Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 113 of 175
Found at i:35592984 original size:17 final size:17
Alignment explanation
Indices: 35592964--35592998 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35592954 GTAAATTCTT
35592964 TTAA-AATAATAATAAAA
1 TTAACAATAA-AATAAAA
35592981 TTAACAATAAAATAAAA
1 TTAACAATAAAATAAAA
35592998 T
1 T
35592999 AGTGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAACAATAAAATAAAA
Found at i:35596348 original size:12 final size:12
Alignment explanation
Indices: 35596331--35596355 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35596321 ATATTTGATT
35596331 TAATAAATTTTA
1 TAATAAATTTTA
35596343 TAATAAATTTTA
1 TAATAAATTTTA
35596355 T
1 T
35596356 GACACTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAAATTTTA
Found at i:35598230 original size:50 final size:52
Alignment explanation
Indices: 35598100--35598235 Score: 138
Period size: 50 Copynumber: 2.7 Consensus size: 52
35598090 CTAAATGAAC
* *
35598100 AAAT-GAA-TTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTA
1 AAATGGAAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTA
* ** * *
35598150 AAATGGGAGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTA
1 AAATGGAAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTA
** *
35598200 GCATGGAAGTTACATAATGCATAACTTTATTAAATG
1 AAATGGAAGTTACATAATGCATAACTTTATTTAATG
35598236 CAGAACACAC
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
50 34 0.50
51 17 0.25
52 17 0.25
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (52 bp):
AAATGGAAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTA
Found at i:35602789 original size:63 final size:64
Alignment explanation
Indices: 35602631--35602812 Score: 190
Period size: 63 Copynumber: 2.9 Consensus size: 64
35602621 GCCTAGCCCG
* * * * * *
35602631 TGTAACTCTCTGATTTCAAATTTGAGTCATAC-AGGCAAGACACACGGGCGTGTGTCTAAGCCT
1 TGTAACTCTCTGACTTCAGATTTGAGTCACACGAGGCAAGACACAAGGGCGTGTGTCCAAGCCA
* * * * *
35602694 TGTAACTCTCTAACTTCAGATTGGAGTTACACGA-GTAAGACACAAGGGCGTGTGTCCAGGCCA
1 TGTAACTCTCTGACTTCAGATTTGAGTCACACGAGGCAAGACACAAGGGCGTGTGTCCAAGCCA
* * * * * *
35602757 TGTAACTCACTGACTTCAGATTTGAGACACACG-GACAAGGCACACGGGCATGTGTC
1 TGTAACTCTCTGACTTCAGATTTGAGTCACACGAGGCAAGACACAAGGGCGTGTGTC
35602813 AGGCCGTGTG
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
63 95 0.99
64 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (64 bp):
TGTAACTCTCTGACTTCAGATTTGAGTCACACGAGGCAAGACACAAGGGCGTGTGTCCAAGCCA
Found at i:35606918 original size:16 final size:16
Alignment explanation
Indices: 35606897--35606927 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35606887 CAATATCCAA
*
35606897 TTATCATATTTACACG
1 TTATCACATTTACACG
35606913 TTATCACATTTACAC
1 TTATCACATTTACAC
35606928 ATTCATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (16 bp):
TTATCACATTTACACG
Found at i:35609397 original size:41 final size:41
Alignment explanation
Indices: 35609340--35609562 Score: 313
Period size: 41 Copynumber: 5.4 Consensus size: 41
35609330 GACCTTTCGA
* *
35609340 GGCTTTAGCGGCGTTTTT-GAGAAAGCGTCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTCAAG-AAGCGCCGCTAATGCTCGG
* *
35609381 GGCTTTAGCGGTGTTTTTCAAGAAGCGCAGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGG
* * * * *
35609422 GGTTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTTGG
1 GGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGG
*
35609463 GGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGG
* **
35609504 GGTTTTAGCAACGTTTTTCAAGAAGCGCCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGG
35609545 GGCTTTAGCGGCGTTTTT
1 GGCTTTAGCGGCGTTTTT
35609563 GAAAAAGTGC
Statistics
Matches: 157, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 155 0.99
42 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGG
Found at i:35609559 original size:123 final size:123
Alignment explanation
Indices: 35609340--35609575 Score: 375
Period size: 123 Copynumber: 1.9 Consensus size: 123
35609330 GACCTTTCGA
** * ***
35609340 GGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTCGGGGCTTTAGCGGTGTTTTTCAAGAA
1 GGCTTTAGCGGCGTTTTCAAGAAAGCGCCGCTAATGCTCGGGGCTTTAGCAACGTTTTTCAAGAA
*
35609405 GCGCAGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTTGG
66 GCGCAGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTTGG
*
35609463 GGCTTTAGCGGCGTTTTCCAAG-AAGCGCCGCTAATGCTCGGGGTTTTAGCAACGTTTTTCAAGA
1 GGCTTTAGCGGCGTTTT-CAAGAAAGCGCCGCTAATGCTCGGGGCTTTAGCAACGTTTTTCAAGA
*
35609527 AGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGTGCCGC
65 AGCGCAGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGTGCCGC
35609576 AAAAACATTT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 101 0.98
124 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (123 bp):
GGCTTTAGCGGCGTTTTCAAGAAAGCGCCGCTAATGCTCGGGGCTTTAGCAACGTTTTTCAAGAA
GCGCAGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTTGG
Found at i:35610038 original size:14 final size:14
Alignment explanation
Indices: 35610021--35610071 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
35610011 TAGAGGTTGG
35610021 GGTTAGGGGTTATA
1 GGTTAGGGGTTATA
*
35610035 GGTTAAGGGTTA-A
1 GGTTAGGGGTTATA
* *
35610048 GAGTTAGGGATTTATG
1 G-GTTAGGG-GTTATA
35610064 GGTTAGGG
1 GGTTAGGG
35610072 TTTTAGGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 17 0.57
15 10 0.33
16 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
GGTTAGGGGTTATA
Found at i:35613860 original size:42 final size:43
Alignment explanation
Indices: 35613725--35613923 Score: 260
Period size: 43 Copynumber: 4.7 Consensus size: 43
35613715 GAGAAGCGTT
* *
35613725 GCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGAAAAGTGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
* ** **
35613767 GCTAAAGGTTTTGAGATATAGCGGCGTTTGTGAAAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
*
35613810 GCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GCAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
** *
35613852 GCTAAAGGTCCCGATCTATAGCGGCATTTGTGGGAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
*
35613895 GCTAAAGGTCAT-AGTCTATAGCGGCGTTT
1 GCTAAAGGTCTTGA-TCTATAGCGGCGTTT
35613924 ATTTCTAAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 47 0.35
43 89 0.65
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:35613872 original size:85 final size:86
Alignment explanation
Indices: 35613725--35613923 Score: 260
Period size: 85 Copynumber: 2.3 Consensus size: 86
35613715 GAGAAGCGTT
* * * ***
35613725 GCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTTTTGAGATATAGC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCGAGATATAGC
*
35613789 GGCGTTTGTGAAAAAAGCGCC
66 GGCATTTGTGAAAAAAGCGCC
**
35613810 GCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GCAAAAGCGCCGCTAAAGGTCCCGATCTATAGC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCGAGATATAGC
**
35613874 GGCATTTGTGGGAAAAGCGCC
66 GGCATTTGTGAAAAAAGCGCC
*
35613895 GCTAAAGGTCAT-AGTCTATAGCGGCGTTT
1 GCTAAAGGTCTTGA-TCTATAGCGGCGTTT
35613924 ATTTCTAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 79 0.79
86 20 0.20
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (86 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCCGAGATATAGC
GGCATTTGTGAAAAAAGCGCC
Found at i:35615404 original size:22 final size:22
Alignment explanation
Indices: 35615355--35615404 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
35615345 GTTTTTGAAA
*
35615355 AATTATTTTTGAAAAATAGATT
1 AATTTTTTTTGAAAAATAGATT
*
35615377 AATTTTTTTTTAAAAATAGA-T
1 AATTTTTTTTGAAAAATAGATT
35615398 -ATTTTTT
1 AATTTTTT
35615405 ATGTTTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 1 0.04
22 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
AATTTTTTTTGAAAAATAGATT
Found at i:35615411 original size:23 final size:23
Alignment explanation
Indices: 35615361--35615411 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
35615351 GAAAAATTAT
35615361 TTTTGAAAAATAGATTAATTTTT-
1 TTTT-AAAAATAGATTAATTTTTA
*
35615384 TTTTAAAAATAGA-TATTTTTTA
1 TTTTAAAAATAGATTAATTTTTA
35615406 TGTTTA
1 T-TTTA
35615412 GATGATTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
TTTTAAAAATAGATTAATTTTTA
Found at i:35615739 original size:24 final size:23
Alignment explanation
Indices: 35615712--35615758 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
35615702 ACAAATACTC
35615712 ATATTTTATA-TAATTAAAATATTT
1 ATATTTTATACT-A-TAAAATATTT
*
35615736 ATATTTTGTACTATAAAATATTT
1 ATATTTTATACTATAAAATATTT
35615759 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 10 0.48
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTTTATACTATAAAATATTT
Found at i:35616805 original size:9 final size:10
Alignment explanation
Indices: 35616785--35616814 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
35616775 AATAATTGTA
35616785 AATAATATTT
1 AATAATATTT
35616795 AATAA-ATTT
1 AATAATATTT
35616804 AATAATATTT
1 AATAATATTT
35616814 A
1 A
35616815 TTTCAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AATAATATTT
Found at i:35619941 original size:96 final size:95
Alignment explanation
Indices: 35619650--35619971 Score: 329
Period size: 95 Copynumber: 3.4 Consensus size: 95
35619640 GTGTTTTTAA
* * * * **
35619650 GTTTAGGG-TTTTAGAGAAAAAATTAAATAAATAAGGGATT--AGGATA-TAGGGT-TTTTAATT
1 GTTTAGGGTTTTTA-AGAAAAAATCAAATAAATTAGGG-TTCAAGGATACTTGAGTAAATTAATT
* *
35619710 ATAATTTTT-TCAAAATTGGATT-AGGTTTCGT
64 ATAATTTTTAT-AAAATTAGATTAAGGTTTAGT
** * * *
35619741 GTTTATTGTTTTTAAGAAAAAAT-AAATTAAATTAGGGTTTAGGGATACTTGAGTAATTTAATTG
1 GTTTAGGGTTTTTAAGAAAAAATCAAA-TAAATTAGGGTTCAAGGATACTTGAGTAAATTAATT-
* * * *
35619805 AT-TTTTTTAAAAAATTAGATTAGGGTTTAGA
64 ATAATTTTTATAAAATTAGATTAAGGTTTAGT
* * *
35619836 GTTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAT
1 GTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGATACTTGAGTAAATTAATTAT
35619901 AAATTTTTATAAAATTAGATTAAGGTTTAGT
66 -AATTTTTATAAAATTAGATTAAGGTTTAGT
*
35619932 GTTTAGGGTTTTTAAGTAAAAACTCAAATAAATTAGGGTT
1 GTTTAGGGTTTTTAAG-AAAAAATCAAATAAATTAGGGTT
35619972 TGGGGTTTAG
Statistics
Matches: 190, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
90 5 0.03
91 24 0.13
92 10 0.05
93 4 0.02
94 24 0.13
95 59 0.31
96 43 0.23
97 21 0.11
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (95 bp):
GTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGATACTTGAGTAAATTAATTAT
AATTTTTATAAAATTAGATTAAGGTTTAGT
Found at i:35620243 original size:126 final size:126
Alignment explanation
Indices: 35620015--35620300 Score: 457
Period size: 126 Copynumber: 2.3 Consensus size: 126
35620005 TAATTTAAAG
* * * * *
35620015 AAGCTCCCACGTGGATGCACTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACTTTT
1 AAGCTCCCACCTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
35620080 CTGAGCAAATAGTGTCAAAAACGTTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTGACCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCACCAGAAGTACTGAAAA
35620141 AAGCTCCCACCTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACCTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
35620206 CTGACCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCACCAGAAGTACTGAAAG
66 CTGACCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCACCAGAAGTACTGAAAA
*
35620267 AAGCTCCCA-CTAGACGCGCTTTTGCTACAGTAGC
1 AAGCTCCCACCTGGACGCGCTTTTGCTACAGTAGC
35620301 GCATGTTTGG
Statistics
Matches: 148, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 24 0.16
126 124 0.84
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACCTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGACCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCACCAGAAGTACTGAAAA
Found at i:35623280 original size:29 final size:27
Alignment explanation
Indices: 35623231--35623291 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
35623221 TTTAAAAAAA
*
35623231 TTAAAAAAAATAAAATTTAAAACT-TT
1 TTAAAAAAAATAAAAATTAAAACTCTT
*
35623257 TTAAAAAATAATTAAAAAATTAAAGCTCTT
1 TTAAAAAA-AA-T-AAAAATTAAAACTCTT
35623287 TTAAA
1 TTAAA
35623292 TAGAAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 2 0.07
28 1 0.03
29 11 0.38
30 7 0.24
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
TTAAAAAAAATAAAAATTAAAACTCTT
Found at i:35623315 original size:11 final size:11
Alignment explanation
Indices: 35623299--35623327 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
35623289 AAATAGAAAA
35623299 TTGAGAGGAAT
1 TTGAGAGGAAT
35623310 TTGAGAGGAAT
1 TTGAGAGGAAT
35623321 TTGAGAG
1 TTGAGAG
35623328 AATATTAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (11 bp):
TTGAGAGGAAT
Found at i:35625805 original size:31 final size:31
Alignment explanation
Indices: 35625745--35625808 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
35625735 GTTGAATACC
*
35625745 CAATAACTTAAATAAAAACTTCTGAATAGTT
1 CAATAACTTAAATAAAAACTTCTCAATAGTT
* *
35625776 CAATTACTTAAATGAAAACTT-TCATATAGTT
1 CAATAACTTAAATAAAAACTTCTCA-ATAGTT
35625807 CA
1 CA
35625809 GTAATCACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTCTCAATAGTT
Found at i:35626679 original size:14 final size:16
Alignment explanation
Indices: 35626660--35626693 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
35626650 ATCAAAACAA
35626660 TAATAAAAAT-TAT-T
1 TAATAAAAATGTATAT
35626674 TAATAAAAATGTATAT
1 TAATAAAAATGTATAT
35626690 TAAT
1 TAAT
35626694 CATTAGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATAAAAATGTATAT
Found at i:35629465 original size:17 final size:18
Alignment explanation
Indices: 35629432--35629472 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35629422 CATATTGTAT
35629432 GCCCATGTGGTCCCACAC
1 GCCCATGTGGTCCCACAC
*
35629450 GCCCGTGTGG-CCCACAC
1 GCCCATGTGGTCCCACAC
35629467 GGCCCA
1 -GCCCA
35629473 AAATGGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.46, G:0.27, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGTCCCACAC
Found at i:35644740 original size:9 final size:9
Alignment explanation
Indices: 35644726--35644756 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35644716 GTTAAACGAA
35644726 TCGAGTTAT
1 TCGAGTTAT
*
35644735 TCGAGTTAA
1 TCGAGTTAT
35644744 TCGAGTTAT
1 TCGAGTTAT
35644753 TCGA
1 TCGA
35644757 ATCAAGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:35645080 original size:30 final size:31
Alignment explanation
Indices: 35645046--35645105 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
35645036 AAACTTTTTA
*
35645046 TTTTCCCCTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
35645076 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
35645106 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:35645737 original size:5 final size:5
Alignment explanation
Indices: 35645727--35645773 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
35645717 GAAAAAATAT
* *
35645727 ATTCG ATTCG ATTCG ATTCG AATTCC ATCTC- ACTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG ATTCG ATTCG ATTCG A
35645774 GAAAACTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (5 bp):
ATTCG
Found at i:35654245 original size:45 final size:45
Alignment explanation
Indices: 35654194--35654284 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
35654184 AATTTAATTA
* *
35654194 ACCATTATTAGTAGGTTTAGCTTCATTTAAGTCATGCATATGTAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATGCATATATAT
*
35654239 ACCATTATTAGCAGGTTTAGCTTCGTTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATGCATATATAT
35654284 A
1 A
35654285 TTATAAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (45 bp):
ACCATTATTAGCAGGTTTAGCTTCATTTAAGTCATGCATATATAT
Found at i:35655005 original size:31 final size:31
Alignment explanation
Indices: 35654942--35655005 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
35654932 TGTTGATTTA
* *
35654942 TTTTTATATTATTTATTGTAAACTTTATTTC
1 TTTTTATATTATTTATTGTAAACTATAATTC
*
35654973 TTTTTATTATTATTTA-TGTGAACTATAATTC
1 TTTTTA-TATTATTTATTGTAAACTATAATTC
35655004 TT
1 TT
35655006 CAAATAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (31 bp):
TTTTTATATTATTTATTGTAAACTATAATTC
Found at i:35659388 original size:28 final size:28
Alignment explanation
Indices: 35659356--35659435 Score: 160
Period size: 28 Copynumber: 2.9 Consensus size: 28
35659346 TGTCATAGTT
35659356 TGATGTGTATGATCCGATCTAACCAGTG
1 TGATGTGTATGATCCGATCTAACCAGTG
35659384 TGATGTGTATGATCCGATCTAACCAGTG
1 TGATGTGTATGATCCGATCTAACCAGTG
35659412 TGATGTGTATGATCCGATCTAACC
1 TGATGTGTATGATCCGATCTAACC
35659436 CTTGTTTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (28 bp):
TGATGTGTATGATCCGATCTAACCAGTG
Found at i:35665576 original size:21 final size:21
Alignment explanation
Indices: 35665550--35665612 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
35665540 TATGATTTTT
*
35665550 AGTTTAACCCTTTTGGGTTTC
1 AGTTTAACCCTTATGGGTTTC
* * * * *
35665571 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAACCCTTATGGGTTTC
*
35665592 AGATTAACCCTTATGGGTTTC
1 AGTTTAACCCTTATGGGTTTC
35665613 TGTTCAGCTC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTTTAACCCTTATGGGTTTC
Found at i:35668559 original size:21 final size:22
Alignment explanation
Indices: 35668535--35668575 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35668525 TTACATGCAA
* *
35668535 TTATTTAG-TAAATTATATTGT
1 TTATATAGTTAAATAATATTGT
35668556 TTATATAGTTAAATAATATT
1 TTATATAGTTAAATAATATT
35668576 TTACTTCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
TTATATAGTTAAATAATATTGT
Found at i:35679783 original size:39 final size:39
Alignment explanation
Indices: 35679729--35679806 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
35679719 AATACAATGC
35679729 TAAATTAACCTCAGCTACCTTACAAGAATAAACAGCATT
1 TAAATTAACCTCAGCTACCTTACAAGAATAAACAGCATT
35679768 TAAATTAACCTCAGCTACCTTACAAGAATAAACAGCATT
1 TAAATTAACCTCAGCTACCTTACAAGAATAAACAGCATT
35679807 GATTAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (39 bp):
TAAATTAACCTCAGCTACCTTACAAGAATAAACAGCATT
Found at i:35680895 original size:10 final size:10
Alignment explanation
Indices: 35680880--35680924 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
35680870 TCGAAAATAG
35680880 TCAAAATTAA
1 TCAAAATTAA
35680890 TCAAAATTAA
1 TCAAAATTAA
*
35680900 TTATAAAATTAA
1 -T-CAAAATTAA
*
35680912 TTAAAATTAA
1 TCAAAATTAA
35680922 TCA
1 TCA
35680925 TGTTCATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 21 0.68
11 2 0.06
12 8 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:35684944 original size:33 final size:33
Alignment explanation
Indices: 35684902--35685155 Score: 137
Period size: 33 Copynumber: 7.4 Consensus size: 33
35684892 GTGGATTCAG
*
35684902 CACTTAGCAACCACCAGTGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* * * *
35684935 CACTTAGCAACCCCTTCACATTTAAGATACGGTGGGATCAG
1 CACTTAGCAACCAC--CA-A--T--GATTCGG-GGAATCAA
* *
35684976 CACTTAGCAACCACCAGTAATTCGGGGAAT-AA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* * * * *
35685008 GCACTTAGTAACCCCTTTCACATTTAAGATACGGTGGGATCAG
1 -CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAA
* * *
35685051 CACTTAGCAACCACCAATGAGTCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
35685084 CACTTAGCAACC-CC-----TT-GGAGGAATCAA
1 CACTTAGCAACCACCAATGATTCGG-GGAATCAA
*
35685111 CACTTAGCAACCACCAATGAGTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
35685144 CACTTAGCAACC
1 CACTTAGCAACC
35685156 CCTTGGGGGA
Statistics
Matches: 166, Mismatches: 28, Indels: 54
0.67 0.11 0.22
Matches are distributed among these distances:
26 1 0.01
27 20 0.12
28 2 0.01
32 3 0.02
33 69 0.42
34 11 0.07
35 2 0.01
36 4 0.02
38 2 0.01
39 5 0.03
40 6 0.04
41 24 0.14
42 16 0.10
43 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAA
Found at i:35685079 original size:75 final size:75
Alignment explanation
Indices: 35684898--35685099 Score: 327
Period size: 75 Copynumber: 2.7 Consensus size: 75
35684888 ATCAGTGGAT
35684898 TCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAA-CACTTAGCAACCCC-TTCACATTTAAG
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAAT-AAGCACTTAGCAACCCCTTTCACATTTAAG
35684961 ATACGGTGGGA
65 ATACGGTGGGA
* *
35684972 TCAGCACTTAGCAACCACCAGTAATTCGGGGAATAAGCACTTAGTAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAATAAGCACTTAGCAACCCCTTTCACATTTAAGA
35685037 TACGGTGGGA
66 TACGGTGGGA
* * * *
35685047 TCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTT
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAATAAGCACTTAGCAACCCCTT
35685100 GGAGGAATCA
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
73 2 0.02
74 46 0.39
75 70 0.59
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (75 bp):
TCAGCACTTAGCAACCACCAGTGATTCGGGGAATAAGCACTTAGCAACCCCTTTCACATTTAAGA
TACGGTGGGA
Found at i:35685148 original size:60 final size:60
Alignment explanation
Indices: 35685046--35685182 Score: 238
Period size: 60 Copynumber: 2.3 Consensus size: 60
35685036 ATACGGTGGG
*
35685046 ATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTGGAGGA
1 ATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGAGGA
* * *
35685106 ATCAACACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGAGGA
35685166 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
35685183 CCCTTCATCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (60 bp):
ATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGAGGA
Found at i:35685163 original size:26 final size:27
Alignment explanation
Indices: 35685075--35685184 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 27
35685065 CAATGAGTCA
*
35685075 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
* *
35685102 AGGAATCAACACTTAGCAACCACCAATGAGTCG
1 GGGAATCAACACTTAGCAACC-CC--T---TGG
35685135 GGGAATCAACACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
*
35685162 GGGAATCAGCACTTAGCAACCCC
1 GGGAATCAACACTTAGCAACCCC
35685185 CTTCATCTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
27 43 0.61
28 2 0.03
30 2 0.03
32 2 0.03
33 22 0.31
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (27 bp):
GGGAATCAACACTTAGCAACCCCTTGG
Found at i:35692007 original size:27 final size:27
Alignment explanation
Indices: 35691973--35692052 Score: 160
Period size: 27 Copynumber: 3.0 Consensus size: 27
35691963 TCAATGAGTC
35691973 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
35692000 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
35692027 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
35692053 TTTATATTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:35692106 original size:131 final size:129
Alignment explanation
Indices: 35691901--35692154 Score: 427
Period size: 131 Copynumber: 2.0 Consensus size: 129
35691891 GTAATTCGCA
* * *
35691901 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGGGATCAGCACTTAGCAACCATCA
1 GAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGATGGAATCAGCACTTAGCAACCACCA
*
35691966 ATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCTTGGGG
66 ATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGGGGAATCAGCACTTAGCAACCCCTTGGGG
* * *
35692030 GAATCAGCACTTAGCAACCCCTTTTTATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCAC
1 GAATCAGCACTTAGCAACCCC-TTTCACATTCAA-GATACGATGGAATCAGCACTTAGCAACCAC
35692095 CAATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGGGGAATCAGCACTTAGCAACCCC
64 CAATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGGGGAATCAGCACTTAGCAACCCC
35692155 CTTCATATTC
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
129 21 0.18
130 9 0.08
131 86 0.74
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (129 bp):
GAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGATGGAATCAGCACTTAGCAACCACCA
ATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGGGGAATCAGCACTTAGCAACCCCTTGGGG
Found at i:35692194 original size:131 final size:129
Alignment explanation
Indices: 35691871--35692154 Score: 383
Period size: 131 Copynumber: 2.2 Consensus size: 129
35691861 TGGGATCGGA
** * * *
35691871 GAATCAGCACTTAGCAACCAGTAATTCGCAGAATCAGCACTTAGCAACCCC-TTTCACATTTAA-
1 GAATCAGCACTTAGCAACC---CCTT-GCAGAATCA-CACTTAGCAACCCCTTTTGATATTCAAG
* * *
35691934 GATACGATGGGATCAGCACTTAGCAACCATCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
61 GATACGATGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCATT
35691999 GGGG
126 GGGG
** *
35692003 GAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCTTTTTATATTCAAGGAT
1 GAATCAGCACTTAGCAACCCCTT-GCAGAATCA-CACTTAGCAACCCCTTTTGATATTCAAGGAT
*
35692068 ACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGG
64 ACGATGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGG
35692133 G
129 G
35692134 GAATCAGCACTTAGCAACCCC
1 GAATCAGCACTTAGCAACCCC
35692155 CTTCATATTC
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
129 24 0.17
130 9 0.07
131 86 0.62
132 19 0.14
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (129 bp):
GAATCAGCACTTAGCAACCCCTTGCAGAATCACACTTAGCAACCCCTTTTGATATTCAAGGATAC
GATGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCATTGGGG
Found at i:35701364 original size:70 final size:70
Alignment explanation
Indices: 35701233--35701681 Score: 392
Period size: 70 Copynumber: 6.4 Consensus size: 70
35701223 AATAATCAAT
* * * * * **
35701233 TGGGAGCTTTTAACTCTCGTTAACTG-TTTGGAGGCTATGATGTTAGACCTGTGAGCCTTAAAAT
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGG-GGCTATGGTATTAAACCTGCAAGCCTTAAAAT
35701297 GACAGC
65 GACAGC
* * * * * **
35701303 TGGGAGCTTTGAGCTCTCGCTAATTGTTTTGGGGTTATGGTATTAAACATGCGAGTGTTAAAATG
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGGGGCTATGGTATTAAACCTGCAAGCCTTAAAATG
*
35701368 ACGGC
66 ACAGC
** * * *
35701373 TACGAGCTTTGAACTCTCGCTAACTG-TTTGGAG-TCTGCAGTATTAAACCTACAAGCCTTAAAA
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGGGGCTATG--GTATTAAACCTGCAAGCCTTAAAA
35701436 TGACAGC
64 TGACAGC
* * * * *
35701443 TGGGAGCTTTGAACTCTCGCTAATTG-TTTGGAAGATGTGGTATTAAACCTGCAAACCTTAAAAT
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGG-GGCTATGGTATTAAACCTGCAAGCCTTAAAAT
*
35701507 GATAGC
65 GACAGC
* * * * * * *
35701513 TTGGAGCTTTTAACTCTTGCTAACT-ATTTGGAGGCTGTGGTGTTAAACCTGCAAACCTTAAAAT
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGG-GGCTATGGTATTAAACCTGCAAGCCTTAAAAT
*
35701577 GACAAC
65 GACAGC
* * * * * * *
35701583 TGGGAGCTTTTAACTCTCGCTAATTATTTGGGGGCTACGGTAATGAACTTCTG--AGCCTTAAAA
1 TGGGAGCTTTGAACTCTCGCTAACTGTTTTGGGGCTATGGTATTAAAC--CTGCAAGCCTTAAAA
*
35701646 TGACAGT
64 TGACAGC
35701653 TGGGAGCTTCT-AACTCTCGCTAACTGTTT
1 TGGGAGCTT-TGAACTCTCGCTAACTGTTT
35701682 GGAGTTTCAA
Statistics
Matches: 313, Mismatches: 56, Indels: 20
0.80 0.14 0.05
Matches are distributed among these distances:
68 3 0.01
69 6 0.02
70 286 0.91
71 12 0.04
72 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (70 bp):
TGGGAGCTTTGAACTCTCGCTAACTGTTTTGGGGCTATGGTATTAAACCTGCAAGCCTTAAAATG
ACAGC
Found at i:35701642 original size:140 final size:139
Alignment explanation
Indices: 35701235--35701685 Score: 503
Period size: 140 Copynumber: 3.2 Consensus size: 139
35701225 TAATCAATTG
* * * * **
35701235 GGAGCTTTTAACTCTCGTTAACTGTTTGGAGGCTATGATGTTAGACCTGTGAGCCTTAAAATGAC
1 GGAGCTTTTAACTCTCGCTAACTGTTTGGAGGCTGTGGTGTTAAACCTGCAAGCCTTAAAATGAC
* * * **
35701300 AGCTGGGAGCTTTGAGCTCTCGCTAATTGTTTTGGGGTTATGGTATTAAACATGC-GAGTGTTAA
66 AGCTGGGAGCTTTGAACTCTCGCTAATTGTTTGGGGGATATGGTATTAAAC-T-CTGAGCCTTAA
* *
35701364 AATGACGGCTA
129 AATGACAGCTT
* * * ** * *
35701375 CGAGCTTTGAACTCTCGCTAACTGTTTGGAGTCTGCAGTATTAAACCTACAAGCCTTAAAATGAC
1 GGAGCTTTTAACTCTCGCTAACTGTTTGGAGGCTGTGGTGTTAAACCTGCAAGCCTTAAAATGAC
** * *
35701440 AGCTGGGAGCTTTGAACTCTCGCTAATTGTTTGGAAGATGTGGTATTAAAC-CTGCAAACCTTAA
66 AGCTGGGAGCTTTGAACTCTCGCTAATTGTTTGGGGGATATGGTATTAAACTCTG--AGCCTTAA
*
35701504 AATGATAGCTT
129 AATGACAGCTT
* * *
35701515 GGAGCTTTTAACTCTTGCTAACTATTTGGAGGCTGTGGTGTTAAACCTGCAAACCTTAAAATGAC
1 GGAGCTTTTAACTCTCGCTAACTGTTTGGAGGCTGTGGTGTTAAACCTGCAAGCCTTAAAATGAC
* * * * * * *
35701580 AACTGGGAGCTTTTAACTCTCGCTAATTATTTGGGGGCTACGGTAATGAACTTCTGAGCCTTAAA
66 AGCTGGGAGCTTTGAACTCTCGCTAATTGTTTGGGGGATATGGTATTAAAC-TCTGAGCCTTAAA
35701645 ATGACAG-TT
130 ATGACAGCTT
*
35701654 GGGAGCTTCTAACTCTCGCTAACTGTTTGGAG
1 -GGAGCTTTTAACTCTCGCTAACTGTTTGGAG
35701686 TTTCAATAAA
Statistics
Matches: 255, Mismatches: 50, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
137 1 0.00
138 1 0.00
139 2 0.01
140 248 0.97
142 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (139 bp):
GGAGCTTTTAACTCTCGCTAACTGTTTGGAGGCTGTGGTGTTAAACCTGCAAGCCTTAAAATGAC
AGCTGGGAGCTTTGAACTCTCGCTAATTGTTTGGGGGATATGGTATTAAACTCTGAGCCTTAAAA
TGACAGCTT
Found at i:35714444 original size:18 final size:18
Alignment explanation
Indices: 35714423--35714457 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35714413 TTGTAAAATT
*
35714423 AAAGCTTAAATTAAATGC
1 AAAGATTAAATTAAATGC
35714441 AAAGATTAAATTAAATG
1 AAAGATTAAATTAAATG
35714458 ATAAAGGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAGATTAAATTAAATGC
Found at i:35715404 original size:18 final size:18
Alignment explanation
Indices: 35715381--35715418 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
35715371 GGACCGAATA
*
35715381 GACCGGACATGAATTGTG
1 GACCGGACATGAATCGTG
35715399 GACCGGACATGAATCGTG
1 GACCGGACATGAATCGTG
35715417 GA
1 GA
35715419 AAATCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.18
Consensus pattern (18 bp):
GACCGGACATGAATCGTG
Found at i:35715716 original size:36 final size:35
Alignment explanation
Indices: 35715668--35715784 Score: 94
Period size: 36 Copynumber: 3.3 Consensus size: 35
35715658 ATCGGTTATC
*
35715668 CGACTAGCGCTGGGCGCAATAATTTGTCGACTCATT
1 CGACTAGTGCTGGGCGCAATAATTTGTC-ACTCATT
* * * * *
35715704 CGACTAGTGCTGGGCACAACT-A-TCGTCAGTTATC
1 CGACTAGTGCTGGGCGCAA-TAATTTGTCACTCATT
* * * *
35715738 CGACTAGTACTAGGCGTAATAATTTTTCAACTCATT
1 CGACTAGTGCTGGGCGCAATAATTTGTC-ACTCATT
*
35715774 TGACTAGTGCT
1 CGACTAGTGCT
35715785 AGGCACAACT
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
33 1 0.02
34 20 0.33
35 7 0.12
36 31 0.52
37 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (35 bp):
CGACTAGTGCTGGGCGCAATAATTTGTCACTCATT
Found at i:35715762 original size:70 final size:70
Alignment explanation
Indices: 35715649--35715901 Score: 308
Period size: 70 Copynumber: 3.6 Consensus size: 70
35715639 TCGCGGATGA
*
35715649 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCATTCGACTAGTGC
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCATTTGACTAGTGC
35715714 TGGGC
66 TGGGC
* * ** * * * *
35715719 ACAACTATCGTCAGTTATCCGACTAGTACTAGGCGTAATAATTTTTCAACTCATTTGACTAGTGC
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCATTTGACTAGTGC
*
35715784 TAGGC
66 TGGGC
* * * *
35715789 ACAACTATCATCGGTTATCCGACTAACGCTGGGCGCAATAATTTGTTGACTCGTTTGACTAGTGT
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCATTTGACTAGTGC
*
35715854 TGGGA
66 TGGGC
* ** * * * *
35715859 AAAACTATCGCCGGTTACCCGACTAGCGTTGGGCACAAAAATT
1 ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATT
35715902 AATTCACGGT
Statistics
Matches: 151, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 151 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (70 bp):
ACAACTATCATCGGTTATCCGACTAGCGCTGGGCGCAATAATTTGTCGACTCATTTGACTAGTGC
TGGGC
Found at i:35718787 original size:42 final size:43
Alignment explanation
Indices: 35718726--35718830 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 43
35718716 GATTTGAGAT
* *
35718726 TTACGTGTAAGACCATGTCTGGAACATTGGCGTCG-TATATGA
1 TTACGTGTAAGACCATGTCTGGAACAGTGGCATCGTTATATGA
* * *
35718768 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGAACAGTGGCATCGTTATATGA
* *
35718811 TTACATGTAAGACCACGTCT
1 TTACGTGTAAGACCATGTCT
35718831 AGGACGTTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
42 31 0.57
43 23 0.43
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGAACAGTGGCATCGTTATATGA
Found at i:35718842 original size:43 final size:43
Alignment explanation
Indices: 35718685--35718843 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 43
35718675 AATGTGATAT
* * *
35718685 CGTGTAAGACCACATCTAGGATGTTGGCAT--TGATTTGAGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGTTATTT--GA-TTA
* * * *
35718729 CGTGTAAGACCATGTCT-GGAACATTGGCGTCG-TATATGATTA
1 CGTGTAAGACCACGTCTAGG-ACGTTGGCATCGTTATTTGATTA
*
35718771 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGTTATTTGATTA
*
35718814 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
35718844 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
42 28 0.30
43 39 0.42
44 23 0.25
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGTTATTTGATTA
Found at i:35720649 original size:42 final size:42
Alignment explanation
Indices: 35720597--35720791 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 42
35720587 TATGATTACG
* * * * *
35720597 TGTAAGACCATGTCTGGGACATTGGCTTTGTTATGTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATCCA
* *
35720639 TGTAAGACCATGTCTGGGACATTGACATCGATATGAGATCCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATCCA
* * * *
35720681 CGTAAGACCATGTCTGGGAAATTGGTATCGATATGAGAAT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAG-ATCCA
* ** *
35720723 TGTAAGACCATAG-CT-AGTTATTGGCATCGATAT-ATGATAGCA
1 TGTAAGACCAT-GTCTGGGACATTGGCATCGATATGA-GAT-CCA
* *
35720765 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
35720792 TGTGCGAGTT
Statistics
Matches: 126, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
40 3 0.02
41 15 0.12
42 102 0.81
43 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATCCA
Found at i:35723017 original size:88 final size:88
Alignment explanation
Indices: 35722913--35723089 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
35722903 ATGATATGGG
35722913 TTTGGTTATGTGTATGTATCTTAAGCATGTGAATTAGGTATAATTTAGATGTTATAAGTGTACAA
1 TTTGGTTATGTGTATGTATCTTAAGCATGTGAATTAGGTATAATTTAGATGTTATAAGTGTACAA
35722978 TATGGTTCAAGTTGTTATGGTCA
66 TATGGTTCAAGTTGTTATGGTCA
35723001 TTTGGTTATGTGTATGTATCTTAAGCATGTGAATTAGGTATAATTTAGATGTTATAAGTGTACAA
1 TTTGGTTATGTGTATGTATCTTAAGCATGTGAATTAGGTATAATTTAGATGTTATAAGTGTACAA
35723066 TATGGTTCAAGTTGTTATGGTCA
66 TATGGTTCAAGTTGTTATGGTCA
35723089 T
1 T
35723090 ATGCGCACAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.44
Consensus pattern (88 bp):
TTTGGTTATGTGTATGTATCTTAAGCATGTGAATTAGGTATAATTTAGATGTTATAAGTGTACAA
TATGGTTCAAGTTGTTATGGTCA
Found at i:35729285 original size:20 final size:20
Alignment explanation
Indices: 35729260--35729303 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
35729250 CTATCAAAGC
35729260 ATTTAGAGAATATTTTTTAT
1 ATTTAGAGAATATTTTTTAT
35729280 ATTTAGAGAATATTTTTTAT
1 ATTTAGAGAATATTTTTTAT
35729300 ATTT
1 ATTT
35729304 TCTAAACTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
ATTTAGAGAATATTTTTTAT
Found at i:35737287 original size:39 final size:40
Alignment explanation
Indices: 35737244--35737379 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
35737234 CTATAGGTCA
* *
35737244 AGCATTAGCAGCGCTTTTTG-AAAATGCCGCTATAAATCG
1 AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
* *
35737283 AGCATTAGCGGCCCTTTTTGAAAAACGCCGCTATAGATC-
1 AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
* * * *
35737322 ATGTATTAGCGACG-TTTCTCGAAAAACGCCGCAAT-AATCG
1 A-GCATTAGCGGCGCTTT-TTGAAAAACGCCGCTATAAATCG
35737362 AGCATTAGCGGCGCTTTT
1 AGCATTAGCGGCGCTTTT
35737380 CAGAAAACAC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
39 36 0.45
40 44 0.55
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAAATCG
Found at i:35737317 original size:79 final size:79
Alignment explanation
Indices: 35737234--35737379 Score: 181
Period size: 79 Copynumber: 1.8 Consensus size: 79
35737224 ACAAAAGTCA
* * * *
35737234 CTATAGGTCAAGCATTAGC-AGCGCTTT-TTG-AAAATGCCGCTATAAATCGAGCATTAGCGGCC
1 CTATAGATCAAGCATTAGCGA-CG-TTTCTCGAAAAACGCCGCAAT-AATCGAGCATTAGCGGCC
35737296 CTTTTTGAAAAACGCCG
63 CTTTTTGAAAAACGCCG
* * *
35737313 CTATAGATCATGTATTAGCGACGTTTCTCGAAAAACGCCGCAATAATCGAGCATTAGCGGCGCTT
1 CTATAGATCAAGCATTAGCGACGTTTCTCGAAAAACGCCGCAATAATCGAGCATTAGCGGCCCTT
35737378 TT
66 TT
35737380 CAGAAAACAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.05
79 42 0.74
80 12 0.21
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (79 bp):
CTATAGATCAAGCATTAGCGACGTTTCTCGAAAAACGCCGCAATAATCGAGCATTAGCGGCCCTT
TTTGAAAAACGCCG
Found at i:35737386 original size:40 final size:38
Alignment explanation
Indices: 35737244--35737394 Score: 135
Period size: 39 Copynumber: 3.8 Consensus size: 38
35737234 CTATAGGTCA
* * *
35737244 AGCATTAGCAGCGCTTTTTGAAAATGCCGCTATAAATCG
1 AGCATTAGCGGCGCTTTTTGAAAACGCCGCAAT-AATCG
* *
35737283 AGCATTAGCGGCCCTTTTTGAAAAACGCCGCTATAGATC-
1 AGCATTAGCGGCGCTTTTTG-AAAACGCCGCAATA-ATCG
* * *
35737322 ATGTATTAGCGACG-TTTCTCGAAAAACGCCGCAATAATCG
1 A-GCATTAGCGGCGCTTT-TTG-AAAACGCCGCAATAATCG
* *
35737362 AGCATTAGCGGCGCTTTTCAGAAAACACCGCAA
1 AGCATTAGCGGCGCTTTT-TGAAAACGCCGCAA
35737395 AAAATTTAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 48 0.52
40 45 0.48
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (38 bp):
AGCATTAGCGGCGCTTTTTGAAAACGCCGCAATAATCG
Found at i:35737626 original size:196 final size:196
Alignment explanation
Indices: 35737361--35737713 Score: 487
Period size: 196 Copynumber: 1.8 Consensus size: 196
35737351 CGCAATAATC
* * * *
35737361 GAGCATTAGCGGCGCTTTTCAGAAAACACCGCAAAAAATTTAAGCAAAACACGTCGTTTGTTGTT
1 GAGCATTAGCGACACTTTTCAGAAAACACCACAAAAAAATTAAGCAAAACACGTCGTTTGTTGTT
* * * *
35737426 GAGCTTTAGTGGCATTAGCGGCACTTTTAAAAAAATGCCGCAATAGATCGAGCATTA-CGACGCT
66 GAGCTTTAGTGGCATTAGCGGCACTTTTAAAAAAACGCCACAATAGATCGAGAATTAGCGACACT
*
35737490 T-TTAAAAAATGCCGCAATAGATTGAGAATTTGCTGTGCTTTGTCAAAAAAACACGTCTATAGAT
131 TGTTAAAAAACGCCGCAATAGATTGAGAATTTGCTGTGCTTTGTCAAAAAAACACGTCTATAGAT
35737554 T
196 T
* *
35737555 GAGCATTAGCGACACTTTTCAGAAAA-ATGCCACAAAAAAATTGAGCAAAACAATGTCGTTTGTT
1 GAGCATTAGCGACACTTTTCAGAAAACA--CCACAAAAAAATTAAGCAAAAC-ACGTCGTTTGTT
* * * ** *
35737619 TTTGAGCTTTAGTTGCATTAGCGGCGCTTTTGTAAAAACGCCACAATAGATCGAGAATTAGCGGC
63 GTTGAGCTTTAGTGGCATTAGCGGCACTTTTAAAAAAACGCCACAATAGATCGAGAATTAGCGAC
* *
35737684 ACTTGTTGAAAAACGCCGCTATAGATTGAG
128 ACTTGTTAAAAAACGCCGCAATAGATTGAG
35737714 CATTAGCGGC
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
193 1 0.01
194 24 0.18
195 19 0.14
196 63 0.47
197 6 0.04
198 22 0.16
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (196 bp):
GAGCATTAGCGACACTTTTCAGAAAACACCACAAAAAAATTAAGCAAAACACGTCGTTTGTTGTT
GAGCTTTAGTGGCATTAGCGGCACTTTTAAAAAAACGCCACAATAGATCGAGAATTAGCGACACT
TGTTAAAAAACGCCGCAATAGATTGAGAATTTGCTGTGCTTTGTCAAAAAAACACGTCTATAGAT
T
Found at i:35737696 original size:40 final size:40
Alignment explanation
Indices: 35737635--35737729 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
35737625 CTTTAGTTGC
*
35737635 ATTAGCGGCGCTTTTGTAAAAACGCCACAATAGATCGAGA
1 ATTAGCGGCACTTTTGTAAAAACGCCACAATAGATCGAGA
* * * *
35737675 ATTAGCGGCACTTGTTG-AAAAACGCCGCTATAGATTGAGC
1 ATTAGCGGCACTT-TTGTAAAAACGCCACAATAGATCGAGA
*
35737715 ATTAGCGGCGCTTTT
1 ATTAGCGGCACTTTT
35737730 CGCAAAATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.04
40 43 0.90
41 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (40 bp):
ATTAGCGGCACTTTTGTAAAAACGCCACAATAGATCGAGA
Found at i:35737830 original size:7 final size:7
Alignment explanation
Indices: 35737815--35737875 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
35737805 TTCATTTTAT
35737815 TTTAAGG
1 TTTAAGG
*
35737822 TTTAGGG
1 TTTAAGG
**
35737829 TTTAATA
1 TTTAAGG
35737836 TTTAAGG
1 TTTAAGG
*
35737843 TTTAATG
1 TTTAAGG
* *
35737850 TCTATGG
1 TTTAAGG
35737857 TTTAAGG
1 TTTAAGG
35737864 TTTTAAGG
1 -TTTAAGG
35737872 TTTA
1 TTTA
35737876 TGATATAATG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 34 0.83
8 7 0.17
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:35738056 original size:21 final size:22
Alignment explanation
Indices: 35738030--35738084 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
35738020 AACAGCAGTG
35738030 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
35738051 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
35738072 GCAGTGAGATTAG
1 GCGGTGAGATTAG
35738085 AAACAGCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:35738275 original size:18 final size:17
Alignment explanation
Indices: 35738248--35738364 Score: 68
Period size: 18 Copynumber: 7.0 Consensus size: 17
35738238 TTATTATTAA
35738248 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
35738265 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
* *
35738283 -TATAATAT-ATAATATT
1 ATATAATTTAATAA-AAT
* *
35738299 ATAAAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
35738318 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
*
35738330 ATATAATTTAACAAAAAT
1 ATATAATTTAA-TAAAAT
35738348 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35738365 TCTTAGTATT
Statistics
Matches: 74, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.07
14 3 0.04
15 4 0.05
16 7 0.09
17 22 0.30
18 26 0.35
19 3 0.04
20 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35738362 original size:59 final size:58
Alignment explanation
Indices: 35738286--35738484 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 58
35738276 CTAAAATTAT
35738286 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAATATTATAAAATATAATTT-AAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
35738345 AATATATAAT-TTAATAAAATTCTTAGTATTAAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATATT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
35738406 AATATATAATACTATAAAATATAATTTTAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAATATTATAAAATATAA-TTTAAATAATTATTATTAAATATAATTTAACAAA
35738465 AATATATAAT-TTAATAAAAT
1 AATATATAATATT-ATAAAAT
35738485 TCTTAGTATT
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 4 0.04
59 51 0.47
60 17 0.16
61 33 0.30
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
AATATATAATATTATAAAATATAATTTAAATAATTATTATTAAATATAATTTAACAAA
Found at i:35738400 original size:120 final size:120
Alignment explanation
Indices: 35738264--35738506 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
35738254 TTTAATAAAA
* *
35738264 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
35738329 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
35738384 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
35738449 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
35738504 TAT
1 TAT
35738507 GATTGTATCA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:35738413 original size:61 final size:60
Alignment explanation
Indices: 35738314--35738506 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 60
35738304 ATATAATTTA
* **
35738314 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
* * * * * * * *
35738375 AAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATAATTTT
1 AAATATTCTTAT-TAAATATAATAAAA-CAAAAATATATAAT-TTAATAAAATTCTTAGTATT
* **
35738434 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
35738495 AAATATTCTTAT
1 AAATATTCTTAT
35738507 GATTGTATCA
Statistics
Matches: 101, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
58 2 0.02
59 35 0.35
60 23 0.23
61 39 0.39
62 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AAATATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
Found at i:35741611 original size:18 final size:18
Alignment explanation
Indices: 35741588--35741623 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35741578 TTTGCAAACC
*
35741588 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGAAAAGGG
35741606 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
35741624 GAGAAGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGAAAAGGG
Found at i:35741808 original size:15 final size:15
Alignment explanation
Indices: 35741790--35741820 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35741780 GACTGCTTCT
35741790 CACCGCACTGGCATG
1 CACCGCACTGGCATG
35741805 CACCGCACTGGCATG
1 CACCGCACTGGCATG
35741820 C
1 C
35741821 TAAACCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CACCGCACTGGCATG
Found at i:35742184 original size:28 final size:27
Alignment explanation
Indices: 35742153--35742205 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
35742143 GAGATTTATG
35742153 GTTTAATATTTATGCTTTAGGGTTTAAA
1 GTTTAATATTTATGCTTT-GGGTTTAAA
* *
35742181 GTTTAGTGTTTATGCTTTGGGTTTA
1 GTTTAATATTTATGCTTTGGGTTTA
35742206 CTTATGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.53
Consensus pattern (27 bp):
GTTTAATATTTATGCTTTGGGTTTAAA
Found at i:35745725 original size:43 final size:43
Alignment explanation
Indices: 35745678--35745784 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
35745668 AAAAGCGCCA
35745678 CTAAAGATCATGTTCTTTAGCGGCGTTTGTGAAAAAAAAGTCG
1 CTAAAGATCATGTTCTTTAGCGGCGTTTGTGAAAAAAAAGTCG
* * * **
35745721 CTAAA-AGTCAT-TCTCTATAGCGGTGTTTGTGATAAAAGCGTCG
1 CTAAAGA-TCATGT-TCTTTAGCGGCGTTTGTGAAAAAAAAGTCG
* *
35745764 TTAAAGGTCATGTTCTTTAGC
1 CTAAAGATCATGTTCTTTAGC
35745785 AATATTTGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.04
43 49 0.94
44 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
CTAAAGATCATGTTCTTTAGCGGCGTTTGTGAAAAAAAAGTCG
Found at i:35747883 original size:3 final size:3
Alignment explanation
Indices: 35747875--35747919 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
35747865 ATAGAAAAGA
35747875 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35747920 GGATAAGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35748881 original size:36 final size:36
Alignment explanation
Indices: 35748809--35748883 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
35748799 TTAATGTAAT
* * **
35748809 TGTTAATTTAATTGAATGAAAGTTTATGGATGTATA
1 TGTTAATTCAATTGAATGAAAGTTTATAGAAATATA
* *
35748845 TGTTAATTCAATTGAATGGAATTTTATAGAAATATA
1 TGTTAATTCAATTGAATGAAAGTTTATAGAAATATA
35748881 TGT
1 TGT
35748884 ATTTAGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.44
Consensus pattern (36 bp):
TGTTAATTCAATTGAATGAAAGTTTATAGAAATATA
Found at i:35749082 original size:70 final size:70
Alignment explanation
Indices: 35748976--35749110 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 70
35748966 TAGTGCTGGG
* * *
35748976 CACAACTATCGTCAGATATCCAACTAGCGCTAGGCGCAATAATTTGTTGACTCGTTCAACTAGTG
1 CACAACTATCGTCAGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTG
35749041 TCGGA
66 TCGGA
* *** * * *
35749046 CACAACTATCGTCAGTTATTTGACTAACGTTTGGCGCAATAACTTGTCGACTCGTTCGACTAGTG
1 CACAACTATCGTCAGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTG
35749111 CTGGGCACAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (70 bp):
CACAACTATCGTCAGATATCCAACTAACGCTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTG
TCGGA
Found at i:35749158 original size:76 final size:70
Alignment explanation
Indices: 35748998--35749165 Score: 176
Period size: 70 Copynumber: 2.3 Consensus size: 70
35748988 CAGATATCCA
* * * *
35748998 ACTAGCGCTAGGCGCAATAATTTGTTGACTCGTTCAACTAGTGTCGGACACAACTATCGTCAGTT
1 ACTAGCGTTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTGTCGGACACAAATATCGTCAGTT
**
35749063 ATTTG
66 AAATG
* * * *
35749068 ACTAACGTTTGGCGCAATAACTTGTCGACTCGTTCGACTAGTGCTGGGCACACAAATGATCTTGT
1 ACTAGCGTTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTG-TCGG-ACACAAAT-ATC--GT
35749133 CGAGTTAAATG
61 C-AGTTAAATG
*
35749144 ACTAGCGTTGGGCGCAA-AACTT
1 ACTAGCGTTAGGCGCAATAACTT
35749166 TATTCACAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
70 37 0.46
71 3 0.04
72 7 0.09
73 3 0.04
75 8 0.10
76 22 0.28
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (70 bp):
ACTAGCGTTAGGCGCAATAACTTGTCGACTCGTTCAACTAGTGTCGGACACAAATATCGTCAGTT
AAATG
Found at i:35751157 original size:9 final size:9
Alignment explanation
Indices: 35751143--35751183 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
35751133 AACAAAAATA
35751143 TTGAGAGAG
1 TTGAGAGAG
35751152 TTGAGAGAG
1 TTGAGAGAG
*
35751161 TTTGAAAGAG
1 -TTGAGAGAG
*
35751171 CTGAGAGAG
1 TTGAGAGAG
35751180 TTGA
1 TTGA
35751184 AAGAAAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.24
Consensus pattern (9 bp):
TTGAGAGAG
Found at i:35751170 original size:19 final size:18
Alignment explanation
Indices: 35751143--35751187 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
35751133 AACAAAAATA
* *
35751143 TTGAGAGAGTTGAGAGAG
1 TTGAAAGAGCTGAGAGAG
35751161 TTTGAAAGAGCTGAGAGAG
1 -TTGAAAGAGCTGAGAGAG
35751180 TTGAAAGA
1 TTGAAAGA
35751188 AAGATACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.22
Consensus pattern (18 bp):
TTGAAAGAGCTGAGAGAG
Found at i:35754339 original size:5 final size:5
Alignment explanation
Indices: 35754329--35754353 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35754319 GTTGGTTGTG
35754329 ATCAT ATCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
35754354 CATTTTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATCAT
Found at i:35760329 original size:16 final size:17
Alignment explanation
Indices: 35760295--35760329 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35760285 AATAAATATA
*
35760295 TTATTTTTAATCTTTTC
1 TTATTTTTAATCTTATC
35760312 TTATTTTTAAT-TTATC
1 TTATTTTTAATCTTATC
35760328 TT
1 TT
35760330 TAATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTAATCTTATC
Found at i:35764226 original size:30 final size:32
Alignment explanation
Indices: 35764190--35764267 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 32
35764180 TATGGAAATA
* *
35764190 AAAAATATATGTGTACATATA-CAT-AGTTAT
1 AAAAATATATGTATACATATAGCATGAATTAT
* * *
35764220 AAAAATATGTGTATATATATAGTTATGAATTAT
1 AAAAATATATGTATACATATAG-CATGAATTAT
35764253 AAAAATATATGTATA
1 AAAAATATATGTATA
35764268 TATGTAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 18 0.46
32 2 0.05
33 19 0.49
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (32 bp):
AAAAATATATGTATACATATAGCATGAATTAT
Found at i:35764231 original size:28 final size:27
Alignment explanation
Indices: 35764191--35764245 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
35764181 ATGGAAATAA
35764191 AAAATATATGTGTACATATACATAGTTAT
1 AAAATATATGTGT--ATATACATAGTTAT
*
35764220 AAAA-ATATGTGTATATATATAGTTAT
1 AAAATATATGTGTATATACATAGTTAT
35764246 GAATTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 13 0.52
28 8 0.32
29 4 0.16
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAATATATGTGTATATACATAGTTAT
Found at i:35764352 original size:23 final size:23
Alignment explanation
Indices: 35764317--35764373 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
35764307 TATATATATT
*
35764317 ATATAATATATGTACATATAAAAA
1 ATAT-ATATATGTACACATAAAAA
**
35764341 ATATATATATGTATGCATAAAAA
1 ATATATATATGTACACATAAAAA
*
35764364 ATATGTATAT
1 ATATATATAT
35764374 ATATAGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (23 bp):
ATATATATATGTACACATAAAAA
Found at i:35766452 original size:252 final size:252
Alignment explanation
Indices: 35766007--35766528 Score: 796
Period size: 252 Copynumber: 2.1 Consensus size: 252
35765997 ACTGCAACTA
* **
35766007 CTCCACTGCAA-CTTCAGGGAAATAAGGTTTGTGGTTTTACTCTGCTCTATGGTTCAACCTACTC
1 CTCCACTG-AATCTTCAGGGAAATAAGGTTTGTGGTTTTAATCTGCTCTATACTTCAACCTACTC
*
35766071 CGCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAATCGCTATCTACTACCCGCTCCACTA
65 CGCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTACCCGCTCCACTA
* * * * *
35766136 CAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCATTGTATCTTTAGGGAAATAAGAC
130 CAACTTTAGGGAGACACAAATTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGAC
* * *
35766201 TTATATCTTCAACCTGCTCCACTACAGCTTTAGGGAAATAAGATTCGCAGTCGATCTG
195 TTATATCTTCAACCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCAGCCGATCTG
* **
35766259 CTCCACTGAATCTTTAGGGAGGTAAGGTTTGTGGTTTTAATCTGC-CTCATACTTCAACCTACTC
1 CTCCACTGAATCTTCAGGGAAATAAGGTTTGTGGTTTTAATCTGCTCT-ATACTTCAACCTACTC
* ** *
35766323 CGCTGTAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTGTCTGCTCCACTA
65 CGCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTACCCGCTCCACTA
35766388 CAACTTTAGGGAGACACAAATTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGAC
130 CAACTTTAGGGAGACACAAATTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGAC
* * * *
35766453 TTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAAATAGGATTCGTAGCCGATCTG
195 TTATATCTTCAACCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCAGCCGATCTG
*
35766511 CTCCACTGCATCTTCAGG
1 CTCCACTGAATCTTCAGG
35766529 AAGATACGAT
Statistics
Matches: 243, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
251 4 0.02
252 239 0.98
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (252 bp):
CTCCACTGAATCTTCAGGGAAATAAGGTTTGTGGTTTTAATCTGCTCTATACTTCAACCTACTCC
GCTGCAACTTCAGGGAAATAAGATTCGACATGATAAGAACCGCTATCTACTACCCGCTCCACTAC
AACTTTAGGGAGACACAAATTGTTGTTTTCAGTCTACTCCACTGCATCTTCAGGGAAATAAGACT
TATATCTTCAACCTGCTCCACTACAACTTCAGGGAAATAAGATTCGCAGCCGATCTG
Found at i:35766526 original size:42 final size:43
Alignment explanation
Indices: 35766425--35766528 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
35766415 TTTCAGTCTA
*
35766425 CTCCACTGCATCTTCAGGGAAATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCATCTTCAGGGAAATAAGACTTGTAGC-TCAACCTG
* * * *
35766469 CTCCACTGCAACTTCAGGGAAATAGGA-TTCGTAGC-CGATCTG
1 CTCCACTGCATCTTCAGGGAAATAAGACTT-GTAGCTCAACCTG
35766511 CTCCACTGCATCTTCAGG
1 CTCCACTGCATCTTCAGG
35766529 AAGATACGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 22 0.42
43 2 0.04
44 29 0.55
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (43 bp):
CTCCACTGCATCTTCAGGGAAATAAGACTTGTAGCTCAACCTG
Found at i:35776990 original size:360 final size:360
Alignment explanation
Indices: 35776322--35777041 Score: 1341
Period size: 360 Copynumber: 2.0 Consensus size: 360
35776312 AGTGACTGTT
*
35776322 TCATCAATGTACCCCAGCGCTCTAGGAAAAATCATTAGCCCATAAATGCTCAAAGCAAAAACATC
1 TCATCAATGTACCCCAGCGCTCTAGGAAAAATCATTAGCCCATAAATGCTCAAAGAAAAAACATC
35776387 GACCCTCTTCTTAGTATCAGGATGTACTAAAATCAAATCAGACTCTTCCAAGGGATACATTTGTT
66 GACCCTCTTCTTAGTATCAGGATGTACTAAAATCAAATCAGACTCTTCCAAGGGATACATTTGTT
*
35776452 ATCTCCATTTTGTTTGACCCACGCTGAGACCCATTGCTCACTCATTGCTAAGATATTCATTAACT
131 ATCTCCATTTTGTTTGACCCACGCTGAGACCCATTGCTCACTCATTACTAAGATATTCATTAACT
*
35776517 TTTTTATAAAAGTCGGGATGTTGACGGCTTTAGAATAGACCTTATCTACTTGAATCCTCAGGCAA
196 TTTTTACAAAAGTCGGGATGTTGACGGCTTTAGAATAGACCTTATCTACTTGAATCCTCAGGCAA
35776582 CGTAGCAGAGCCGTATATTCCTCTATAGTAGGTACCAAGTCAACCTCCCCAAAAGTGAAGCAGCT
261 CGTAGCAGAGCCGTATATTCCTCTATAGTAGGTACCAAGTCAACCTCCCCAAAAGTGAAGCAGCT
* *
35776647 ATAAGCAGAATTCCAAAACTGGGCTAGAGCTCGAA
326 ATAAGCAGAATTCCAAAACTAGGCCAGAGCTCGAA
35776682 TCATCAATGTACCCCAGCGCTCTAGGAAAAATCATTAGCCCATAAATGCTCAAAGAAAAAACATC
1 TCATCAATGTACCCCAGCGCTCTAGGAAAAATCATTAGCCCATAAATGCTCAAAGAAAAAACATC
*
35776747 GACCCTTTTCTTAGTATCAGGATGTACTAAAATCAAATCAGACTCTTCCAAGGGATACATTTGTT
66 GACCCTCTTCTTAGTATCAGGATGTACTAAAATCAAATCAGACTCTTCCAAGGGATACATTTGTT
* *
35776812 ATCTCCATTTTGTTTGACCCGCGCTGAGACCCATTGTTCACTCATTACTAAGATATTCATTAACT
131 ATCTCCATTTTGTTTGACCCACGCTGAGACCCATTGCTCACTCATTACTAAGATATTCATTAACT
*
35776877 TTTTTACAAAAGTCGGGATGTTGACGGCTTTAGAATAGACCTTATCTACTTGAATCCTCGGGCAA
196 TTTTTACAAAAGTCGGGATGTTGACGGCTTTAGAATAGACCTTATCTACTTGAATCCTCAGGCAA
* *
35776942 TGTAGCAGAGCCGTATATTCCTCTATAGTAGGTACCAAGTCTACCTCCCCAAAAGTGAAGCAGCT
261 CGTAGCAGAGCCGTATATTCCTCTATAGTAGGTACCAAGTCAACCTCCCCAAAAGTGAAGCAGCT
35777007 ATAAGCAGAATTCCAAAACTAGGCCAGAGCTCGAA
326 ATAAGCAGAATTCCAAAACTAGGCCAGAGCTCGAA
35777042 ACAAATGCTC
Statistics
Matches: 349, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
360 349 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (360 bp):
TCATCAATGTACCCCAGCGCTCTAGGAAAAATCATTAGCCCATAAATGCTCAAAGAAAAAACATC
GACCCTCTTCTTAGTATCAGGATGTACTAAAATCAAATCAGACTCTTCCAAGGGATACATTTGTT
ATCTCCATTTTGTTTGACCCACGCTGAGACCCATTGCTCACTCATTACTAAGATATTCATTAACT
TTTTTACAAAAGTCGGGATGTTGACGGCTTTAGAATAGACCTTATCTACTTGAATCCTCAGGCAA
CGTAGCAGAGCCGTATATTCCTCTATAGTAGGTACCAAGTCAACCTCCCCAAAAGTGAAGCAGCT
ATAAGCAGAATTCCAAAACTAGGCCAGAGCTCGAA
Found at i:35777390 original size:16 final size:16
Alignment explanation
Indices: 35777357--35777391 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35777347 TTTTATAATG
* *
35777357 AAATGCCATGTAGTCA
1 AAATGCCATGCAGCCA
35777373 AAATGCCATGCAGCCA
1 AAATGCCATGCAGCCA
35777389 AAA
1 AAA
35777392 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:35779035 original size:20 final size:20
Alignment explanation
Indices: 35779010--35779048 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35779000 GACGATAAAT
35779010 AAAATAAAT-AAAACTATATA
1 AAAATAAATGAAAA-TATATA
*
35779030 AAAATATATGAAAATATAT
1 AAAATAAATGAAAATATAT
35779049 GTATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATAAATGAAAATATATA
Found at i:35779127 original size:28 final size:29
Alignment explanation
Indices: 35779079--35779136 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
35779069 TATGAAAATA
35779079 AAAAATATATGTGTACATATACATAGTTAT
1 AAAAATATATGTGTA-ATATACATAGTTAT
*
35779109 AAAAATATATGTGT-ATATATATAGTTAT
1 AAAAATATATGTGTAATATACATAGTTAT
35779137 GAATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 13 0.48
30 14 0.52
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (29 bp):
AAAAATATATGTGTAATATACATAGTTAT
Found at i:35781402 original size:19 final size:19
Alignment explanation
Indices: 35781364--35781402 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35781354 TTTTTTTTTA
* * *
35781364 TTTTTAAAATTAACATATT
1 TTTTTAAAATAAAAAAATT
35781383 TTTTTAAAATAAAAAAATT
1 TTTTTAAAATAAAAAAATT
35781402 T
1 T
35781403 AAAAATTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTAAAATAAAAAAATT
Found at i:35802187 original size:16 final size:15
Alignment explanation
Indices: 35802140--35802209 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
35802130 AAATAAAAAC
*
35802140 ATAAAAAGTTTTAAA
1 ATAAAAAATTTTAAA
* *
35802155 ATTATAATATTTTAAA
1 A-TAAAAAATTTTAAA
35802171 ATAAAAAATTTTGAAA
1 ATAAAAAATTTT-AAA
***
35802187 A-ATAATTTTTTTAAA
1 ATA-AAAAATTTTAAA
35802202 ATAAAAAA
1 ATAAAAAA
35802210 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
15 17 0.43
16 23 0.57
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAAAAATTTTAAA
Found at i:35802218 original size:30 final size:31
Alignment explanation
Indices: 35802164--35802225 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
35802154 AATTATAATA
** *
35802164 TTTTAAAATAAAAAATTTTGAAAAATAATTT
1 TTTTAAAATAAAAAATAATAAAAAATAATTT
*
35802195 TTTTAAAATAAAAAA-AATAAAAAATGATTT
1 TTTTAAAATAAAAAATAATAAAAAATAATTT
35802225 T
1 T
35802226 AAAAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTTAAAATAAAAAATAATAAAAAATAATTT
Found at i:35803993 original size:30 final size:32
Alignment explanation
Indices: 35803933--35803996 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
35803923 CACTTATTTT
35803933 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
35803966 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
35803997 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:35804254 original size:41 final size:41
Alignment explanation
Indices: 35804209--35804364 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
35804199 ACCGGCTCTT
*
35804209 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
35804250 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
35804291 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
35804332 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
35804365 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:35805914 original size:13 final size:13
Alignment explanation
Indices: 35805896--35805920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35805886 CCATCGAATG
35805896 CACACAAAATAAA
1 CACACAAAATAAA
35805909 CACACAAAATAA
1 CACACAAAATAA
35805921 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:35811571 original size:30 final size:32
Alignment explanation
Indices: 35811511--35811574 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
35811501 CACTTATTTT
35811511 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
35811544 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
35811575 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:35811834 original size:41 final size:41
Alignment explanation
Indices: 35811789--35811944 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
35811779 ACCGGCTCTT
*
35811789 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
35811830 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
35811871 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
35811912 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
35811945 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:35813495 original size:13 final size:13
Alignment explanation
Indices: 35813477--35813501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35813467 CCATCGAATG
35813477 CACACAAAATAAA
1 CACACAAAATAAA
35813490 CACACAAAATAA
1 CACACAAAATAA
35813502 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:35824273 original size:44 final size:44
Alignment explanation
Indices: 35824168--35824273 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
35824158 TGCCTTCAGC
* * *
35824168 CTGCCATTTTGGCTTGCACCCACTCAAGCTTACATTTAGACCGT
1 CTGCCACTTCGGCTTGCACACACTCAAGCTTACATTTAGACCGT
* * * * * * * *
35824212 CCGCCACTTCAGTTTGCACACATTCAGGTTTGCATTTAGACTGT
1 CTGCCACTTCGGCTTGCACACACTCAAGCTTACATTTAGACCGT
35824256 CTGCCACTTCGGCTTGCA
1 CTGCCACTTCGGCTTGCA
35824274 ATTCGACAGG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (44 bp):
CTGCCACTTCGGCTTGCACACACTCAAGCTTACATTTAGACCGT
Found at i:35824485 original size:18 final size:18
Alignment explanation
Indices: 35824449--35824488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35824439 ACTATACAAG
**
35824449 GCTCGCACCTTTTGATGA
1 GCTCGCACCACTTGATGA
*
35824467 GCTCGCACCACTTGCTGA
1 GCTCGCACCACTTGATGA
35824485 GCTC
1 GCTC
35824489 ATAGCTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTCGCACCACTTGATGA
Found at i:35824537 original size:25 final size:25
Alignment explanation
Indices: 35824477--35824551 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
35824467 GCTCGCACCA
* *
35824477 CTTGCTGAGCTCATAGCTTGCACTT
1 CTTGCTGAGCTCACAGCTTGCACAT
* * *
35824502 CTCGCTAAGCTCGCAGCTTTG-ACAT
1 CTTGCTGAGCTCACAGC-TTGCACAT
** *
35824527 CTTGCTGAGCTTGCAACTTGCACAT
1 CTTGCTGAGCTCACAGCTTGCACAT
35824552 TGTAAAGCTC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 3 0.08
25 33 0.85
26 3 0.08
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
CTTGCTGAGCTCACAGCTTGCACAT
Found at i:35833169 original size:17 final size:17
Alignment explanation
Indices: 35833147--35833187 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
35833137 CTAAATCTGC
* *
35833147 TTTGGGCTTCTGTTTGG
1 TTTGGGCTTCAGTTGGG
35833164 TTTGGGCTTCAGTTGGG
1 TTTGGGCTTCAGTTGGG
35833181 TTTGGGC
1 TTTGGGC
35833188 CACATAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.02, C:0.12, G:0.39, T:0.46
Consensus pattern (17 bp):
TTTGGGCTTCAGTTGGG
Found at i:35838610 original size:3 final size:3
Alignment explanation
Indices: 35838604--35838659 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
35838594 CTCGTCGTCG
* * * *
35838604 TCA TCA TCG TCA TCA TCA TCA TCA TCT TGA TCA TCA TCA -GA GTCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA -TCA
35838649 TCA TCA TCA TC
1 TCA TCA TCA TC
35838660 TTTACCCTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:35844893 original size:79 final size:79
Alignment explanation
Indices: 35844790--35845001 Score: 336
Period size: 79 Copynumber: 2.7 Consensus size: 79
35844780 GCTACTCGTT
*
35844790 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTT-GGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
35844854 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
*
35844870 CAAATGCCTTGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
35844935 TTTAGTAACTTGCA
66 TTTAGTAACTCGCA
* * *
35844949 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTCGG
1 CAAATGCCTTGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
35845002 ATCTTAGTCC
Statistics
Matches: 123, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 76 0.62
80 47 0.38
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:35844982 original size:119 final size:120
Alignment explanation
Indices: 35844757--35845007 Score: 334
Period size: 119 Copynumber: 2.1 Consensus size: 120
35844747 AAATCACGTA
* ** *
35844757 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGTTAT
35844819 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
64 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* *
35844876 CCTTGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TA
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG-TTATA
* ** *
35844939 GTAACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACAAATG
65 GTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATG
35844995 CCTTCGGATCTTA
1 CCTTCGGATCTTA
35845008 GTCCGGATAT
Statistics
Matches: 115, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
118 9 0.08
119 100 0.87
120 6 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (120 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAG
TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:35845015 original size:40 final size:40
Alignment explanation
Indices: 35844790--35845001 Score: 331
Period size: 40 Copynumber: 5.3 Consensus size: 40
35844780 GCTACTCGTT
* *
35844790 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35844830 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35844870 CAAATGCCTT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
35844909 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
35844949 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
35844989 CAAATGCCTTCGG
1 CAAATGCCTTCGG
35845002 ATCTTAGTCC
Statistics
Matches: 161, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 42 0.26
40 116 0.72
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35852923 original size:40 final size:40
Alignment explanation
Indices: 35852886--35853151 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
35852876 GCTACTCGTT
* *
35852886 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35852926 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
35852966 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35853006 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
35853046 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
35853086 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
35853127 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35853152 CATCATTCAA
Statistics
Matches: 209, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.01
40 192 0.92
41 14 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35856444 original size:24 final size:27
Alignment explanation
Indices: 35856411--35856466 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
35856401 GCAACTCTTA
*
35856411 TGAGCGTT-CCG-TATATGGCTCTTTG
1 TGAGCGTTCCCGATATAAGGCTCTTTG
*
35856436 TGAGC-TTCCCGATTTAAGGCTCTTTG
1 TGAGCGTTCCCGATATAAGGCTCTTTG
35856462 TGAGC
1 TGAGC
35856467 ATCCAGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 8 0.30
26 17 0.63
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (27 bp):
TGAGCGTTCCCGATATAAGGCTCTTTG
Found at i:35861613 original size:22 final size:22
Alignment explanation
Indices: 35861587--35861633 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
35861577 TTTAGGTAAG
*
35861587 AAAA-TAGGTGTTTTAAAGGGTT
1 AAAATTAGGTGTATT-AAGGGTT
*
35861609 AAAATTGGGTGTATTAAGGGTT
1 AAAATTAGGTGTATTAAGGGTT
35861631 AAA
1 AAA
35861634 CCACCGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (22 bp):
AAAATTAGGTGTATTAAGGGTT
Found at i:35862957 original size:31 final size:31
Alignment explanation
Indices: 35862868--35862961 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
35862858 AGATAATTTT
* *
35862868 AAAGAGTTTTATTAGGATTCAATTACCCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
35862899 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
35862931 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
35862962 TAATTTGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:35863284 original size:12 final size:11
Alignment explanation
Indices: 35863265--35863294 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
35863255 TCTATCCTTT
35863265 TTATTTATTTA
1 TTATTTATTTA
35863276 TTCATTTATTTA
1 TT-ATTTATTTA
35863288 TTATTTA
1 TTATTTA
35863295 ACTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:35863531 original size:9 final size:9
Alignment explanation
Indices: 35863512--35863607 Score: 86
Period size: 9 Copynumber: 10.4 Consensus size: 9
35863502 TTCTTTAAAT
35863512 AAAAA-CAA
1 AAAAAGCAA
*
35863520 AAACAGCAA
1 AAAAAGCAA
*
35863529 AAACAGCAA
1 AAAAAGCAA
*
35863538 AAAAAACAA
1 AAAAAGCAA
35863547 AAAAAGCGCAA
1 AAAAA--GCAA
*
35863558 AAAAGAGTAA
1 AAAA-AGCAA
**
35863568 AAAGCGCAA
1 AAAAAGCAA
*
35863577 AAAAAACAA
1 AAAAAGCAA
35863586 AAAAAGCAA
1 AAAAAGCAA
*
35863595 AAAACGCAA
1 AAAAAGCAA
35863604 AAAA
1 AAAA
35863608 GAGAGAGTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
8 4 0.06
9 53 0.75
10 6 0.08
11 7 0.10
12 1 0.01
ACGTcount: A:0.74, C:0.15, G:0.10, T:0.01
Consensus pattern (9 bp):
AAAAAGCAA
Found at i:35863570 original size:39 final size:39
Alignment explanation
Indices: 35863518--35863606 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
35863508 AAATAAAAAC
35863518 AAAAACAGCAAAAA-CAGCAAAAAAAACAAAAAAAGCGCA
1 AAAAACAGCAAAAAGC-GCAAAAAAAACAAAAAAAGCGCA
* *
35863557 AAAAAGAGTAAAAAGCGCAAAAAAAACAAAAAAA--GCA
1 AAAAACAGCAAAAAGCGCAAAAAAAACAAAAAAAGCGCA
35863594 AAAAAC-GCAAAAA
1 AAAAACAGCAAAAA
35863607 AGAGAGAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 6 0.13
37 8 0.18
39 30 0.67
40 1 0.02
ACGTcount: A:0.73, C:0.15, G:0.11, T:0.01
Consensus pattern (39 bp):
AAAAACAGCAAAAAGCGCAAAAAAAACAAAAAAAGCGCA
Found at i:35863615 original size:50 final size:48
Alignment explanation
Indices: 35863525--35863662 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 48
35863515 AACAAAAACA
* * * * **
35863525 GCAAAAACAGCAAAAAAAACAAAAAAAGCGCAAAAAAGAGTAAAAAGC
1 GCAAAAAAAACAAAAAAAGCAAAAAACGCAAAAAAAAGAGTAAAAAGC
35863573 GCAAAAAAAACAAAAAAAGCAAAAAACGCAAAAAAGAGAGAGTAAAAAGC
1 GCAAAAAAAACAAAAAAAGCAAAAAACGCAAAAAA-A-AGAGTAAAAAGC
*
35863623 GCAAAAAAAA-AGCAAAAAGCAAAAAAAGCGCAAAAAAAAG
1 GCAAAAAAAACA-AAAAAAGC-AAAAAA-CGCAAAAAAAAG
35863663 TTGCCTACCT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
48 29 0.37
49 2 0.03
50 31 0.40
51 7 0.09
52 9 0.12
ACGTcount: A:0.70, C:0.13, G:0.15, T:0.01
Consensus pattern (48 bp):
GCAAAAAAAACAAAAAAAGCAAAAAACGCAAAAAAAAGAGTAAAAAGC
Found at i:35866900 original size:31 final size:31
Alignment explanation
Indices: 35866811--35866904 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
35866801 AGATAATTTT
* *
35866811 AAAGAGTTTTATTAGGATTCAATTACCCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
35866842 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
35866874 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
35866905 TAATTTGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:35867228 original size:12 final size:11
Alignment explanation
Indices: 35867209--35867238 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
35867199 TCTATCCTTT
35867209 TTATTTATTTA
1 TTATTTATTTA
35867220 TTCATTTATTTA
1 TT-ATTTATTTA
35867232 TTATTTA
1 TTATTTA
35867239 ACTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:35878970 original size:31 final size:31
Alignment explanation
Indices: 35878935--35879014 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
35878925 ACAGTGAAAA
35878935 TGGGCCCACAAGCCCATGACATTTCCCCGTG
1 TGGGCCCACAAGCCCATGACATTTCCCCGTG
* *
35878966 TGGGCCCACATGCCCATGACATTTGCCCGTG
1 TGGGCCCACAAGCCCATGACATTTCCCCGTG
*
35878997 TGGGCCCACACGCCCATG
1 TGGGCCCACAAGCCCATG
35879015 TGGCTCACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.39, G:0.25, T:0.19
Consensus pattern (31 bp):
TGGGCCCACAAGCCCATGACATTTCCCCGTG
Found at i:35883001 original size:20 final size:18
Alignment explanation
Indices: 35882976--35883046 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 18
35882966 AAAACCCAAT
35882976 AAGTATCGATATTTTTAGA
1 AAGTATCGATATTTTTA-A
*
35882995 CAAGTATCAATTATTTTATAA
1 -AAGTATCGA-TATTTT-TAA
35883016 AAGTATCGATATTTTTAA
1 AAGTATCGATATTTTTAA
35883034 AATGGTATCGATA
1 AA--GTATCGATA
35883047 CCAAATTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 5 0.11
19 6 0.13
20 25 0.56
21 7 0.16
22 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (18 bp):
AAGTATCGATATTTTTAA
Found at i:35892681 original size:29 final size:30
Alignment explanation
Indices: 35892634--35892694 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
35892624 GTTTGACTAG
35892634 ATTATAATTAATCATTTTATTAAGATAAAT
1 ATTATAATTAATCATTTTATTAAGATAAAT
35892664 ATTA-AATTAATCATTTTATTAAGATAAAT
1 ATTATAATTAATCATTTTATTAAGATAAAT
35892693 AT
1 AT
35892695 CTAGATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
ATTATAATTAATCATTTTATTAAGATAAAT
Found at i:35892713 original size:29 final size:29
Alignment explanation
Indices: 35892652--35892769 Score: 82
Period size: 29 Copynumber: 4.1 Consensus size: 29
35892642 TAATCATTTT
* * **
35892652 ATTAAGATAAATAT-TAAATTAATCATTTT
1 ATTAAGATAAATATCTAGATAAAT-ATTAA
35892681 ATTAAGATAAATATCTAGATAAATATTAA
1 ATTAAGATAAATATCTAGATAAATATTAA
* * *
35892710 ATT---ACAAATATCTCATATTAATATTAA
1 ATTAAGATAAATATCT-AGATAAATATTAA
** *
35892737 ATTACTAAAATACTATCTAGATAAATATTAA
1 ATTAAGATAA-A-TATCTAGATAAATATTAA
35892768 AT
1 AT
35892770 GAAATTTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
26 9 0.12
27 14 0.19
29 20 0.28
30 10 0.14
31 14 0.19
32 5 0.07
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTAAGATAAATATCTAGATAAATATTAA
Found at i:35892736 original size:27 final size:26
Alignment explanation
Indices: 35892689--35892769 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 26
35892679 TTATTAAGAT
35892689 AAATATCTAGATAAATATTAAATTAC
1 AAATATCTAGATAAATATTAAATTAC
* *
35892715 AAATATCTCATATTAATATTAAATTAC
1 AAATATCT-AGATAAATATTAAATTAC
35892742 TAAAATACTATCTAGATAAATATTAAAT
1 ---AA-A-TATCTAGATAAATATTAAAT
35892770 GAAATTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 8 0.18
27 16 0.36
30 2 0.04
31 14 0.31
32 5 0.11
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATATCTAGATAAATATTAAATTAC
Found at i:35894561 original size:47 final size:47
Alignment explanation
Indices: 35894510--35894612 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
35894500 ACAGTAATTT
* * * *
35894510 AGATAAACTATCAATAGTCAAAATTGTGGACAAGCCACCAAAATCGC
1 AGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATCAC
*
35894557 AGATATACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATCAC
1 AGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATCAC
35894604 AGATAAACT
1 AGATAAACT
35894613 GCAAATAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (47 bp):
AGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATCAC
Found at i:35897132 original size:188 final size:188
Alignment explanation
Indices: 35896815--35897174 Score: 684
Period size: 188 Copynumber: 1.9 Consensus size: 188
35896805 CCAAGACTAG
*
35896815 TCATCTTCCTAATCGAAATTGTAGAAGACATAATAATCCTTCTATATATTTGAATCAGATGTTCA
1 TCATCTTCCTAATCGAAATTGTAGAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCA
*
35896880 CTTTGATTCTTTTACAGGGTTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCG
66 CTTTGATTCTTTTACAGGATTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCG
35896945 CAATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGT
131 CAATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGT
* *
35897003 TCATCTTCCTAATTGAAATTGTAGACGACATAATAATCCTTCTATATATTTGAATCAAATGTTCA
1 TCATCTTCCTAATCGAAATTGTAGAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCA
35897068 CTTTGATTCTTTTACAGGATTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCG
66 CTTTGATTCTTTTACAGGATTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCG
35897133 CAATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAA
131 CAATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAA
35897175 AAGGTCTTTT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 168 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (188 bp):
TCATCTTCCTAATCGAAATTGTAGAAGACATAATAATCCTTCTATATATTTGAATCAAATGTTCA
CTTTGATTCTTTTACAGGATTACGAACTCATTTAGATTATTTGCTAAAGTAAGTTATTCTTCTCG
CAATGAAAATATTCTTGCAGTGCCACTTATCATCAGCTTGAACTTAGACAAACAATGT
Found at i:35898181 original size:17 final size:18
Alignment explanation
Indices: 35898149--35898182 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35898139 ATTTTATAAG
35898149 TTTTCTTAAAAGGTTAAT
1 TTTTCTTAAAAGGTTAAT
*
35898167 TTTTTTTAAAA-GTTAA
1 TTTTCTTAAAAGGTTAA
35898183 AAACTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (18 bp):
TTTTCTTAAAAGGTTAAT
Found at i:35899245 original size:36 final size:37
Alignment explanation
Indices: 35899142--35899556 Score: 421
Period size: 36 Copynumber: 11.3 Consensus size: 37
35899132 AATGGAATAT
* * *
35899142 TGATTCTACT-AAAGTACTC-AATGACCAATATCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
*
35899177 TGATTCTACTAAAAGTGCTTAAACGAGCAATATCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* * *
35899214 TGATTTTACAAAAAGTGCTC-AACGAGCAATATCTAT
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* * *
35899250 TGA-TCTTACTAAATGTGCTC-AGCGAGCAATATTTAC
1 TGATTC-TACTAAAAGTGCTCAAACGAGCAATATCTAC
* * * *
35899286 TGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* *
35899323 TGATTCTACTGAAAGTGCTCAAATGAGCAATATCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* * *
35899360 TAATTCTACTAAAAGTGTTC-AACAAGCAATATCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* * * * * * *
35899396 CGATCCTATTGAATGTGCTCAAATGAGCAATGTCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
*
35899433 TGATTCTACT-GAAGTGCTCAAACGAGCAATATCTAC
1 TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
* *
35899469 TGATTCTACTAAATAGTTGCTCAAATGAGCAATATCCAC
1 TGATTCTACTAAA-AG-TGCTCAAACGAGCAATATCTAC
* * * * *
35899508 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCTAA
1 TGATTCTACTAAAAG--TGCTCAAACGAGCAATATCTAC
*
35899547 TGATTATACT
1 TGATTCTACT
35899557 GAATAAGTTT
Statistics
Matches: 315, Mismatches: 55, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
35 11 0.03
36 125 0.40
37 116 0.37
38 3 0.01
39 60 0.19
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (37 bp):
TGATTCTACTAAAAGTGCTCAAACGAGCAATATCTAC
Found at i:35899311 original size:73 final size:74
Alignment explanation
Indices: 35899142--35899556 Score: 441
Period size: 73 Copynumber: 5.6 Consensus size: 74
35899132 AATGGAATAT
* * * * * *
35899142 TGATTCTACT-AAAGTACTC-AATGACCAATATCTACTGATTCTACTAAAAGTGCTTAAACGAGC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAATGTGCTCAAATGAGC
35899205 AATATCTAC
66 AATATCTAC
* ** * **
35899214 TGATTTTACAAAAAGTGCTC-AACGAGCAATATCTATTGA-TCTTACTAAATGTGCTC-AGCGAG
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTC-TACTAAATGTGCTCAAATGAG
*
35899276 CAATATTTAC
65 CAATATCTAC
* * *
35899286 TGATCCTACTGAATGTGCTCAAACGAGCAATGTCTACTGATTCTACTGAAA-GTGCTCAAATGAG
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-AAATGTGCTCAAATGAG
35899350 CAATATCTAC
65 CAATATCTAC
* * * * * * * *
35899360 TAATTCTACTAAAAGTGTTC-AACAAGCAATATCTACCGATCCTATTGAATGTGCTCAAATGAGC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAATGTGCTCAAATGAGC
*
35899424 AATGTCTAC
66 AATATCTAC
35899433 TGATTCTACTG-AAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAATAGTTGCTCAAATGA
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAAT-G-TGCTCAAATGA
*
35899497 GCAATATCCAC
64 GCAATATCTAC
* * * * *
35899508 TGATTATACTGAATGCTTGCTCAAACGAGCATTATCTAATGATTATACT
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTACTGATTCTACT
35899557 GAATAAGTTT
Statistics
Matches: 283, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
72 48 0.17
73 140 0.49
74 34 0.12
75 30 0.11
76 2 0.01
78 29 0.10
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (74 bp):
TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTAAATGTGCTCAAATGAGC
AATATCTAC
Found at i:35910764 original size:56 final size:56
Alignment explanation
Indices: 35910698--35910858 Score: 225
Period size: 56 Copynumber: 2.9 Consensus size: 56
35910688 ATTTCTGAAA
** *
35910698 AACTTTCACATATAAGATAGTCTTGATGGACTTCTACATATAAGATAGTTTTAATG
1 AACTTTCACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGTTCTAATG
* * * * *
35910754 GACTTCCACATATAAGATAGTTTTGACAAACTT-TCACATATAAGATAGTTCTGATG
1 AACTTTCACATATAAGATAGTCTTGACAGACTTCT-ACATATAAGATAGTTCTAATG
*
35910810 AACTTTCACATATAAGATAGTCTTGGCAGACTTCTACATATAAGATAGT
1 AACTTTCACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGT
35910859 CCTTACGGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.01
56 88 0.98
57 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (56 bp):
AACTTTCACATATAAGATAGTCTTGACAGACTTCTACATATAAGATAGTTCTAATG
Found at i:35910821 original size:84 final size:85
Alignment explanation
Indices: 35910673--35910858 Score: 236
Period size: 84 Copynumber: 2.2 Consensus size: 85
35910663 CTTGACAAAT
* * *
35910673 TTCCACTTATAATATA-TTTCTGAAAAACTTTCACATATAAGATAGTCTTGATGGACTTCTACAT
1 TTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCTTGATGAACTTCTACAT
* **
35910737 ATAAGATAGTTTTAATGGAC
66 ATAAGATAGTCTTAACAGAC
*
35910757 TTCCACATATAAGATAGTTT-TGACAAACTTTCACATATAAGATAGT-TCTGATGAACTT-TCAC
1 TTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCT-TGATGAACTTCT-AC
**
35910819 ATATAAGATAGTCTTGGCAGAC
64 ATATAAGATAGTCTTAACAGAC
*
35910841 TTCTACATATAAGATAGT
1 TTCCACATATAAGATAGT
35910859 CCTTACGGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
83 2 0.02
84 84 0.94
85 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (85 bp):
TTCCACATATAAGATAGTTTCTGAAAAACTTTCACATATAAGATAGTCTTGATGAACTTCTACAT
ATAAGATAGTCTTAACAGAC
Done.