATGACTGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCTAAAGGGTA
* * * *
16988556 AAATGACCGAAATACCC-CTTAGGGGTAAAATGACCGAAATACCCCTAAAAGGTA
1 AAATGACTGAAATACCCTC-GAAGGGTAAAATGACCGAAATACCCCTAAAGGGTA
* * *
16988610 AAATGA-TCGAAATACCCTC-AAGGGGTAACATGACCGAAATACCCCTGAAGGATA
1 AAATGACT-GAAATACCCTCGAA-GGGTAAAATGACCGAAATACCCCTAAAGGGTA
16988664 AAATGAC
1 AAATGAC
16988671 CCCGTAGGGT
Statistics
Matches: 284, Mismatches: 37, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
53 53 0.19
54 228 0.80
55 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTA
Found at i:16988670 original size:27 final size:27
Alignment explanation
Indices: 16988287--16988671 Score: 388
Period size: 27 Copynumber: 14.3 Consensus size: 27
16988277 ATTTGTGGGC
* *
16988287 AAATGACTGAAATA-CCCTCGAAGGATA
1 AAATGACCGAAATACCCCT-GAAGGGTA
* *
16988314 AAATGATCGAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
** *
16988341 AAATGATTGAAATA-CCCTCAAGGGGTA
1 AAATGACCGAAATACCCCTGAA-GGGTA
* * *
16988368 AAATGATCGAAATACCCCTAAAGGATA
1 AAATGACCGAAATACCCCTGAAGGGTA
* *
16988395 AAATGACTGAAATA-CCCTCGATGGGTA
1 AAATGACCGAAATACCCCT-GAAGGGTA
16988422 AAATGACCGAAATA-CCCTGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
**
16988448 AAATGATTGAAATA-CCCTCGAAGGGTA
1 AAATGACCGAAATACCCCT-GAAGGGTA
* * *
16988475 AAATGATCGAAATACCCCCGAGGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
*
16988502 AAATGACCGAAATACCCC-CATAGGGTA
1 AAATGACCGAAATACCCCTGA-AGGGTA
** ** *
16988529 AAATGACTAAAATACCTTTAAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
* *
16988556 AAATGACCGAAATACCCCTTAGGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
* *
16988583 AAATGACCGAAATACCCCTAAAAGGTA
1 AAATGACCGAAATACCCCTGAAGGGTA
* *
16988610 AAATGATCGAAATA-CCCTCAAGGGGTA
1 AAATGACCGAAATACCCCTGAA-GGGTA
* *
16988637 ACATGACCGAAATACCCCTGAAGGATA
1 AAATGACCGAAATACCCCTGAAGGGTA
16988664 AAATGACC
1 AAATGACC
16988672 CCGTAGGGTA
Statistics
Matches: 302, Mismatches: 46, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
26 40 0.13
27 242 0.80
28 20 0.07
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTGAAGGGTA
Found at i:16988712 original size:27 final size:26
Alignment explanation
Indices: 16988669--16988720 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16988659 GGATAAAATG
*
16988669 ACCCCGTAGGGTAAAATGATTGTTAT
1 ACCCCGTAGGGTAAAATGACTGTTAT
16988695 ACCCC-TAGGAGTCAAAATGACTGTTA
1 ACCCCGTAGG-GT-AAAATGACTGTTA
16988721 CGACCTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (26 bp):
ACCCCGTAGGGTAAAATGACTGTTAT
Found at i:16988890 original size:26 final size:26
Alignment explanation
Indices: 16988851--16988931 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
16988841 TGGAGGAAGT
16988851 ATACTGAT-TCTGGCAGCTTTGCTGCG
1 ATACTGATAT-TGGCAGCTTTGCTGCG
*
16988877 ATACTGATATTGGCAGCTCTGCTGCG
1 ATACTGATATTGGCAGCTTTGCTGCG
* * *
16988903 ATGCTGCTACTGGCAGCTTTGCTGCG
1 ATACTGATATTGGCAGCTTTGCTGCG
16988929 ATA
1 ATA
16988932 TTGGTATGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.32
Consensus pattern (26 bp):
ATACTGATATTGGCAGCTTTGCTGCG
Found at i:16989760 original size:53 final size:53
Alignment explanation
Indices: 16989680--16989877 Score: 227
Period size: 53 Copynumber: 3.7 Consensus size: 53
16989670 ATGGCCATGG
* * * *
16989680 TAAGAATATCATATAGTGTAAGACCTAGTCTAGGACTAGACATCATATGAAGA
1 TAAGAAGACCATATAATGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
* * * *
16989733 TAAGAAGACCATATAGTGTAAGACCTAGTCGAGGACTAAACATCATATGAAGA
1 TAAGAAGACCATATAATGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
** * **
16989786 TAAGAAGACCATATAATGTAAGACCTAATCTAATACTATGGCATCATATGGGGA
1 TAAGAAGACCATATAATGTAAGACCTAATCTAGGACTA-GACATCATATGAAGA
* * *
16989840 TACA-AAAACCACATAATGTAAGACCTAATTTAGGACTA
1 TA-AGAAGACCATATAATGTAAGACCTAATCTAGGACTA
16989878 TGGTATCATG
Statistics
Matches: 125, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 82 0.66
54 42 0.34
55 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (53 bp):
TAAGAAGACCATATAATGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
Found at i:16989875 original size:107 final size:106
Alignment explanation
Indices: 16989680--16989877 Score: 236
Period size: 107 Copynumber: 1.9 Consensus size: 106
16989670 ATGGCCATGG
* * * * * * *
16989680 TAAGAATATCATATAGTGTAAGACCTAGTCTAGGACTAGACATCATATGAAGATAAGAAGACCAT
1 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTAGACATCATATGAAGATAAGAAAACCAC
* *
16989745 ATAGTGTAAGACCTAGTCGAGGACTAAACATCATATGAAGA
66 ATAATGTAAGACCTAATCGAGGACTAAACATCATATGAAGA
* * **
16989786 TAAGAAGACCATATAATGTAAGACCTAATCTAATACTATGGCATCATATGGGGATACA-AAAACC
1 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTA-GACATCATATGAAGATA-AGAAAACC
**
16989850 ACATAATGTAAGACCTAATTTAGGACTA
64 ACATAATGTAAGACCTAATCGAGGACTA
16989878 TGGTATCATG
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
106 32 0.43
107 42 0.56
108 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (106 bp):
TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTAGACATCATATGAAGATAAGAAAACCAC
ATAATGTAAGACCTAATCGAGGACTAAACATCATATGAAGA
Found at i:16993921 original size:17 final size:17
Alignment explanation
Indices: 16993901--16993941 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16993891 TAATTTAGCC
16993901 ATTTTTATTTTATTATA
1 ATTTTTATTTTATTATA
*
16993918 ATTTTGT-TTTTATTTTA
1 ATTTT-TATTTTATTATA
16993935 ATTTTTA
1 ATTTTTA
16993942 CATTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTATTTTATTATA
Found at i:17006720 original size:19 final size:19
Alignment explanation
Indices: 17006685--17006731 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
17006675 ACATAGTAGA
* *
17006685 TTTT-TATTTTTATTTTTT
1 TTTTCTATTTTTACTTTTC
*
17006703 TTTTCTATTTTTCCTTTTC
1 TTTTCTATTTTTACTTTTC
*
17006722 TTTTCCATTT
1 TTTTCTATTT
17006732 CGGCTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTATTTTTACTTTTC
Found at i:17011284 original size:47 final size:45
Alignment explanation
Indices: 17011215--17011305 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 45
17011205 TAAAAGGTGG
17011215 GACCAAGGTGAAACCCTACAAAGGG-GCTCTTTGAGTCAAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGC-C-TTGAGT-AAAAAAAAAA
*
17011262 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
17011306 GAAGAGGCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
45 9 0.21
46 6 0.14
47 25 0.60
48 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (45 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAA
Found at i:17012894 original size:89 final size:89
Alignment explanation
Indices: 17012785--17013201 Score: 665
Period size: 89 Copynumber: 4.7 Consensus size: 89
17012775 TAGATTGTAG
*
17012785 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
*
17012850 ACTGGTGGCGAAGTAGATCGAAGA
66 ACTGGTGGCGAAGCAGATCGAAGA
* *
17012874 AAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGCCTTCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
17012939 ACTGGTGGCGAAGCAGATCGAAGA
66 ACTGGTGGCGAAGCAGATCGAAGA
17012963 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
*
17013028 ACTGGTGGCGAAGCAGATCAAAGA
66 ACTGGTGGCGAAGCAGATCGAAGA
* * * * *
17013052 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AACATATATTGTCTCCCCAT
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
* * * *
17013116 ACTGGTGGTGGAGTAGGTCGAAGA
66 ACTGGTGGCGAAGCAGATCGAAGA
* * * *
17013140 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCC
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
17013202 TATGTTGGTA
Statistics
Matches: 301, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 77 0.26
89 224 0.74
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (89 bp):
AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
ACTGGTGGCGAAGCAGATCGAAGA
Found at i:17013200 original size:44 final size:44
Alignment explanation
Indices: 17012785--17013183 Score: 404
Period size: 44 Copynumber: 9.0 Consensus size: 44
17012775 TAGATTGTAG
17012785 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
* * *** * * *
17012829 TACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 AAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGA
*
17012874 AAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
* * * *** * * * *
17012918 TAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGA
1 AAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGA
17012963 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
* * *** * * *
17013007 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGA
1 AAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGA
*
17013052 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG-
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
* * * *** * * * *
17013095 AAACATATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
1 AAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGA
*
17013140 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
17013184 TAGTAGGTCC
Statistics
Matches: 275, Mismatches: 75, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
43 19 0.07
44 131 0.48
45 125 0.45
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
Found at i:17013316 original size:177 final size:177
Alignment explanation
Indices: 17012785--17013316 Score: 521
Period size: 177 Copynumber: 3.0 Consensus size: 177
17012775 TAGATTGTAG
* * *
17012785 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCAT
1 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCAT
* * * * ** * ** * *
17012850 ACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
66 ACTGGTAGCGAAGCAGACCAAAGAAAGCAGATCTTATCTTCACATACCGGCGTGAAATAGATCAA
* * * * * * *
17012915 AGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGA
131 AGA-AACAGATATTGCCTCCCCATACTAGTAGTGGAGCAGATCGAAGA
* *
17012963 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
1 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCAT
* * * ** * *
17013028 ACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
66 ACTGGTAGCGAAGCAGACCAAAGAAAGCAGATCTTATCTTCACATACCGGCGTGAAATAGATCAA
* * * * * *
17013093 AGAAACATATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
131 AGAAACAGATATTGCCTCCCCATACTAGTAGTGGAGCAGATCGAAGA
* * *
17013140 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTAT
1 AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCAT
** ** * * * * * * **
17013205 GTTGGTAGCGAAGTGGACCGAATATA-CATATTTTATCTTCCCATACCGGCGGTGAAATAGATTG
66 ACTGGTAGCGAAGCAGACCAAAGAAAGCAGATCTTATCTTCACATACCGGC-GTGAAATAGATCA
* * *
17013269 AAGATTACAGATTTTGCCTCCCTA-AGC-AGTAGTGGAGCAGATCGAAGA
130 AAGA-AACAGATATTGCCTCCCCATA-CTAGTAGTGGAGCAGATCGAAGA
17013317 TGGCAGATTT
Statistics
Matches: 304, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
176 17 0.06
177 144 0.47
178 143 0.47
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (177 bp):
AAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCAT
ACTGGTAGCGAAGCAGACCAAAGAAAGCAGATCTTATCTTCACATACCGGCGTGAAATAGATCAA
AGAAACAGATATTGCCTCCCCATACTAGTAGTGGAGCAGATCGAAGA
Found at i:17014228 original size:18 final size:19
Alignment explanation
Indices: 17014194--17014239 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
17014184 ACATAGTAGA
*
17014194 TTTT-TATTTTTA-TTTTT
1 TTTTCTATTTTTACTTTTC
*
17014211 TTTTCTATTTTTCCTTTTC
1 TTTTCTATTTTTACTTTTC
*
17014230 TTTTCCATTT
1 TTTTCTATTT
17014240 CGGCTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTATTTTTACTTTTC
Found at i:17015020 original size:3 final size:3
Alignment explanation
Indices: 17015012--17015106 Score: 111
Period size: 3 Copynumber: 31.7 Consensus size: 3
17015002 GTTATTTTTG
* **
17015012 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TGG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
17015060 TAG TAG TAG TAT TAT TAT TAT TAT TAT TA- TAT TAT ATAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
17015105 TA
1 TA
17015107 CTATACTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.02
3 78 0.95
4 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17017120 original size:22 final size:22
Alignment explanation
Indices: 17017089--17017131 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17017079 ATTTTAGTTA
*
17017089 AATAATTATTATTTTAAATAAT
1 AATAACTATTATTTTAAATAAT
*
17017111 AATAACTATTATTTTTAATAA
1 AATAACTATTATTTTAAATAA
17017132 ATTGATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAACTATTATTTTAAATAAT
Found at i:17017235 original size:103 final size:101
Alignment explanation
Indices: 17017097--17017307 Score: 386
Period size: 103 Copynumber: 2.1 Consensus size: 101
17017087 TAAATAATTA
17017097 TTATTTTAAATAATAATAACTATTATTTTTAATAAATTGATTTATAGAATTATTTGTAGATCGAT
1 TTATTTTAAATAATAATAACTATTATTTTTAATAAATTGATTTATAGAATTATTTGTAGATCGAT
17017162 TTAGTATTTGTATCCTATTATTTTAAAAATAAAAAG
66 TTAGTATTTGTATCCTATTATTTTAAAAATAAAAAG
*
17017198 TTATTTTAAATAATAATAACTTTATTATTTTTAATAAATTGATTTATAGAATTATTTGTAGATTG
1 TTATTTTAAATAATAATAAC--TATTATTTTTAATAAATTGATTTATAGAATTATTTGTAGATCG
17017263 ATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAG
64 ATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAG
*
17017301 TAATTTT
1 TTATTTT
17017308 TGTTATAAAA
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
101 20 0.19
103 86 0.81
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (101 bp):
TTATTTTAAATAATAATAACTATTATTTTTAATAAATTGATTTATAGAATTATTTGTAGATCGAT
TTAGTATTTGTATCCTATTATTTTAAAAATAAAAAG
Found at i:17017350 original size:103 final size:101
Alignment explanation
Indices: 17017140--17017352 Score: 241
Period size: 103 Copynumber: 2.1 Consensus size: 101
17017130 AAATTGATTT
*
17017140 ATAGAATTATTTGTAGATCGATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAGTTATTTT
1 ATAGAATTATTTGTAGATCGATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAGTAATTTT
* * *** *** *
17017205 AAATAATAATAACTTTATTATTTTTAATAAATTGATTT
66 AAATAATAATAA--TTAATAATGCAAATAAACAAATTA
*
17017243 ATAGAATTATTTGTAGATTGATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAGTAATTTT
1 ATAGAATTATTTGTAGATCGATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAGTAA-TTT
**
17017308 TGTTATAA-AATAA-TAATAATGCAAATAACACAAATATA
65 T-AAATAATAATAATTAATAATGCAAATAA-ACAAAT-TA
17017346 ATAGAAT
1 ATAGAAT
17017353 AGAATAAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
101 10 0.11
102 3 0.03
103 67 0.72
104 9 0.10
105 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (101 bp):
ATAGAATTATTTGTAGATCGATTTAGTATTTGTATCCTATTATTTTAAAAATAAAAAGTAATTTT
AAATAATAATAATTAATAATGCAAATAAACAAATTA
Found at i:17020041 original size:9 final size:9
Alignment explanation
Indices: 17020017--17020053 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
17020007 ATTTATTAAC
17020017 AAACACATT
1 AAACACATT
17020026 AAAACACATT
1 -AAACACATT
17020036 AAACACATTT
1 AAACACA-TT
17020046 AAACACAT
1 AAACACAT
17020054 ATTAGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:17020041 original size:19 final size:19
Alignment explanation
Indices: 17020017--17020053 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17020007 ATTTATTAAC
17020017 AAACACATTAAAACACATT
1 AAACACATTAAAACACATT
*
17020036 AAACACATTTAAACACAT
1 AAACACATTAAAACACAT
17020054 ATTAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACACATTAAAACACATT
Found at i:17020183 original size:19 final size:19
Alignment explanation
Indices: 17020156--17020248 Score: 70
Period size: 19 Copynumber: 5.1 Consensus size: 19
17020146 TTATTCCAGC
*
17020156 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *
17020175 AACTTAATTAACTAATACG
1 AACTTAATTAACTAAGATG
* * *
17020194 -A-GTAATTTATTCT-AG--C
1 AACTTAA-TTA-ACTAAGATG
17020210 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
17020229 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
17020248 A
1 A
17020249 GTAATTTATT
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
16 2 0.04
17 9 0.16
18 8 0.14
19 37 0.66
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:17020211 original size:54 final size:54
Alignment explanation
Indices: 17020146--17020271 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
17020136 CAATAATAAA
* *
17020146 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAATACGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGACGAGTAAT
* * *
17020200 TTATTCTAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGACGAGTAAT
17020254 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
17020272 ACTTATTCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGACGAGTAAT
Found at i:17032021 original size:28 final size:28
Alignment explanation
Indices: 17031990--17032044 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
17031980 TTAAATGTCT
17031990 ATTTAATTATAA-ATAATTATATAATAAA
1 ATTTAATT-TAAGATAATTATATAATAAA
* *
17032018 ATTTAATTTAAGATATTTTTATAATAA
1 ATTTAATTTAAGATAATTATATAATAA
17032045 TTAATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAATTTAAGATAATTATATAATAAA
Found at i:17032762 original size:9 final size:9
Alignment explanation
Indices: 17032748--17032773 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17032738 TTTATTTTTA
17032748 AAAATATTT
1 AAAATATTT
17032757 AAAATATTT
1 AAAATATTT
17032766 AAAATATT
1 AAAATATT
17032774 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:17034519 original size:8 final size:8
Alignment explanation
Indices: 17034504--17034549 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
17034494 AAAATTAAAA
17034504 TTTA-ATT
1 TTTATATT
17034511 TTTATA--
1 TTTATATT
17034517 TTTATATT
1 TTTATATT
17034525 TTTATATT
1 TTTATATT
17034533 TTTATATT
1 TTTATATT
17034541 TTTAT-TT
1 TTTATATT
17034548 TT
1 TT
17034550 AGAAATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.17
7 8 0.22
8 22 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATATT
Found at i:17034527 original size:14 final size:14
Alignment explanation
Indices: 17034503--17034550 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
17034493 AAAAATTAAA
17034503 ATTTA-ATTTTTAT
1 ATTTATATTTTTAT
17034516 ATTTATATTTTTAT
1 ATTTATATTTTTAT
17034530 ATTTTTATATTTTTAT
1 A--TTTATATTTTTAT
*
17034546 TTTTA
1 ATTTA
17034551 GAAATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 5 0.16
14 13 0.42
16 13 0.42
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTATATTTTTAT
Found at i:17043396 original size:18 final size:18
Alignment explanation
Indices: 17043373--17043411 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17043363 CAACATCAAT
17043373 ATTATCATCAGTTTTT-AC
1 ATTATCATCA-TTTTTCAC
*
17043391 ATTATCTTCATTTTTCAC
1 ATTATCATCATTTTTCAC
17043409 ATT
1 ATT
17043412 TGGTGGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTATCATCATTTTTCAC
Found at i:17044979 original size:22 final size:22
Alignment explanation
Indices: 17044919--17044976 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
17044909 AATCTTCAAG
17044919 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
17044938 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
17044960 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
17044977 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:17044986 original size:22 final size:22
Alignment explanation
Indices: 17044945--17044990 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
17044935 TATGATATGC
*
17044945 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
17044968 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
17044989 AA
1 AA
17044991 ATACCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:17044989 original size:21 final size:23
Alignment explanation
Indices: 17044932--17044990 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
17044922 ATGCAATCTT
* *
17044932 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
17044954 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
17044976 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
17044991 ATACCCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:17051953 original size:24 final size:24
Alignment explanation
Indices: 17051921--17052001 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
17051911 GTCCCAAAAG
*
17051921 TACATTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
*
17051945 TACATTGGATTGAA-CTTAGAAGAT
1 TACAGTGGATTGAACCTT-GAAGAT
17051969 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
17051993 TACAGTGGA
1 TACAGTGGA
17052002 GGCAATCCGA
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
23 3 0.06
24 48 0.89
25 3 0.06
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:17052388 original size:45 final size:45
Alignment explanation
Indices: 17052285--17052930 Score: 432
Period size: 45 Copynumber: 14.5 Consensus size: 45
17052275 GCACAAATCC
* * *** **
17052285 TATCTCCATGAGGTTGCAGTGGAGTGGATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
*
17052329 TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
* ** * * * *
17052374 TAT-TCCCCTAAAGTTGCAGTGGGGCAGACTGAAG-ATGACAAATCT
1 TATCT-CCCTGAAGTTGCAGTGGAACAGATTAAAGAAAG-CAAGTCT
* * * **
17052419 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
* * * *
17052463 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG-AAAGCAAGTCT
** * * **
17052507 TATCTCCTCAAAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCT
1 TATCTCC-CTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
* *
17052552 TATCT-CCTAGAAGTTGCAGT-GAAGCAGACTGAAGAAAGCAAGTCT
1 TATCTCCCT-GAAGTTGCAGTGGAA-CAGATTAAAGAAAGCAAGTCT
** * * **
17052597 TATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGC-AAGTCT
* * * *
17052642 TATCTCCTTGAAGTTGCAGT-GAAGCAGATCAAAGCCAAG-AA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAG-AAAGCAAGTCT
* **
17052686 TATCTCCCTGAAGTTGCAGT-GAAGCGGATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGAAAGCAAGTCT
* * *
17052730 TATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
* * * * * ** *
17052775 TATCCCCCTGAAGTTGTAGT-GAGGCAAACTAAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGA-ACAGATTAAAGAAAGCAAGTCT
* * * * * *
17052820 TATCTTCCTGAATTTGCAGTGGAGCAGATTAAAGCTAA-TAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG-AAAGCAAGTCT
* * * * *
17052864 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAA-TAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG-AAAGCAAGTCT
17052908 TATCTCCCTGAAGTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
17052931 GCAAACTGAA
Statistics
Matches: 485, Mismatches: 94, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
43 6 0.01
44 233 0.48
45 236 0.49
46 10 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGCAAGTCT
Found at i:17052521 original size:134 final size:133
Alignment explanation
Indices: 17052277--17052943 Score: 627
Period size: 134 Copynumber: 5.0 Consensus size: 133
17052267 CAGTGAAAGC
* * * *
17052277 ACAAATCCTATCTCCATGAGGTTGCAGTGGAGTGGATTAAAGTTACAAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG
* * * * *
17052342 TTGCAGTGGAACAGATTGAAGAAAGCAAGTCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGACTGA
66 TTGCAGTGGAGCAGATTAAAGAAA-CAA-TCTTATCTCCCCTGAAGTTGCAGTGGAGCAGACTAA
17052406 AGATG
129 AGATG
17052411 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG
* * * * ** * *
17052476 TTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTCAAAAGTTGCAGTGGAGCGGATTAAA
66 TTGCAGTGGAGCAGATTAAAG-AAACAATCTTATCTCCCCTGAAGTTGCAGTGGAGCAGACTAAA
*
17052541 G-TT
130 GATG
* * * * * * **
17052544 ACAAGTCTTATCTCCTAGAAGTTGCAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCTTATCTCCCTGAA
* * * ** * * *
17052609 GTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATCT-CCTTGAAGTTGCAGTGAAGCAGA-TC
65 GTTGCAGTGGAGCAGATTAAAGA-AAC-AATCTTATCTCCCCTGAAGTTGCAGTGGAGCAGACTA
17052672 AA-A-G
128 AAGATG
* * * * *
17052676 CCAAGAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAGTTACAAGTCTTATCTCCCTAA
1 AC-A-AATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGA
* * * * *
17052741 AGTTGCAGTGGAACAGACTGAAGAAAGCAAGTCTTATC-CCCCTGAAGTTGTAGT-GAGGCAAAC
64 AGTTGCAGTGGAGCAGATTAAAGAAA-CAA-TCTTATCTCCCCTGAAGTTGCAGTGGA-GCAGAC
17052804 TAAAGATG
126 TAAAGATG
* * * * * *
17052812 GCAAATCTTATCTTCC-TGAATTTGCAGTGGAGCAGATTAAAGCTA-ATAATCCTATCTCCCTGA
1 ACAAATCTTATC-TCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCTTATCTCCCTGA
* * * * * *
17052875 GGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCT-CCCTGAAGTTGCAGTGGAGCAAACTG
64 AGTTGCAGTGGAGCAGATTAAAG-AAACAATCTTATCTCCCCTGAAGTTGCAGTGGAGCAGACTA
17052939 AAGAT
128 AAGAT
17052944 AGCGAATATT
Statistics
Matches: 435, Mismatches: 78, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
132 4 0.01
133 144 0.33
134 267 0.61
135 18 0.04
136 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (133 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAGAAACAATCTTATCTCCCCTGAAGTTGCAGTGGAGCAGACTAAAG
ATG
Found at i:17052584 original size:178 final size:177
Alignment explanation
Indices: 17052280--17053078 Score: 756
Period size: 178 Copynumber: 4.4 Consensus size: 177
17052270 TGAAAGCACA
* * * ** ** * *
17052280 AATCCTATCTCCATGAGGTTGCAGTGGAGTGGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTT
* * ** **
17052344 GCAGTGGAACAGATTGAAGAAAGCAAGTCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGACTGAAG
65 GCAGTGGAGCAGATTAAAGTTA-CAAGTCTTATCT-CCCTAAAGTTGCAGTGAAGCAGACTGAAG
* * * * * **
17052408 -ATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAG-TTAC
128 AAAG-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGC
**
17052457 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTCAAAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC-CTGAAGT
*
17052522 TGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCT-CCTAGAAGTTGCAGTGAAGCAGACTGAAG
64 TGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTA-AAGTTGCAGTGAAGCAGACTGAAG
* *
17052586 AAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
128 AAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGC
* * * *
17052636 GAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATCAAAGCCAAGAATCCTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
* *
17052701 GCAGTGAAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAA-CAGACTGAAGA
65 GCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGT-GAAGCAGACTGAAGA
* * *
17052765 AAGCAAGTCTTATCCCCCTGAAGTTGTAGT-GAGGCAAACTAAAGATGGC
129 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTAAAGATGGC
* * * *
17052814 AAATCTTATCTTCCTGAATTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAGGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
* * * * * *
17052879 GCAGTGGAGCAGATTAAAGCTA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGA
65 GCAGTGGAGCAGATTAAAGTTACA-AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGA
* * * * * *
17052943 TAGCGAA-TATTATTTCCCT-AGCGTTGCAATGGAGCAGATTAAAGCTACAAATTATGGC
129 AAGC-AAGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAG-----A-CT--AAA-GATGGC
* * * ** * *
17053001 GTATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCC-ACCAGCCTTATCTCCTTGAAGT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC-TATCTCCCTGAAGT
*
17053065 TGCAGCGGAGCAGA
64 TGCAGTGGAGCAGA
17053079 CTGAAGACAG
Statistics
Matches: 520, Mismatches: 76, Indels: 42
0.82 0.12 0.07
Matches are distributed among these distances:
177 12 0.02
178 340 0.65
179 89 0.17
180 2 0.00
183 1 0.00
184 2 0.00
186 7 0.01
187 67 0.13
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (177 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGAAA
GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGC
Found at i:17052692 original size:223 final size:221
Alignment explanation
Indices: 17052272--17052933 Score: 757
Period size: 223 Copynumber: 3.0 Consensus size: 221
17052262 CAGATCAGTG
* * *
17052272 AAAG-CACAAATCCTATCT-CCATGAGGTTGCAGTGGAGTGGATTAAAGTTACAAGTCTTATCTC
1 AAAGCCACAAATCCTATCTCCCA-AAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCT-
* *
17052335 CCTGAAGTTGCAGTGGAA-CAGATTGAAGAAAGCAAGTCTTAT-TCCCCTAAAGTTGCAGTGGGG
64 CCTGAAGTTGCAGT-GAAGCAGACTGAAGAAAGCAAGTCTTATCT-CCCTGAAGTTGCAGTGGGG
* *
17052398 CAGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAG--T
127 CAGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAG--CCAAGAAT
*
17052461 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
190 CCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
17052493 AAAGCCA-ATAATCCTATCTCCTCAAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCT
1 AAAGCCACA-AATCCTATCTCC-CAAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCT
17052557 CCTAGAAGTTGCAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGGGC
64 CCT-GAAGTTGCAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGGGC
* * * *
17052622 AGACTGAAGATGGCGAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATCAAAGCCAAGAATCCT
128 AGACTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCT
* *
17052687 ATCTCCCTGAAGTTGCAGTGAAGCGGATT
193 ATCTCCCTGAAGTTGCAGTGGAGCAGATT
** * * * * * * * ** *
17052716 AAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCC
1 AAAGCCACAAATCCTATCTCCCAAAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCTTAT-CT
* * * * ** * * * *
17052781 CCTGAAGTTGTAGTGAGGCAAACTAAAGATGGCAAATCTTATCTTCCTGAATTTGCAGTGGAGCA
64 CCTGAAGTTGCAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCA
* * * * * * * *
17052846 GATTAAAGCT-A-ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCCT
129 GACTGAAGATGACA-AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCT
17052909 ATCTCCCTGAAGTTGCAGTGGAGCA
193 ATCTCCCTGAAGTTGCAGTGGAGCA
17052934 AACTGAAGAT
Statistics
Matches: 378, Mismatches: 50, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
221 9 0.02
222 107 0.28
223 254 0.67
224 8 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (221 bp):
AAAGCCACAAATCCTATCTCCCAAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCC
TGAAGTTGCAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGA
CTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCTATC
TCCCTGAAGTTGCAGTGGAGCAGATT
Found at i:17053124 original size:143 final size:143
Alignment explanation
Indices: 17052864--17053131 Score: 376
Period size: 143 Copynumber: 1.9 Consensus size: 143
17052854 CTAATAATCC
* * * *
17052864 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAACAAGCCTATCTCCCTGAAGTTGCAGCG
* *
17052929 GAGCAAACTGAAGATAGCGAATATTATTTCCCTAGCGTTGCAATGGAGCAGATTAAAGCTACAAA
66 GAGCAAACTGAAGACAGCGAATATTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCTACAAA
17052994 TTATGGCGTATCT
131 TTATGGCGTATCT
* * * * *
17053007 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGC-CACCAGCCTTATCTCCTTGAAGTTGCAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAACAAGCC-TATCTCCCTGAAGTTGCAGC
* * * * *
17053071 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGTGTTGTAGTGGAACAGATTAAAGCT
65 GGAGCAAACTGAAGACAGCGAATATTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCT
17053132 GAAGACAGCG
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
142 4 0.04
143 104 0.96
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (143 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAACAAGCCTATCTCCCTGAAGTTGCAGCG
GAGCAAACTGAAGACAGCGAATATTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCTACAAA
TTATGGCGTATCT
Found at i:17053176 original size:51 final size:51
Alignment explanation
Indices: 17053079--17053182 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
17053069 GCGGAGCAGA
** * *
17053079 CTGAAGACAGCGAATCTTATTTCCCTAGTGTTGTAGTGGAACAGATTAAAG
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
**
17053130 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAGTAGATTAAAG
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
17053181 CT
1 CT
17053183 ACAACTTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (51 bp):
CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
Found at i:17053292 original size:194 final size:195
Alignment explanation
Indices: 17052936--17053297 Score: 523
Period size: 194 Copynumber: 1.9 Consensus size: 195
17052926 GTGGAGCAAA
* * *
17052936 CTGAAGATAGCGAATATTATTTCCCTAGCGTTGCAATGGAGCAGATTAAAGCTACAAATTATGGC
1 CTGAAGACAGCGAATATTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
* * * * * *
17053001 GTATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTT
66 GGATCTTATCTTCCTGAAGTTACAATGGAGCAAATTGAAGCCACCAACCTTATCTCCCTGAAGTT
* *
17053066 GCAGCGGAGCAGACTGAAGACAGCGAATCTTAT-TTCCCTAGTGTTGTAGTGGAACAGATTAAAG
131 GCAGCGGAGCAGACTGAAGAAAGAGAATCTTATCTTCCCTAGTGTTGTAGTGGAACAGATTAAAG
* * * *
17053130 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAGTAGATTAAAGCTACAACTTATGGC
1 CTGAAGACAGCGAATATTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
*
17053195 GGATCTTATCTTCCTGAAGTTACAATAGG-GCAAATTGAAGCCACCAACCTTATCTCCCTGAATT
66 GGATCTTATCTTCCTGAAGTTACAAT-GGAGCAAATTGAAGCCACCAACCTTATCTCCCTGAAGT
* *
17053259 TGCAGCGGAGCAGACTGATGATAATAG-ATCTTATCTTCC
130 TGCAGCGGAGCAGACTGAAGA-AAGAGAATCTTATCTTCC
17053298 TGTATTGGCA
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
194 139 0.95
195 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (195 bp):
CTGAAGACAGCGAATATTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
GGATCTTATCTTCCTGAAGTTACAATGGAGCAAATTGAAGCCACCAACCTTATCTCCCTGAAGTT
GCAGCGGAGCAGACTGAAGAAAGAGAATCTTATCTTCCCTAGTGTTGTAGTGGAACAGATTAAAG
Found at i:17053293 original size:45 final size:45
Alignment explanation
Indices: 17053243--17053655 Score: 203
Period size: 45 Copynumber: 9.3 Consensus size: 45
17053233 AGCCACCAAC
* *
17053243 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGAT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
* * * * * * * *
17053288 CTTATCTTCCTGTATTGGCAGCGAAGTAGA-TCGAAGACACCAG-C
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACT-GAAGATAACAGAT
* * *
17053332 CTTATCTCCTTGAATTTGCAGCAGAGCAGACTGATGATAACAGAT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
* * * * * * * * * *
17053377 CTTCTCTTCCAGTATTGGCAGCGAAGTAGATTGAAGA-CACTAGCT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAAC-AGAT
** * ** *
17053422 -TTGCCTCCCTGAGTTTGCAATGGAGCAGACTAAAGATAACAGAT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
* * * * * * * * *
17053466 CTTGTCTTCCTGTATTGGCAGTGAAGCAGA-TCGAAGACACCA-AC
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACT-GAAGATAACAGAT
* * * *
17053510 CTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGAT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
* ** * * ** * * *
17053555 CTTGTCTTTCTGTATTGGCAGCAAAGCAGA-TCGAAGACACCA-AC
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACT-GAAGATAACAGAT
** * * *
17053599 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAGCAGAT
1 CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
* *
17053644 CTTGTCTTCCTG
1 CTTATCTCCCTG
17053656 TATTAGCAAC
Statistics
Matches: 257, Mismatches: 99, Indels: 24
0.68 0.26 0.06
Matches are distributed among these distances:
44 121 0.47
45 136 0.53
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAATTTGCAGCGGAGCAGACTGAAGATAACAGAT
Found at i:17053347 original size:89 final size:89
Alignment explanation
Indices: 17053231--17053740 Score: 615
Period size: 89 Copynumber: 5.7 Consensus size: 89
17053221 AGGGCAAATT
* * * * * *
17053231 GAAGCCACCAACCTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGATCTTATCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
17053296 CCTGTATTGGCAGCGAAGTAGATC
66 CCTGTATTGGCAGCGAAGTAGATC
* * * * * * *
17053320 GAAGACACCAGCCTTATCTCCTTGAATTTGCAGCAGAGCAGACTGATGATAACAGATCTTCTCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
* *
17053385 CCAGTATTGGCAGCGAAGTAGATT
66 CCTGTATTGGCAGCGAAGTAGATC
* * * * ** *
17053409 GAAGACACTAGCTTTGCCTCCCTGAGTTTGCAATGGAGCAGACTAAAGATAACAGATCTTGTCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
* *
17053474 CCTGTATTGGCAGTGAAGCAGATC
66 CCTGTATTGGCAGCGAAGTAGATC
* *
17053498 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
* * *
17053563 TCTGTATTGGCAGCAAAGCAGATC
66 CCTGTATTGGCAGCGAAGTAGATC
* * *
17053587 GAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAGCAGATCTTGTCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
* *
17053652 CCTGTATTAGCAACGAAGTAGATC
66 CCTGTATTGGCAGCGAAGTAGATC
* ** ** * * * * **
17053676 AAAGACACCAGTCTTGTCTCTCTGAGTTAGCAGCGGAGTAGACTGAAAATAGTAGATCTTGTCTT
1 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
17053741 ATTGTACTGG
Statistics
Matches: 365, Mismatches: 56, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 365 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (89 bp):
GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTT
CCTGTATTGGCAGCGAAGTAGATC
Found at i:17053539 original size:44 final size:44
Alignment explanation
Indices: 17053490--17053628 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 44
17053480 TTGGCAGTGA
*
17053490 AGCAGATCGAAGACACCAACCTTACCTCCCTGAGTTTGCAGCAG
1 AGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCAG
* ** * * ** * *
17053534 AGCAGA-CTGAAGATAATAGATCTTGTCTTTCTGTA-TTGGCAGCAA
1 AGCAGATC-GAAGACACCA-ACCTTGCCTCCCTG-AGTTTGCAGCAG
*
17053579 AGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGG
1 AGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCAG
17053623 AGCAGA
1 AGCAGA
17053629 CTAAAGATAG
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
43 2 0.03
44 36 0.51
45 30 0.43
46 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
AGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCAG
Found at i:17053683 original size:267 final size:267
Alignment explanation
Indices: 17053231--17053740 Score: 691
Period size: 267 Copynumber: 1.9 Consensus size: 267
17053221 AGGGCAAATT
* * * *
17053231 GAAGCCACCAACCTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGATCTTATCTT
1 GAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAATAGATCTTATCTT
* * * * *
17053296 CCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCTTGAATTTGCAGCAGAGCAG
66 CCTGTATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAG
* * * * ** *
17053361 ACTGATGATAACAGATCTTCTCTTCCAGTATTGGCAGCGAAGTAGATTGAAGACACTAG-CTTTG
131 ACTAAAGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGTC-TTG
* *
17053425 CCTCCCTGAGTTTGCAATGGAGCAGACT-AAAGATAACAGATCTTGTCTTCCTGTATTGGCAGTG
195 CCTCCCTGAGTTAGCAACGGAGCAGACTGAAA-ATAACAGATCTTGTCTTCCTGTATTGGCAGTG
17053489 AAGCAGATC
259 AAGCAGATC
* *
17053498 GAAGACACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTT
1 GAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAATAGATCTTATCTT
* * * *
17053563 TCTGTATTGGCAGCAAAGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAG
66 CCTGTATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAG
* * * *
17053628 ACTAAAGATAGCAGATCTTGTCTTCCTGTATTAGCAACGAAGTAGATCAAAGACACCAGTCTTGT
131 ACTAAAGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGTCTTGC
* * * **
17053693 CTCTCTGAGTTAGCAGCGGAGTAGACTGAAAATAGTAGATCTTGTCTT
196 CTCCCTGAGTTAGCAACGGAGCAGACTGAAAATAACAGATCTTGTCTT
17053741 ATTGTACTGG
Statistics
Matches: 208, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
267 204 0.98
268 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (267 bp):
GAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAATAGATCTTATCTT
CCTGTATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAG
ACTAAAGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGTCTTGC
CTCCCTGAGTTAGCAACGGAGCAGACTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGTGAA
GCAGATC
Found at i:17053761 original size:178 final size:175
Alignment explanation
Indices: 17053230--17053802 Score: 651
Period size: 178 Copynumber: 3.2 Consensus size: 175
17053220 TAGGGCAAAT
* ** * * * * *
17053230 TGAAGCCACCAACCTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGATCTTATCT
1 TGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAACAGATCTTGTCT
*
17053295 TCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCTTGAATTTGCAGCAGAGCA
66 TCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCC-TGAGTTTGCAGCAGAGCA
* * * ** * *
17053360 GACTGATGATAACAGATCTTCTCTTCCAGTATTGGCAGCGAAGTAGA
130 GACTGAAGATAATAGATCTTGTCTT-TTGTATTGGCAGCAAAGCAGA
* * * **
17053407 TTGAAGACACTAGCTTTGCCTCCCTGAGTTTGCAATGGAGCAGACTAAAGATAACAGATCTTGTC
1 -TGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAACAGATCTTGTC
* * * *
17053472 TTCCTGTATTGGCAGTGAAGCAGATCGAAGACACCAACCTTACCTCCCTGAGTTTGCAGCAGAGC
65 TTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCT-CCTGAGTTTGCAGCAGAGC
17053537 AGACTGAAGATAATAGATCTTGTCTTTCTGTATTGGCAGCAAAGCAGA
129 AGACTGAAGATAATAGATCTTGTCTTT-TGTATTGGCAGCAAAGCAGA
*
17053585 TCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAGCAGATCTTGTC
1 T-GAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAACAGATCTTGTC
* * * * * * * *
17053650 TTCCTGTATTAGCAACGAAGTAGATCAAAGACACCAGTCTTGTCTCTCTGAGTTAGCAGCGGAGT
65 TTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTC-CTGAGTTTGCAGCAGAGC
* * * * **
17053715 AGACTGAAAATAGTAGATCTTGTCTTATTGTACTGGAAATAAAGCAGA
129 AGACTGAAGATAATAGATCTTGTCTT-TTGTATTGGCAGCAAAGCAGA
* * * ** *
17053763 TAAAAACCACCAGCCTTGCCTCTTTGAGTTTGCAGTGGAG
1 TGAAGA-CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAG
17053803 TAGGTTGAAG
Statistics
Matches: 334, Mismatches: 55, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
177 5 0.01
178 326 0.98
179 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (175 bp):
TGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAACAGATCTTGTCT
TCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCTGAGTTTGCAGCAGAGCAG
ACTGAAGATAATAGATCTTGTCTTTTGTATTGGCAGCAAAGCAGA
Found at i:17053805 original size:89 final size:89
Alignment explanation
Indices: 17053236--17053802 Score: 492
Period size: 89 Copynumber: 6.4 Consensus size: 89
17053226 AAATTGAAGC
** * ** * *
17053236 CACCAACCTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGATCTTATCTTCCTGT
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAATAGTAGATCTTGTCTTCCTGT
* * * *
17053301 ATTGGCAGCGAAGTAGATCGAAGA
66 ATTGGCAACAAAGCAGATCAAAGA
* ** * * * ** ** * *
17053325 CACCAGCCTTATCTCCTTGAATTTGCAGCAGAGCAGACTGATGATAACAGATCTTCTCTTCCAGT
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAATAGTAGATCTTGTCTTCCTGT
* * * **
17053390 ATTGGCAGCGAAGTAGATTGAAGA
66 ATTGGCAACAAAGCAGATCAAAGA
* * * ** **
17053414 CACTAGCTTTGCCTCCCTGAGTTTGCAATGGAGCAGACT-AAAGATAACAGATCTTGTCTTCCTG
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAA-ATAGTAGATCTTGTCTTCCTG
*** *
17053478 TATTGGCAGTGAAGCAGATCGAAGA
65 TATTGGCAACAAAGCAGATCAAAGA
* * * * *
17053503 CACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTTTCTGT
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAATAGTAGATCTTGTCTTCCTGT
* *
17053568 ATTGGCAGCAAAGCAGATCGAAGA
66 ATTGGCAACAAAGCAGATCAAAGA
*
17053592 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACT-AAAGATAGCAGATCTTGTCTTCCTG
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAA-ATAGTAGATCTTGTCTTCCTG
* * *
17053656 TATTAGCAACGAAGTAGATCAAAGA
65 TATTGGCAACAAAGCAGATCAAAGA
** * * * * **
17053681 CACCAGTCTTGTCTCTCTGAGTTAGCAGCGGAGTAGACTGAAAATAGTAGATCTTGTCTTATTGT
1 CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAATAGTAGATCTTGTCTTCCTGT
* * * *
17053746 ACTGGAAATAAAGCAGAT-AAAAA
66 ATTGGCAACAAAGCAGATCAAAGA
* ** *
17053769 CCACCAGCCTTGCCTCTTTGAGTTTGCAGTGGAG
1 -CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAG
17053803 TAGGTTGAAG
Statistics
Matches: 406, Mismatches: 67, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
88 7 0.02
89 394 0.97
90 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (89 bp):
CACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAAATAGTAGATCTTGTCTTCCTGT
ATTGGCAACAAAGCAGATCAAAGA
Found at i:17053814 original size:267 final size:267
Alignment explanation
Indices: 17053236--17053797 Score: 680
Period size: 267 Copynumber: 2.1 Consensus size: 267
17053226 AAATTGAAGC
* * * * *
17053236 CACCAACCTTATCTCCCTGAATTTGCAGCGGAGCAGACTGATGATAATAGATCTTATCTTCCTGT
1 CACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTTCCTGT
* * * * * *
17053301 ATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCTTGAATTTGCAGCAGAGCAGACTGA
66 ATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTAA
* * * ** *
17053366 TGATAACAGATCTTCTCTTCCAGTATTGGCAGCGAAGTAGATTGAAGACACTAGCTTTGCCTCCC
131 AGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGCTTTGCCTCCC
* * * * * * *
17053431 TGAGTTTGCAATGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTATTGGCAGTGAAGCAGA
196 TGAGTTAGCAACGGAGCAGACTAAAGATAACAGATCTTGTCTTACTGTACTGGAAATAAAGCAGA
* *
17053496 TCGAAGA
261 TCAAAAA
*
17053503 CACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTTTCTGT
1 CACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTTCCTGT
* * *
17053568 ATTGGCAGCAAAGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAA
66 ATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTAA
* * * * *
17053633 AGATAGCAGATCTTGTCTTCCTGTATTAGCAACGAAGTAGATCAAAGACACCAG-TCTTGTCTCT
131 AGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGCT-TTGCCTCC
* * ** *
17053697 CTGAGTTAGCAGCGGAGTAGACTGAAA-ATAGTAGATCTTGTCTTATTGTACTGGAAATAAAGCA
195 CTGAGTTAGCAACGGAGCAGACT-AAAGATAACAGATCTTGTCTTACTGTACTGGAAATAAAGCA
17053761 GAT-AAAAA
259 GATCAAAAA
* * **
17053769 CCACCAGCCTTGCCTCTTTGAGTTTGCAG
1 -CACCAACCTTACCTCCCTGAGTTTGCAG
17053798 TGGAGTAGGT
Statistics
Matches: 248, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
266 4 0.02
267 241 0.97
268 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (267 bp):
CACCAACCTTACCTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAATAGATCTTGTCTTCCTGT
ATTGGCAGCAAAGCAGATCGAAGACACCAACCTTACCTCCCTGAATTTGCAGCAGAGCAGACTAA
AGATAACAGATCTTCTCTTCCAGTATTAGCAACGAAGTAGATCAAAGACACCAGCTTTGCCTCCC
TGAGTTAGCAACGGAGCAGACTAAAGATAACAGATCTTGTCTTACTGTACTGGAAATAAAGCAGA
TCAAAAA
Found at i:17054527 original size:22 final size:23
Alignment explanation
Indices: 17054499--17054543 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17054489 ATGCAATCTT
17054499 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
17054521 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
17054544 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:17057369 original size:17 final size:17
Alignment explanation
Indices: 17057322--17057369 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
17057312 ATAAAACAAG
*
17057322 TTAATCAAATTAATTATAA
1 TTAATCAAA--AATTAAAA
*
17057341 TTAATCATAAATTAAAA
1 TTAATCAAAAATTAAAA
*
17057358 TTAATTAAAAAT
1 TTAATCAAAAAT
17057370 ATAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 17 0.68
19 8 0.32
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAATCAAAAATTAAAA
Found at i:17057385 original size:27 final size:27
Alignment explanation
Indices: 17057328--17057397 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
17057318 CAAGTTAATC
* * *
17057328 AAATTAATTATAATTAATCATAAATTA
1 AAATTAATTAAAAATAATAATAAATTA
17057355 AAATTAATTAAAAAT-ATAATAAATATGA
1 AAATTAATTAAAAATAATAATAAAT-T-A
*
17057383 AATATTAAGTAAAAA
1 AA-ATTAATTAAAAA
17057398 AACTTCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.22
27 14 0.39
28 3 0.08
29 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATTAATTAAAAATAATAATAAATTA
Found at i:17057707 original size:44 final size:44
Alignment explanation
Indices: 17057643--17057740 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
17057633 ATAAATATAG
* * *
17057643 AATATTAGAAGAGGTAAGTTTTAATCCTTTTGCGATAGTCAGATA
1 AATA-TAGAAGACGTAAGTTTTAATCCTTTAGCGAAAGTCAGATA
*
17057688 AATATAGAAGACGTAAGTTTTATTCCTTTAGCGAAAGTCAGATA
1 AATATAGAAGACGTAAGTTTTAATCCTTTAGCGAAAGTCAGATA
17057732 AATATAGAA
1 AATATAGAA
17057741 TATTAGAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 45 0.92
45 4 0.08
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (44 bp):
AATATAGAAGACGTAAGTTTTAATCCTTTAGCGAAAGTCAGATA
Found at i:17066900 original size:56 final size:50
Alignment explanation
Indices: 17066760--17066936 Score: 201
Period size: 50 Copynumber: 3.4 Consensus size: 50
17066750 TATCCTAGAT
* ** * * *
17066760 ATGGTCTTAGATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTTGATGCCAATGCCATGTCCCAGAC
** *
17066810 ATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTTGATGCCAATGCCATGTCCCAGAC
*
17066860 TTGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTC---ATCT---TGATGCCAATGCCATGTCCCAGAC
*
17066916 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
17066937 TGACCCAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 62 0.57
53 4 0.04
56 42 0.39
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTTGATGCCAATGCCATGTCCCAGAC
Found at i:17070698 original size:25 final size:25
Alignment explanation
Indices: 17070654--17070717 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
17070644 TGTAAGAATC
* ** *
17070654 AAATAAAAGAAAAATTAAAATGTAA
1 AAATAAAATAAAAACAAAAATATAA
* * *
17070679 CAATTAAATTAAAACAAAAATATAA
1 AAATAAAATAAAAACAAAAATATAA
17070704 AAATAAAATAAAAA
1 AAATAAAATAAAAA
17070718 TAACTAAATT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (25 bp):
AAATAAAATAAAAACAAAAATATAA
Found at i:17072713 original size:50 final size:50
Alignment explanation
Indices: 17072586--17072826 Score: 236
Period size: 50 Copynumber: 4.8 Consensus size: 50
17072576 GAATATAGCA
* * * ** *
17072586 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCAGTAT---
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-CA-TATCGG
* * * **
17072635 TGCCAAAGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
17072685 TGCCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
17072735 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
17072785 TGCCAACGTCATATCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17072827 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
47 3 0.02
48 2 0.01
49 35 0.22
50 121 0.75
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:17079465 original size:50 final size:50
Alignment explanation
Indices: 17079393--17079613 Score: 300
Period size: 50 Copynumber: 4.4 Consensus size: 50
17079383 TATCCTAGAT
** * * *
17079393 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCAAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCAAGAC
** *
17079443 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCAAGAC
* * *
17079493 ATGGTCTTACATGGGACCTCTTATCTCAGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCAAGAC
* *
17079543 ATGGTCTTACATAGGACCTCTCATCTCGGTACCAACGCCATGTCCCAA-AC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT-CCAAGAC
*
17079593 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
17079614 TTACCCAAAT
Statistics
Matches: 151, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 148 0.98
51 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCAAGAC
Found at i:17079595 original size:150 final size:147
Alignment explanation
Indices: 17079323--17079602 Score: 339
Period size: 150 Copynumber: 1.9 Consensus size: 147
17079313 GAATATAACA
* * * *
17079323 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCAGTATTGCCAATGTCATATCC
1 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGATCTTTCCAG--TTGCCAACGCCATATCC
* * * ** * * *
17079388 TAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCAAGACATGGTCTTAC
64 CAGACATGGTCTTACATAGGACCTCTCATATCGGTACCAACGCCATGTCCAAGACATGGTCTTAC
17079453 GGGGGACCTCTCATCTCGG
129 GGGGGACCTCTCATCTCGG
* * *
17079472 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG-TGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGA--TCTT-TC-CAGTTGCCAACGCCATAT
*
17079536 CCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTACCAACGCCATGTCCCAA-ACATGGTCT
62 CCCAGACATGGTCTTACATAGGACCTCTCATATCGGTACCAACGCCATGT-CCAAGACATGGTCT
17079600 TAC
126 TAC
17079603 ATGGGATCTC
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
149 34 0.31
150 64 0.58
151 7 0.06
152 2 0.02
153 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (147 bp):
TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGATCTTTCCAGTTGCCAACGCCATATCCCA
GACATGGTCTTACATAGGACCTCTCATATCGGTACCAACGCCATGTCCAAGACATGGTCTTACGG
GGGACCTCTCATCTCGG
Found at i:17088684 original size:30 final size:29
Alignment explanation
Indices: 17088628--17088684 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
17088618 GTGTAATTGT
* *
17088628 ATACATGAATTTTGATTTTGTGCAATTTC
1 ATACATGAAATTTGATTTTGTCCAATTTC
17088657 ATACATGAAAATTTGA-TTTGATCCAATT
1 ATACATG-AAATTTGATTTTG-TCCAATT
17088685 CTTGTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (29 bp):
ATACATGAAATTTGATTTTGTCCAATTTC
Found at i:17089538 original size:126 final size:126
Alignment explanation
Indices: 17089360--17089663 Score: 396
Period size: 126 Copynumber: 2.4 Consensus size: 126
17089350 TTTTATTCAT
* * * * * * * *
17089360 TCAGCCAAAGTATTGAAAAAAACTTCCAGCTAGACGCTCTTTTTCTAGAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCACAGTAGTTTCTGAAAAAA
* * *
17089425 TAATTTTGAGAAGA-TGATTCTGAAAAAATAGGGTCA-AAAACGCTTCAAGCAGGATGCACTG
66 TAATTTTGAGAAGATTG-TTCTAAAAAAATAGGGT-AGAAAAAGCTTCAAACAGGATGCACTG
* * **
17089486 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTCGATGCTCTCTTTCCACAGTAGTTTCTTTAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCACAGTAGTTTCTGAAAAAA
17089551 TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
66 TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
* * * * *
17089612 TCAGCAAAAGTACTGAAAAAAGCTCCCACTTGGGCGCTCTTTTTCTACAGTA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCACAGTA
17089664 CATCCTGCTT
Statistics
Matches: 155, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
125 1 0.01
126 152 0.98
127 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (126 bp):
TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCACAGTAGTTTCTGAAAAAA
TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
Found at i:17089760 original size:25 final size:25
Alignment explanation
Indices: 17089731--17089796 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
17089721 TTACAGCAAG
*
17089731 AGAAATT-AGAGAAGTTTAGAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAGAAT
17089756 AGAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
17089781 ATAAATTGAAGAAGTT
1 AGAAATTGAAGAAGTT
17089797 GAAAAGGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.24
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:17102698 original size:20 final size:20
Alignment explanation
Indices: 17102679--17102729 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
17102669 CCTTTTTTAT
17102679 TTATATATT-TTTA-CTATTA
1 TTAT-TATTATTTATCTATTA
17102698 TTATTATTATTTATCTATTTA
1 TTATTATTATTTATCTA-TTA
*
17102719 ATATTATTATT
1 TTATTATTATT
17102730 CATTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 3 0.11
21 13 0.46
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTATTATTTATCTATTA
Found at i:17102736 original size:29 final size:29
Alignment explanation
Indices: 17102674--17102737 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
17102664 TATTACCTTT
*
17102674 TTTATTTATATATTTTTACTATTATTATTA
1 TTTATTTATATA-TTTTAATATTATTATTA
*
17102704 -TTATTTATCTA-TTTAATATTATTATTCA
1 TTTATTTATATATTTTAATATTATTATT-A
17102732 TTTATT
1 TTTATT
17102738 AATGCATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.47
28 1 0.03
29 15 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTATTTATATATTTTAATATTATTATTA
Found at i:17105424 original size:12 final size:12
Alignment explanation
Indices: 17105409--17105439 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17105399 TTGCAAAAGG
17105409 AGATGCAAGATC
1 AGATGCAAGATC
17105421 AGATGCAAGATC
1 AGATGCAAGATC
17105433 AGATGCA
1 AGATGCA
17105440 GGAATGACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (12 bp):
AGATGCAAGATC
Found at i:17107766 original size:20 final size:21
Alignment explanation
Indices: 17107743--17107795 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
17107733 CAAACAAATA
17107743 AAAAAAAGAAAAGGA-AAAAG
1 AAAAAAAGAAAAGGATAAAAG
*
17107763 AAAAGAAGAAAA--ATAAAAG
1 AAAAAAAGAAAAGGATAAAAG
*
17107782 AAAAAGA-AAAAGGA
1 AAAAAAAGAAAAGGA
17107796 GAGGCCAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.19
19 10 0.37
20 12 0.44
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAAAAGGATAAAAG
Found at i:17108228 original size:97 final size:93
Alignment explanation
Indices: 17108076--17108262 Score: 302
Period size: 97 Copynumber: 2.0 Consensus size: 93
17108066 TTCATTTTTG
*
17108076 TATCTTAGCAAAATTTGTTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
1 TATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
17108141 TTATCCATTGTGATAATCTTTTTCATCT
66 TTATCCATTGTGATAATCTTTTTCATCT
* *
17108169 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTG----ATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
17108234 CATCTTGTCCATTGTGATAATCTTTTTCA
62 CATCTTATCCATTGTGATAATCTTTTTCA
17108263 AGCATTTTTC
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
93 24 0.28
97 62 0.72
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (93 bp):
TATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
TTATCCATTGTGATAATCTTTTTCATCT
Found at i:17109222 original size:44 final size:44
Alignment explanation
Indices: 17109143--17109761 Score: 283
Period size: 44 Copynumber: 14.2 Consensus size: 44
17109133 CATATCAAGC
** * * * *
17109143 CTTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* *
17109187 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGA-TGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACT-GCAG-AT
** * * * ** *
17109231 CTTATCTTTCTAAG--GTAGTAGGAAGCAAATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * * * * * *
17109274 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * *
17109318 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAG-AT
* * * ** *
17109362 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * *
17109405 CTTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* *
17109449 CTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG-A-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--TGCAGAT
* * ** *
17109493 CTTATCTCCCTAAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * * * * * *
17109536 CTTATCTCCTTGAGC-CTCAGTGGAGTAGGTTGAAGATTGCATAT
1 CTTATCTCCCTAAGCAGT-AGTGGAGCAGATTGAAGACTGCAGAT
* * *
17109580 CTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACGGTG-A-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--TGCAGAT
* * **
17109624 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACATG-T
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCA-GAT
* * * ** * * * * *
17109667 CCTAAC-CCCTTGAGCAACAGTGGAGTAGGTTGAAGATTACAAAT
1 CTTATCTCCC-TAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * * * *
17109711 CCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
17109755 CTTATCT
1 CTTATCT
17109762 TCCCAAGGTA
Statistics
Matches: 414, Mismatches: 121, Indels: 80
0.67 0.20 0.13
Matches are distributed among these distances:
42 22 0.05
43 100 0.24
44 265 0.64
45 23 0.06
46 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
Found at i:17109375 original size:131 final size:131
Alignment explanation
Indices: 17109140--17109845 Score: 995
Period size: 131 Copynumber: 5.4 Consensus size: 131
17109130 CATCATATCA
* * *
17109140 AGCCTTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* * * *
17109205 AGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCTAAGGTAGTAGGAAGCAAATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
17109270 C
131 C
* * *
17109271 AGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGAAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
17109336 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
17109401 C
131 C
* * *
17109402 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCTTATCTCTCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* * *
17109467 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGATAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
17109532 C
131 C
* ** * *
17109533 AGCCTTATCTCCTTGAGCCTCAGTGGAGTAGGTTGAAGATTGCATATCTTATCTCTCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* *
17109598 AGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCA-
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
17109662 C
131 C
* * * * * *
17109663 ATGTCC-TAAC-CCCTTGAGCAACAGTGGAGTAGGTTGAAGATTACAAATCCTGTCTCCCTAAGC
1 A-G-CCTTATCTCCC-TGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * * *
17109726 AGTAGTGGAGCAGATCGAAGACAGCGGATCTTATCTTCCCAAGGTAGAAGGGAAGAAGATTTAAG
63 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTA-GGAAGCAGATTTAAG
* *
17109791 CTACT
127 CCACC
* * * *
17109796 AGCCTTACCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGTAGATCTT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTT
17109846 GTTTTCCTGT
Statistics
Matches: 514, Mismatches: 54, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
130 4 0.01
131 454 0.88
132 52 0.10
133 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (131 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
C
Found at i:17109540 original size:87 final size:87
Alignment explanation
Indices: 17109187--17109544 Score: 217
Period size: 87 Copynumber: 4.1 Consensus size: 87
17109177 GATTGTAGAT
* * * ** *
17109187 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCTAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCCAATCTTATCTCCCTAAGATAGTAG
* *
17109252 GAAGCAAATTTAAGCCACCAGC
66 GAAGCAGATTGAAGCCACCAGC
* * * * * * ***
17109274 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGA-TTACAGATCTTATCTCCCTAAGA-AGTA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCCA-ATCTTATCTCCCTAAGATAGTA
* * ** * **
17109337 GTGGAGCAGATCGAAGACGGCGAAT
65 G-GAAGCAGATTGAAG-CCACCAGC
* ** ** ** *
17109362 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACCAGCCTTATCTCCCTGAGCAGTA
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCCAATCTTATCTCCCTAAG-A-TA
* **** *
17109424 GT-GG-AGTAGATTGAAGATTGCAGAT
62 GTAGGAAGCAGATTGAAGCCACCAG-C
* **
17109449 CTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGATAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCCAATCTTATCTCCCTAAGATAGTAG
*
17109514 GAAGCAGATTTAAGCCACCAGC
66 GAAGCAGATTGAAGCCACCAGC
17109536 CTTATCTCC
1 CTTATCTCC
17109545 TTGAGCCTCA
Statistics
Matches: 194, Mismatches: 62, Indels: 30
0.68 0.22 0.10
Matches are distributed among these distances:
86 15 0.08
87 112 0.58
88 58 0.30
89 6 0.03
90 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCCAATCTTATCTCCCTAAGATAGTAG
GAAGCAGATTGAAGCCACCAGC
Found at i:17109874 original size:88 final size:88
Alignment explanation
Indices: 17109797--17109961 Score: 249
Period size: 88 Copynumber: 1.9 Consensus size: 88
17109787 TAAGCTACTA
* * * *
17109797 GCCTTACCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTGTTTTCCTGTACTAGC
1 GCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGCGAAGATTGTAGATCTTGTCTTCCTATACTAGC
*
17109862 AGTGAAGTAGATTGAAAACACCT
66 AGTGAAGAAGATTGAAAACACCT
* * *
17109885 GCCTTATCTCCCTGAGCAGTAGTGGAGTAGGGCGAAGATTGTAGATCTTGTCTTCCTATACTGGC
1 GCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGCGAAGATTGTAGATCTTGTCTTCCTATACTAGC
*
17109950 AGTGAAGCAGAT
66 AGTGAAGAAGAT
17109962 AAAATAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (88 bp):
GCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGCGAAGATTGTAGATCTTGTCTTCCTATACTAGC
AGTGAAGAAGATTGAAAACACCT
Found at i:17110288 original size:182 final size:182
Alignment explanation
Indices: 17109980--17110313 Score: 483
Period size: 182 Copynumber: 1.8 Consensus size: 182
17109970 AAATAAAAAA
* * *
17109980 ACTAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTTTGAAG
1 ACTAATCCTATCTCCCTAAAGTTGCAGTGGAGAGGATTAAAACGACGAATCCTATACCTTTGAAA
* ** * *
17110045 TTACAGAAGGTCGGATTAAATCTTATTGTATCAAACCATATCTCACTGAGGTCGCAGTGGAGCAT
66 TTACAGAAGGTCGGATTAAACCTTATCATATCAAACCATACCTCACTGAGGTCGCAGTGGAGCAG
17110110 GTTGA-AATACAAGTCTTATCTTCCTGAAGTTACAGTGAAGCAGGCTGAAGCT
131 GTTGAGAA-ACAAGTCTTATCTTCCTGAAGTTACAGTGAAGCAGGCTGAAGCT
* *
17110162 ACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAGGATTAAAATGACGAATCCTATACCTTTGAAA
1 ACTAATCCTATCTCCCTAAAGTTGCAGTGGAGAGGATTAAAACGACGAATCCTATACCTTTGAAA
** * * *
17110227 TTGTAGAGGGTCGGATTAAACCTTATCATATCAAA-CATTACCTCCCTGAGGTCGTAGTGGAGCA
66 TTACAGAAGGTCGGATTAAACCTTATCATATCAAACCA-TACCTCACTGAGGTCGCAGTGGAGCA
*
17110291 GGTTGAGGCAACAAGTCTTATCT
130 GGTTGA-GAAACAAGTCTTATCT
17110314 CCCTAACATT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
181 2 0.02
182 117 0.88
183 13 0.10
184 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (182 bp):
ACTAATCCTATCTCCCTAAAGTTGCAGTGGAGAGGATTAAAACGACGAATCCTATACCTTTGAAA
TTACAGAAGGTCGGATTAAACCTTATCATATCAAACCATACCTCACTGAGGTCGCAGTGGAGCAG
GTTGAGAAACAAGTCTTATCTTCCTGAAGTTACAGTGAAGCAGGCTGAAGCT
Found at i:17111766 original size:17 final size:18
Alignment explanation
Indices: 17111744--17111783 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
17111734 ATTACCTTTT
*
17111744 TTATTTATATA-TTATTA
1 TTATTTATATATTTAATA
*
17111761 TTATTTATCTATTTAATA
1 TTATTTATATATTTAATA
17111779 TTATT
1 TTATT
17111784 GTTCATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTATATATTTAATA
Found at i:17111768 original size:21 final size:21
Alignment explanation
Indices: 17111743--17111812 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
17111733 TATTACCTTT
*
17111743 TTTATTTATATATTATTATTA
1 TTTATTTATATAATATTATTA
* * *
17111764 TTTATCTATTTAATATTATTG
1 TTTATTTATATAATATTATTA
* *
17111785 TTCATTTAT-TAATGCATGATTA
1 TTTATTTATATAAT--ATTATTA
17111807 TTTATT
1 TTTATT
17111813 GTATTTCTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 4 0.11
21 24 0.63
22 10 0.26
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTATTTATATAATATTATTA
Found at i:17123820 original size:19 final size:19
Alignment explanation
Indices: 17123796--17123832 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17123786 ATTCTATATA
* *
17123796 TCTGTTCTTCTTATCTGAT
1 TCTGTTATTCGTATCTGAT
17123815 TCTGTTATTCGTATCTGA
1 TCTGTTATTCGTATCTGA
17123833 AATGGACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.54
Consensus pattern (19 bp):
TCTGTTATTCGTATCTGAT
Found at i:17126079 original size:11 final size:11
Alignment explanation
Indices: 17125997--17126107 Score: 60
Period size: 11 Copynumber: 9.7 Consensus size: 11
17125987 ACAAATACCT
*
17125997 ATAAAATAGTA
1 ATAAAATAATA
*
17126008 GTAAAATTAATA
1 ATAAAA-TAATA
*
17126020 ATAAAATAAAA
1 ATAAAATAATA
* *
17126031 ATTATATAATA
1 ATAAAATAATA
* *
17126042 TCTAAACAATAAAA
1 -AT-AA-AATAATA
* *
17126056 ACAAAACAATA
1 ATAAAATAATA
*
17126067 ATAATATAATA
1 ATAAAATAATA
*
17126078 ATAAAATAACA
1 ATAAAATAATA
* *
17126089 ACAAAACAATA
1 ATAAAATAATA
*
17126100 TTAAAATA
1 ATAAAATA
17126108 GCAGCAAAAT
Statistics
Matches: 70, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
11 52 0.74
12 12 0.17
13 1 0.01
14 5 0.07
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:17126099 original size:22 final size:22
Alignment explanation
Indices: 17126074--17126116 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17126064 ATAATAATAT
17126074 AATAATAAAATAACAACAAAAC
1 AATAATAAAATAACAACAAAAC
* * *
17126096 AATATTAAAATAGCAGCAAAA
1 AATAATAAAATAACAACAAAA
17126117 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.16
Consensus pattern (22 bp):
AATAATAAAATAACAACAAAAC
Found at i:17126493 original size:18 final size:18
Alignment explanation
Indices: 17126462--17126496 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17126452 AAATTCTCAA
*
17126462 TTAAAAATAGTTTATTTT
1 TTAAAAATAATTTATTTT
*
17126480 TTAAACATAATTTATTT
1 TTAAAAATAATTTATTT
17126497 GTTTGAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAAAATAATTTATTTT
Found at i:17128695 original size:17 final size:17
Alignment explanation
Indices: 17128673--17128705 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17128663 ATATCGATTT
17128673 TGACATCACTATGTCAA
1 TGACATCACTATGTCAA
*
17128690 TGACATCACTTTGTCA
1 TGACATCACTATGTCA
17128706 TGAATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGACATCACTATGTCAA
Found at i:17135604 original size:15 final size:15
Alignment explanation
Indices: 17135584--17135612 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17135574 TAAAATGTGT
17135584 CGATTTAGTTAGTCC
1 CGATTTAGTTAGTCC
17135599 CGATTTAGTTAGTC
1 CGATTTAGTTAGTC
17135613 TGTCAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (15 bp):
CGATTTAGTTAGTCC
Found at i:17143520 original size:17 final size:18
Alignment explanation
Indices: 17143475--17143520 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
17143465 TTTCGGTAAA
17143475 ATATATTCAATTAATATTT
1 ATATATT-AATTAATATTT
* *
17143494 -TGTATGAATTAA-ATTT
1 ATATATTAATTAATATTT
17143510 ATATATTAATT
1 ATATATTAATT
17143521 TTATATATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
ATATATTAATTAATATTT
Found at i:17158694 original size:20 final size:20
Alignment explanation
Indices: 17158657--17158696 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17158647 GATCTAAATG
*
17158657 ATATAATATATAATAATAGA
1 ATATAATATATAAAAATAGA
17158677 ATATAATAT-TAAAAAATAGA
1 ATATAATATAT-AAAAATAGA
17158697 GTTGCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATAATATATAAAAATAGA
Found at i:17161063 original size:20 final size:20
Alignment explanation
Indices: 17161032--17161093 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
17161022 TGCAAATCAT
*
17161032 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
17161052 TTGAAATCATTTTGACTT-A
1 TTAAAATCATTTTAACTTGA
**
17161071 GTTAAAATCATTTGCACTTGA
1 -TTAAAATCATTTTAACTTGA
17161092 TT
1 TT
17161094 TTAAATTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:17165345 original size:22 final size:21
Alignment explanation
Indices: 17165320--17165362 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
17165310 TAAACCTCTC
*
17165320 ATTTTTAACCTAAAACCATATT
1 ATTTATAACCTAAAA-CATATT
* *
17165342 ATTTATATCCTTAAACATATT
1 ATTTATAACCTAAAACATATT
17165363 TTAAGTCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAACCTAAAACATATT
Found at i:17171030 original size:89 final size:94
Alignment explanation
Indices: 17170937--17171151 Score: 237
Period size: 89 Copynumber: 2.4 Consensus size: 94
17170927 AGGGGGTGAT
* * * * *
17170937 GCCATTCTCTATGGCACCACCAAATAAAAGAACAATT-TGAATTTT-AAAT-TAA-AAAA-ATTT
1 GCCATTCTTTATGGCACCACCAAATAAAATAACAATTCTAAATTTTGAAATAAAACAAAACAATT
* *
17170997 AAAAAAGAGTGGCAGATTACAATGGTTGA
66 AAAAAAGAGTGGCAAATTACAATGGTGGA
* * *
17171026 GCCATTCTTTATGGAACCACCAAGTAAAATAA-TATTCTAAATTTTGAAATAAAACAAAACAATT
1 GCCATTCTTTATGGCACCACCAAATAAAATAACAATTCTAAATTTTGAAATAAAACAAAACAATT
* * *
17171090 AAAAAAGTGTGGCAAATTACACTGGTGGC
66 AAAAAAGAGTGGCAAATTACAATGGTGGA
** *
17171119 GCCATT-TTTATGGCATAATCAAATAAAATAACA
1 GCCATTCTTTATGGCACCACCAAATAAAATAACA
17171152 TTTTAAAAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
88 3 0.03
89 35 0.35
90 4 0.04
91 2 0.02
92 24 0.24
93 33 0.33
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (94 bp):
GCCATTCTTTATGGCACCACCAAATAAAATAACAATTCTAAATTTTGAAATAAAACAAAACAATT
AAAAAAGAGTGGCAAATTACAATGGTGGA
Found at i:17199196 original size:21 final size:22
Alignment explanation
Indices: 17199170--17199212 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
17199160 AGGACAAAAA
17199170 AATGTTATTTT-TTGTTGTTTT
1 AATGTTATTTTCTTGTTGTTTT
17199191 AATGTTATTTTCTTGTTGTTTT
1 AATGTTATTTTCTTGTTGTTTT
17199213 CTCCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
AATGTTATTTTCTTGTTGTTTT
Found at i:17208439 original size:30 final size:31
Alignment explanation
Indices: 17208405--17208472 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
17208395 TTGCCTAAGA
** * **
17208405 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
17208435 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
17208466 GTAAATA
1 GTAAATA
17208473 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:17212535 original size:101 final size:101
Alignment explanation
Indices: 17212388--17212638 Score: 312
Period size: 101 Copynumber: 2.5 Consensus size: 101
17212378 CAAACATAAT
* * *
17212388 ACCATGGTTTGACCATG-CAGTGTTTAAATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
1 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
* *
17212452 AAGACTATAACTGGGTTATGGCACTATGGATGCAAG
66 AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
* * *** *
17212488 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATTTTGATGGT
1 ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
*
17212553 AAGACCATAACTGGGTTATGGCACTATGAATGTAAG
66 AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
** ** *
17212589 ACCATGGCAAGG-CCATGACA--ATGCATATGTAAGACCATAGTTGGACTATG
1 ACCATGG-TTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATG
17212639 GCACAAAGGA
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 26 0.20
100 16 0.12
101 87 0.66
102 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (101 bp):
ACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGTTGGGCTATGCCATTCCAATGAT
AAGACCATAACTGGGTTATGGCACTATGAATGCAAG
Found at i:17212558 original size:33 final size:33
Alignment explanation
Indices: 17212414--17212593 Score: 114
Period size: 33 Copynumber: 5.4 Consensus size: 33
17212404 GCAGTGTTTA
** * *
17212414 AATGTAAGACCATAGTTGGGCTATGCCA-T-TCC
1 AATGTAAGACCATAACTGGGCTATGGCACTAT-G
* *
17212446 AATGATAAGACTATAACTGGGTTATGGCACTATG
1 AATG-TAAGACCATAACTGGGCTATGGCACTATG
* * *** * * * * *
17212480 GATGCAAGACCATGGTTGGACCATGACAGTATTT
1 AATGTAAGACCATAACTGGGCTATGGCACTA-TG
* * *
17212514 ATATGTAAGACCATAGCTGGGCTATGGCATTTTG
1 A-ATGTAAGACCATAACTGGGCTATGGCACTATG
*
17212548 -ATGGTAAGACCATAACTGGGTTATGGCACTATG
1 AAT-GTAAGACCATAACTGGGCTATGGCACTATG
17212581 AATGTAAGACCAT
1 AATGTAAGACCAT
17212594 GGCAAGGCCA
Statistics
Matches: 109, Mismatches: 32, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
32 6 0.06
33 72 0.66
34 8 0.07
35 23 0.21
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
AATGTAAGACCATAACTGGGCTATGGCACTATG
Found at i:17214224 original size:27 final size:27
Alignment explanation
Indices: 17214194--17214371 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17214184 ATATTGAGTC
* * * *
17214194 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17214221 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17214248 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17214276 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17214303 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17214330 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17214357 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17214372 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:17214333 original size:82 final size:81
Alignment explanation
Indices: 17214215--17214370 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17214205 TGCTATATAA
* *
17214215 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17214280 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17214297 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17214361 CACTTAGTGC
65 CACTTAGTGC
17214371 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:17216393 original size:17 final size:18
Alignment explanation
Indices: 17216368--17216402 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17216358 AAATCCAAAT
17216368 TTATAATATT-AATTTTA
1 TTATAATATTAAATTTTA
*
17216385 TTATTATATTAAATTTTA
1 TTATAATATTAAATTTTA
17216403 CAGCATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATAATATTAAATTTTA
Found at i:17218228 original size:43 final size:43
Alignment explanation
Indices: 17218181--17218296 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
17218171 TGTGATTTCA
* * *
17218181 TGTAAAACCATGTCTGGGACATTGGCATCGAAGTGAGAAAATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGAAGTCAGAAAATG
*
17218224 TGTAAGA-CATTGTTTGGGACATTAGCATCGAAGTCAGAAAATG
1 TGTAAGACCA-TGTTTGGGACATTGGCATCGAAGTCAGAAAATG
*
17218267 TGTAAGACAATGTTTGGGACATTGGCATCG
1 TGTAAGACCATGTTTGGGACATTGGCATCG
17218297 TATATGATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 2 0.03
43 62 0.95
44 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGAAGTCAGAAAATG
Found at i:17240271 original size:17 final size:19
Alignment explanation
Indices: 17240238--17240276 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17240228 CTTACTTATT
17240238 TGCGAACCCAATTAAA-GTA
1 TGCGAACCC-ATTAAAGGTA
17240257 TGCGAACCC-TTAAAGGTA
1 TGCGAACCCATTAAAGGTA
17240275 TG
1 TG
17240277 AACTTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (19 bp):
TGCGAACCCATTAAAGGTA
Found at i:17244292 original size:26 final size:26
Alignment explanation
Indices: 17244224--17244293 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
17244214 GCGAATCTTA
* *
17244224 AGAATCTAACAAATTAACTAACTTGG
1 AGAACCTAACAAATTAACTAACTAGG
* **
17244250 CGAACCTATTAAATTAACTAACTAGG
1 AGAACCTAACAAATTAACTAACTAGG
*
17244276 AGAACCTAACAAGTTAAC
1 AGAACCTAACAAATTAAC
17244294 CAACCTTGCG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
AGAACCTAACAAATTAACTAACTAGG
Found at i:17254024 original size:18 final size:16
Alignment explanation
Indices: 17253988--17254021 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17253978 ACATGTATAC
*
17253988 ATATACATATATGAAA
1 ATATACATATAAGAAA
17254004 ATATACATATAAAGAAA
1 ATATACATAT-AAGAAA
17254021 A
1 A
17254022 ATAAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
ATATACATATAAGAAA
Found at i:17254278 original size:3 final size:3
Alignment explanation
Indices: 17254270--17254322 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
17254260 ACCTCATATG
* * *
17254270 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AGT AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17254318 AAT AA
1 AAT AA
17254323 ACTAATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17255766 original size:44 final size:44
Alignment explanation
Indices: 17255718--17255972 Score: 307
Period size: 44 Copynumber: 5.8 Consensus size: 44
17255708 TATAGAGACT
* ** * **
17255718 AATCTTCCACCTATTCCACTATTGGTCAAGGAGATAGGACTTGT
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
17255762 AATCTTCAACCTATTCCACTGCTGGTCAGGG-GCATAGGACCTAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAG-ATAGGACTTAC
* **
17255806 AATCTTCAACCTATTCCACCGCTGGTCAGGGAGATAGGACTTGT
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * ** * * *
17255850 GATCTTCCACCTATTCCGCTATTGGTCTGGGAAATAGGACATAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
17255894 AATCTTCAACCTATTCCACTGCTAGTCAGGGAGATAGGAC-TAC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
17255937 AATCTTCAACCTATTCCGCTGCTGGTCAGGGAGATA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATA
17255973 AGATTCGCCG
Statistics
Matches: 177, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
43 38 0.21
44 138 0.78
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:17255876 original size:88 final size:88
Alignment explanation
Indices: 17255718--17255968 Score: 342
Period size: 88 Copynumber: 2.9 Consensus size: 88
17255708 TATAGAGACT
* ** * *
17255718 AATCTTCCACCTATTCCACTATTGGTCAAGGAGATAGGACTTGTAATCTTCAACCTATTCCACTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
** *
17255783 CTGGTCAGGGGCATAGGACCTAC
66 CTGGTCAGGGAAATAGGACATAC
* * * *
17255806 AATCTTCAACCTATTCCACCGCTGGTCAGGGAGATAGGACTTGTGATCTTCCACCTATTCCGCTA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
* *
17255871 TTGGTCTGGGAAATAGGACATAC
66 CTGGTCAGGGAAATAGGACATAC
* **
17255894 AATCTTCAACCTATTCCACTGCTAGTCAGGGAGATAGGAC-TACAATCTTCAACCTATTCCGCTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
17255958 CTGGTCAGGGA
66 CTGGTCAGGGA
17255969 GATAAGATTC
Statistics
Matches: 140, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 28 0.20
88 112 0.80
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGCTG
CTGGTCAGGGAAATAGGACATAC
Found at i:17268542 original size:3 final size:3
Alignment explanation
Indices: 17268534--17268586 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
17268524 ACCTCATATG
* * *
17268534 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AGT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17268582 AAT AA
1 AAT AA
17268587 ACTAATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17277347 original size:50 final size:50
Alignment explanation
Indices: 17277272--17277414 Score: 187
Period size: 50 Copynumber: 2.8 Consensus size: 50
17277262 ATTTGGGTAA
*
17277272 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
17277322 AGAGGTCCCCCGTAAAACCATGTCTGGGACATAGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
17277372 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17277415 TGTTATTATC
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 45 0.58
51 32 0.42
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:17288858 original size:24 final size:25
Alignment explanation
Indices: 17288802--17288861 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
17288792 CTTGATTGTC
*
17288802 ATTTATTATAATAAATAATTTAAAAT
1 ATTTA-TAAAATAAATAATTTAAAAT
*
17288828 -TACTATAAAATAAATAA-TTAAAAT
1 AT-TTATAAAATAAATAATTTAAAAT
17288852 ATTTATAAAA
1 ATTTATAAAA
17288862 ATATTATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 14 0.48
25 13 0.45
26 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTTATAAAATAAATAATTTAAAAT
Found at i:17288862 original size:25 final size:24
Alignment explanation
Indices: 17288802--17288864 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
17288792 CTTGATTGTC
* * *
17288802 ATTTATTATAATAAATAATTTAAA
1 ATTTATAAAAATAAATAATTAAAA
17288826 A-TTACTATAAAATAAATAATTAAAA
1 ATTTA-TA-AAAATAAATAATTAAAA
17288851 TATTTATAAAAATA
1 -ATTTATAAAAATA
17288865 TTATGATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.09
24 2 0.06
25 21 0.66
26 3 0.09
27 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTATAAAAATAAATAATTAAAA
Found at i:17309607 original size:13 final size:14
Alignment explanation
Indices: 17309583--17309609 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17309573 TTGAATTTTG
17309583 CATTTAAAAAAAAA
1 CATTTAAAAAAAAA
17309597 CATTTAAAAAAAA
1 CATTTAAAAAAAA
17309610 GGGTGACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
CATTTAAAAAAAAA
Found at i:17316555 original size:75 final size:75
Alignment explanation
Indices: 17316436--17316693 Score: 245
Period size: 75 Copynumber: 3.5 Consensus size: 75
17316426 CTACGTTTAT
* * * ** *
17316436 AGCTGATATCTTTACTG-TTTGCTGATTTAAGATC-ACGACCCTCAGTTTTCTATTAGCTTGATG
1 AGCTGATATATTTA-TGATTCGCTGATTTAAGATCGA-AACCCTCAGTTTTCTAACAGCTCGATG
17316499 ACCTATATTCAC
64 ACCTATATTCAC
** * * * * *
17316511 ATTTGTTATATTTATGATTCGCTGATTTAAGATCGAAACTCTCAG-TTTCTAACAACTCAATGAT
1 AGCTGATATATTTATGATTCGCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGAC
*
17316575 CTAGATTCAC
66 CTATATTCAC
* * * * * * *
17316585 AGCTGATATCTTTACG-GTCTGCTAATTTAAGATCGTAACCCTCGGTTTACTAACAGCTCGATGA
1 AGCTGATATATTTATGATTC-GCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGA
* * *
17316649 CTTATGTTCAT
65 CCTATATTCAC
17316660 AGCTGATATATTTATGATTCGCTGATTTAAGATC
1 AGCTGATATATTTATGATTCGCTGATTTAAGATC
17316694 ACAACCTATC
Statistics
Matches: 142, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
73 2 0.01
74 56 0.39
75 81 0.57
76 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (75 bp):
AGCTGATATATTTATGATTCGCTGATTTAAGATCGAAACCCTCAGTTTTCTAACAGCTCGATGAC
CTATATTCAC
Found at i:17316804 original size:105 final size:105
Alignment explanation
Indices: 17316636--17317355 Score: 709
Period size: 105 Copynumber: 6.9 Consensus size: 105
17316626 TCGGTTTACT
* * * * * * * * *
17316636 AACAGCTCGATGACTTATGTTCATAGCTGATA-TATTTATGATTCGCTGATTTAAGATCACAACC
1 AACAACTCGATGACCTACGTTCACAGCTGATATTA-TAAAGGTTAGCTGATTTAAGATCGCAACC
* *
17316700 TATCAATCTTTGAGTTAGCTAATTTAAGATCGCAACTCCTA
65 TATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * * * * *
17316741 AACAACTCGACGACTTACGTTTACAACTAATATTATAAAGGTTAGCTGATCTAATATCGCAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * *
17316806 ATCTATCTTTAAGTTAGTTCATTTAAGATCATGC--CTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATC--GCAACTCCTA
* * * * * *
17316846 AACAACTCGATGACCTACGTTCACAGATGATATTATAAAGGTTGGTTGATTTAAGATTGTAGCCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * *
17316911 ATTTATCTTTGAGTTAGCTGATTTAAGATCGTAACGCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * *
17316951 AACAACTCGATGAACTACATTCACAGCTGATATTATAAAGGTTAGTTGATTTAATATCGCAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* * * *
17317016 ATCTATCTTTAAGTTAGCTGATTTAATATCCCAGCTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * * * * *
17317056 AACAGCTTGATGACCTACGTTCACAGTTGATATTATAAAGGGTAACTGATTTAAGGTCGTAACCT
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
17317121 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
66 ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
* * * * * * *
17317161 AATAGCTC-ACTGACCTACGTTCACGGCTGATGTTATAAAGGTTATCTGATTTAAGTTCACAACC
1 AACAACTCGA-TGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACC
** * *
17317225 TAAGTTTATTTGAGTTCA-CTGATTTAAGATCGCAACTCCT-
65 TATCTATCTTTGAGTT-AGCTGATTTAAGATCGCAACTCCTA
* * * * * * * * * *
17317265 AGCAGCTTGCTGACCTACGTTCACAGTTGATATTATTAAGGCTCGCTGATTTAATATCACAACC-
1 AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
* *
17317329 -TCTAATTATTTGAGTTAGTTGATTTAA
66 ATCT-A-TCTTTGAGTTAGCTGATTTAA
17317356 TATTGCAATT
Statistics
Matches: 506, Mismatches: 98, Indels: 23
0.81 0.16 0.04
Matches are distributed among these distances:
102 1 0.00
103 2 0.00
104 69 0.14
105 429 0.85
106 3 0.01
107 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (105 bp):
AACAACTCGATGACCTACGTTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATCGCAACCT
ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTA
Found at i:17319595 original size:51 final size:51
Alignment explanation
Indices: 17319515--17319707 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 51
17319505 TCCCTATAAA
* * * *
17319515 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGAT-ATGGT
* * *
17319566 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGT
* * *
17319617 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAA-G-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGGATATGGT
* * * *
17319667 CACGTGCGTAGTACTATGTGAAAGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
17319708 TGATAATAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.02
50 38 0.30
51 78 0.62
52 6 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGT
Found at i:17323548 original size:20 final size:20
Alignment explanation
Indices: 17323523--17323563 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17323513 ATCAACCATA
17323523 TCCCTCTACATAGATTGTGG
1 TCCCTCTACATAGATTGTGG
17323543 TCCCTCTACATAGATTGTGG
1 TCCCTCTACATAGATTGTGG
17323563 T
1 T
17323564 ATATCCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (20 bp):
TCCCTCTACATAGATTGTGG
Found at i:17338221 original size:28 final size:28
Alignment explanation
Indices: 17338168--17338221 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
17338158 AAAATCAACT
*
17338168 AATAAAAATAATGAGAAAATAAATGAAA
1 AATAAAAATAAAGAGAAAATAAATGAAA
* *
17338196 AATAAAATTAAAG-GAAATTAATATGA
1 AATAAAAATAAAGAGAAAATAA-ATGA
17338222 TGAAATTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (28 bp):
AATAAAAATAAAGAGAAAATAAATGAAA
Found at i:17344385 original size:26 final size:26
Alignment explanation
Indices: 17344321--17344379 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
17344311 TCTTAAGAAT
*
17344321 CTAACAAACTAACTAACTTGGCGAAC
1 CTAACAAACTAACTAACTAGGCGAAC
** *
17344347 CTATTAAATTAACTAACTAGGCGAAC
1 CTAACAAACTAACTAACTAGGCGAAC
17344373 CTAACAA
1 CTAACAA
17344380 GATAACCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (26 bp):
CTAACAAACTAACTAACTAGGCGAAC
Found at i:17355757 original size:3 final size:3
Alignment explanation
Indices: 17355749--17355833 Score: 107
Period size: 3 Copynumber: 28.3 Consensus size: 3
17355739 TGTACTCTTG
*
17355749 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
17355797 TCA TGA TCA TTA TTA TTA TGA TTA CTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17355834 ATTTTCATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:17362213 original size:18 final size:17
Alignment explanation
Indices: 17362180--17362242 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 17
17362170 ATATTTTTCA
17362180 AAAAAAAAGGAAAAAATGATG
1 AAAAAAAA-G-AAAAA-GA-G
17362201 AAAAAAAAGAAAAAGAG
1 AAAAAAAAGAAAAAGAG
*
17362218 AAGAAAAAG-AAAAGA-
1 AAAAAAAAGAAAAAGAG
17362233 AAAGAAAAAG
1 AAA-AAAAAG
17362243 GAGGGACCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.05
16 12 0.31
17 9 0.23
18 2 0.05
19 5 0.13
20 1 0.03
21 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAG
Found at i:17362213 original size:27 final size:26
Alignment explanation
Indices: 17362179--17362244 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
17362169 AATATTTTTC
17362179 AAAA-AAAAAGGAA-AAAATGATGAAAA-
1 AAAAGAAAAAGGAAGAAAA--A-GAAAAG
17362205 AAAAGAAAAAGAGAAGAAAAAGAAAAG
1 AAAAGAAAAAG-GAAGAAAAAGAAAAG
17362232 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
17362245 GGGACCAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 11 0.31
27 18 0.50
28 3 0.08
29 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (26 bp):
AAAAGAAAAAGGAAGAAAAAGAAAAG
Found at i:17362223 original size:20 final size:21
Alignment explanation
Indices: 17362179--17362235 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
17362169 AATATTTTTC
*
17362179 AAAAAAAAAGGAAAAAATGATG
1 AAAAAAAAA-GAAAAAATGAAG
17362201 -AAAAAAAAGAAAAAGA-GAAG
1 AAAAAAAAAGAAAAA-ATGAAG
17362221 AAAAAGAAAAGAAAA
1 AAAAA-AAAAGAAAA
17362236 GAAAAAGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 9 0.29
21 13 0.42
22 9 0.29
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAATGAAG
Found at i:17362230 original size:16 final size:17
Alignment explanation
Indices: 17362204--17362242 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
17362194 AATGATGAAA
*
17362204 AAAAAGAAAAAGAGAAG
1 AAAAAGAAAAAGAAAAG
17362221 AAAAAG-AAAAGAAAAG
1 AAAAAGAAAAAGAAAAG
17362237 AAAAAG
1 AAAAAG
17362243 GAGGGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:17364365 original size:89 final size:89
Alignment explanation
Indices: 17363578--17364366 Score: 835
Period size: 89 Copynumber: 8.9 Consensus size: 89
17363568 AAGAAGATAA
* * * * * *
17363578 CAGAACTTGTCTTCCTCTATTGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCTGATTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
17363643 TGTAGCAGAGCAGACTGAAAATAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * *
17363667 CAGATCTTGTCTTCCTATATTGGCAGCGAAGCAAATCGAAGACACCAGCCTTGCCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
17363732 TGCAACAGAGTAGA-TAGAAAATAG
66 TGCAGCGGAGTAGACT-GAAAATAG
* * * * * *
17363756 CAGATCCTGTCTTCCTATACTGGTAGCGAAGCAGATCGAAGACACCAGTCTTATCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* ** * *
17363821 TGCAGCAGAACAGACTGACAACAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * *
17363845 CAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
17363910 TACAGCAGAGTAGACTGAAAA-CG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * *
17363933 ACAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAGATACCAACCTGACCTCCCTAAAT
1 -CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGT
* *
17363998 TTACAGCGGAGTAGACTGAAGATAG
65 TTGCAGCGGAGTAGACTGAAAATAG
* * * * * *
17364023 CAGATCTTGTCTTCTTGTATTGGTAGCGAAGCAGATCCAAGACACCCGCCTAACCTCCCTTAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
17364088 TGCAGCGGAGTAGATTGAAGATAG
66 TGCAGCGGAGTAGACTGAAAATAG
** **
17364112 CAGATCTTGTCTTCCTGTACGGGCAGCGAAGCAGATCGAAGACACCAGCCCGACCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * **
17364177 TGTAGCGGAGCAGACTGAGGATAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * * * ** *
17364201 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATTGATGACACCATCATTGCCTCTTTTAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* * *
17364266 TACAGCGGAGTAGACTAAAAACAG
66 TGCAGCGGAGTAGACTGAAAATAG
* * * * * * * *
17364290 TAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAAACACTAGCCTTACCTCTCTGAGTT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
* *
17364355 TGTAGTGGAGTA
66 TGCAGCGGAGTA
17364367 TGTTGAAGAT
Statistics
Matches: 586, Mismatches: 110, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
88 2 0.00
89 582 0.99
90 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (89 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGTT
TGCAGCGGAGTAGACTGAAAATAG
Found at i:17364642 original size:51 final size:51
Alignment explanation
Indices: 17364553--17364760 Score: 174
Period size: 51 Copynumber: 4.2 Consensus size: 51
17364543 GGTCGAAGAA
* * * * *
17364553 AGCGGATCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTTAAGGC
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * * *
17364604 AACGAATCTCATTTCCTTGGCGTTGCAATGGAGCAGATTAAAGCTGAAGGC
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * *
17364655 AGCAAATCTTATCTCCCTGGCG-T-C-GT--AGTAGATTAAAGCTAAAGGT
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
* * * * * * * *
17364701 AGCGAGTCTCATTTACTTGGCATTCCAGTGGAGAAGATTAAAGCTGAAGAC
1 AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
*
17364752 AGCTAATCT
1 AGCGAATCT
17364761 TATATCTCTG
Statistics
Matches: 121, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
46 32 0.26
47 1 0.01
48 2 0.02
49 3 0.02
50 1 0.01
51 82 0.68
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (51 bp):
AGCGAATCTCATTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTAAAGGC
Found at i:17364711 original size:97 final size:97
Alignment explanation
Indices: 17364586--17364763 Score: 257
Period size: 97 Copynumber: 1.8 Consensus size: 97
17364576 TGCAGTGGAA
* * * * *
17364586 TAGATTAAAGCTTAAGGCAACGAATCTCATTTCCTTGGCGTTGCAATGGAGCAGATTAAAGCTGA
1 TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
*
17364651 AGGCAGCAAATCTTATCTCCCTGGCGTCGTAG
66 AGACAGCAAATCTTATCTCCCTGGCGTCGTAG
* * * *
17364683 TAGATTAAAGCTAAAGGTAGCGAGTCTCATTTACTTGGCATTCCAGTGGAGAAGATTAAAGCTGA
1 TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
*
17364748 AGACAGCTAATCTTAT
66 AGACAGCAAATCTTAT
17364764 ATCTCTGACG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 70 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (97 bp):
TAGATTAAAGCTAAAGGCAACGAATCTCATTTACTTGGCATTCCAATGGAGAAGATTAAAGCTGA
AGACAGCAAATCTTATCTCCCTGGCGTCGTAG
Found at i:17366390 original size:3 final size:3
Alignment explanation
Indices: 17366382--17366418 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
17366372 TGTACTCTTG
17366382 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17366419 CACTATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.