Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 179 of 310
Found at i:58187914 original size:33 final size:34
Alignment explanation
Indices: 58187754--58187922 Score: 121
Period size: 36 Copynumber: 4.8 Consensus size: 34
58187744 GGAGAAGATA
* * *
58187754 GAGAAGGAGAAGAA-G-AAGAAGGAAGAGGAGGAG
1 GAGAAGGAGGAGAAGGAAAG-AGGAGGAAGAGGAG
* *
58187787 GAGAAGGAGAAGAAGAAGAAAGAGGAGGAGGAGGAG
1 GAGAAGGAGGAGAAG--GAAAGAGGAGGAAGAGGAG
* * * *
58187823 AAGGAGGAGGAGGA-GAAAGAGGAGGAGGAGGGGAAG
1 GAGAAGGAGGAGAAGGAAAGAGGAGGA--AGAGG-AG
58187859 GAGAAGGAGGAGGAAGGAAAGGAGGAGAAGAAAGAGGAG
1 GAGAAGGAGGA-GAAGGAAA-GAGGAG--G-AAGAGGAG
*
58187898 GAAAAGGAGGAGAAGGAAA-AGGAGG
1 GAGAAGGAGGAGAAGGAAAGAGGAGG
58187923 GAGTTGAAGA
Statistics
Matches: 111, Mismatches: 12, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
33 26 0.23
34 1 0.01
35 3 0.03
36 40 0.36
37 5 0.05
38 12 0.11
39 18 0.16
40 4 0.04
41 1 0.01
42 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (34 bp):
GAGAAGGAGGAGAAGGAAAGAGGAGGAAGAGGAG
Found at i:58187920 original size:24 final size:26
Alignment explanation
Indices: 58187758--58187922 Score: 75
Period size: 27 Copynumber: 6.1 Consensus size: 26
58187748 AAGATAGAGA
* * **
58187758 AGGAGAAGAAGAAGAAGGAAGAGGAGG
1 AGGAGAAGGAGAAG-AGGAGGAAAAGG
* *
58187785 AGGAGAAGGAGAAGAAGAAGAAAGAGG
1 AGGAGAAGGAGAAGAGGAGGAAA-AGG
* ** *
58187812 AGGAGGAGGAGAAGGAGGAGGAGGAGA
1 AGGAGAAGGAGAA-GAGGAGGAAAAGG
* * * * *
58187839 AAGAGGAGGAGGAGGGGAAGGAGAAGG
1 AGGAGAAGGAGAAGAGG-AGGAAAAGG
58187866 AGGAGGAAGGA-AAGGAGGAGAAGAAAGAGG
1 AGGA-GAAGGAGAA-GAGGAG--GAAA-AGG
* *
58187896 AGGAAAAGGAG--GAGAAGGAAAAGG
1 AGGAGAAGGAGAAGAGGAGGAAAAGG
58187920 AGG
1 AGG
58187923 GAGTTGAAGA
Statistics
Matches: 107, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
24 6 0.06
25 4 0.04
26 9 0.08
27 59 0.55
28 14 0.13
29 8 0.07
30 7 0.07
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (26 bp):
AGGAGAAGGAGAAGAGGAGGAAAAGG
Found at i:58191279 original size:29 final size:29
Alignment explanation
Indices: 58191210--58191287 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
58191200 TTTTGATACG
* *
58191210 ATAATTTTTATAATTCTTTTTATGAATTTT
1 ATAATTTTTATAATT-TTCTTACGAATTTT
* *
58191240 ATATTTCTTTATAATTTTCTTACG-ACTTT
1 ATAATT-TTTATAATTTTCTTACGAATTTT
58191269 ATAAATTTTTATAAATTTT
1 AT-AATTTTTAT-AATTTT
58191288 TCTATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 11 0.28
30 20 0.50
31 9 0.22
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (29 bp):
ATAATTTTTATAATTTTCTTACGAATTTT
Found at i:58191281 original size:10 final size:10
Alignment explanation
Indices: 58191266--58191300 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
58191256 TTCTTACGAC
58191266 TTTATAAATT
1 TTTATAAATT
58191276 TTTATAAATT
1 TTTATAAATT
* *
58191286 TTTCTATATT
1 TTTATAAATT
58191296 TTTAT
1 TTTAT
58191301 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATAAATT
Found at i:58199826 original size:47 final size:47
Alignment explanation
Indices: 58199773--58199865 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
58199763 CTAAGTTAGT
58199773 AGGATTTTTGATGTAATGGATGTAATGGCTGATACATCAGCTTGCTA
1 AGGATTTTTGATGTAATGGATGTAATGGCTGATACATCAGCTTGCTA
*
58199820 AGGATTTTTGATGTAATGGATGTCATGGCTGATACATCAGCTTGCT
1 AGGATTTTTGATGTAATGGATGTAATGGCTGATACATCAGCTTGCT
58199866 TTAGTTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (47 bp):
AGGATTTTTGATGTAATGGATGTAATGGCTGATACATCAGCTTGCTA
Found at i:58203280 original size:18 final size:18
Alignment explanation
Indices: 58203257--58203291 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
58203247 GATATTTGAT
58203257 ATGACTGATTTGGGGATC
1 ATGACTGATTTGGGGATC
58203275 ATGACTGATTTGGGGAT
1 ATGACTGATTTGGGGAT
58203292 TTTCATCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (18 bp):
ATGACTGATTTGGGGATC
Found at i:58214642 original size:26 final size:26
Alignment explanation
Indices: 58214613--58214662 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
58214603 GAGCAAGCCC
* *
58214613 ATTTCACATCTCGTGTGAGCATATTG
1 ATTTCACAGCTCATGTGAGCATATTG
58214639 ATTTCACAGCTCATGTGAGCATAT
1 ATTTCACAGCTCATGTGAGCATAT
58214663 ATGTACAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
ATTTCACAGCTCATGTGAGCATATTG
Found at i:58219927 original size:37 final size:37
Alignment explanation
Indices: 58219867--58219940 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
58219857 ACCTTACCAA
*
58219867 AACATCCTCGATCTTTACCTCGGGATATGCTAAAGAT
1 AACATCCTCGATCGTTACCTCGGGATATGCTAAAGAT
58219904 AACATCCTCGATCGTT-CCTTCGGGATATGCTAAAGAT
1 AACATCCTCGATCGTTACC-TCGGGATATGCTAAAGAT
58219941 CAATCCGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (37 bp):
AACATCCTCGATCGTTACCTCGGGATATGCTAAAGAT
Found at i:58224388 original size:42 final size:42
Alignment explanation
Indices: 58224341--58224427 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
58224331 GGCCAGGCCG
*
58224341 TGTGACTCACACGGTTGAGACACATGCCCATG-CCTCAAGCCA
1 TGTGACTCACACGGCTGAGACACATGCCCATGTCC-CAAGCCA
* * *
58224383 TGTGACTGACATGGCTGAGACACATGCCCATGTCCCAGGCCA
1 TGTGACTCACACGGCTGAGACACATGCCCATGTCCCAAGCCA
58224425 TGT
1 TGT
58224428 AACAATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (42 bp):
TGTGACTCACACGGCTGAGACACATGCCCATGTCCCAAGCCA
Found at i:58231059 original size:12 final size:12
Alignment explanation
Indices: 58231042--58231069 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58231032 ATAGCAAAAT
58231042 TAAAATGTATGC
1 TAAAATGTATGC
58231054 TAAAATGTATGC
1 TAAAATGTATGC
58231066 TAAA
1 TAAA
58231070 GGAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAAATGTATGC
Found at i:58233124 original size:14 final size:14
Alignment explanation
Indices: 58233074--58233134 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
58233064 TAAACTATTG
*
58233074 AATCTTAAACCCTA
1 AATCTTAAACTCTA
* * *
58233088 AATCATTGAACTTTG
1 AATC-TTAAACTCTA
*
58233103 AATTTTAAACTCTA
1 AATCTTAAACTCTA
58233117 AATCTTAAA-TCCTA
1 AATCTTAAACT-CTA
58233131 AATC
1 AATC
58233135 CCAATATTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
13 1 0.03
14 26 0.72
15 9 0.25
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (14 bp):
AATCTTAAACTCTA
Found at i:58233242 original size:10 final size:11
Alignment explanation
Indices: 58233217--58233253 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
58233207 GTAATATGAA
58233217 AAAAATTGCAC
1 AAAAATTGCAC
*
58233228 AAAAATTGCAT
1 AAAAATTGCAC
*
58233239 AAAAAGTGCAC
1 AAAAATTGCAC
58233250 AAAA
1 AAAA
58233254 TTTGGTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (11 bp):
AAAAATTGCAC
Found at i:58252867 original size:31 final size:31
Alignment explanation
Indices: 58252805--58252867 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
58252795 ACAACATTTC
**
58252805 AAAAAGAAAATCTAAAAAATGAAATCTTGAG
1 AAAAAGAAAATCTAAAAAATGAAATAATGAG
* *
58252836 AAAAAGAAAATTTAATAAATG-AATAAATGAG
1 AAAAAGAAAATCTAAAAAATGAAAT-AATGAG
58252867 A
1 A
58252868 CATTTATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (31 bp):
AAAAAGAAAATCTAAAAAATGAAATAATGAG
Found at i:58256118 original size:29 final size:29
Alignment explanation
Indices: 58256054--58256126 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
58256044 ATGAATTTTG
* *
58256054 GTGATGTTATATATAAATTTTGATTTTAT
1 GTGATTTTATAAATAAATTTTGATTTTAT
*
58256083 GTAATTTTATAAATAAATTTT-ATTTTAAT
1 GTGATTTTATAAATAAATTTTGATTTT-AT
*
58256112 TTGATTTTCATAAAT
1 GTGATTTT-ATAAAT
58256127 TTTTGATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.14
29 26 0.70
30 6 0.16
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (29 bp):
GTGATTTTATAAATAAATTTTGATTTTAT
Found at i:58261182 original size:16 final size:15
Alignment explanation
Indices: 58261156--58261194 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
58261146 ATTGAATTAT
* *
58261156 TTATATTTTATATAA
1 TTATATATTATAAAA
58261171 TTGATATATTATAAAA
1 TT-ATATATTATAAAA
58261187 TTATATAT
1 TTATATAT
58261195 GATTTAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTATATATTATAAAA
Found at i:58262572 original size:28 final size:28
Alignment explanation
Indices: 58262539--58262604 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
58262529 TTATGCTTTC
58262539 TTAAAAATTTTAAATAATTTTT-AATTT
1 TTAAAAATTTTAAATAATTTTTGAATTT
* *
58262566 TTAAAAATATTAAATATTTTTTGAATTT
1 TTAAAAATTTTAAATAATTTTTGAATTT
*
58262594 TTAAAAGTTTT
1 TTAAAAATTTT
58262605 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTAAAAATTTTAAATAATTTTTGAATTT
Found at i:58264350 original size:102 final size:104
Alignment explanation
Indices: 58264168--58264363 Score: 227
Period size: 103 Copynumber: 1.9 Consensus size: 104
58264158 TTGTAAGTTT
* * ** * * *
58264168 GTGAGAAATAGAATGCTATTTTGGTATCGATTTTAAGACGGGGTATCGATATTTCAAAAAATATT
1 GTGAAAAACAGAATGCTATTTTGGTATCGATTTTAAGACAAGGTATCAATAATTCAAAAAATATC
* * *
58264233 GATATTTTACCAAAAA-GTATTGATACTTAATTGGGTTC
66 GATACTTGACCAAAAAGGTATCGATACTTAATTGGGTTC
* * *
58264271 GTGAAAAACAGAATG-TCATTTTGGTATTGCTTTTAAGA-AAGGTATCAATAATTCATAAAATAT
1 GTGAAAAACAGAATGCT-ATTTTGGTATCGATTTTAAGACAAGGTATCAATAATTCAAAAAATAT
* *
58264334 CGATACTTGGCTAAAAAGGTATCGATACTT
65 CGATACTTGACCAAAAAGGTATCGATACTT
58264364 TTTGGCCTAG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
102 33 0.43
103 43 0.57
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (104 bp):
GTGAAAAACAGAATGCTATTTTGGTATCGATTTTAAGACAAGGTATCAATAATTCAAAAAATATC
GATACTTGACCAAAAAGGTATCGATACTTAATTGGGTTC
Found at i:58267107 original size:20 final size:20
Alignment explanation
Indices: 58267065--58267112 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
58267055 GGGGTATCAA
*
58267065 AGTGCAAATAGCGGCACCAT
1 AGTGCAAATAGCGGAACCAT
* **
58267085 AGTGCAAATAGGGGAACTGT
1 AGTGCAAATAGCGGAACCAT
58267105 AGTGCAAA
1 AGTGCAAA
58267113 CAAGGGCAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AGTGCAAATAGCGGAACCAT
Found at i:58267123 original size:21 final size:20
Alignment explanation
Indices: 58267084--58267123 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58267074 AGCGGCACCA
* *
58267084 TAGTGCAAATAGGGGAACTG
1 TAGTGCAAAAAGGGCAACTG
58267104 TAGTGCAAACAAGGGCAACT
1 TAGTGCAAA-AAGGGCAACT
58267124 AAGTGTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (20 bp):
TAGTGCAAAAAGGGCAACTG
Found at i:58273928 original size:178 final size:178
Alignment explanation
Indices: 58273629--58273987 Score: 682
Period size: 178 Copynumber: 2.0 Consensus size: 178
58273619 ACAAAATTAA
58273629 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
1 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
* *
58273694 TCCAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTTCG
66 TCCAGATCCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
58273759 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
131 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
*
58273807 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATTAGA
1 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
58273872 TCCAGATCCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
66 TCCAGATCCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
*
58273937 TCCATCCCATCACACCCTGTGAGGTTTAAAACACTCATCCATCCCTAC
131 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
58273985 GCA
1 GCA
58273988 CCACATTGTG
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 177 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (178 bp):
GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
TCCAGATCCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
Found at i:58283808 original size:16 final size:16
Alignment explanation
Indices: 58283784--58283825 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
58283774 AAATAATAAA
*
58283784 TAATTTAATTA-TATTT
1 TAATATAATTATTA-TT
58283800 TAATATAATTATTATT
1 TAATATAATTATTATT
*
58283816 AAATATAATT
1 TAATATAATT
58283826 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATAATTATTATT
Found at i:58283817 original size:26 final size:25
Alignment explanation
Indices: 58283787--58283872 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 25
58283777 TAATAAATAA
58283787 TTTAATTATATTTTAATATAATTAT
1 TTTAATTATATTTTAATATAATTAT
* * * * *
58283812 TATTAAATATAATTTAATAAAAATAA
1 T-TTAATTATATTTTAATATAATTAT
*
58283838 TTTAATAATATTTTTAATATAATTAT
1 TTTAATTATA-TTTTAATATAATTAT
58283864 TTTATATTA
1 TTTA-ATTA
58283873 AAATATTTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
25 8 0.17
26 35 0.76
27 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATTATATTTTAATATAATTAT
Found at i:58283837 original size:14 final size:14
Alignment explanation
Indices: 58283815--58283845 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58283805 TAATTATTAT
*
58283815 TAAATATAATTTAA
1 TAAAAATAATTTAA
58283829 TAAAAATAATTTAA
1 TAAAAATAATTTAA
58283843 TAA
1 TAA
58283846 TATTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:58283859 original size:14 final size:15
Alignment explanation
Indices: 58283842--58283883 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
58283832 AAATAATTTA
58283842 ATAATATTTT-TAAT
1 ATAATATTTTATAAT
*
58283856 ATAATTATTTTATATT
1 ATAA-TATTTTATAAT
*
58283872 AAAATATTTTAT
1 ATAATATTTTAT
58283884 TTTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATAATATTTTATAAT
Found at i:58286877 original size:54 final size:54
Alignment explanation
Indices: 58286805--58286945 Score: 282
Period size: 54 Copynumber: 2.6 Consensus size: 54
58286795 GTAATTGTCG
58286805 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
58286859 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
58286913 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCG
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCG
58286946 CTGCAAGGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (54 bp):
TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
Found at i:58288692 original size:29 final size:29
Alignment explanation
Indices: 58288660--58288715 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58288650 AGAATTTGAC
*
58288660 CAAATTAAAATTTCATGTATAAAATTGTA
1 CAAAATAAAATTTCATGTATAAAATTGTA
* * *
58288689 CAAAATCAAATTTTATGTATAGAATTG
1 CAAAATAAAATTTCATGTATAAAATTG
58288716 CACATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (29 bp):
CAAAATAAAATTTCATGTATAAAATTGTA
Found at i:58288729 original size:31 final size:29
Alignment explanation
Indices: 58288667--58288741 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
58288657 GACCAAATTA
*
58288667 AAATTTCATGTATAAAATTGTACAAAATC
1 AAATTTCATGTATAAAATTGCACAAAATC
* *
58288696 AAATTTTATGTATAGAATTGCACATTAAATC
1 AAATTTCATGTATAAAATTGCACA--AAATC
* *
58288727 AAAGTTCATGAATAA
1 AAATTTCATGTATAA
58288742 TTTTGATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 21 0.57
31 16 0.43
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (29 bp):
AAATTTCATGTATAAAATTGCACAAAATC
Found at i:58290180 original size:18 final size:21
Alignment explanation
Indices: 58290159--58290203 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
58290149 AGGAGTAAAC
58290159 TATTGA-TGAGGA-AA-ATTT
1 TATTGACTGAGGAGAAGATTT
*
58290177 TATTTACTGAGGAGAAGGATTT
1 TATTGACTGAGGAGAA-GATTT
58290199 TATTG
1 TATTG
58290204 TTTATGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 2 0.10
22 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (21 bp):
TATTGACTGAGGAGAAGATTT
Found at i:58290654 original size:19 final size:18
Alignment explanation
Indices: 58290622--58290657 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
58290612 TTTTTTAAAA
58290622 ATAAAATTTGAAATTTTT
1 ATAAAATTTGAAATTTTT
*
58290640 ATAAATATTTTAAATTTT
1 ATAAA-ATTTGAAATTTT
58290658 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAAAATTTGAAATTTTT
Found at i:58290657 original size:18 final size:19
Alignment explanation
Indices: 58290622--58290679 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
58290612 TTTTTTAAAA
58290622 ATAAA-ATTTGAAATTTTT
1 ATAAATATTTGAAATTTTT
*
58290640 ATAAATATTTTAAA-TTTT
1 ATAAATATTTGAAATTTTT
* *
58290658 AAAAATTATTATGAATTTTTT
1 ATAAA-TATT-TGAAATTTTT
58290679 A
1 A
58290680 GAATTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.41
19 11 0.34
20 3 0.09
21 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
ATAAATATTTGAAATTTTT
Found at i:58290698 original size:20 final size:20
Alignment explanation
Indices: 58290661--58290697 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58290651 AAATTTTAAA
58290661 AATTATTATGAATTTTTTAG
1 AATTATTATGAATTTTTTAG
*
58290681 AATTATTTTG-ATTTTTT
1 AATTATTATGAATTTTTT
58290698 TTAAAGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
AATTATTATGAATTTTTTAG
Found at i:58292401 original size:44 final size:44
Alignment explanation
Indices: 58292333--58292488 Score: 172
Period size: 44 Copynumber: 3.5 Consensus size: 44
58292323 CAAAGCGAGC
*
58292333 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
* * ** *
58292377 CTTATCTACC-GTAAGTTGTGGTGGAGCAGATTGAATTTATAAAT
1 CTTATCTCCCTG-AAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
* * * *
58292421 CTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAATT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
* *
58292465 CCTATAC-CCCTGAAGTTGTTGTGG
1 CTTAT-CTCCCTGAAGTTGTAGTGG
58292489 GTTAGAACGA
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.01
44 87 0.97
45 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
Found at i:58294229 original size:22 final size:22
Alignment explanation
Indices: 58294204--58294253 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
58294194 CATTTACTTT
58294204 CATTTTTC-TTTATTGTT-TTTA
1 CATTTTTCATTT-TTGTTATTTA
58294225 GCA-TTTTCATTTTTGTTATTTA
1 -CATTTTTCATTTTTGTTATTTA
58294247 CATTTTT
1 CATTTTT
58294254 GCTCTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (22 bp):
CATTTTTCATTTTTGTTATTTA
Found at i:58294240 original size:21 final size:21
Alignment explanation
Indices: 58294207--58294252 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
58294197 TTACTTTCAT
58294207 TTTTCTTTATTGTT-TTTAGCA
1 TTTTCTTTATTGTTATTTA-CA
58294228 TTTTCATTT-TTGTTATTTACA
1 TTTTC-TTTATTGTTATTTACA
58294249 TTTT
1 TTTT
58294253 TGCTCTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.15, C:0.09, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTCTTTATTGTTATTTACA
Found at i:58296860 original size:142 final size:141
Alignment explanation
Indices: 58296609--58296950 Score: 303
Period size: 142 Copynumber: 2.5 Consensus size: 141
58296599 AGATAGGTAT
* * ** * * *
58296609 TTTTACTATTTAGTTTTTAATCCGAAAGCATAAAGTGAAAATTGC-TTTGAGATGAAAT--AATA
1 TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
* * * *
58296671 GATCTGAATATATGTCGAACACAGGTCTCATACACATAGGCTATAGGAGAAAGTGAAGAGATCT-
66 GATCTAAATATATGTCAAACACAGGTCTCATACACATAGGCTATAGGAAAAAAT-AA-AGAT-TG
58296735 AATAATATAGATTAA
128 AATAATATA-ATTAA
*
58296750 TTTTACTACTTAGTTTTAAATATGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAAT-
1 TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
* * * * * * * *
58296814 G-TCTAAATCTATGTCAAACATAGGTCTTGAGTGCATAT-GTCT-TAGGAAAAAATAAAGGTTGG
66 GATCTAAATATATGTCAAACACAGGTC-TCA-TACACATAGGCTATAGGAAAAAATAAAGATTGA
*
58296876 ATAATATAATTGA
129 ATAATATAATTAA
* * * *
58296889 TTTT-C-ACTTAG-CTTAAA-AACGATAGCATGAAGTAAAAACTGCTATTGGAGATGAAATCAAA
1 TTTTACTACTTAGTTTTAAATAAGGA-AGCATAAAGTAAAAACTGC-ATTTGAGATGAAATCAAA
58296950 T
64 T
58296951 TGTTTTTAGA
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
135 3 0.02
136 23 0.14
137 24 0.14
138 1 0.01
139 9 0.05
140 11 0.07
141 40 0.24
142 43 0.26
143 6 0.04
144 8 0.05
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (141 bp):
TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
GATCTAAATATATGTCAAACACAGGTCTCATACACATAGGCTATAGGAAAAAATAAAGATTGAAT
AATATAATTAA
Found at i:58309946 original size:30 final size:31
Alignment explanation
Indices: 58309898--58309956 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
58309888 TTTAATTTGA
*
58309898 TCAATTTTAGTTCTTATACTTTTAGAATTAG
1 TCAACTTTAGTTCTTATACTTTTAGAATTAG
*
58309929 TCAACTTTAGTTC-TATACTTTTTGAATT
1 TCAACTTTAGTTCTTATACTTTTAGAATT
58309957 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (31 bp):
TCAACTTTAGTTCTTATACTTTTAGAATTAG
Found at i:58314403 original size:21 final size:21
Alignment explanation
Indices: 58314379--58314444 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
58314369 ATTTAATGAA
58314379 GTAAGTTGTCTTTCTGACAAT
1 GTAAGTTGTCTTTCTGACAAT
58314400 GTAAACG-T-TC-TT-T-ACAAT
1 GT-AA-GTTGTCTTTCTGACAAT
58314418 GCCTAAGTTGTCTTTCTGACAAT
1 G--TAAGTTGTCTTTCTGACAAT
58314441 GTAA
1 GTAA
58314445 ACATTCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 18
0.67 0.00 0.33
Matches are distributed among these distances:
18 7 0.19
19 4 0.11
20 5 0.14
21 9 0.25
22 4 0.11
23 7 0.19
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
GTAAGTTGTCTTTCTGACAAT
Found at i:58314437 original size:41 final size:41
Alignment explanation
Indices: 58314380--58314461 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
58314370 TTTAATGAAG
*
58314380 TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
1 TAAGTTGTCTTTCTGACAATGTAAACATTCTTTACAATGCC
58314421 TAAGTTGTCTTTCTGACAATGTAAACATTCTTTACAATGCC
1 TAAGTTGTCTTTCTGACAATGTAAACATTCTTTACAATGCC
58314462 ACTGATCTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (41 bp):
TAAGTTGTCTTTCTGACAATGTAAACATTCTTTACAATGCC
Found at i:58320770 original size:59 final size:59
Alignment explanation
Indices: 58320678--58320793 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
58320668 TTTTTTCCTG
* * *
58320678 TGTTTTAATTATTTTTAAGTATAAGTAATAAGCTAAATGTGGATAAAATAGTTATACAC
1 TGTTTTAATTATTTATAAGTATAAATAATAAGCTAAATGTGGATAAAATAATTATACAC
58320737 TGTTTTAATTATTTATAAGTATAAATAATAAGCTAAATGTGGATAAAATAATTATAC
1 TGTTTTAATTATTTATAAGTATAAATAATAAGCTAAATGTGGATAAAATAATTATAC
58320794 TAATATACTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (59 bp):
TGTTTTAATTATTTATAAGTATAAATAATAAGCTAAATGTGGATAAAATAATTATACAC
Found at i:58321177 original size:21 final size:21
Alignment explanation
Indices: 58321143--58321194 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
58321133 TTTTTTGATT
* *
58321143 TATAACATTTATATTGAAAATA
1 TATAATATTAATATT-AAAATA
58321165 -ATAATATTAATATTAAAATA
1 TATAATATTAATATTAAAATA
58321185 TATATATATT
1 TATA-ATATT
58321195 TTCCTCCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAATATTAATATTAAAATA
Found at i:58321531 original size:4 final size:4
Alignment explanation
Indices: 58321518--58321546 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
58321508 TTCATAACAG
58321518 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
58321547 GAGGGGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:58325150 original size:62 final size:61
Alignment explanation
Indices: 58325021--58325138 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 61
58325011 CAATGTACCT
* *
58325021 AATTTATATTAAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTGATTTATATAACAA
1 AATTTATATTAAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
58325082 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATAT
1 AATTTATATTA-AAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATAT
58325139 TATAAAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
61 11 0.20
62 43 0.80
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (61 bp):
AATTTATATTAAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:58326137 original size:28 final size:28
Alignment explanation
Indices: 58326105--58326169 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
58326095 GTATGTTTGT
58326105 ATTTATTTTATATTTTCATTCATTCATA
1 ATTTATTTTATATTTTCATTCATTCATA
58326133 ATTTATTTTATATTTTCATTCATTCATA
1 ATTTATTTTATATTTTCATTCATTCATA
58326161 ATTTATTTT
1 ATTTATTTT
58326170 TAATGTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTATTTTATATTTTCATTCATTCATA
Found at i:58329241 original size:14 final size:14
Alignment explanation
Indices: 58329222--58329250 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58329212 TGGAACAAAC
58329222 TTTGTAATATAAAT
1 TTTGTAATATAAAT
58329236 TTTGTAATATAAAT
1 TTTGTAATATAAAT
58329250 T
1 T
58329251 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:58329269 original size:62 final size:62
Alignment explanation
Indices: 58329193--58329360 Score: 300
Period size: 62 Copynumber: 2.7 Consensus size: 62
58329183 CAACATTACA
*
58329193 ACATTACTACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
* * *
58329255 ACATTACAATATTAAAACTTGCAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
58329317 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
58329361 AGGTACATTC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (62 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
Found at i:58331429 original size:46 final size:46
Alignment explanation
Indices: 58331358--58331450 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
58331348 TCAGCTAAGA
58331358 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
1 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
*
58331404 TGCGTCGCGTCGGGGTCTTTGAGCTACATATGTGGCCTAGGATTAT
1 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
58331450 T
1 T
58331451 ATGTATCACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.33
Consensus pattern (46 bp):
TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
Found at i:58334215 original size:9 final size:9
Alignment explanation
Indices: 58334201--58334225 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58334191 TGGATTAAAT
58334201 TGAATGAAA
1 TGAATGAAA
58334210 TGAATGAAA
1 TGAATGAAA
58334219 TGAATGA
1 TGAATGA
58334226 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:58340111 original size:28 final size:28
Alignment explanation
Indices: 58340071--58340127 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58340061 TTATGCGGAC
58340071 TTAAAACGAAAAGATATTGAATTTGAGA
1 TTAAAACGAAAAGATATTGAATTTGAGA
*
58340099 TTAAAATGAAAAGATATTGAATTTGAGA
1 TTAAAACGAAAAGATATTGAATTTGAGA
58340127 T
1 T
58340128 CGATGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.32
Consensus pattern (28 bp):
TTAAAACGAAAAGATATTGAATTTGAGA
Found at i:58345276 original size:26 final size:25
Alignment explanation
Indices: 58345247--58345301 Score: 101
Period size: 26 Copynumber: 2.2 Consensus size: 25
58345237 TGGTACAAAT
58345247 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
58345273 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
58345298 TGAT
1 TGAT
58345302 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:58354579 original size:80 final size:80
Alignment explanation
Indices: 58354483--58354646 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 80
58354473 ATTTGCCTAG
*
58354483 CACATTTCTAAATTTTCTCACATAAGTCCTATTTAATAAAATTCACTTACAATTAACAAAATTCA
1 CACATTTCTAAATTTTCTCACATAAGTCCTATTAAATAAAATTCACTTACAATTAACAAAATTCA
*
58354548 AGCATGAAATTTTTA
66 AGCATGAAATTTTCA
58354563 CACATTTCTAAATTTTCTCACATAAGTCCTATTAAATAAAATTCACTTACAATTAACAAAATTCA
1 CACATTTCTAAATTTTCTCACATAAGTCCTATTAAATAAAATTCACTTACAATTAACAAAATTCA
58354628 AGCATGAAATTTTCA
66 AGCATGAAATTTTCA
58354643 CACA
1 CACA
58354647 GAAAAGTAGG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (80 bp):
CACATTTCTAAATTTTCTCACATAAGTCCTATTAAATAAAATTCACTTACAATTAACAAAATTCA
AGCATGAAATTTTCA
Found at i:58361343 original size:28 final size:28
Alignment explanation
Indices: 58361280--58361430 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
58361270 ATATTAAGTC
*
58361280 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
58361307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58361335 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
58361363 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58361391 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58361420 CGCACACTTAG
1 CGCACACTTAG
58361431 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58363207 original size:21 final size:21
Alignment explanation
Indices: 58363181--58363228 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58363171 ACTCCCCACA
58363181 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
58363202 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
58363223 TTGAGT
1 TGGAGT
58363229 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:58364247 original size:26 final size:26
Alignment explanation
Indices: 58364218--58364325 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
58364208 TGGTACAAAT
58364218 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
58364244 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58364270 TTATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58364296 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58364322 TGAT
1 TGAT
58364326 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58365863 original size:26 final size:25
Alignment explanation
Indices: 58365811--58365863 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
58365801 TTTACAGTTG
58365811 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
58365837 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
58365863 T
1 T
58365864 GCCTGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:58371074 original size:26 final size:26
Alignment explanation
Indices: 58371045--58371152 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58371035 TGGTACAAAT
58371045 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
58371071 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
58371097 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
58371123 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
58371149 TGAT
1 TGAT
58371153 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:58372910 original size:21 final size:21
Alignment explanation
Indices: 58372884--58372931 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58372874 ACTCCCCACA
58372884 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
58372905 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
58372926 TTGAGT
1 TGGAGT
58372932 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:58375884 original size:26 final size:27
Alignment explanation
Indices: 58375825--58375878 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58375815 ACATATATAT
* * *
58375825 TATTTTATTTTTTAAATTTTTTTTACA
1 TATTGTATATTTTAAATTTTTTATACA
58375852 TATTGTATATTTTAAATTTTTATATAC
1 TATTGTATATTTTAAATTTTT-TATAC
58375879 TATGTAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTGTATATTTTAAATTTTTTATACA
Found at i:58377957 original size:109 final size:105
Alignment explanation
Indices: 58377810--58379785 Score: 1430
Period size: 102 Copynumber: 19.1 Consensus size: 105
58377800 GTCAAATAAA
* * * * *
58377810 TAAAAAAACAGATAAAATTACATTATAACAAATCACAATACACATTAAACTAAACAAATAATTTA
1 TAAAAAAACA-AAAAAATTACATCATAAC-AATAACAATA-ACACTAAACTAAACAAACAATTTA
*
58377875 TAACCTAATCATAAATTACTAGCAAAATAACTTTAAAATAATT
63 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* * *
58377918 TAAAAAACACAAAAAAATTGCATTTATAACAAGTAACAATAAATACTAAACTAAACACAAACAAT
1 TAAAAAA-ACAAAAAAATTACA-TCATAACAA-TAACAAT-AACACTAAACT-AA-ACAAACAAT
* *
58377983 TTATAATCTAATCATAAATTACTAACAAAATAAATTTAAAATAA-T
60 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
** * * **
58378028 T--AAAAA-AATTACATT-CAT-A-AAAAATCGCAATAAACACTAAACTAAACACAATCAATTTA
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAAT-AACACTAAACTAAACA-AA-CAATTTA
* *
58378087 TAATCTAATCATAAATTACTAACAAAATAACTTTCAAATAA-T
63 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* * * * *
58378129 TAAAAAAATAAAAAATTTTACATTCATAAAAAAACACAATAAACATTAAACTAAACAAAAACAAT
1 TAAAAAAACAAAAAA-ATTACA-TCATAACAATA-ACAAT-AACACTAAACTAAAC--AAACAAT
* *
58378194 TTATAACCTAACCATAAATTACTAACAAAATGACTTTAAAATAATT
60 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* * *
58378240 TAAAAAATACAAAAAAATTACAATCATAAACAATCATAA-AACACTAAACTAAATATAAACAATT
1 TAAAAAA-ACAAAAAAATTAC-ATCAT-AACAATAACAATAACACTAAACT-AA-ACAAACAATT
* *
58378304 TATAACCTAATCATAACTTACTAACAAAATAACTATAAAATAATT
61 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
** ** * * * *
58378349 TTTAAAAA-AATTATATT-CAT-A-AAAAATCACAA-AACACTCAACTAAACACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
** * * *
58378409 AATATAATCATAAATTACTAAAAAAATAACTATAATATAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
**** ** * * * * *
58378451 TTTTTAAA-AATTACATT-CATAAAAAATCACAAAACACTAA-ACTAAA-T--ACAAACAATTTA
1 TAAAAAAACAAAAAAATTACAT-CATAA-CA-ATAACAATAACACTAAACTAAACAAACAATTTA
* *
58378510 TAACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
63 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58378553 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58378613 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58378655 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58378715 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58378757 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58378817 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58378859 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58378919 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58378961 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379021 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379063 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379123 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379165 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379225 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379267 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379327 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379369 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379429 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379471 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379531 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379573 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379633 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *** * * *
58379675 TTAAAAAA-ATTTACATT-CAT-A-AAAAATCACAA-AACACTAAACTAAATACAAACAATTTAT
1 TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACT-AA-ACAAACAATTTAT
* *
58379735 AACCTAATCATAAATTACTAACAAAATAACTATAAAAAAATTT
64 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAA-TT
58379778 TAAAAAAA
1 TAAAAAAA
58379786 TTTACATTCA
Statistics
Matches: 1751, Mismatches: 79, Indels: 81
0.92 0.04 0.04
Matches are distributed among these distances:
96 2 0.00
97 10 0.01
98 2 0.00
99 5 0.00
100 5 0.00
101 64 0.04
102 1333 0.76
103 15 0.01
104 6 0.00
105 8 0.00
106 11 0.01
107 17 0.01
108 26 0.01
109 93 0.05
110 70 0.04
111 71 0.04
112 13 0.01
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (105 bp):
TAAAAAAACAAAAAAATTACATCATAACAATAACAATAACACTAAACTAAACAAACAATTTATAA
CCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
Found at i:58378407 original size:102 final size:102
Alignment explanation
Indices: 58378250--58379838 Score: 2968
Period size: 102 Copynumber: 15.6 Consensus size: 102
58378240 TAAAAAATAC
* * * *
58378250 AAAAAAA-TTACAATCATAAACAATCATAAAACACTAAACTAAATATAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
* *
58378314 TCATAACTTACTAACAAAATAACTATAAAATAATTTTT
66 TCATAAATTACTAACAAAATAACTATAAAA-AAATTTT
* * * **
58378352 AAAAAAA-TTATATTCATAAAAAATCACAAAACACTCAACTAAACACAAACAATTTATAATATAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
* * *
58378416 TCATAAATTACTAAAAAAATAACTATAATATAATTTTT
66 TCATAAATTACTAACAAAATAACTATAA-AAAAATTTT
**
58378454 TTAAAAA-TTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58378518 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58378555 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58378620 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58378657 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58378722 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58378759 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58378824 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58378861 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58378926 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58378963 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379028 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379065 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379130 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379167 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379232 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379269 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379334 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379371 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379436 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379473 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379538 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379575 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379640 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
58379677 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
58379742 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
66 TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
* * *
58379779 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACCAAACACAAAAAATTTATAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAA
58379839 TAATTAATAA
Statistics
Matches: 1458, Mismatches: 27, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
101 12 0.01
102 1445 0.99
103 1 0.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.27
Consensus pattern (102 bp):
AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAAAAATTTT
Found at i:58385500 original size:3 final size:3
Alignment explanation
Indices: 58385492--58385524 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58385482 ACTAATAAAT
58385492 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58385525 CAACAACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58390979 original size:11 final size:11
Alignment explanation
Indices: 58390963--58390988 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58390953 AAAAAGTACC
58390963 GGCGTATTTGG
1 GGCGTATTTGG
58390974 GGCGTATTTGG
1 GGCGTATTTGG
58390985 GGCG
1 GGCG
58390989 AGATCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.50, T:0.31
Consensus pattern (11 bp):
GGCGTATTTGG
Found at i:58400925 original size:16 final size:16
Alignment explanation
Indices: 58400901--58400956 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
58400891 GGTTAGGGGG
58400901 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
*
58400917 AATGTAATAGAGCTGT
1 AATGGAATAGAGCTGT
*
58400933 AATGGAATAGACCTGT
1 AATGGAATAGAGCTGT
58400949 AAT-GAATA
1 AATGGAATA
58400957 ATTCAGTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 5 0.14
16 32 0.86
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:58400986 original size:46 final size:44
Alignment explanation
Indices: 58400933--58401023 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
58400923 ATAGAGCTGT
58400933 AATGGAATAGACCTGTAATGAATAATTCAGT-TGTTTGGTTGAATGG
1 AATGGAATAGACCTGTAAT-AAT-ATTC-GTGTGTTTGGTTGAATGG
** * *
58400979 AATGGAATAGAGTTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGACCTGTAATAATATTCGTGTGTTTGGTTGAATGG
58401023 A
1 A
58401024 GTAGATGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.03
44 20 0.50
45 2 0.05
46 17 0.43
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGACCTGTAATAATATTCGTGTGTTTGGTTGAATGG
Found at i:58401264 original size:36 final size:36
Alignment explanation
Indices: 58401195--58401274 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
58401185 TTAACATAAG
* * *
58401195 TATTATTAAATACAATTTAATAACATTCTTAATAT-
1 TATTATTAAATACAATTTAATAAAAATCATAATATA
**
58401230 TATTATTAAATTATGATTTAATAAAAATCATAATATA
1 TATTATTAAA-TACAATTTAATAAAAATCATAATATA
*
58401267 TAATATTA
1 TATTATTA
58401275 TAAAAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 10 0.27
36 20 0.54
37 7 0.19
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (36 bp):
TATTATTAAATACAATTTAATAAAAATCATAATATA
Found at i:58410520 original size:31 final size:31
Alignment explanation
Indices: 58410484--58410545 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58410474 TTGACAAATA
58410484 AGTTTTTATTGAATTATTTGAAATTGTGTAT
1 AGTTTTTATTGAATTATTTGAAATTGTGTAT
58410515 AGTTTTTATTGAATTATTTGAAATTGTGTAT
1 AGTTTTTATTGAATTATTTGAAATTGTGTAT
58410546 GTCGCTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (31 bp):
AGTTTTTATTGAATTATTTGAAATTGTGTAT
Found at i:58411069 original size:148 final size:148
Alignment explanation
Indices: 58410898--58411167 Score: 432
Period size: 148 Copynumber: 1.8 Consensus size: 148
58410888 ACTGTTTTGG
* * * * *
58410898 ATTTGTTTGTATTTAATTGTTTGGTTATTGTACATGACAGAAATGCATTTCTTTGTGTTAAATTA
1 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
* * *
58410963 TTTTTGTATTGGTTATTATCTGCCATTGCTTAGGTTGTATTAAAGTGTTTGGTTATTGTCTGCTA
66 TTCTTGTATTGGTTATTATCTGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATTGTCTGCTA
58411028 TGTATACGACAGAAATGA
131 TGTATACGACAGAAATGA
* * *
58411046 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGGATTTGTTTGTATTAAATTG
1 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
*
58411111 TTCTTGTATTGGTTATTGTCTGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATT
66 TTCTTGTATTGGTTATTATCTGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATT
58411168 ATCTACCATT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 110 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (148 bp):
ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
TTCTTGTATTGGTTATTATCTGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATTGTCTGCTA
TGTATACGACAGAAATGA
Found at i:58413725 original size:49 final size:48
Alignment explanation
Indices: 58413618--58413738 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 48
58413608 ATGCCGACGC
*
58413618 CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCAATGT
* ** **
58413666 CATGTCCCAGACAT-GTTTTACACTGGCTCTCATCTATCAGTGTCAATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCAATGT
*
58413715 CATGTCCCAGATA-GGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
58413739 AGCTTGTATA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
47 15 0.24
48 15 0.24
49 32 0.52
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCAATGT
Found at i:58413782 original size:48 final size:48
Alignment explanation
Indices: 58413715--58413835 Score: 197
Period size: 48 Copynumber: 2.5 Consensus size: 48
58413705 GTGTCAATGT
* * * *
58413715 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
*
58413763 CATGTCCCAGACATATCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
58413811 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
58413836 ACACACATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:58413846 original size:48 final size:48
Alignment explanation
Indices: 58413746--58413846 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
58413736 ACTAGCTTGT
* * * ****
58413746 ATATCTTGAGGCTGATGCATGTCCCAGACATATCTTACACTAGCTTGT
1 ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
*
58413794 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACACAC
1 ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
58413842 ATATC
1 ATATC
58413847 ACCCAATGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
Found at i:58414356 original size:31 final size:31
Alignment explanation
Indices: 58414321--58414384 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
58414311 TTTCACACAA
58414321 GTACAACATATTTTATAACTTTTATAAAATG
1 GTACAACATATTTTATAACTTTTATAAAATG
58414352 GTACAACATATTTTATAACTTTTATAAAATG
1 GTACAACATATTTTATAACTTTTATAAAATG
58414383 GT
1 GT
58414385 CCTTTTAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (31 bp):
GTACAACATATTTTATAACTTTTATAAAATG
Found at i:58419013 original size:19 final size:19
Alignment explanation
Indices: 58418989--58419027 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58418979 TGTAGGCAAA
58418989 TTTGGCAATAGTTTGCCTT
1 TTTGGCAATAGTTTGCCTT
*
58419008 TTTGGCAATATTTTGCCTT
1 TTTGGCAATAGTTTGCCTT
58419027 T
1 T
58419028 CTTTTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCAATAGTTTGCCTT
Found at i:58419460 original size:47 final size:47
Alignment explanation
Indices: 58419365--58419462 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
58419355 ATACTCTCTT
* * *
58419365 AATACCAACAATCACATAAGTTGGTTTTCTATTTCAATAACAACAAC
1 AATACCAACAATCACATAAGCTGGTTTTCTATTTAAACAACAACAAC
* * **
58419412 AATACCAGCTATCACATAAGCTGGTTTT-TCATTTAAACAACAGGAAC
1 AATACCAACAATCACATAAGCTGGTTTTCT-ATTTAAACAACAACAAC
58419459 AATA
1 AATA
58419463 TTACAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (47 bp):
AATACCAACAATCACATAAGCTGGTTTTCTATTTAAACAACAACAAC
Found at i:58426776 original size:30 final size:30
Alignment explanation
Indices: 58426742--58426801 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58426732 ATAGGAGGGA
* *
58426742 AGTAAAAGTTTTGAGGGAAAAGTAAGAAGG
1 AGTAAAAGTTTTGAGGGAAAAATAAAAAGG
*
58426772 AGTAAAAGTTTTTAGGGAAAAATAAAAAGG
1 AGTAAAAGTTTTGAGGGAAAAATAAAAAGG
58426802 TTTGAGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (30 bp):
AGTAAAAGTTTTGAGGGAAAAATAAAAAGG
Found at i:58428201 original size:135 final size:138
Alignment explanation
Indices: 58428040--58428353 Score: 413
Period size: 140 Copynumber: 2.3 Consensus size: 138
58428030 TCTTATTTAA
*
58428040 ATTTGTATTTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTT-A-AT-TTTTTTAA-TTTA
1 ATTTGTA-TTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATATGTTTTTTAACATT-
* * * * *
58428101 TTAGTTCTTTAGTTAGATGGTTAGATAGTTGTAATTACATTATTGAGTCTCGAATTTGACTCCTC
64 TTAATTCTTTAGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTC
* *
58428166 TCTTACTTTT
129 TATTACTTAT
* **
58428176 ATTTGTATTTTTTATTTTATGTTGCTTCAAGCGTTTTAAATTTTTAATTGATGTTTTTTAACATT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAA-T-ATGTTTTTTAACATT
* * * *
58428241 TTAATTCTTTTGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAGTTCGATTTCTC
64 TTAATTCTTTAGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTC
58428306 TATTACTTAT
129 TATTACTTAT
*
58428316 ATTTGTATTTTTT-TTTCATGTTGCTTCAATTTTTTTAA
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAA
58428354 TTAATATTTT
Statistics
Matches: 153, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
135 35 0.23
136 8 0.05
139 23 0.15
140 85 0.56
141 2 0.01
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (138 bp):
ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATATGTTTTTTAACATTTT
AATTCTTTAGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTCTA
TTACTTAT
Found at i:58428540 original size:15 final size:16
Alignment explanation
Indices: 58428511--58428544 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58428501 TTTATGATAT
*
58428511 TTTTTAATTATTTTTA
1 TTTTTAACTATTTTTA
58428527 TTTTTAACTA-TTTTA
1 TTTTTAACTATTTTTA
58428542 TTT
1 TTT
58428545 ATAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAACTATTTTTA
Found at i:58434247 original size:46 final size:44
Alignment explanation
Indices: 58434142--58434261 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 44
58434132 GTGCCTATGC
* *
58434142 CATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCTAAAG
* * *
58434187 CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCG-AGGCTAAAG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCTAAAG
* * *
58434233 CATGTCTCAGACATGTCTTGCACTAACAC
1 CATGTCCCAGACATGTCTTACACTGACAC
58434262 TCGTCTCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
44 14 0.23
45 14 0.23
46 34 0.55
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCTAAAG
Found at i:58435624 original size:30 final size:31
Alignment explanation
Indices: 58435588--58435645 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
58435578 TTTCTAAGCC
58435588 TAGGGGCAAAATCATAATTTTG-CAAAGGTT
1 TAGGGGCAAAATCATAATTTTGTCAAAGGTT
**
58435618 TAGGGGCAAAATTTTAATTTTGTCAAAG
1 TAGGGGCAAAATCATAATTTTGTCAAAG
58435646 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (31 bp):
TAGGGGCAAAATCATAATTTTGTCAAAGGTT
Found at i:58436250 original size:44 final size:44
Alignment explanation
Indices: 58436185--58436271 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
58436175 TTGATATCTC
* *
58436185 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
58436229 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
58436272 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:58436472 original size:95 final size:92
Alignment explanation
Indices: 58436272--58436503 Score: 227
Period size: 95 Copynumber: 2.5 Consensus size: 92
58436262 GAATTGACGG
** * * *
58436272 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGAC
1 TTAAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
*
58436337 CATGTCAAGACATGGCATCGGCATTGA
66 CATGTCAAGACATGGCATCGGCATAGA
**
58436364 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTA
1 TTAAGGA-TACCATGTAAGACCACATCAAGACATGGCATTGG---TAAGACAAGGATACCATGTA
*** * *
58436428 AGACCATGTTTGGAACATGGCATTTGGTA-AGA
62 AGACCATGTCAAG-ACATGGCA-TCGGCATAGA
*** * *
58436460 -TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TTAAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAG
58436504 TTCTATAAGG
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
92 39 0.35
93 1 0.01
94 1 0.01
95 58 0.51
96 10 0.09
97 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (92 bp):
TTAAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
CATGTCAAGACATGGCATCGGCATAGA
Found at i:58436590 original size:55 final size:54
Alignment explanation
Indices: 58436461--58436657 Score: 272
Period size: 55 Copynumber: 3.6 Consensus size: 54
58436451 TTGGTAAGAT
* *
58436461 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
58436515 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
58436570 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
58436623 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
58436658 ATGGTAAGTT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 41 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:58444491 original size:29 final size:29
Alignment explanation
Indices: 58444457--58444514 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
58444447 CCACTGGTAG
*
58444457 GTCGAATCTCTCAAGAGCTATACTGCACA
1 GTCGAATCTCTCAAAAGCTATACTGCACA
58444486 GTCGAATCTCTCAAAAGCTATACTGCACA
1 GTCGAATCTCTCAAAAGCTATACTGCACA
58444515 CTTCATGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (29 bp):
GTCGAATCTCTCAAAAGCTATACTGCACA
Found at i:58446490 original size:16 final size:17
Alignment explanation
Indices: 58446459--58446491 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58446449 TTCATAAGTA
58446459 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
58446476 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
58446492 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:58446837 original size:46 final size:46
Alignment explanation
Indices: 58446777--58447142 Score: 545
Period size: 46 Copynumber: 8.0 Consensus size: 46
58446767 TTTGACATGA
* * * * * *
58446777 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
58446823 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
58446869 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
58446915 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58446961 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58447007 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58447053 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58447099 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
58447143 AGAGCACACT
Statistics
Matches: 303, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.01
46 299 0.99
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:58460932 original size:38 final size:39
Alignment explanation
Indices: 58460841--58460932 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 39
58460831 CGGTACCATT
* *
58460841 TGGTGTGTAGGGTTGGATGAGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCA-ACA
* *
58460881 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCAACA
*
58460919 TGGTGTGTTGGGTT
1 TGGTGTGTAGGGTT
58460933 TGACGGAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 15 0.32
40 32 0.68
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCAACA
Found at i:58461863 original size:13 final size:13
Alignment explanation
Indices: 58461845--58461870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58461835 GCAGGGGAGA
58461845 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
58461858 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
58461871 GGAAAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:58464858 original size:21 final size:21
Alignment explanation
Indices: 58464803--58464859 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
58464793 ACACGCCAAT
* *
58464803 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCATAATAGCTAAAC
*
58464824 AGAAGCTCGTAATAGCTAAAC
1 AGAAGCTCATAATAGCTAAAC
*
58464845 AGAAGCTCAAAATAG
1 AGAAGCTCATAATAG
58464860 TTGATCCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
AGAAGCTCATAATAGCTAAAC
Found at i:58467522 original size:15 final size:15
Alignment explanation
Indices: 58467467--58467523 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
58467457 TTTATACTAC
*
58467467 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
58467482 AACATATTTATAATTCT
1 AAAATATTTATTA-T-T
58467499 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
58467516 AAAATATT
1 AAAATATT
58467524 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:58467629 original size:16 final size:16
Alignment explanation
Indices: 58467604--58467655 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
58467594 TAAAATTGAA
58467604 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
58467621 AAATTAATAA---AGT
1 ATATTAATAATTTATT
58467634 ATATTAATAATTTATT
1 ATATTAATAATTTATT
58467650 ATATTA
1 ATATTA
58467656 TTATATATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:58469360 original size:37 final size:37
Alignment explanation
Indices: 58469299--58469444 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
58469289 TACGTATGAT
* *
58469299 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
58469334 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
58469371 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
58469408 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
58469445 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:58469461 original size:46 final size:46
Alignment explanation
Indices: 58469408--58469676 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
58469398 TAAGTGTAGC
* **
58469408 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
58469454 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
58469500 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
58469552 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
58469598 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
58469650 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
58469677 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:58469527 original size:52 final size:52
Alignment explanation
Indices: 58469451--58469670 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
58469441 TAGCTAAAGC
* *
58469451 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
58469504 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
58469556 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
58469602 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
58469654 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
58469671 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:58469573 original size:98 final size:98
Alignment explanation
Indices: 58469408--58469676 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
58469398 TAAGTGTAGC
* * *
58469408 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
58469473 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
58469507 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
58469572 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
58469605 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
58469670 GATCAGA
66 GATCAGA
58469677 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:58471983 original size:3 final size:3
Alignment explanation
Indices: 58471975--58472018 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
58471965 TATATTTTTC
* *
58471975 TTA TTA TTA CTA TTA TTA TT- TTA CCTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
58472019 TATATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:58471995 original size:24 final size:24
Alignment explanation
Indices: 58471967--58472019 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
58471957 CTTGTACATA
* *
58471967 TATTTTTCTTATTATTACTATTAT
1 TATTTTACCTATTATTACTATTAT
*
58471991 TATTTTACCTATTATTATTATTAT
1 TATTTTACCTATTATTACTATTAT
58472015 TATTT
1 TATTT
58472020 ATATATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTACCTATTATTACTATTAT
Found at i:58472002 original size:15 final size:15
Alignment explanation
Indices: 58471975--58472032 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
58471965 TATATTTTTC
58471975 TTATTATTACTATTA
1 TTATTATTACTATTA
58471990 TTATT-TTACCTATTA
1 TTATTATTA-CTATTA
*
58472005 TTATTATTATTATTTA
1 TTATTATTACTA-TTA
58472021 TATATT-TTACTA
1 T-TATTATTACTA
58472033 CAAATTGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 3 0.08
15 18 0.49
16 12 0.32
17 4 0.11
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:58473752 original size:22 final size:22
Alignment explanation
Indices: 58473724--58473767 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
58473714 TCAGGTATTA
58473724 ACCAAATCAACCGTTTGAACAT
1 ACCAAATCAACCGTTTGAACAT
*
58473746 ACCAAATCTACCGTTTGAACAT
1 ACCAAATCAACCGTTTGAACAT
58473768 TCCTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (22 bp):
ACCAAATCAACCGTTTGAACAT
Found at i:58481119 original size:19 final size:19
Alignment explanation
Indices: 58481100--58481137 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
58481090 AGGGGATAAT
58481100 AAAAGAAAAATAATTAAATA
1 AAAAG-AAAATAATTAAATA
58481120 AAAAGAAAATAATTAAAT
1 AAAAGAAAATAATTAAAT
58481138 TGTTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAGAAAATAATTAAATA
Found at i:58482287 original size:8 final size:8
Alignment explanation
Indices: 58482274--58482302 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
58482264 CAATAAATAA
58482274 AAAATATT
1 AAAATATT
58482282 AAAATATT
1 AAAATATT
58482290 -AAATATT
1 AAAATATT
58482297 AAAATA
1 AAAATA
58482303 AAAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:58482328 original size:11 final size:13
Alignment explanation
Indices: 58482300--58482331 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
58482290 AAATATTAAA
58482300 ATAAAAAAATTTT
1 ATAAAAAAATTTT
58482313 ATAAAAAAATTTT
1 ATAAAAAAATTTT
58482326 A-AAAAA
1 ATAAAAA
58482332 TAATATGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAAAATTTT
Found at i:58487935 original size:24 final size:25
Alignment explanation
Indices: 58487884--58487940 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
58487874 ATGTGAATTG
*
58487884 ATTTATAACAATAAAAATAAATAAA
1 ATTTTTAACAATAAAAATAAATAAA
* **
58487909 ATTTTTAACAA-AAAAATTAATTTA
1 ATTTTTAACAATAAAAATAAATAAA
58487933 ATTTTTAA
1 ATTTTTAA
58487941 TTTAATACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTTTTAACAATAAAAATAAATAAA
Found at i:58488721 original size:29 final size:31
Alignment explanation
Indices: 58488657--58488721 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
58488647 ACATAATAAC
* *
58488657 AATAAAAATATATTAAAAATTCTACAAAGTA
1 AATAAAAATATATTAAAAATTCTAAAAAATA
*
58488688 AATAAAAAT-TA-TAAAAGTTC-AAAAAATA
1 AATAAAAATATATTAAAAATTCTAAAAAATA
58488716 ATATAA
1 A-ATAA
58488722 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 12 0.40
30 2 0.07
31 9 0.30
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (31 bp):
AATAAAAATATATTAAAAATTCTAAAAAATA
Found at i:58489125 original size:29 final size:27
Alignment explanation
Indices: 58489063--58489122 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
58489053 TTATTTTATA
* *
58489063 ATTTATTTTTAAATTTTTATAGTTTTT
1 ATTTGTTTTTAAATTTTTATAATTTTT
58489090 ATTTGTTTTTAGAATTTTTAATATATTTTT
1 ATTTGTTTTTA-AATTTTT-ATA-ATTTTT
58489120 ATT
1 ATT
58489123 GTTAATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 7 0.25
29 3 0.11
30 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (27 bp):
ATTTGTTTTTAAATTTTTATAATTTTT
Found at i:58497233 original size:24 final size:24
Alignment explanation
Indices: 58497189--58497236 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58497179 AAATAAAGAC
***
58497189 TAATGAAATAAAAATCTATTTAAA
1 TAATGAAATAAAAAAAAATTTAAA
58497213 TAATGAAATAAAAAAAAATTTAAA
1 TAATGAAATAAAAAAAAATTTAAA
58497237 AGGTAATGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (24 bp):
TAATGAAATAAAAAAAAATTTAAA
Found at i:58498053 original size:14 final size:14
Alignment explanation
Indices: 58498034--58498075 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
58498024 AAACAATTTA
58498034 AAAATATAC-AAAAG
1 AAAATA-ACAAAAAG
58498048 AAAATAACAAAAAG
1 AAAATAACAAAAAG
*
58498062 AAAAAAACTAAAAA
1 AAAATAAC-AAAAA
58498076 AAACTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 18 0.72
15 5 0.20
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.10
Consensus pattern (14 bp):
AAAATAACAAAAAG
Found at i:58504561 original size:131 final size:131
Alignment explanation
Indices: 58504426--58504727 Score: 331
Period size: 132 Copynumber: 2.3 Consensus size: 131
58504416 TTGTCTGCTT
* * *
58504426 AAAACAATCAAATATCCCTTCAAAATTTCACTCATATCTT-TTAAAAATCCTTT-AAAACGAAGG
1 AAAACAATCGAATATCCCTTCAGAATTTCACTCATAT-TTATTAAAAA-CCTTTCAAAACAAAGG
* ** * *
58504489 CAATACTCGAGGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTTATTTG
64 CAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCAATCTCTCATTTG
58504554 TTC
129 TTC
** * * *
58504557 AAAACAATCGAATATTCCCTT-AGGTTTTTTACTTATGTTTATTAAAAACCTTTCAAAACAAAGG
1 AAAACAATCGAATA-TCCCTTCA-GAATTTCACTCATATTTATTAAAAACCTTTCAAAACAAAGG
* ** * * * *
58504621 CTATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCAATCTCTCGTTTG
64 CAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCAATCTCTCATTTG
58504686 TTC
129 TTC
* * * *
58504689 AAAACAATCGAACATCTCTTCGGAATTTCACTCGTATTT
1 AAAACAATCGAATATCCCTTCAGAATTTCACTCATATTT
58504728 TCTAAGGTGA
Statistics
Matches: 137, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
131 37 0.27
132 100 0.73
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (131 bp):
AAAACAATCGAATATCCCTTCAGAATTTCACTCATATTTATTAAAAACCTTTCAAAACAAAGGCA
ATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCAATCTCTCATTTGTT
C
Found at i:58506279 original size:19 final size:19
Alignment explanation
Indices: 58506257--58506304 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
58506247 TCATCCCATG
* *
58506257 CATTTGCATTGCATTGTAT
1 CATTTGCATTGCATTGAAC
58506276 CATTTGCATTGCATTGAAC
1 CATTTGCATTGCATTGAAC
58506295 CATTTGCATT
1 CATTTGCATT
58506305 AGATTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGAAC
Found at i:58510448 original size:88 final size:88
Alignment explanation
Indices: 58510332--58510564 Score: 378
Period size: 88 Copynumber: 2.7 Consensus size: 88
58510322 CTGACCTTCA
* *
58510332 TTGAAGCAGATCCAAGATGATCTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
* *
58510397 GATTTGGCTTTCACGTGTTTACG
66 AATTTGACTTTCACGTGTTTACG
* *
58510420 TTGAAGCAGATCCAAGATGATTTGGCATCTTTATATCAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
58510485 AATTTGACTTTCACGTGTTTACG
66 AATTTGACTTTCACGTGTTTACG
* * *
58510508 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAGC-GGCGGAGAGTAGATCGAAGA
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
58510565 TAACAGATTT
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
87 18 0.13
88 116 0.87
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (88 bp):
TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
AATTTGACTTTCACGTGTTTACG
Found at i:58510583 original size:44 final size:44
Alignment explanation
Indices: 58510526--58510895 Score: 488
Period size: 44 Copynumber: 8.4 Consensus size: 44
58510516 GATCCAAGAT
* * * *
58510526 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * *
58510570 GATTTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * **
58510614 GATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * *
58510658 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * **
58510702 GATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * *
58510746 GATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
*
58510790 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
* * * * * *
58510834 TATTTGGCGGCTCCGTAACGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
58510878 GATTTGGCGTCTCTGTAT
1 GATTTGGCGTCTCTGTAT
58510896 TGGGATAGCA
Statistics
Matches: 289, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 289 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATCGGCAGAGAGCAGATCGAAGATAACA
Found at i:58510671 original size:132 final size:132
Alignment explanation
Indices: 58510526--58511130 Score: 652
Period size: 132 Copynumber: 4.7 Consensus size: 132
58510516 GATCCAAGAT
* * *
58510526 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
* * * * *
58510591 TAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAA
*
58510656 TA
131 CA
** * * ** *
58510658 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGC
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
* * *
58510723 CAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAA
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAA
58510788 CA
131 CA
* * *
58510790 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGGCTCCGTAACGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
*
58510855 CAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT------G-G--GAT---AG----
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAA
58510904 CA
131 CA
* ** *
58510906 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
* * * * *
58510971 CGGAGAGTAGATCGAAGATAGCAGATTTGAG-GTCTCCGTAATTGTCAGAGGGCAGATCGAAGAT
66 CAGAGAGCAGATCGAAGATAGCAGATTTG-GCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGAT
**
58511035 AGTA
129 AACA
* * * * * * * **
58511039 GATTTGGCATCTCTAT-GTTGACAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTG
1 GATTTGGCGTCTCTGTAG-CGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACG
* *
58511103 GCAGAGAGCAGATCGAAAATAACAGATT
65 GCAGAGAGCAGATCGAAGATAGCAGATT
58511131 GGTGTTCTTG
Statistics
Matches: 399, Mismatches: 55, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
116 95 0.24
117 4 0.01
120 2 0.01
123 4 0.01
124 1 0.00
125 1 0.00
126 4 0.01
129 2 0.01
132 209 0.52
133 77 0.19
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAA
CA
Found at i:58510938 original size:30 final size:28
Alignment explanation
Indices: 58510874--58510938 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
58510864 GATCGAAGAT
** *
58510874 AGCAGATTTGGCGTCTCTGTATTGGGAT
1 AGCAGATTTGGCGTCTCTGTAGCGGGAG
58510902 AGCAGATTTGGCGTCTCTGTAGCGGCAGAG
1 AGCAGATTTGGCGTCTCTGTAGCGG--GAG
58510932 AGCAGAT
1 AGCAGAT
58510939 CGAAGGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 23 0.72
30 9 0.28
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.28
Consensus pattern (28 bp):
AGCAGATTTGGCGTCTCTGTAGCGGGAG
Found at i:58510967 original size:44 final size:44
Alignment explanation
Indices: 58510899--58511130 Score: 225
Period size: 44 Copynumber: 5.2 Consensus size: 44
58510889 TCTGTATTGG
* * *
58510899 GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
* * * * *
58510943 GGTAACAGATTTGGTATCTCTGTAGCGGCGGAGAGTAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
* * * * * *
58510987 GATAGCAGATTTGAG-GTCTCCGTAATTGTCAGAGGGCAGATCGAA
1 GATAACAGATTTG-GCATCTCTGT-AGTGGCAGAGAGCAGATCGAA
** * * *
58511032 GATAGTAGATTTGGCATCTCTAT-GTTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTAG-TGGCAGAGAGCAGATCGAA
* *
58511076 GATGACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
*
58511120 AATAACAGATT
1 GATAACAGATT
58511131 GGTGTTCTTG
Statistics
Matches: 150, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
44 117 0.78
45 33 0.22
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.25
Consensus pattern (44 bp):
GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
Found at i:58511006 original size:116 final size:116
Alignment explanation
Indices: 58510783--58510999 Score: 353
Period size: 116 Copynumber: 1.9 Consensus size: 116
58510773 GCAGATCGAA
* *
58510783 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGGCTCC
1 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCAGCTCC
58510848 GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
66 GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
* * * * *
58510899 GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCT
1 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCAGCTCC
* *
58510964 GTAGCGGCGGAGAGTAGATCGAAGATAGCAGATTTG
66 GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTG
58511000 AGGTCTCCGT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 92 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (116 bp):
GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCAGCTCC
GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
Found at i:58511010 original size:160 final size:161
Alignment explanation
Indices: 58510739--58511052 Score: 434
Period size: 160 Copynumber: 2.0 Consensus size: 161
58510729 GCAGATCGAA
* ** * * *
58510739 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCT
1 GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
* *
58510804 GTAGCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGGCTCCGTAA-CGGCAGAGAGTAGATC
66 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGGCTCCGTAATCGGCAGAGAGCAGATC
*
58510868 GAAGATAGCAGATTTGGCGTCTCTGTATTGG
131 GAAGATAGCAGATTTGGCATCTCTGTATTGG
* *
58510899 GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCT
1 GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
* * * * * * *
58510964 GTAGCGGCGGAGAGTAGATCGAAGATAGCAGATTTGAG-GTCTCCGTAATTGTCAGAGGGCAGAT
66 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTG-GCGGCTCCGTAATCGGCAGAGAGCAGAT
*
58511028 CGAAGATAGTAGATTTGGCATCTCT
130 CGAAGATAGCAGATTTGGCATCTCT
58511053 ATGTTGACAG
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
160 98 0.74
161 35 0.26
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (161 bp):
GATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGGCTCCGTAATCGGCAGAGAGCAGATC
GAAGATAGCAGATTTGGCATCTCTGTATTGG
Found at i:58512593 original size:11 final size:11
Alignment explanation
Indices: 58512577--58512601 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58512567 TTAGCTCATT
58512577 TATTTTAATTG
1 TATTTTAATTG
58512588 TATTTTAATTG
1 TATTTTAATTG
58512599 TAT
1 TAT
58512602 CCTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTTAATTG
Found at i:58513694 original size:13 final size:14
Alignment explanation
Indices: 58513662--58513695 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
58513652 ATATTACTTG
*
58513662 ATTTTTAGTCCATC
1 ATTTTTAGCCCATC
*
58513676 ATTTTTAGCCCATT
1 ATTTTTAGCCCATC
58513690 ATTTTT
1 ATTTTT
58513696 GTGTCGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTTTAGCCCATC
Found at i:58514278 original size:132 final size:133
Alignment explanation
Indices: 58514035--58514278 Score: 285
Period size: 132 Copynumber: 1.8 Consensus size: 133
58514025 TTAAAATTCT
* ** * * *
58514035 TTAAATCGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCGCTAACATGTTGGGTTGC
1 TTAAATCGAAGGCGATATTCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGC
* ** * * * * *
58514100 AATTCCTCGTTTGCTCAAAGTAATCGAAGGTCCTTTTAGAATTTCACCCACGGCTATTAAAAAAT
66 AATTCCTCGTCTGCTCAAAAAAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAAT
58514165 CCC
131 CCC
* *
58514168 TTAAA-CGAAGGCGATATGT-GATATTTGGGAATTCACGGAATCGTACCCTAACGTGCTGGGTTG
1 TTAAATCGAAGGCGATAT-TCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTG
* * * *
58514231 CAATTTCTTGTCTGCTTAAAAAAATCAAATATCCCTTCAAAATTTCAC
65 CAATTCCTCGTCTGCTCAAAAAAATCAAAGATCCCTTCAAAATTTCAC
58514279 TCATATCTTT
Statistics
Matches: 90, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
132 84 0.93
133 6 0.07
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (133 bp):
TTAAATCGAAGGCGATATTCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGC
AATTCCTCGTCTGCTCAAAAAAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAAT
CCC
Found at i:58514393 original size:131 final size:131
Alignment explanation
Indices: 58514221--58514549 Score: 342
Period size: 132 Copynumber: 2.5 Consensus size: 131
58514211 TACCCTAACG
* * * * *
58514221 TGCTGGGTTGCAATTTCTTGTCTGCTT-AAAAAAATCAAATATCCCTTCAAAATTTCACTCATAT
1 TGCTGGGTTGCAATTTCTCGTTTG-TTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATAT
* * *
58514285 CTT-TTAAAAATCCTTT-AAAACGAAGGCAATACTCGGGGTTTGACAATTCGGGAATCATGCCCT
65 -TTATTAAAAA-CCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCT
*
58514348 ATTA
128 ATCA
** ** * *
58514352 TGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCCTT-AGGTTTTTTACTCATG
1 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATA-TCCCTTCA-GAATTTCACTCATA
* ** * * *
58514416 TTTATTAAAAACCTTTCAAAACAAAGGCTATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTA
64 TTTATTAAAAACCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTA
*
58514481 TCG
129 TCA
* * * * *
58514484 TGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAACATCTCTTCGGAATTTCACTCGTATT
1 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATATT
58514549 T
66 T
58514550 TCTAAGGTGA
Statistics
Matches: 159, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
130 2 0.01
131 57 0.36
132 100 0.63
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (131 bp):
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATATT
TATTAAAAACCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATC
A
Found at i:58521715 original size:7 final size:7
Alignment explanation
Indices: 58521703--58521727 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58521693 TTATATGACA
58521703 AAGCATT
1 AAGCATT
58521710 AAGCATT
1 AAGCATT
58521717 AAGCATT
1 AAGCATT
58521724 AAGC
1 AAGC
58521728 TCATATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (7 bp):
AAGCATT
Found at i:58522384 original size:3 final size:3
Alignment explanation
Indices: 58522376--58522409 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
58522366 CATAGACCTT
*
58522376 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
58522410 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58527381 original size:22 final size:22
Alignment explanation
Indices: 58527353--58527401 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
58527343 ACAACTCAGA
*
58527353 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* *
58527375 GCTCGCATGAAAATATAACAGG
1 GCTCGCATCAAAATACAACAGG
58527397 GCTCG
1 GCTCG
58527402 TATGCACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Done.