Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 13 of 344
Found at i:4744215 original size:13 final size:14
Alignment explanation
Indices: 4744197--4744234 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
4744187 AAAAAATCAT
4744197 AAAATTTATAAAC-
1 AAAATTTATAAACA
4744210 AAAATTTAT-AACA
1 AAAATTTATAAACA
4744223 AAAATTTATAAA
1 AAAATTTATAAA
4744235 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.13
13 18 0.78
14 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATTTATAAACA
Found at i:4748331 original size:31 final size:31
Alignment explanation
Indices: 4748274--4748332 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4748264 GTATAATTCA
*
4748274 TATTAGAGTTAAACCGAAAAATTTAATTTTT
1 TATTAGAGTTAAACCGAAAAACTTAATTTTT
* *
4748305 TATTCGAGTTAATCC-AAATAACTTAATT
1 TATTAGAGTTAAACCGAAA-AACTTAATT
4748333 AACTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (31 bp):
TATTAGAGTTAAACCGAAAAACTTAATTTTT
Found at i:4750003 original size:52 final size:52
Alignment explanation
Indices: 4749925--4750029 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
4749915 AAATTGCGTC
* * * *
4749925 ACCACTTTTTCTATCAAATTAAAAAGGGTAATTGCTTCGTCGTATCTTTGAA
1 ACCACTTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
4749977 ACCACTTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
1 ACCACTTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
4750029 A
1 A
4750030 TTTTTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (52 bp):
ACCACTTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
Found at i:4758260 original size:22 final size:22
Alignment explanation
Indices: 4758209--4758270 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
4758199 ATTATATATA
* *
4758209 AAAATATATGAATATATTTTAT
1 AAAATATTTAAATATATTTTAT
*
4758231 AAAATATTTAAATATTTTTTAT
1 AAAATATTTAAATATATTTTAT
*
4758253 ACAATATTTAGAAT-TATT
1 AAAATATTTA-AATATATT
4758271 GTTGATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
AAAATATTTAAATATATTTTAT
Found at i:4761363 original size:25 final size:23
Alignment explanation
Indices: 4761311--4761365 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
4761301 TATAAATAGT
4761311 AATAGTGTTAGAAATATACGATA
1 AATAGTGTTAGAAATATACGATA
* *
4761334 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACGAT-A
4761359 AATAGTG
1 AATAGTG
4761366 AAAACATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACGATA
Found at i:4761684 original size:15 final size:16
Alignment explanation
Indices: 4761664--4761699 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4761654 ATTAAAAAGC
4761664 ATATAACAT-ATATGT
1 ATATAACATAATATGT
*
4761679 ATATAACATAATATTT
1 ATATAACATAATATGT
4761695 ATATA
1 ATATA
4761700 TGTACATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATAACATAATATGT
Found at i:4761783 original size:9 final size:9
Alignment explanation
Indices: 4761771--4761805 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4761761 TAACATTAAT
4761771 ATATATATA
1 ATATATATA
*
4761780 ATATATAAA
1 ATATATATA
*
4761789 ATACATATA
1 ATATATATA
4761798 ATATATAT
1 ATATATAT
4761806 TAGAAATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
ATATATATA
Found at i:4761897 original size:19 final size:19
Alignment explanation
Indices: 4761873--4761909 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4761863 TATAAATAAT
*
4761873 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
4761892 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
4761910 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:4762046 original size:30 final size:30
Alignment explanation
Indices: 4761993--4762067 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
4761983 TTGAAAACAT
*
4761993 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
4762023 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
4762053 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
4762068 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:4762149 original size:23 final size:23
Alignment explanation
Indices: 4762105--4762150 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4762095 CTACATAAGT
*
4762105 ATATACATAAATATATTAAAAAC
1 ATATACATAAATATAATAAAAAC
*
4762128 ATATACATATATATAAATAAAAA
1 ATATACATAAATAT-AATAAAAA
4762151 AAATATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
ATATACATAAATATAATAAAAAC
Found at i:4764079 original size:19 final size:19
Alignment explanation
Indices: 4764055--4764167 Score: 68
Period size: 19 Copynumber: 5.8 Consensus size: 19
4764045 CAAAATTATT
4764055 ATTTTAGAAATTTTTTAAA
1 ATTTTAGAAATTTTTTAAA
*
4764074 ATTTTA-AATTTTTTTATATA
1 ATTTTAGAAATTTTTTA-A-A
* *
4764094 TATTTTAGAACTTTTTAAAA
1 -ATTTTAGAAATTTTTTAAA
** * *
4764114 AAATTATATATTTTTTAAA
1 ATTTTAGAAATTTTTTAAA
* * * *
4764133 ATCTTATAAATATTTT-GA
1 ATTTTAGAAATTTTTTAAA
*
4764151 ATTTTAAAAATTATTTT
1 ATTTTAGAAATT-TTTT
4764168 GATTTTTTTT
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
18 19 0.26
19 36 0.50
20 2 0.03
21 7 0.10
22 8 0.11
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTTAGAAATTTTTTAAA
Found at i:4764359 original size:9 final size:9
Alignment explanation
Indices: 4764330--4764364 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4764320 TTATTCCAGT
4764330 TAACTCGAA
1 TAACTCGAA
* *
4764339 TAATTCGGA
1 TAACTCGAA
4764348 TAACTCGAA
1 TAACTCGAA
4764357 TAACTCGA
1 TAACTCGA
4764365 TTCGATTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (9 bp):
TAACTCGAA
Found at i:4765584 original size:23 final size:24
Alignment explanation
Indices: 4765558--4765603 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4765548 AAAAATAAAT
4765558 AAAA-ATTCTGAAACTTTAAAAAA
1 AAAACATTCTGAAACTTTAAAAAA
* *
4765581 AAAACATTCTGAAATTTTCAAAA
1 AAAACATTCTGAAACTTTAAAAA
4765604 TTGAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (24 bp):
AAAACATTCTGAAACTTTAAAAAA
Found at i:4768163 original size:12 final size:12
Alignment explanation
Indices: 4768146--4768178 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4768136 TATTTTTTAG
4768146 TTATTTACTCAC
1 TTATTTACTCAC
*
4768158 TTATTTATTCAC
1 TTATTTACTCAC
4768170 TTATTTACT
1 TTATTTACT
4768179 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:4769816 original size:25 final size:24
Alignment explanation
Indices: 4769786--4769834 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
4769776 AATTCTAGTC
*
4769786 TGCCTTTTGGCACGAATTCTCTGTT
1 TGCCTTTTGGCACGAAGTCT-TGTT
4769811 TGCCTTTTGGCACGAAGTCTTGTT
1 TGCCTTTTGGCACGAAGTCTTGTT
4769835 GCGGTTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (24 bp):
TGCCTTTTGGCACGAAGTCTTGTT
Found at i:4774152 original size:68 final size:66
Alignment explanation
Indices: 4774104--4774227 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 66
4774094 AGACATTATG
* * * *
4774104 ATGTAGCTAGGTCGCATGGGTGATACTATGTG-T-ACACCATGTAGACAAGAGAGCTACGGAATA
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTGATGACACCATGTAGACAAGAGAGCTACAGAATA
4774167 C
66 C
* *
4774168 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAATGACACCATGTAGACAAGAGAGCTAC
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTG-ATGACACCATGTAGACAAGAGAGCTAC
4774228 GAGATAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 27 0.52
66 1 0.02
67 24 0.46
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGCGTGATACCAGGTGATGACACCATGTAGACAAGAGAGCTACAGAATA
C
Found at i:4774184 original size:64 final size:63
Alignment explanation
Indices: 4774104--4774287 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 63
4774094 AGACATTATG
* *
4774104 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GAATAC
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * *
4774168 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAATGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTG--T-ACACCATGTAGACAAGAGAGCTACGAGAT
4774233 AA
62 AA
* * *
4774235 AT-TGGCTAGG-CGACATGGGTGGTACTGAGTGTTCACCATGTGGACAAGAGAGC
1 ATGTAGCTAGGTCG-CATGGGTGGTACT-AGTGTACACCATGTAGACAAGAGAGC
4774288 CGAACTATCT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
63 19 0.19
64 28 0.27
65 2 0.02
66 21 0.21
67 31 0.30
68 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:4782137 original size:16 final size:16
Alignment explanation
Indices: 4782116--4782146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4782106 ATTTCCTAAT
*
4782116 AATAATTAATTAATGC
1 AATAATTAAATAATGC
4782132 AATAATTAAATAATG
1 AATAATTAAATAATG
4782147 AATTTTCCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AATAATTAAATAATGC
Found at i:4787535 original size:27 final size:29
Alignment explanation
Indices: 4787505--4787564 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
4787495 TTCTCGCATA
*
4787505 TATATATAT-TTTTTAAAT-TCATT-TATG
1 TATATATATGCTTTTAAATCT-ATTATATG
4787532 TATATATATGCTTTTAAATCTATTATATG
1 TATATATATGCTTTTAAATCTATTATATG
4787561 TATA
1 TATA
4787565 AGTGTTTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.31
28 11 0.38
29 9 0.31
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (29 bp):
TATATATATGCTTTTAAATCTATTATATG
Found at i:4787546 original size:29 final size:29
Alignment explanation
Indices: 4787503--4787564 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
4787493 TATTCTCGCA
*
4787503 TATATATATATTTTTTAAAT-TCATT-TATG
1 TATATATATA-CTTTTAAATCT-ATTATATG
*
4787532 TATATATATGCTTTTAAATCTATTATATG
1 TATATATATACTTTTAAATCTATTATATG
4787561 TATA
1 TATA
4787565 AGTGTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (29 bp):
TATATATATACTTTTAAATCTATTATATG
Found at i:4788884 original size:127 final size:129
Alignment explanation
Indices: 4788562--4788886 Score: 404
Period size: 131 Copynumber: 2.5 Consensus size: 129
4788552 AAAAATTCCT
* *
4788562 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTC-AGGAAATCGTACCCTACCGTGCTGGGTTTC
1 TAAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGAGG-AATCATGCCCTACCGTGCTGGGTTTC
* * * * * * *
4788626 AATTTCCCGTTTGTTCAAAATAATCGAACCTTCCTTTAGAATTTCATTCGTGTTTTTTTCCTAAA
64 GATCTCCCGTCTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTCG-GTATTCTT-CTAAA
4788691 TTC
127 TTC
* * * * * *
4788694 TAAAATAAGGCAATGTTTGACGCTTGGAAATTCGGGGAACCATGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCATGCCCTACCGTGCTGGGTTTCGA
** *
4788759 TCTCTTGTCTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTC-GTATTCTT-TAAATTC
66 TCTCCCGTCTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTCGGTATTCTTCTAAATTC
* * *
4788821 TAAAACAAGGCAATGTTTAATGTTTGGAAGTTCGAGGAATCATGCCCTACCGTGATGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCATGCCCTACCGTGCTGGGTTTCGA
4788886 T
66 T
4788887 TTTTCGTTGG
Statistics
Matches: 165, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
127 64 0.39
129 6 0.04
131 88 0.53
132 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (129 bp):
TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCATGCCCTACCGTGCTGGGTTTCGA
TCTCCCGTCTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTCGGTATTCTTCTAAATTC
Found at i:4793281 original size:14 final size:14
Alignment explanation
Indices: 4793262--4793293 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4793252 GTTTCACTGG
*
4793262 AAATATTTTTTGTA
1 AAATATTTTTTATA
4793276 AAATATTTTTTATA
1 AAATATTTTTTATA
4793290 AAAT
1 AAAT
4793294 GGATTGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATATTTTTTATA
Found at i:4794072 original size:27 final size:28
Alignment explanation
Indices: 4794028--4794095 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
4794018 TTACTATTAG
*
4794028 ATATT-TATAAATATTAAAATATATTT-A
1 ATATTATATTAATATT-AAATATATTTCA
* *
4794055 TTATTATATTAATA-TAAATATTTTTCA
1 ATATTATATTAATATTAAATATATTTCA
*
4794082 ATAATATATTAATA
1 ATATTATATTAATA
4794096 GTATTATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.26
27 18 0.53
28 7 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATTATATTAATATTAAATATATTTCA
Found at i:4803278 original size:28 final size:26
Alignment explanation
Indices: 4803221--4803309 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 26
4803211 AATTTTTGAG
*
4803221 TTTTTTTTAAATTGTTATACTTTTTA-TA
1 TTTTTTTTAAA---TTATAATTTTTACTA
*
4803249 TTTTTTTCTAATTTGA-AATTTTTACCTA
1 TTTTTTT-TAAATT-ATAATTTTTA-CTA
*
4803277 TTATTTTTTAAATTATAATTTTTATTA
1 TT-TTTTTTAAATTATAATTTTTACTA
4803304 TTTTTT
1 TTTTTT
4803310 GAAATGTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
26 13 0.25
27 6 0.12
28 24 0.47
29 8 0.16
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTTTTAAATTATAATTTTTACTA
Found at i:4803320 original size:25 final size:25
Alignment explanation
Indices: 4803275--4803325 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
4803265 AATTTTTACC
4803275 TATTATTTTTTAAATTATAAT-TTT
1 TATTATTTTTTAAATTATAATCTTT
4803299 TATTATTTTTTGAAATGT-TAATCTTT
1 TATTATTTTTT-AAAT-TATAATCTTT
4803325 T
1 T
4803326 TTTAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTATTTTTTAAATTATAATCTTT
Found at i:4805766 original size:19 final size:20
Alignment explanation
Indices: 4805738--4805776 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4805728 TCCCATTATT
4805738 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
4805757 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
4805777 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:4805794 original size:25 final size:23
Alignment explanation
Indices: 4805757--4805802 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
4805747 TTTGTTTTAA
*
4805757 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
4805780 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
4805803 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:4812710 original size:14 final size:15
Alignment explanation
Indices: 4812691--4812720 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4812681 CTTTATAATA
4812691 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
4812705 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
4812720 A
1 A
4812721 TTTCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:4813123 original size:80 final size:80
Alignment explanation
Indices: 4812990--4813151 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
4812980 CTTGTTCACT
4812990 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
1 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
4813055 TTGGTTTCATGAATA
66 TTGGTTTCATGAATA
*
4813070 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTTGTCAATTATATACCTTTCAAACCTT
1 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
4813135 TTGGTTTCATGAATA
66 TTGGTTTCATGAATA
4813150 TC
1 TC
4813152 AAATATTTCT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (80 bp):
TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
TTGGTTTCATGAATA
Found at i:4816180 original size:25 final size:25
Alignment explanation
Indices: 4816151--4816199 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4816141 CAAAGGAAAA
**
4816151 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
4816176 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCTAATTTAAA
4816200 TTTTATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:4816201 original size:13 final size:13
Alignment explanation
Indices: 4816151--4816201 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
4816141 CAAAGGAAAA
*
4816151 TCCTAATCT-AAT
1 TCCTAATTTAAAT
*
4816163 TCCTAATTTAAAG
1 TCCTAATTTAAAT
4816176 TCCTAA--TAGAAT
1 TCCTAATTTA-AAT
4816188 TCCTAATTTAAAT
1 TCCTAATTTAAAT
4816201 T
1 T
4816202 TTATAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.06
12 16 0.50
13 12 0.38
14 2 0.06
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (13 bp):
TCCTAATTTAAAT
Found at i:4819558 original size:9 final size:9
Alignment explanation
Indices: 4819542--4819602 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
4819532 GGTATTTTTC
4819542 GGTAATTCG
1 GGTAATTCG
*
4819551 GTTAATTCG
1 GGTAATTCG
*
4819560 GTTAATTCG
1 GGTAATTCG
*
4819569 GTTAATTCG
1 GGTAATTCG
4819578 GGTAATTCG
1 GGTAATTCG
4819587 GGTAATTCG
1 GGTAATTCG
4819596 GGTAATT
1 GGTAATT
4819603 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:4819779 original size:12 final size:12
Alignment explanation
Indices: 4819762--4819786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4819752 AGTAATTTCG
4819762 GGTCGGTTAACC
1 GGTCGGTTAACC
4819774 GGTCGGTTAACC
1 GGTCGGTTAACC
4819786 G
1 G
4819787 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:4821467 original size:25 final size:25
Alignment explanation
Indices: 4821438--4821486 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4821428 CAAAGGAAAA
**
4821438 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
4821463 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCTAATTTAAA
4821487 ATTTATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:4823215 original size:15 final size:15
Alignment explanation
Indices: 4823195--4823237 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
4823185 AGGCAAGTGT
4823195 TAACTTTTCATTCTC
1 TAACTTTTCATTCTC
4823210 TAAC--TTCATTCTC
1 TAACTTTTCATTCTC
*
4823223 TAACTTTTCAGTCTC
1 TAACTTTTCATTCTC
4823238 CAGGTCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (15 bp):
TAACTTTTCATTCTC
Found at i:4826442 original size:9 final size:9
Alignment explanation
Indices: 4826428--4826460 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4826418 ACCTTCCACT
4826428 CCACCATCA
1 CCACCATCA
4826437 CCACCATCA
1 CCACCATCA
*
4826446 CCACCACCA
1 CCACCATCA
4826455 CCACCA
1 CCACCA
4826461 CAACAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.61, G:0.00, T:0.06
Consensus pattern (9 bp):
CCACCATCA
Found at i:4826450 original size:3 final size:3
Alignment explanation
Indices: 4826428--4826461 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4826418 ACCTTCCACT
* *
4826428 CCA CCA TCA CCA CCA TCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
4826462 AACAACAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.62, G:0.00, T:0.06
Consensus pattern (3 bp):
CCA
Found at i:4831774 original size:18 final size:18
Alignment explanation
Indices: 4831751--4831843 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
4831741 CCCAACTACT
*
4831751 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
4831769 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
**
4831787 GTATACGTGAATAGTATT
1 GTATACGTGAATAGTACC
*
4831805 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
4831823 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4831841 GTA
1 GTA
4831844 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4833947 original size:18 final size:18
Alignment explanation
Indices: 4833924--4833958 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4833914 TTTCAAATTA
*
4833924 TTTTTATAATTAATTAAT
1 TTTTTAAAATTAATTAAT
*
4833942 TTTTTAAAATTATTTAA
1 TTTTTAAAATTAATTAA
4833959 AATAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATTAATTAAT
Found at i:4839453 original size:28 final size:29
Alignment explanation
Indices: 4839421--4839481 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
4839411 ATTATTACAG
*
4839421 TATAAAAA-ATCATTTT-TATTTTAATATT
1 TATAAAAATAT-ATTTTACATTTTAATATT
*
4839449 TATAAAAATATATTTTACATTTTAATTTT
1 TATAAAAATATATTTTACATTTTAATATT
4839478 TATA
1 TATA
4839482 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
TATAAAAATATATTTTACATTTTAATATT
Found at i:4849586 original size:16 final size:17
Alignment explanation
Indices: 4849547--4849587 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4849537 TATTATTTAG
4849547 ATATTG-TATAAATTGTT
1 ATATTGTTA-AAATTGTT
*
4849564 TTATTGTTAAAATTGTT
1 ATATTGTTAAAATTGTT
4849581 AT-TTGTT
1 ATATTGTT
4849588 GGTTAAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (17 bp):
ATATTGTTAAAATTGTT
Found at i:4850104 original size:8 final size:9
Alignment explanation
Indices: 4850089--4850127 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
4850079 GTTAATAATA
4850089 ATTTAAAAT
1 ATTTAAAAT
4850098 A-TTAAAAT
1 ATTTAAAAT
4850106 ATTTAAAA-
1 ATTTAAAAT
4850114 ATTTAAAA-
1 ATTTAAAAT
4850122 ATTTAA
1 ATTTAA
4850128 GAAATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:4850111 original size:17 final size:16
Alignment explanation
Indices: 4850088--4850132 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
4850078 GGTTAATAAT
4850088 AATTT-AAAATATTAAA
1 AATTTAAAAAT-TTAAA
4850104 ATATTTAAAAATTTAAA
1 A-ATTTAAAAATTTAAA
4850121 AATTTAAGAAAT
1 AATTTAA-AAAT
4850133 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.27
17 14 0.54
18 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTTAAAAATTTAAA
Found at i:4850113 original size:9 final size:8
Alignment explanation
Indices: 4850088--4850132 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
4850078 GGTTAATAAT
4850088 AATTT-AA
1 AATTTAAA
4850095 AATATTAAA
1 AAT-TTAAA
4850104 ATATTTAAA
1 A-ATTTAAA
4850113 AATTTAAA
1 AATTTAAA
4850121 AATTTAAGA
1 AATTTAA-A
4850130 AAT
1 AAT
4850133 ATTTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.09
8 16 0.47
9 13 0.38
10 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
AATTTAAA
Found at i:4854560 original size:120 final size:122
Alignment explanation
Indices: 4854331--4854568 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 122
4854321 TTATTATAAA
* *
4854331 TAAATAAAAATGAAAGAGGACAAAATAACTAAATATGAAAATATATTTAGTAACAGAAAAAATTA
1 TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
*
4854396 ATTAGCATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
66 ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
* *
4854453 TAAATAAAAAT-AAAGAGAATAAAATAACTAAATATGAAATTATATTTAATAACAG-AAAAATTA
1 TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
* ** *
4854516 ATTAACATAACATCGATGTTTCAGGATTAAAATTAAAATTATTTAAAATTTAG
66 ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAG
4854569 GAAAGTGAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 56 0.52
121 40 0.37
122 11 0.10
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.30
Consensus pattern (122 bp):
TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
Found at i:4861149 original size:14 final size:14
Alignment explanation
Indices: 4861114--4861149 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4861104 TCTCTATTTC
*
4861114 AAAAAAAATGAATT
1 AAAAAAAATAAATT
*
4861128 ACAAAAAATAAATT
1 AAAAAAAATAAATT
4861142 AAAAAAAA
1 AAAAAAAA
4861150 ATCGTCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAAAAAATAAATT
Found at i:4861498 original size:10 final size:10
Alignment explanation
Indices: 4861424--4861499 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 10
4861414 GTCTTAATTT
4861424 TTTTTATATAA
1 TTTTTA-ATAA
*
4861435 -TTTTACTAA
1 TTTTTAATAA
4861444 TATTTTAATACAA
1 T-TTTTAAT--AA
* *
4861457 TTTTTTATAT
1 TTTTTAATAA
*
4861467 TTTTTTAT-A
1 TTTTTAATAA
4861476 TTTTT-ATAA
1 TTTTTAATAA
4861485 -TTTTAATAA
1 TTTTTAATAA
4861494 TTTTTA
1 TTTTTA
4861500 TGTAATTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
8 6 0.11
9 13 0.25
10 19 0.36
11 6 0.11
12 6 0.11
13 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:4865239 original size:35 final size:35
Alignment explanation
Indices: 4865189--4865257 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
4865179 TGAATTGGTT
4865189 GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
1 GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
*
4865224 GCTAAAATTTTCTTGATCATAATCACTTTGAAAT
1 GCTAAAATTTGCTTGATCATAATCACTTTGAAAT
4865258 ACTATGTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
Found at i:4872210 original size:12 final size:13
Alignment explanation
Indices: 4872193--4872225 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4872183 ATAAATATTA
4872193 TTTTATTA-ATAT
1 TTTTATTAGATAT
*
4872205 TTTTATGAGATAT
1 TTTTATTAGATAT
4872218 TTTTATTA
1 TTTTATTA
4872226 TTATATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (13 bp):
TTTTATTAGATAT
Found at i:4874146 original size:46 final size:46
Alignment explanation
Indices: 4874084--4874311 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
4874074 GCTCTCTGAT
** * *
4874084 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
4874130 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
4874176 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
4874222 ATGAAATGGATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
4874268 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCACCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
4874312 TCAAAGATAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:4874613 original size:16 final size:17
Alignment explanation
Indices: 4874592--4874624 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4874582 ATGATGGAGC
4874592 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
4874608 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
4874625 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:4876220 original size:93 final size:93
Alignment explanation
Indices: 4876107--4876278 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
4876097 GCCCATAAGT
* *
4876107 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
4876172 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
4876200 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
4876265 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
4876279 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:4876274 original size:46 final size:46
Alignment explanation
Indices: 4876099--4876274 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
4876089 TGTAACCCGC
* * * *
4876099 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
4876145 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
4876195 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
4876238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
4876275 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:4879249 original size:3 final size:3
Alignment explanation
Indices: 4879243--4879270 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4879233 TCATTTTAGT
4879243 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4879271 AGGGTTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4881180 original size:20 final size:23
Alignment explanation
Indices: 4881140--4881183 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
4881130 ATTAACAATA
4881140 ATTAATAAAAATGTAATTATTTT
1 ATTAATAAAAATGTAATTATTTT
4881163 ATTAAT-AAAAT-T-ATTATTTT
1 ATTAATAAAAATGTAATTATTTT
4881183 A
1 A
4881184 ACATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 5 0.24
23 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTAATAAAAATGTAATTATTTT
Found at i:4882484 original size:13 final size:12
Alignment explanation
Indices: 4882439--4882483 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
4882429 TTTATTTTAT
4882439 TTTATTTTAAAA
1 TTTATTTTAAAA
4882451 TTTATTTTAAAA
1 TTTATTTTAAAA
*
4882463 TTTATTTTTAAA
1 TTTATTTTAAAA
4882475 TATTATTTT
1 T-TTATTTT
4882484 TGGGGCGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 24 0.77
13 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTATTTTAAAA
Found at i:4883700 original size:20 final size:21
Alignment explanation
Indices: 4883663--4883701 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4883653 ACATGAAATT
* *
4883663 AAAAAAATAACTCTTAATTTA
1 AAAAAAATAACACATAATTTA
4883684 AAAAAAATAA-ACATAATT
1 AAAAAAATAACACATAATT
4883702 ATCTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATAACACATAATTTA
Found at i:4887461 original size:32 final size:33
Alignment explanation
Indices: 4887395--4887464 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4887385 AAATTTAGAC
*
4887395 GATTAATACAAATCCTTGAAAAAAATTAGGATT
1 GATTAATACAAATCCTTGAAAAAAATTAGAATT
*
4887428 GATTAATACAAATCCTTG-AAGAAATTAGAATT
1 GATTAATACAAATCCTTGAAAAAAATTAGAATT
4887460 GATTA
1 GATTA
4887465 GAAATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 17 0.49
33 18 0.51
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (33 bp):
GATTAATACAAATCCTTGAAAAAAATTAGAATT
Found at i:4888623 original size:28 final size:27
Alignment explanation
Indices: 4888592--4888660 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
4888582 TACAATTAAT
4888592 TAATGTTTTGTATAATTGTTTAATTACA
1 TAATGTTTTGTATAATT-TTTAATTACA
*
4888620 TAATAAGTTATTG--TAATTTTTAATTGCA
1 TAAT--GTT-TTGTATAATTTTTAATTACA
*
4888648 TAATATTTTGTAT
1 TAATGTTTTGTAT
4888661 GATTAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 1 0.03
28 17 0.50
29 5 0.15
30 3 0.09
31 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (27 bp):
TAATGTTTTGTATAATTTTTAATTACA
Found at i:4898913 original size:14 final size:15
Alignment explanation
Indices: 4898886--4898914 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4898876 AATTTTATGA
4898886 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
4898901 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
4898915 GATGATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:4899110 original size:50 final size:51
Alignment explanation
Indices: 4899029--4899157 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
4899019 GACCATGGCA
*
4899029 ACAAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
4899080 A-AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
4899130 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
4899158 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 43 0.62
51 26 0.38
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:4899171 original size:31 final size:31
Alignment explanation
Indices: 4899133--4899312 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
4899123 ACAAATGACA
*
4899133 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4899164 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4899195 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
4899226 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4899257 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4899288 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
4899313 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.01
31 133 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:4899488 original size:42 final size:42
Alignment explanation
Indices: 4899431--4899543 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
4899421 TATGTGATTC
* *
4899431 GTGTAAGACCATAGCTGGGCTATGGTATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGAT
*
4899473 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
* **
4899515 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGGGCTATGGCATC
4899544 GAGAAAACGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
Found at i:4902496 original size:21 final size:21
Alignment explanation
Indices: 4902472--4902536 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
4902462 AAATCTAACT
4902472 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
4902493 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
4902511 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
4902532 GAAGC
1 GAAGC
4902537 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:4902512 original size:39 final size:39
Alignment explanation
Indices: 4902466--4902554 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
4902456 AACCCGAAAT
4902466 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
4902505 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
4902544 CTAACTGAAGC
1 CTAACTGAAGC
4902555 TCATCAGAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:4903825 original size:61 final size:61
Alignment explanation
Indices: 4903756--4903877 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
4903746 TTTATTCTAT
4903756 CACCTTTAACTAGTTTACAACCTTTAGGAATCAAAATTTTAGAAATAGACTTTAATTCCAC
1 CACCTTTAACTAGTTTACAACCTTTAGGAATCAAAATTTTAGAAATAGACTTTAATTCCAC
4903817 CACCTTTAACTAGTTTACAACCTTTAGGAATCAAAATTTTAGAAATAGACTTTAATTCCAC
1 CACCTTTAACTAGTTTACAACCTTTAGGAATCAAAATTTTAGAAATAGACTTTAATTCCAC
4903878 ACATTTTCAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (61 bp):
CACCTTTAACTAGTTTACAACCTTTAGGAATCAAAATTTTAGAAATAGACTTTAATTCCAC
Found at i:4906590 original size:23 final size:21
Alignment explanation
Indices: 4906552--4906633 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
4906542 GACACATAAA
* *
4906552 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
4906573 ATGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
4906594 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
4906615 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
4906634 TAAAGTGCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 45 0.82
23 10 0.18
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.13
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:4906641 original size:23 final size:22
Alignment explanation
Indices: 4906539--4906645 Score: 96
Period size: 21 Copynumber: 5.0 Consensus size: 22
4906529 CTGATCAGAG
*
4906539 TACGACACATAAAGTGCCT-AA
1 TACGACACACAAAGTGCCTGAA
* *
4906560 AACGACACAC-GAGATGCCTG-A
1 TACGACACACAAAG-TGCCTGAA
* *
4906581 TACGACACACGAGGTGCCTG-A
1 TACGACACACAAAGTGCCTGAA
* *
4906602 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTG-AA
*
4906625 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
4906646 TCGATAAAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.03
21 50 0.69
22 2 0.03
23 18 0.25
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
TACGACACACAAAGTGCCTGAA
Found at i:4907045 original size:15 final size:15
Alignment explanation
Indices: 4907017--4907074 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
4907007 TCATATATAT
*
4907017 TATATAATTAAATCAA
1 TATA-AATTCAATCAA
4907033 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4907048 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4907063 TATAAATTCAAT
1 TATAAATTCAAT
4907075 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4908362 original size:5 final size:5
Alignment explanation
Indices: 4908354--4908410 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
4908344 TCTTTAGTTT
4908354 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4908404 ATATA AT
1 ATATA AT
4908411 TAAAACATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:4908446 original size:8 final size:8
Alignment explanation
Indices: 4908433--4908461 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4908423 TATCTTTATT
4908433 ATATAATA
1 ATATAATA
4908441 ATATAATA
1 ATATAATA
4908449 ATATAATA
1 ATATAATA
4908457 ATATA
1 ATATA
4908462 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:4908462 original size:10 final size:9
Alignment explanation
Indices: 4908353--4908462 Score: 81
Period size: 10 Copynumber: 12.3 Consensus size: 9
4908343 TTCTTTAGTT
4908353 TATATAATA
1 TATATAATA
4908362 TAATATAATA
1 T-ATATAATA
4908372 TAATATAATA
1 T-ATATAATA
4908382 TAATATAATA
1 T-ATATAATA
4908392 TAATATAATA
1 T-ATATAATA
4908402 TAATATAAT-
1 T-ATATAATA
*
4908411 TA-A-AACA
1 TATATAATA
4908418 TA-A-AATA
1 TATATAATA
* * *
4908425 TCTTTATTA
1 TATATAATA
4908434 TATAATAATA
1 TAT-ATAATA
4908444 TA-ATAATA
1 TATATAATA
4908452 TA-ATAATA
1 TATATAATA
4908460 TAT
1 TAT
4908463 TAAACATAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
6 2 0.02
7 8 0.09
8 17 0.20
9 7 0.08
10 53 0.61
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TATATAATA
Found at i:4913813 original size:21 final size:21
Alignment explanation
Indices: 4913789--4913853 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
4913779 AAATCTAACT
4913789 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
4913810 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
4913828 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
4913849 GAAGC
1 GAAGC
4913854 CCGAATGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:4913829 original size:39 final size:39
Alignment explanation
Indices: 4913783--4913871 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
4913773 AACCCGAAAT
4913783 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
* *
4913822 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAATG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
4913861 CTAACTGAAGC
1 CTAACTGAAGC
4913872 TCATCAGAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:4913864 original size:19 final size:19
Alignment explanation
Indices: 4913801--4913864 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
4913791 AGCACAAAAG
4913801 TGCTAAACGGAAGCCCGAA
1 TGCTAAACGGAAGCCCGAA
* * **
4913820 GGCT-AACTGAAGCACATAA
1 TGCTAAACGGAAGC-CCGAA
4913839 GTGCTAAACGGAAGCCCGAA
1 -TGCTAAACGGAAGCCCGAA
4913859 TGCTAA
1 TGCTAA
4913865 CTGAAGCTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 8 0.24
19 12 0.35
20 6 0.18
21 8 0.24
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (19 bp):
TGCTAAACGGAAGCCCGAA
Found at i:4921058 original size:18 final size:19
Alignment explanation
Indices: 4921022--4921066 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
4921012 GTATTATATT
* *
4921022 TAAAAAAATTATTTTTAAA
1 TAAAAAAATTATATGTAAA
4921041 TAAAAAAATTA-ATGTAAA
1 TAAAAAAATTATATGTAAA
4921059 -AAAAAAAT
1 TAAAAAAAT
4921067 CAACTATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAAATTATATGTAAA
Found at i:4921775 original size:19 final size:18
Alignment explanation
Indices: 4921751--4921790 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4921741 TTATATTTTT
*
4921751 AAAATATCAATTATTATAA
1 AAAATATCAA-TATGATAA
*
4921770 AAAATATTAATATGATAA
1 AAAATATCAATATGATAA
4921788 AAA
1 AAA
4921791 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATATCAATATGATAA
Found at i:4922833 original size:8 final size:8
Alignment explanation
Indices: 4922796--4922824 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4922786 TTAAGTAATC
4922796 ATTATTAT
1 ATTATTAT
4922804 ATTATTAT
1 ATTATTAT
4922812 ATTATTAT
1 ATTATTAT
4922820 ATTAT
1 ATTAT
4922825 ATTAGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTATTAT
Found at i:4922905 original size:16 final size:16
Alignment explanation
Indices: 4922884--4922916 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4922874 ATAGAAAATG
4922884 GAATAGAAAAAGAACA
1 GAATAGAAAAAGAACA
*
4922900 GAATAGAAAACGAACA
1 GAATAGAAAAAGAACA
4922916 G
1 G
4922917 GAGAGAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.09, G:0.21, T:0.06
Consensus pattern (16 bp):
GAATAGAAAAAGAACA
Found at i:4924402 original size:15 final size:15
Alignment explanation
Indices: 4924378--4924427 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
4924368 TCCAAGATAG
*
4924378 AGAAACCCAGAATAA
1 AGAAATCCAGAATAA
4924393 AGAAATCCAGAATAA
1 AGAAATCCAGAATAA
* *
4924408 AGAGATCCAGGATAA
1 AGAAATCCAGAATAA
4924423 AGAAA
1 AGAAA
4924428 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:4924436 original size:15 final size:15
Alignment explanation
Indices: 4924369--4924436 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
4924359 GACCGGAATT
*
4924369 CCAAGATAGAGAAAC
1 CCAAGATAAAGAAAC
*
4924384 CC-AGAATAAAGAAAT
1 CCAAG-ATAAAGAAAC
* *
4924399 CC-AGAATAAAGAGAT
1 CCAAG-ATAAAGAAAC
*
4924414 CCAGGATAAAGAAAC
1 CCAAGATAAAGAAAC
4924429 CCAAGATA
1 CCAAGATA
4924437 CGATACTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 2 0.05
15 41 0.93
16 1 0.02
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.10
Consensus pattern (15 bp):
CCAAGATAAAGAAAC
Found at i:4931915 original size:39 final size:39
Alignment explanation
Indices: 4931865--4932037 Score: 312
Period size: 39 Copynumber: 4.5 Consensus size: 39
4931855 CGGGACTTTA
* * *
4931865 AGCCCGAATATAACACCAACACAAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
4931904 AGCCCGGATATAACACCAGCACG-ATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
4931942 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
4931981 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
4932020 AGCCCGGATATAACACCA
1 AGCCCGGATATAACACCA
4932038 AATCATATAA
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
38 38 0.29
39 92 0.71
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.17
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:4931992 original size:77 final size:78
Alignment explanation
Indices: 4931865--4932038 Score: 314
Period size: 77 Copynumber: 2.2 Consensus size: 78
4931855 CGGGACTTTA
*
4931865 AGCCCGAATATAACACCAACACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACG-AT
1 AGCCCGGATATAACACCAACACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
4931929 GCCTTCGGGGCTT
66 GCCTTCGGGGCTT
* *
4931942 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAACACCAACACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
4932007 GCCTTCGGGGCTT
66 GCCTTCGGGGCTT
4932020 AGCCCGGATATAACACCAA
1 AGCCCGGATATAACACCAA
4932039 ATCATATAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 59 0.64
78 33 0.36
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (78 bp):
AGCCCGGATATAACACCAACACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCGGGGCTT
Found at i:4934043 original size:19 final size:19
Alignment explanation
Indices: 4934019--4934059 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4934009 GTTATAATAT
*
4934019 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
4934038 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
4934057 TAA
1 TAA
4934060 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:4934778 original size:14 final size:15
Alignment explanation
Indices: 4934754--4934782 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4934744 TGTAAAAATT
4934754 ATAAGTAATAATAAA
1 ATAAGTAATAATAAA
4934769 ATAA-TAATAATAAA
1 ATAAGTAATAATAAA
4934783 TGGTAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAAGTAATAATAAA
Found at i:4936369 original size:45 final size:45
Alignment explanation
Indices: 4936261--4936371 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 45
4936251 ATCTGTTCCG
* * *
4936261 CTCCTGCTCAGCGAAGATAAGATCCGCTGTATCTGACTTGCTCTA
1 CTCCTGCTCAGCGAAGATAAGATCCGATATATCTGACCTGCTCTA
* * * * * *
4936306 CTCTTGTTCAACGGAGATAAGATCTGATATAT-TTAGCCTGCT-TCA
1 CTCCTGCTCAGCGAAGATAAGATCCGATATATCTGA-CCTGCTCT-A
4936351 CTCCTGCTCAGCGAAGATAAG
1 CTCCTGCTCAGCGAAGATAAG
4936372 GCTGATGATT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
44 3 0.06
45 48 0.94
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCTGCTCAGCGAAGATAAGATCCGATATATCTGACCTGCTCTA
Found at i:4936533 original size:130 final size:132
Alignment explanation
Indices: 4936299--4936654 Score: 545
Period size: 135 Copynumber: 2.7 Consensus size: 132
4936289 GTATCTGACT
* * * * *
4936299 TGCTCTACTCTTGTTCAACGGAGATAAGATCTGATATATTTAGCCTGCTTCACTCCTGCTCAGCG
1 TGCTCTGCTCCTGCTCAACGAAGATAAGATCTGATATATTTAGCCTGCTTCACTCCTGCTCAGTG
* * *
4936364 AAGATAAGGCTGATGATTAGAATCTACTCCATCATCAGTACGT-G-AAGATTCACCAAAATTCGA
66 AAGATAAGGCTGATGATTGGAATCTGCTCCATCACCAGTACGTGGAAAGATTCACCAAAATTCGA
4936427 TC
131 TC
* *
4936429 TGCTCTGCTCCTGCTCAACGAAGATAAGATCTGTTATATTTAACCTGCTTCACTCCTGCTCAGTG
1 TGCTCTGCTCCTGCTCAACGAAGATAAGATCTGATATATTTAGCCTGCTTCACTCCTGCTCAGTG
* *
4936494 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCGCCAAAATT
66 AAGATAAGGCTGATGATTGGAATCTGCTCCATCACCAGTACGT-G-GA-AAGATTCACCAAAATT
4936559 CGATC
128 CGATC
* *
4936564 TGCTCTGCTCCTGCTCAGCGAAGATAAGATCTGCTATATTTAGCCTGCTTCACTCCTGCTCAGTG
1 TGCTCTGCTCCTGCTCAACGAAGATAAGATCTGATATATTTAGCCTGCTTCACTCCTGCTCAGTG
4936629 AAGATAAGGCTGATGATTGGAATCTG
66 AAGATAAGGCTGATGATTGGAATCTG
4936655 TTATATGTAG
Statistics
Matches: 206, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
130 97 0.47
133 1 0.00
135 108 0.52
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (132 bp):
TGCTCTGCTCCTGCTCAACGAAGATAAGATCTGATATATTTAGCCTGCTTCACTCCTGCTCAGTG
AAGATAAGGCTGATGATTGGAATCTGCTCCATCACCAGTACGTGGAAAGATTCACCAAAATTCGA
TC
Found at i:4937184 original size:3 final size:3
Alignment explanation
Indices: 4937176--4937302 Score: 70
Period size: 3 Copynumber: 43.0 Consensus size: 3
4937166 AGGGGGAGAG
*
4937176 TAT TAT TAT TAT TAT T-T TAT T-T TAT T-T TAT TACT T-T TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * *
4937218 TAT T-T TA- TAT ATATT TAT TAC CAT TATT TATT TAT TAT TAT TAG TAA
1 TAT TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
* * * * *
4937265 CA- TAT TGT TAT TTT TAT TAT TAT AAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4937303 AATGGCACTA
Statistics
Matches: 95, Mismatches: 18, Indels: 22
0.70 0.13 0.16
Matches are distributed among these distances:
2 13 0.14
3 68 0.72
4 13 0.14
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4938701 original size:133 final size:133
Alignment explanation
Indices: 4938458--4939077 Score: 1003
Period size: 133 Copynumber: 4.7 Consensus size: 133
4938448 GATTTGTTGG
* * ** *
4938458 AAATTT-ATCTGCTCCGCTCTTGCTCAACGAAGATAAGATCTGCAATTTAGCCTGCT-CACTCTT
1 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
* * *
4938521 GCTCAGTGAAGATAAGGCTGATGATTGGAATTTGCTCTATTGCCGGTACGTGGAGATAAGATTCA
66 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
4938586 CCA
131 CCA
* *
4938589 AAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
1 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
* * * *
4938654 GCTTAGTGAAAATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATATGATTCA
66 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
4938719 CCA
131 CCA
4938722 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
1 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
* *
4938787 ACTCAGTGAAGATAAGGCTGATGATTAGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
66 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
4938852 CCA
131 CCA
4938855 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
1 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
* *
4938920 GCTCAGTGAATATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACCTGGAGATAAGATTCA
66 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
4938985 CCA
131 CCA
* * * * *
4938988 AAATTTGATTTGCTCTGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGTTCGC-TTCC
1 AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTC-CACTCC
4939052 TGCTCAGTGAAGATAAGGCTGATGAT
65 TGCTCAGTGAAGATAAGGCTGATGAT
4939078 ATCTGTAATC
Statistics
Matches: 454, Mismatches: 32, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
131 6 0.01
132 44 0.10
133 403 0.89
134 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (133 bp):
AAATTTGATCTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
CCA
Found at i:4938786 original size:43 final size:43
Alignment explanation
Indices: 4938731--4938924 Score: 112
Period size: 43 Copynumber: 4.4 Consensus size: 43
4938721 AAAATTTGAT
* *
4938731 CTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGC
1 CTGCTCCACTCCTGCTCAACGAAGATAAGACCTGATATTTAGC
* ** * *
4938774 CTGCTCCACTCCTACTCAGTGAAGATAAG-GCTGATGA-TTAGAAT
1 CTGCTCCACTCCTGCTCAACGAAGATAAGACCTGAT-ATTTAG--C
* * * ** * *
4938818 CTGCTCCA-TCGCCGGT--ACGTGGAGATAAGATTCACCAAAATTT-GAT
1 CTGCTCCACTC-CTGCTCAAC--GAAGATAAGA--C-CTGATATTTAG-C
* *
4938864 CTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGC
1 CTGCTCCACTCCTGCTCAACGAAGATAAGACCTGATATTTAGC
4938907 CTGCTCCACTCCTGCTCA
1 CTGCTCCACTCCTGCTCA
4938925 GTGAATATAA
Statistics
Matches: 109, Mismatches: 27, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
42 8 0.07
43 50 0.46
44 20 0.18
46 21 0.19
47 4 0.04
48 6 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
CTGCTCCACTCCTGCTCAACGAAGATAAGACCTGATATTTAGC
Found at i:4946810 original size:21 final size:21
Alignment explanation
Indices: 4946784--4946828 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4946774 GCTGGCTCAT
*
4946784 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGAGACTCCAG
*
4946805 CATGTTTTTCTGAGACTCCAG
1 CATGTTGTTCTGAGACTCCAG
4946826 CAT
1 CAT
4946829 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGAGACTCCAG
Found at i:4951184 original size:14 final size:14
Alignment explanation
Indices: 4951133--4951176 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
4951123 TAGTAAACGG
*
4951133 TAAAAAAAATA-AA
1 TAAATAAAATATAA
*
4951146 TAAATAAAATATGA
1 TAAATAAAATATAA
4951160 TAAATAAAATATAA
1 TAAATAAAATATAA
4951174 TAA
1 TAA
4951177 GTATAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAATAAAATATAA
Found at i:4951494 original size:12 final size:11
Alignment explanation
Indices: 4951418--4951532 Score: 53
Period size: 12 Copynumber: 10.3 Consensus size: 11
4951408 AAATTAAATG
4951418 AAAATAA-ATA
1 AAAATAATATA
*
4951428 AAAATAATAATG
1 AAAATAAT-ATA
*
4951440 AAAATGATATA
1 AAAATAATATA
4951451 ATAAGTATAATA-A
1 A-AA--ATAATATA
* * *
4951464 ATAATAGTGTA
1 AAAATAATATA
4951475 AAAA-AATATA
1 AAAATAATATA
4951485 ATAAATAATA-A
1 A-AAATAATATA
*
4951496 GAAAATAATTTAA
1 -AAAATAATAT-A
*
4951509 AAAATGATAGTA
1 AAAATAATA-TA
4951521 AAAA-AA-ATA
1 AAAATAATATA
4951530 AAA
1 AAA
4951533 TAGTAATAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
9 5 0.06
10 17 0.22
11 19 0.24
12 29 0.37
13 4 0.05
14 5 0.06
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (11 bp):
AAAATAATATA
Found at i:4954440 original size:8 final size:8
Alignment explanation
Indices: 4954424--4954456 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
4954414 TTCTTTTACT
*
4954424 TTATGTTA
1 TTATATTA
4954432 TTATATTA
1 TTATATTA
4954440 TTATATTA
1 TTATATTA
4954448 TTATATTA
1 TTATATTA
4954456 T
1 T
4954457 ATTATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTATATTA
Found at i:4954446 original size:13 final size:13
Alignment explanation
Indices: 4954438--4954475 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4954428 GTTATTATAT
4954438 TATTATATTATTA
1 TATTATATTATTA
*
4954451 TATTATATTATAA
1 TATTATATTATTA
*
4954464 TAAT-TATTATTA
1 TATTATATTATTA
4954476 CTTAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:4954756 original size:13 final size:14
Alignment explanation
Indices: 4954740--4954768 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4954730 AATAAACTTC
4954740 ATAAATATTT-TTA
1 ATAAATATTTATTA
4954753 ATAAATATTTATTA
1 ATAAATATTTATTA
4954767 AT
1 AT
4954769 CCGTTTGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTATTA
Found at i:4966209 original size:13 final size:13
Alignment explanation
Indices: 4966191--4966229 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
4966181 ATGTGAACAA
4966191 TATTATTTAAAAT
1 TATTATTTAAAAT
*
4966204 TATTATTTAAATTT
1 TATTATTTAAA-AT
4966218 TATTA-TTAAAAT
1 TATTATTTAAAAT
4966230 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:4966222 original size:14 final size:14
Alignment explanation
Indices: 4966191--4966230 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4966181 ATGTGAACAA
4966191 TATTATTTAAA-AT
1 TATTATTTAAATAT
*
4966204 TATTATTTAAATTT
1 TATTATTTAAATAT
*
4966218 TATTATTAAAATA
1 TATTATTTAAATA
4966231 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTAAATAT
Found at i:4966259 original size:19 final size:19
Alignment explanation
Indices: 4966237--4966305 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
4966227 AATAAAATTA
4966237 AAATATTAAATAATTTATT
1 AAATATTAAATAATTTATT
*
4966256 AAATAATAAATTATATTTATT
1 AAATATTAAA-TA-ATTTATT
4966277 --ATATT-AATAATTTATT
1 AAATATTAAATAATTTATT
*
4966293 ATATGATTAAATA
1 AAAT-ATTAAATA
4966306 TAAATAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
18 4 0.10
19 16 0.38
20 6 0.14
21 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
AAATATTAAATAATTTATT
Found at i:4966284 original size:22 final size:21
Alignment explanation
Indices: 4966237--4966310 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
4966227 AATAAAATTA
*
4966237 AAATATTAAA-TA-ATTTATT
1 AAATAATAAATTATATTTATT
4966256 AAATAATAAATTATATTTATT
1 AAATAATAAATTATATTTATT
* * *
4966277 ATATTAATAATTTATTATATGATT
1 A-AATAATAAATTA-TAT-TTATT
4966301 AAAT-ATAAAT
1 AAATAATAAAT
4966311 AATTAAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 9 0.20
20 2 0.05
21 8 0.18
22 15 0.34
23 5 0.11
24 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (21 bp):
AAATAATAAATTATATTTATT
Found at i:4986012 original size:44 final size:45
Alignment explanation
Indices: 4985689--4986360 Score: 552
Period size: 43 Copynumber: 15.5 Consensus size: 45
4985679 GGATGGATTG
* * *
4985689 AGATCGAAG-AAGCAGATCTTATCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * *** *
4985732 AGACCGAA-AAAGTAGATCTCGTCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * *
4985775 AGATC-AAGATA-CAGGTC--GTCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * *
4985815 GGATCGACG-ACGCAGATCTTGTCTTCCCATA-TGGTGGCGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * *** *
4985858 AGATCGCAG-AAGTAGATCTT-TCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
** * * * *
4985900 AGATCGAAGGTAG-AGATCCTATCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * *
4985943 GGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * *** *
4985987 AGATCGCAGAAAGTAGATCTT-TCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
** * * * *
4986030 AGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * *
4986074 GGATCGACG-ATGCAGATCTTGTCTTCCCATATTGGT-GCGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* *** *
4986117 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * * * *
4986161 AGATCGAAGATAGCAGGTC-TATCTTCCTATATTGATAG-GAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
* * * *
4986204 GGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
*
4986248 AGATCGAAGAAAGCAGATCTTGTCTT-CCATACTGGTGGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
*
4986292 AGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGT
1 AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
*
4986337 AGATCGAAGAAAGAAGATCTTGTC
1 AGATCGAAGAAAGCAGATCTTGTC
4986361 CCTGTATTTG
Statistics
Matches: 507, Mismatches: 96, Indels: 50
0.78 0.15 0.08
Matches are distributed among these distances:
40 22 0.04
41 8 0.02
42 46 0.09
43 216 0.43
44 151 0.30
45 64 0.13
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
AGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGT
Found at i:4986020 original size:87 final size:88
Alignment explanation
Indices: 4985689--4986357 Score: 563
Period size: 87 Copynumber: 7.7 Consensus size: 88
4985679 GGATGGATTG
* * *
4985689 AGATCGAAGAAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGACCGAA-AAAGTAGATCTC
1 AGATCGAAGAAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT-
* * * *
4985752 GTCTTCATGTATTGG-CGTGAAGT
65 TTCTTCCTATATTGGTAGTGAAGT
* * * *
4985775 AGATC-AAGATA-CAGGTC--GTCTTCCTATATTGGTAG-GAAGTGGATCGACG-ACGCAGATCT
1 AGATCGAAGA-AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT
* * *
4985834 TGTCTTCCCATA-TGGTGGCGAAGT
65 T-TCTTCCTATATTGGTAGTGAAGT
* * * * * **
4985858 AGATCGCAGAAGTAGATCTT-TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAG-AGATCCT
1 AGATCGAAGAAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGAT-CT
*
4985920 ATCTTCCTATATTGGTAG-GAAGT
65 TTCTTCCTATATTGGTAGTGAAGT
* * * * * * *
4985943 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTT
1 AGATCGAAGAAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTT
* * *
4986008 TCTTCATGTATTGG-CGTGAAGT
66 TCTTCCTATATTGGTAGTGAAGT
* * * * * *
4986030 AGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGACG-ATGCAGATCT
1 AGATCGAA-GAAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT
* *
4986093 TGTCTTCCCATATTGGT-GCGAAGT
65 T-TCTTCCTATATTGGTAGTGAAGT
* * * * * *
4986117 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCT
1 AGATCGAAG-AAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT
* *
4986181 ATCTTCCTATATTGATAG-GAAGT
65 TTCTTCCTATATTGGTAGTGAAGT
* * * * *
4986204 GGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
1 AGATCGAAGA-AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT
* *
4986268 TGTCTTCC-ATACTGGTGGTGAAGT
65 T-TCTTCCTATATTGGTAGTGAAGT
* * * *
4986292 AGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGAAGATCT
1 AGATCGAAG-AAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCT
4986357 T
65 T
4986358 GTCCCTGTAT
Statistics
Matches: 464, Mismatches: 90, Indels: 55
0.76 0.15 0.09
Matches are distributed among these distances:
82 3 0.01
83 54 0.12
84 8 0.02
85 67 0.14
86 57 0.12
87 167 0.36
88 55 0.12
89 53 0.11
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (88 bp):
AGATCGAAGAAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTT
TCTTCCTATATTGGTAGTGAAGT
Found at i:4986090 original size:131 final size:131
Alignment explanation
Indices: 4985690--4986360 Score: 882
Period size: 131 Copynumber: 5.2 Consensus size: 131
4985680 GATGGATTGA
* * * * * * *
4985690 GATCGAAGAAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGACCG-AAAAAGTAGATCTCG
1 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCT-T
* *
4985753 TCTTCATGTATTGGCGTGAAGTAGATC-AAGATA-CAGGT-C-GTCTTCCTATATTGGTAGGAAG
65 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAG
4985814 TG
130 TG
* *
4985816 GATCGACGACGCAGATCTTGTCTTCCCATA-TGGTGGCGAAGTAGATCGCAG-AAGTAGATCTTT
1 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTT
*
4985879 CTTCATGTATTGGCGTGAAGTAGATCGAAGGTAG-AGATCCTATCTTCCTATATTGGTAGGAAGT
66 CTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGT
4985943 G
131 G
4985944 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTT
1 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTT
*
4986009 CTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGT
66 CTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGT
4986074 G
131 G
* *
4986075 GATCGACGATGCAGATCTTGTCTTCCCATATTGGT-GCGAAGTAGATCGCAGAAAGCAGATCTTG
1 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTT-
* *
4986139 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGT-CTATCTTCCTATATTGATAGGAAG
65 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAG
4986203 TG
130 TG
* * * * * *
4986205 GATCCAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTT-
* * * * * * * *
4986270 TCTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTG
65 TCTT-CATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-G
*
4986333 AAGTA
127 AAGTG
* *
4986338 GATCGAAGAAAGAAGATCTTGTC
1 GATCGAAG-ATGCAGATCTTGTC
4986361 CCTGTATTTG
Statistics
Matches: 490, Mismatches: 39, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
125 32 0.07
126 54 0.11
127 2 0.00
128 51 0.10
129 21 0.04
130 134 0.27
131 157 0.32
132 16 0.03
133 12 0.02
134 11 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (131 bp):
GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTT
CTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGT
G
Found at i:5002878 original size:31 final size:31
Alignment explanation
Indices: 5002820--5002878 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
5002810 GCTTAACATG
* **
5002820 AAAATAATTATTTAATTTAAGTTTTAATATA
1 AAAATAATTATTTAATTCAAGAGTTAATATA
5002851 AAAATAATTA-TTAAGTTCAAGAGTTAAT
1 AAAATAATTATTTAA-TTCAAGAGTTAAT
5002879 TTAGACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (31 bp):
AAAATAATTATTTAATTCAAGAGTTAATATA
Found at i:5004801 original size:27 final size:25
Alignment explanation
Indices: 5004771--5004833 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
5004761 TTAAAATATT
5004771 ATTTTTATATTATTTTA-ATATTTAATA
1 ATTTTTATATT-TTTTATATA-TTAA-A
* *
5004798 ATTTTATACATTTTTTATTTATTAAA
1 ATTTT-TATATTTTTTATATATTAAA
5004824 ATTTTTATAT
1 ATTTTTATAT
5004834 AGTCATCGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 6 0.19
27 14 0.45
28 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTTTATATTTTTTATATATTAAA
Found at i:5021748 original size:12 final size:12
Alignment explanation
Indices: 5021728--5021763 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5021718 TCGGATATGC
*
5021728 AATGTATGAATG
1 AATGCATGAATG
5021740 AATGCATGAATG
1 AATGCATGAATG
*
5021752 AATGCATAAATG
1 AATGCATGAATG
5021764 TCAAATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:5023358 original size:16 final size:15
Alignment explanation
Indices: 5023337--5023384 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
5023327 GATGGGAATA
5023337 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
5023353 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
5023368 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
5023384 A
1 A
5023385 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:5023367 original size:8 final size:8
Alignment explanation
Indices: 5023333--5023384 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
5023323 CAATGATGGG
*
5023333 AATAATAA
1 AATATTAA
5023341 AATATATAA
1 AATAT-TAA
5023350 AATA-TAA
1 AATATTAA
5023357 AATATTAA
1 AATATTAA
*
5023365 AATATCAA
1 AATATTAA
*
5023373 AATATTAG
1 AATATTAA
5023381 AATA
1 AATA
5023385 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:5023384 original size:24 final size:24
Alignment explanation
Indices: 5023332--5023388 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
5023322 ACAATGATGG
*
5023332 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
5023356 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
5023380 GAATAATAA
1 GAATAATAA
5023389 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:5023548 original size:23 final size:22
Alignment explanation
Indices: 5023497--5023550 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
5023487 ATACTACATC
5023497 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
5023516 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
5023539 AATATGTACATA
1 AATATGTACATA
5023551 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:5023597 original size:22 final size:24
Alignment explanation
Indices: 5023513--5023598 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
5023503 TACATATATA
* *
5023513 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
5023536 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
5023561 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
5023584 -AAGATATATACATAA
1 AAAAATATATACATAA
5023599 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:5023653 original size:25 final size:25
Alignment explanation
Indices: 5023619--5023752 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
5023609 AGAAAAATAT
5023619 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
5023644 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
5023669 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
5023695 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
5023717 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
5023740 AAATAT-AATAATA
1 ATATATAAATAATA
5023753 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:5024268 original size:30 final size:30
Alignment explanation
Indices: 5024232--5024320 Score: 151
Period size: 30 Copynumber: 3.0 Consensus size: 30
5024222 TAGGTACAAG
*
5024232 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
5024262 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5024292 TGGTGGTGGAAAAGGTGTGGCTAGTGGAG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAG
5024321 AAAAGTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.21, C:0.03, G:0.51, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:5032039 original size:31 final size:31
Alignment explanation
Indices: 5031981--5032039 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
5031971 GCTTAACATG
* **
5031981 AAAATAATTATTTAATTTAAGTTTTAATATA
1 AAAATAATTATTTAATTCAAGAGTTAATATA
5032012 AAAATAATTA-TTAAGTTCAAGAGTTAAT
1 AAAATAATTATTTAA-TTCAAGAGTTAAT
5032040 TTAGACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (31 bp):
AAAATAATTATTTAATTCAAGAGTTAATATA
Found at i:5033971 original size:27 final size:25
Alignment explanation
Indices: 5033941--5034003 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
5033931 TAAAATATTT
5033941 ATTTTTATATTATTTTA-ATATTTAATA
1 ATTTTTATATT-TTTTATATA-TTAA-A
* *
5033968 ATTTTATACATTTTTTATTTATTAAA
1 ATTTT-TATATTTTTTATATATTAAA
5033994 ATTTTTATAT
1 ATTTTTATAT
5034004 AGTCATCGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 6 0.19
27 14 0.45
28 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTTTATATTTTTTATATATTAAA
Found at i:5049766 original size:31 final size:31
Alignment explanation
Indices: 5049720--5049779 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
5049710 ATCACTCAAT
* *
5049720 TATTTGAAAATTTTTATTTAAATCATTGAAC
1 TATTTAAAAAATTTTATTTAAATCATTGAAC
*
5049751 TATTTAAAAAATTTTATTTAAGTCATTGA
1 TATTTAAAAAATTTTATTTAAATCATTGA
5049780 GTTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (31 bp):
TATTTAAAAAATTTTATTTAAATCATTGAAC
Found at i:5054606 original size:48 final size:48
Alignment explanation
Indices: 5054551--5054646 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
5054541 GAATTAAAGG
5054551 ATGTTTTAAACTAAGACTAATTATCTAATTGGCTAAGATTACGACAGA
1 ATGTTTTAAACTAAGACTAATTATCTAATTGGCTAAGATTACGACAGA
5054599 ATGTTTTAAACTAAGACTAATTATCTAATTGGCTAAGATTACGACAGA
1 ATGTTTTAAACTAAGACTAATTATCTAATTGGCTAAGATTACGACAGA
5054647 GATAAATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (48 bp):
ATGTTTTAAACTAAGACTAATTATCTAATTGGCTAAGATTACGACAGA
Found at i:5057727 original size:6 final size:6
Alignment explanation
Indices: 5057687--5057713 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5057677 TACTTTAGCC
5057687 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
5057714 GCAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:5064807 original size:47 final size:47
Alignment explanation
Indices: 5064748--5065094 Score: 577
Period size: 47 Copynumber: 7.4 Consensus size: 47
5064738 GATGTACAAG
* *
5064748 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
5064795 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
5064842 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
5064889 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
5064936 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
5064983 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
5065030 GTGTGTATATGTGATAAGGCCTAATGTCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
5065077 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
5065095 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 283 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:5077465 original size:35 final size:35
Alignment explanation
Indices: 5077421--5077540 Score: 129
Period size: 35 Copynumber: 3.4 Consensus size: 35
5077411 AATATTTAAG
* * *
5077421 ATAACTTCACATATATCCGAGTATACAATTTCAAT
1 ATAACTTCACATGTATCCGAATATACAAATTCAAT
* *
5077456 ATAAGTTCACATGTAAT-CAAATACTA-AAATTCAAT
1 ATAACTTCACATGT-ATCCGAATA-TACAAATTCAAT
* *
5077491 ATAACTTCACATGTAGCCGAATATACAAGTTCAAT
1 ATAACTTCACATGTATCCGAATATACAAATTCAAT
5077526 ATAAGCTT-ACATGTA
1 ATAA-CTTCACATGTA
5077541 CTTACCTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
34 3 0.04
35 61 0.86
36 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (35 bp):
ATAACTTCACATGTATCCGAATATACAAATTCAAT
Done.