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 261 of 344
Found at i:86899371 original size:23 final size:22
Alignment explanation
Indices: 86899327--86899376 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
86899317 GGGATCGATG
*
86899327 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAATAGATT
*
86899349 GTATTTTGGGGAGAGAATAGATT
1 GTATTTTGAGGA-AGAATAGATT
86899372 GTATT
1 GTATT
86899377 AGAGGGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (22 bp):
GTATTTTGAGGAAGAATAGATT
Found at i:86900100 original size:39 final size:40
Alignment explanation
Indices: 86899985--86900138 Score: 240
Period size: 39 Copynumber: 3.9 Consensus size: 40
86899975 ATAAAGTATG
*
86899985 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
86900025 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
86900065 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* * *
86900104 ATTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
86900139 GAGTGGAATC
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 54 0.50
40 53 0.50
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:86900140 original size:79 final size:80
Alignment explanation
Indices: 86899985--86900138 Score: 240
Period size: 79 Copynumber: 1.9 Consensus size: 80
86899975 ATAAAGTATG
** *
86899985 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGGTTTTAATTAATAATAAAAATAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
*
86900050 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
* *
86900065 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAATTTTAATTAATAAT-AAAACAAAG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
86900128 TAGCATGGGGG
66 TAGCATGGGGG
86900139 GAGTGGAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 17 0.25
79 36 0.53
80 15 0.22
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:86900950 original size:17 final size:17
Alignment explanation
Indices: 86900928--86900960 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86900918 ATATTTCTAA
*
86900928 TACTATTACGTTATTAC
1 TACTATTACATTATTAC
86900945 TACTATTACATTATTA
1 TACTATTACATTATTA
86900961 TTATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TACTATTACATTATTAC
Found at i:86906995 original size:26 final size:26
Alignment explanation
Indices: 86906959--86907042 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
86906949 CATGAAATTC
86906959 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
86906985 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
86907011 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
86907037 TTATCA
1 TTATCA
86907043 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86908591 original size:19 final size:19
Alignment explanation
Indices: 86908567--86908608 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
86908557 CAATCAAAGT
*
86908567 CCAATAGCTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
86908586 CCAATAACTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
86908605 CCAA
1 CCAA
86908609 AGTTACGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.33, G:0.07, T:0.14
Consensus pattern (19 bp):
CCAATAACTAAACCTAGAC
Found at i:86911213 original size:131 final size:132
Alignment explanation
Indices: 86910971--86911222 Score: 326
Period size: 131 Copynumber: 1.9 Consensus size: 132
86910961 ATTATTCATT
* ** *** *
86910971 TAAAAATTCTTTAAAACGAAGGTGGTGTTCGATATTTGGCAATTCGCGGGATCGTGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
* * *
86911036 GCTGGGTTGCAATTTTTCGTTTACTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTT
66 GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCATTCATGTTT
86911101 TC
131 TC
* * *
86911103 TAAAAATTCTTTAAAACGAAAGTAATACACGATGTTTGGCAATTCG-GGAATTGTGCCCTATCGT
1 TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
** ** * *
86911167 GCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCA
66 GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCA
86911223 CCCTTCTCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
131 62 0.61
132 39 0.39
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCATTCATGTTT
TC
Found at i:86911239 original size:131 final size:132
Alignment explanation
Indices: 86910972--86911250 Score: 299
Period size: 131 Copynumber: 2.1 Consensus size: 132
86910962 TTATTCATTT
* ** *** *
86910972 AAAAATTCTTTAAAACGAAGGTGGTGTTCGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * * ** *
86911037 CTGGGTTGCAATTTTTCGTTTACTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTTT
66 CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCTTTT
*
86911102 CT
131 CA
* * *
86911104 AAAAATTCTTTAAAACGAAAGTAATACACGATGTTTGGCAATTCG-GGAATTGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
** ** * * *
86911168 CTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACCCTTCTCTT
66 CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCT-TT
*
86911233 TAAA
130 T-CA
*
86911237 AAAAATTCTCTAAA
1 AAAAATTCTTTAAA
86911251 TAAGGCAATG
Statistics
Matches: 119, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
131 65 0.55
132 41 0.34
133 13 0.11
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (132 bp):
AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCTTTT
CA
Found at i:86926873 original size:20 final size:21
Alignment explanation
Indices: 86926833--86926950 Score: 95
Period size: 20 Copynumber: 5.6 Consensus size: 21
86926823 TCTCTTTGAA
* *
86926833 TAAAAATTATAAAAATGATTTT
1 TAAAAATTCT-AAAATAATTTT
*
86926855 TAAAAATT-TAAAATAATTTA
1 TAAAAATTCTAAAATAATTTT
*
86926875 T-AAAATT-TAAAAT-ATTTA
1 TAAAAATTCTAAAATAATTTT
86926893 TAAAAATTCTAAAATTTATATTTTT
1 TAAAAATTCTAAAA--TA-A-TTTT
*
86926918 TAAAAA-T-TATAATAATTTTT
1 TAAAAATTCTAAAATAA-TTTT
86926938 TAAAAATTCTAAA
1 TAAAAATTCTAAA
86926951 GAATATATAA
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
18 6 0.07
19 18 0.22
20 27 0.33
21 4 0.05
22 12 0.15
23 4 0.05
24 2 0.02
25 9 0.11
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (21 bp):
TAAAAATTCTAAAATAATTTT
Found at i:86926883 original size:9 final size:9
Alignment explanation
Indices: 86926853--86926912 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
86926843 AAAAATGATT
86926853 TTTA-AAAA
1 TTTATAAAA
*
86926861 TTTAAAATAA
1 TTTATAA-AA
86926871 TTTATAAAA
1 TTTATAAAA
86926880 TTTA-AAATA
1 TTTATAAA-A
86926889 TTTATAAAA
1 TTTATAAAA
* *
86926898 ATTCTAAAA
1 TTTATAAAA
86926907 TTTATA
1 TTTATA
86926913 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.16
9 25 0.58
10 11 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTATAAAA
Found at i:86926891 original size:18 final size:19
Alignment explanation
Indices: 86926853--86926907 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
86926843 AAAAATGATT
86926853 TTTA-AAAATTTAAAATAA
1 TTTATAAAATTTAAAATAA
86926871 TTTATAAAATTTAAAAT-A
1 TTTATAAAATTTAAAATAA
86926889 TTTATAAAAATTCTAAAAT
1 TTTAT-AAAATT-TAAAAT
86926908 TTATATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.29
19 18 0.53
20 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTATAAAATTTAAAATAA
Found at i:86926958 original size:45 final size:45
Alignment explanation
Indices: 86926871--86926959 Score: 110
Period size: 45 Copynumber: 1.9 Consensus size: 45
86926861 TTTAAAATAA
*
86926871 TTTATAAAATTTAAAATATTTATAAAAATTCTAAAATTTATATTT
1 TTTATAAAATTTAAAATATTTATAAAAATTCTAAAATATATATTT
*
86926916 TTTA-AAAATTATAATAAT-TTTTTAAAAATTCTAAAGAATATATA
1 TTTATAAAATT-TAA-AATATTTATAAAAATTCT-AA-AATATATA
86926960 AATAAAGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 6 0.16
45 20 0.53
46 5 0.13
47 7 0.18
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (45 bp):
TTTATAAAATTTAAAATATTTATAAAAATTCTAAAATATATATTT
Found at i:86931302 original size:15 final size:14
Alignment explanation
Indices: 86931269--86931304 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
86931259 TAATTTCTAT
86931269 ATATATATTCTAAA
1 ATATATATTCTAAA
86931283 A-ATATATTCATAAA
1 ATATATATTC-TAAA
86931297 ATATATAT
1 ATATATAT
86931305 AGTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATTCTAAA
Found at i:86933707 original size:41 final size:42
Alignment explanation
Indices: 86933640--86933720 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
86933630 AATTATGTTA
* *
86933640 ATATGTTTTGATCACTCAAAAATGATTCAATGATTAGTAAGT
1 ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAAGT
**
86933682 ATATATTTTGATCA-TTTAAAATGATTCAATGATCAGTAA
1 ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAA
86933721 AATAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (42 bp):
ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAAGT
Found at i:86936499 original size:19 final size:19
Alignment explanation
Indices: 86936475--86936513 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
86936465 AGCGAATCCT
86936475 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
86936494 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
86936513 A
1 A
86936514 CATATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (19 bp):
AACAACAGCCTGAACATGA
Found at i:86938858 original size:28 final size:27
Alignment explanation
Indices: 86938814--86938890 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 27
86938804 AATTTATATT
*
86938814 TTATATTAAATTATTTAAATATAATTTA
1 TTATATTTAATT-TTTAAATATAATTTA
*
86938842 TTATATTTAAGTTTTTAAA-ATATTTTA
1 TTATATTTAA-TTTTTAAATATAATTTA
86938869 TGTAT-TATTAATTTTATAAATA
1 T-TATAT-TTAATTTT-TAAATA
86938891 ATTTATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 13 0.31
28 26 0.62
29 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TTATATTTAATTTTTAAATATAATTTA
Found at i:86938877 original size:29 final size:26
Alignment explanation
Indices: 86938827--86938906 Score: 65
Period size: 28 Copynumber: 2.8 Consensus size: 26
86938817 TATTAAATTA
*
86938827 TTTAAATATAATTTATTA-TATTTAAGTT
1 TTTAAA-ATATTTTATTATTATTTAA--T
86938855 TTTAAAATATTTTATGTATTA-TTAAT
1 TTTAAAATATTTTAT-TATTATTTAAT
86938881 TTTATAAATAATTTATATTTATTATT
1 TTTA-AAAT-ATTT-TA-TTATTATT
86938907 CAAAGTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
26 5 0.11
27 12 0.27
28 16 0.36
29 9 0.20
30 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTAAAATATTTTATTATTATTTAAT
Found at i:86938883 original size:26 final size:29
Alignment explanation
Indices: 86938854--86938906 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
86938844 ATATTTAAGT
86938854 TTTTA-AAAT-ATTT-TATGTATTATTAA
1 TTTTATAAATAATTTATATGTATTATTAA
*
86938880 TTTTATAAATAATTTATATTTATTATT
1 TTTTATAAATAATTTATATGTATTATT
86938907 CAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 4 0.17
28 4 0.17
29 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTATAAATAATTTATATGTATTATTAA
Found at i:86944173 original size:2 final size:2
Alignment explanation
Indices: 86944168--86944194 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86944158 TCCCGAGAAA
86944168 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
86944195 AGAGAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:86944239 original size:2 final size:2
Alignment explanation
Indices: 86944194--86944221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86944184 GTGTGTGTGT
86944194 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
86944222 TGACAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:86949176 original size:3 final size:3
Alignment explanation
Indices: 86949170--86949216 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
86949160 ATTTGCAGCC
86949170 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
86949217 AGACATCTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:86949737 original size:3 final size:3
Alignment explanation
Indices: 86949729--86949789 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
86949719 CTGCCAAATG
* *
86949729 TAT TAT TAT TAT TAT T-T T-T TGAC AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
86949773 TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
86949790 AGAAGAGGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:86953614 original size:43 final size:43
Alignment explanation
Indices: 86953566--86953652 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
86953556 TCTCAAATCT
*
86953566 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAATCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
*
86953609 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTGACCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
86953652 T
1 T
86953653 CTCTCCTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (43 bp):
TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
Found at i:86954445 original size:26 final size:26
Alignment explanation
Indices: 86954409--86954518 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
86954399 TGACACAAAT
86954409 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
86954435 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
86954461 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
86954487 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
86954513 TGATAA
1 TGATAA
86954519 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:86956213 original size:27 final size:26
Alignment explanation
Indices: 86956134--86956249 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
86956124 TGGAGGAAGC
* * *
86956134 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCA-TATTATCT
* * *
86956161 GATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCATAT-TATCT
86956188 GTTCTGGTGGCTCTGCCATGATTATCT
1 GTTCTGGTGGCTCTGCCAT-ATTATCT
* *
86956215 GTATCTGGTGACTCTGTCATATTATCT
1 GT-TCTGGTGGCTCTGCCATATTATCT
86956242 GTTCTGGT
1 GTTCTGGT
86956250 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCATATTATCT
Found at i:86956241 original size:54 final size:54
Alignment explanation
Indices: 86956134--86956249 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
86956124 TGGAGGAAGC
*
86956134 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* ** * * * *
86956188 GTTCTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCATAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
86956242 GTTCTGGT
1 GTTCTGGT
86956250 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:86956334 original size:19 final size:22
Alignment explanation
Indices: 86956310--86956349 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
86956300 TTCCCCACAC
86956310 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
86956329 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
86956350 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:86963146 original size:4 final size:4
Alignment explanation
Indices: 86963133--86963307 Score: 332
Period size: 4 Copynumber: 43.8 Consensus size: 4
86963123 AATCAATTAA
*
86963133 ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
86963181 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
86963229 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
86963277 ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
86963308 CATTTTTCAT
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 167 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:86965503 original size:7 final size:7
Alignment explanation
Indices: 86965487--86965524 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
86965477 TAGAATAATA
86965487 AAATTCT
1 AAATTCT
*
86965494 AAATTTT
1 AAATTCT
86965501 AAATTCT
1 AAATTCT
86965508 AAATTCT
1 AAATTCT
86965515 AAATTCT
1 AAATTCT
86965522 AAA
1 AAA
86965525 CCCACTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTCT
Found at i:86967643 original size:17 final size:17
Alignment explanation
Indices: 86967610--86967645 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
86967600 CCATCAATTT
**
86967610 TTGTTTCTTTTTTCAAA
1 TTGTTTCTTTTAACAAA
86967627 TTGTTTCTTTTAACAAA
1 TTGTTTCTTTTAACAAA
86967644 TT
1 TT
86967646 TGATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (17 bp):
TTGTTTCTTTTAACAAA
Found at i:86967854 original size:19 final size:18
Alignment explanation
Indices: 86967831--86967881 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
86967821 TTTTTTTAGA
86967831 TAATTACATTTATTTTTT
1 TAATTACATTTATTTTTT
* *
86967849 TAAATTAGGATTTAATTTTT
1 T-AATTA-CATTTATTTTTT
*
86967869 TAATTTCATTTAT
1 TAATTACATTTAT
86967882 GATTTATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 6 0.23
19 9 0.35
20 11 0.42
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (18 bp):
TAATTACATTTATTTTTT
Found at i:86981260 original size:43 final size:43
Alignment explanation
Indices: 86981213--86981296 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
86981203 AAGCAAACAT
86981213 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
1 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
86981256 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAAC
1 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAAC
86981297 AATCGTGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
Found at i:86984936 original size:14 final size:14
Alignment explanation
Indices: 86984917--86984943 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86984907 TAATTAATAA
86984917 TTAAAATGAAAGTG
1 TTAAAATGAAAGTG
86984931 TTAAAATGAAAGT
1 TTAAAATGAAAGT
86984944 CAGGATGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (14 bp):
TTAAAATGAAAGTG
Found at i:86985887 original size:98 final size:99
Alignment explanation
Indices: 86985704--86985900 Score: 247
Period size: 98 Copynumber: 2.0 Consensus size: 99
86985694 TATTTATTGA
* *
86985704 TTAACTCCGATTGCGTCATTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAG
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
*
86985769 ATTGGAGTATTGATTAATTACTTTATAATTCAAT
66 ATCGGAGTATTGATTAATTACTTTATAATTCAAT
* * * * * * * *
86985803 TTAATTCCGATTGCGTCACTGTTTTGGTTCAGTT-AGAAAATGTGAGAGTT-TGGATTTCTTTAA
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGG-TTACTTTAA
*
86985866 CATCGGA-TCATTTATTAATTACTTTATAATTCAAT
65 CATCGGAGT-ATTGATTAATTACTTTATAATTCAAT
86985901 AGGTATTTGA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
97 3 0.04
98 51 0.61
99 30 0.36
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (99 bp):
TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
ATCGGAGTATTGATTAATTACTTTATAATTCAAT
Found at i:87012807 original size:51 final size:51
Alignment explanation
Indices: 87012731--87012845 Score: 221
Period size: 51 Copynumber: 2.3 Consensus size: 51
87012721 CGGATCTCAT
*
87012731 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
87012782 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
87012833 TTATCACTTGTCA
1 TTATCACTTGTCA
87012846 TTGATCAGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
Found at i:87015434 original size:16 final size:17
Alignment explanation
Indices: 87015403--87015435 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87015393 TTCATAAGTA
87015403 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
87015420 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
87015436 GCTCCATCAT
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:87015781 original size:46 final size:46
Alignment explanation
Indices: 87015716--87016039 Score: 445
Period size: 46 Copynumber: 7.0 Consensus size: 46
87015706 TTATCTTTGA
* * * * *
87015716 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
*
87015762 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * ***
87015808 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
87015854 CATGTTGCAATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
87015900 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
87015946 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
87015992 CA-GATTGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
87016038 CA
1 CA
87016040 GAGAGCACAC
Statistics
Matches: 255, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 5 0.02
46 250 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:87032869 original size:42 final size:42
Alignment explanation
Indices: 87032763--87032869 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
87032753 GATAAAATGC
* * *
87032763 CACGGCCGTGCGACATGGCCGTGGTCGAACTTGCCAAATTAA
1 CACGGGCGTGCGACATGGCCGTGGGCAAACTTGCCAAATTAA
* * **
87032805 CACGAGCGTGCGGCCGGGCCGTGGGCAAA-TCTGCCAAATTAA
1 CACGGGCGTGCGACATGGCCGTGGGCAAACT-TGCCAAATTAA
* *
87032847 CACGGGCGTGCAACATGTCCGTG
1 CACGGGCGTGCGACATGGCCGTG
87032870 TCTAGCACCT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (42 bp):
CACGGGCGTGCGACATGGCCGTGGGCAAACTTGCCAAATTAA
Found at i:87038501 original size:43 final size:43
Alignment explanation
Indices: 87038453--87038609 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
87038443 GCCTGAATTC
*
87038453 GTGTAAGACCATGTCCGGGACATTGGCATTGATATGAGATTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
* *
87038496 GTGTAAGACCATGTCTGGGACATTAGCA-TCATAT-ATGATT-T
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGA-GATTAT
* ** * * *
87038537 GTGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
* * *
87038580 ATGTAAGACCATATCTGGGATA-TGGCATTG
1 GTGTAAGACCATGTCTGGGACATTGGCATTG
87038610 TATTTGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 26 0.28
42 24 0.26
43 44 0.47
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
Found at i:87048847 original size:47 final size:47
Alignment explanation
Indices: 87048735--87049006 Score: 233
Period size: 47 Copynumber: 5.8 Consensus size: 47
87048725 AGTTGTTTCT
*
87048735 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT---ATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAGACGA
* * *
87048781 GAGCTAGTTTAAGACCATGTTTGGGACATGGCATCGGCATTGAAACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGACGA
* * * *
87048829 GAGCTAGTGTATGA-CATGTCTGGGACATGCATCGACCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGACG-A
* * * *
87048876 -AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGGC-TACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGACGA
* * * *
87048921 TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATCGAC-TTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGACGA
87048967 TGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCA
1 -GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
87049007 CCTTACCCAT
Statistics
Matches: 187, Mismatches: 25, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
45 6 0.03
46 75 0.40
47 76 0.41
48 30 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGACGA
Found at i:87048992 original size:140 final size:141
Alignment explanation
Indices: 87048740--87049003 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
87048730 TTTCTGAGCT
* * *
87048740 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTTTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* *
87048805 GACATGGCATCGGCATTGAAACGAGAGCTAGTGTATGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATGGCATCGACATTGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGACCTCG
87048869 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
87048880 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGATAG-TCAGTGTAAGACCGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCT-AGTGTAAGACCATGTCT
* *
87048943 GGGACATGGCATCGAC-TTGAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCG
64 GGGACATGGCATCGACATTGAAACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATAGCATCG
87049004 GCACCTTACC
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 81 0.75
141 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGACCTCG
AGACGTAAGCC
Found at i:87071291 original size:47 final size:47
Alignment explanation
Indices: 87071206--87071321 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 47
87071196 GACGTAAGCA
* * * *
87071206 AGTGTAAGA-TATGTCTAGGACATGCGTTGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCGTTGACTACGAGAT-ATCAGCC
* *
87071252 AGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATATCAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTTGACTACGAGATATCAGCC
* *
87071299 GGTGTAAGACCGTGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
87071322 CGGCATCGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
46 11 0.19
47 41 0.69
48 7 0.12
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCGTTGACTACGAGATATCAGCC
Found at i:87100852 original size:29 final size:30
Alignment explanation
Indices: 87100796--87100854 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87100786 AATGATAAAA
87100796 TAATTTAATTTATTAAAAATAATAAAAATT
1 TAATTTAATTTATTAAAAATAATAAAAATT
*
87100826 TAATTTGA-TTATTTAAAAA-ATATAAAAAT
1 TAATTTAATTTA-TTAAAAATA-ATAAAAAT
87100855 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
TAATTTAATTTATTAAAAATAATAAAAATT
Found at i:87101069 original size:19 final size:19
Alignment explanation
Indices: 87101045--87101088 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
87101035 AGTTTTGGGT
*
87101045 TTTTTAAATTTGTTTCATA
1 TTTTTAAATTTATTTCATA
*
87101064 TTTTTAAATTTATTTTATA
1 TTTTTAAATTTATTTCATA
*
87101083 TATTTA
1 TTTTTA
87101089 TAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTAAATTTATTTCATA
Found at i:87102213 original size:28 final size:27
Alignment explanation
Indices: 87102173--87102226 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
87102163 ATGTGAGTGA
87102173 AAAATATTATATAATAAA-TATATTAATT
1 AAAATATTATATAA-AAACTA-ATTAATT
87102201 AAAAT-TTCATATAAAAACTAATTAAT
1 AAAATATT-ATATAAAAACTAATTAAT
87102227 GGTTTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATATTATATAAAAACTAATTAATT
Found at i:87104622 original size:36 final size:33
Alignment explanation
Indices: 87104560--87104633 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
87104550 AAGCATATTT
*
87104560 TTATTATTGTATTACTATTAAATATTATAAGTA
1 TTATTATTGTATGACTATTAAATATTATAAGTA
* * *
87104593 TTATTATTGTATGATTATTAAATATTATTATTA
1 TTATTATTGTATGACTATTAAATATTATAAGTA
87104626 TTATTATT
1 TTATTATT
87104634 AAAGAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (33 bp):
TTATTATTGTATGACTATTAAATATTATAAGTA
Found at i:87106422 original size:3 final size:3
Alignment explanation
Indices: 87106410--87106447 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
87106400 TGTAGAATAC
87106410 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
87106448 ATGTCCCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87106556 original size:14 final size:14
Alignment explanation
Indices: 87106537--87106563 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87106527 TTTTATTTTT
87106537 ATACATTATATTAA
1 ATACATTATATTAA
87106551 ATACATTATATTA
1 ATACATTATATTA
87106564 TTTTTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
ATACATTATATTAA
Found at i:87106574 original size:25 final size:25
Alignment explanation
Indices: 87106542--87106590 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
87106532 TTTTTATACA
87106542 TTATATTAAATACA-TTATATTATTT
1 TTATATTAAATA-ATTTATATTATTT
*
87106567 TTATATTATATAATTTATATTATT
1 TTATATTAAATAATTTATATTATT
87106591 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATTAAATAATTTATATTATTT
Found at i:87106585 original size:14 final size:14
Alignment explanation
Indices: 87106542--87106589 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
87106532 TTTTTATACA
*
87106542 TTATATTAAATACA-
1 TTATATTATATA-AT
87106556 TTATATTAT-T--T
1 TTATATTATATAAT
87106567 TTATATTATATAAT
1 TTATATTATATAAT
87106581 TTATATTAT
1 TTATATTAT
87106590 TATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
13 1 0.03
14 18 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATTATATAAT
Found at i:87106603 original size:14 final size:14
Alignment explanation
Indices: 87106555--87106604 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
87106545 TATTAAATAC
87106555 ATTATATTATTTTTAT
1 ATTATA-TATTTTT-T
87106571 ATTATATAATTTATATT
1 ATTATAT-ATTT-T-TT
87106588 ATTATATATTTTTT
1 ATTATATATTTTTT
87106602 ATT
1 ATT
87106605 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 14 0.45
17 9 0.29
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATATATTTTTT
Found at i:87114008 original size:39 final size:39
Alignment explanation
Indices: 87113913--87114174 Score: 302
Period size: 39 Copynumber: 6.6 Consensus size: 39
87113903 TTGAATGATG
*
87113913 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
87113951 ATCCGGACTAAGATCCGAAGGCATTTGTGCCAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
87113992 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
87114031 TCCGGGCTAAGCCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
87114070 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
87114109 TCCGGGTTAAATCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
87114148 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
87114175 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
39 127 0.65
40 57 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:87114207 original size:79 final size:79
Alignment explanation
Indices: 87113965--87114199 Score: 257
Period size: 78 Copynumber: 3.0 Consensus size: 79
87113955 GGACTAAGAT
* * **
87113965 CCGAAGGCATTTGTGCCAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTA
* * *
87114029 ATTCCGGGCT-AAGC
65 AATCCGGGTTAAATC
* * ** *
87114043 CCAAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
87114108 ATCCGGGTTAAATC
66 ATCCGGGTTAAATC
*
87114122 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
87114184 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
87114200 TCTGAAGGTA
Statistics
Matches: 139, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 71 0.51
79 42 0.30
80 25 0.18
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:87122120 original size:38 final size:39
Alignment explanation
Indices: 87122050--87122127 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
87122040 GAAAACAAAA
87122050 GAAAAAAAATGTGTGTGTAGTGTTTGTCCCCCCATTGCC
1 GAAAAAAAATGTGTGTGTAGTGTTTGTCCCCCCATTGCC
87122089 GAAAAAAAATGTGTGTGTAGTGTTTGT-CCCCCATTGCC
1 GAAAAAAAATGTGTGTGTAGTGTTTGTCCCCCCATTGCC
87122127 G
1 G
87122128 TGAGCTAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
GAAAAAAAATGTGTGTGTAGTGTTTGTCCCCCCATTGCC
Found at i:87123342 original size:80 final size:80
Alignment explanation
Indices: 87123205--87123429 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 80
87123195 TTGAATGCTG
* * * * * *
87123205 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
87123269 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
* *
87123285 TCCGGGTTAAGTCCCGAAGGCATTCGTGCT-AGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCTAAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
* * **
87123349 CGTGCGAGTTGTTAAA
65 TGTGCGAGATACTAAA
* * * * *
87123365 TCCGGGTTATGTCCCGAAGGCATTGTG-TGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
87123429 G
66 G
87123430 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 35 0.28
80 83 0.67
81 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:87123409 original size:39 final size:40
Alignment explanation
Indices: 87123205--87123427 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
87123195 TTGAATGCTG
* * * * * *
87123205 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
87123245 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
87123285 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
87123325 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
87123365 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
87123404 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
87123428 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:87123447 original size:79 final size:80
Alignment explanation
Indices: 87123280--87123462 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
87123270 GTGCGAGATA
* * *
87123280 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
87123345 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
87123360 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTG-TGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCT-AGTTACTAAAACCGGGCTAAGTCCCGAAG
*
87123423 GCATTTGAACGAGGAG
65 GCATTCGAACGAGGAG
* *
87123439 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
87123463 TACGTGATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 15 0.17
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:87125177 original size:39 final size:39
Alignment explanation
Indices: 87125082--87125343 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
87125072 TTGAATGATG
*
87125082 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
87125120 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
87125161 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
87125200 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
87125239 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
87125278 TCCGGGTTAAATCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
87125317 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
87125344 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 18, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
39 128 0.65
40 57 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:87132819 original size:22 final size:22
Alignment explanation
Indices: 87132791--87132866 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
87132781 ACGTGTGTAT
87132791 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
87132813 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
87132838 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
87132860 ATGTGAT
1 ATGTGAT
87132867 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:87132852 original size:47 final size:47
Alignment explanation
Indices: 87132783--87133317 Score: 890
Period size: 47 Copynumber: 11.4 Consensus size: 47
87132773 GGTGTACAAC
* *
87132783 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
87132830 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
87132877 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87132924 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
87132971 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87133018 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87133065 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87133112 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87133159 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87133206 GTGTGTATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87133253 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87133300 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
87133318 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 465 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:87133101 original size:22 final size:22
Alignment explanation
Indices: 87133073--87133195 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
87133063 AAGTGTATAT
87133073 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
87133095 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
87133119 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
87133142 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
87133166 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
87133189 ATGTGAT
1 ATGTGAT
87133196 GAATGTGAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 23 0.32
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:87135358 original size:40 final size:40
Alignment explanation
Indices: 87134995--87135346 Score: 517
Period size: 40 Copynumber: 8.8 Consensus size: 40
87134985 GAGAATTGAG
** **
87134995 AGTGATATATCCGGGAAAAGTCTTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
87135035 AGTGATGTATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
87135075 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
87135115 AGTGATGTATCCGGTCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
87135155 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
87135195 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
87135235 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
87135275 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
87135315 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
87135347 ATCATGCTGG
Statistics
Matches: 283, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.00
40 280 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:87139171 original size:47 final size:47
Alignment explanation
Indices: 87139102--87139636 Score: 854
Period size: 47 Copynumber: 11.4 Consensus size: 47
87139092 GGTGTACAAG
* *
87139102 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87139149 GTGTGTATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87139196 GTGTGTATATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87139243 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
87139290 GTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87139337 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87139384 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
87139431 GTGTATATTTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87139478 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
87139525 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
87139572 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
87139619 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
87139637 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 459 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:87139420 original size:22 final size:22
Alignment explanation
Indices: 87139392--87139514 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
87139382 AAGTGTATAT
87139392 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
87139414 ATGTGATGAATG-TGAAAGTG-TA
1 ATGTGAT-AAGGCCGAATG-GCCA
87139436 TATTTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* * ***
87139461 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
87139485 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
87139508 ATGTGAT
1 ATGTGAT
87139515 GAATGTGAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 13 0.18
24 13 0.18
25 19 0.27
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:87142942 original size:88 final size:87
Alignment explanation
Indices: 87142845--87143111 Score: 226
Period size: 88 Copynumber: 3.0 Consensus size: 87
87142835 CGACGGAGAG
87142845 CAAGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCAT
1 CAAG-ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCAT
87142910 TCTTGTGTTTACAAGGAACAAAT
65 TCTTGTGTTTACAAGGAACAAAT
* * * * * * * *
87142933 CGAAGACATAGCAGATCTGACTTTTAGATGCTTT-CACATCAAAGCAGATCCAAGATAACAGATC
1 C-AAGACATAGCAGGTCTAACCTTCAGGTG-TTTATAC-T-GAAGCAGATCCAAGAT----GATT
* *** * * *
87142997 T-CGCA-TC-TCCATTT-CGACGG-A-GAGT
58 TGGGCATTCTTGTGTTTAC-AAGGAACAAAT
* *
87143022 -AGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCTAAGATGATTTGGGCAT
1 CAAG-ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCAT
87143086 TCTTGTGTTTACAAGGAACAAAT
65 TCTTGTGTTTACAAGGAACAAAT
87143109 CAA
1 CAA
87143112 AAACATAGTA
Statistics
Matches: 128, Mismatches: 33, Indels: 36
0.65 0.17 0.18
Matches are distributed among these distances:
82 4 0.03
83 3 0.02
84 2 0.02
85 7 0.05
86 16 0.12
87 8 0.06
88 46 0.36
89 9 0.07
90 17 0.13
91 7 0.05
92 2 0.02
93 3 0.02
94 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (87 bp):
CAAGACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATT
CTTGTGTTTACAAGGAACAAAT
Found at i:87143054 original size:176 final size:175
Alignment explanation
Indices: 87142760--87143299 Score: 814
Period size: 176 Copynumber: 3.1 Consensus size: 175
87142750 ATTAAATTGC
* *
87142760 AGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGACCCAAGATAACAGATTTGGC
1 AGACATAGCAGATCTGACTTTTAGATG-TTTCACATCAAAGCAGATCCAAGATAACAGATCTGGC
* *
87142825 ATCTCTATTTCGACGGAGAGCAAGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAG
65 ATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAG
87142890 ATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGA
130 ATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGA
*
87142936 AGACATAGCAGATCTGACTTTTAGATGCTTTCACATCAAAGCAGATCCAAGATAACAGATCTCGC
1 AGACATAGCAGATCTGACTTTTAGATG-TTTCACATCAAAGCAGATCCAAGATAACAGATCTGGC
*
87143001 ATCTCCATTTCGACGGAGAGTAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAG
65 ATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAG
* *
87143066 ATCTAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCAA
130 ATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGA
* * * * * * *
87143112 AAACATAGTAGATTTGACTTTTGGATGTTCTCACACCAAAACAGATCCAAAATAACAGATCTGGC
1 AGACATAGCAGATCTGACTTTTAGATGTT-TCACATCAAAGCAGATCCAAGATAACAGATCTGGC
* * *
87143177 ATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCA
65 ATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTG-TTTATACTGAAGCA
* * * * *
87143241 GATCCAAGATGATTT-GGCATCCTTGTGTTCACAAAGAGCAAATTGA
129 GATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGA
*
87143287 AGACACAGCAGAT
1 AGACATAGCAGAT
87143300 TTGGCTTTCA
Statistics
Matches: 331, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
175 37 0.11
176 291 0.88
177 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
AGACATAGCAGATCTGACTTTTAGATGTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCA
TCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGA
TCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAACAAATCGA
Found at i:87145216 original size:5 final size:5
Alignment explanation
Indices: 87145208--87145341 Score: 52
Period size: 5 Copynumber: 27.2 Consensus size: 5
87145198 ATATGTCCCT
* *
87145208 TATTA TATTA TATT- TCATTA TATTC TATT- TATGTA T-TTA T-TACA
1 TATTA TATTA TATTA T-ATTA TATTA TATTA TAT-TA TATTA TAT-TA
* * * *
87145252 TATTA TATTT TACTA TA-TA TCATAA TATTT TATT- T-TTA TACATTA
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA T--ATTA
* * * *
87145297 TATTA -CTTA CATTA TATTA TTTTTA TATTA TATAA T-TTA TATTA T
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA T
87145342 TATATATTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
3 2 0.02
4 19 0.19
5 64 0.65
6 9 0.09
7 4 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:87145327 original size:30 final size:31
Alignment explanation
Indices: 87145277--87145356 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
87145267 TATATCATAA
*
87145277 TATT-TTATTTTTATACATTATATTACTTACAT
1 TATTATTATTTTTAT--ATTATATAACTTACAT
* *
87145309 TA-TATTATTTTTATATTATATAATTTATAT
1 TATTATTATTTTTATATTATATAACTTACAT
87145339 TATTATATATTTTT-TATT
1 TATTAT-TATTTTTATATT
87145357 TGTAAATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 15 0.36
31 8 0.19
32 19 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (31 bp):
TATTATTATTTTTATATTATATAACTTACAT
Found at i:87145355 original size:14 final size:14
Alignment explanation
Indices: 87145307--87145356 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
87145297 TATTACTTAC
87145307 ATTATATTATTTTTAT
1 ATTATA-TATTTTT-T
87145323 ATTATATAATTTATATT
1 ATTATAT-ATTT-T-TT
87145340 ATTATATATTTTTT
1 ATTATATATTTTTT
87145354 ATT
1 ATT
87145357 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 14 0.45
17 9 0.29
18 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATATATTTTTT
Found at i:87145633 original size:180 final size:180
Alignment explanation
Indices: 87145434--87145793 Score: 711
Period size: 180 Copynumber: 2.0 Consensus size: 180
87145424 TTTCATAATT
*
87145434 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTTTTTATATAGTATCACAT
1 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
87145499 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
66 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
87145564 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
131 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
87145614 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
1 ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
87145679 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
66 TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
87145744 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
131 CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
87145794 TATCTTAATA
Statistics
Matches: 179, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 179 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (180 bp):
ATTAAGTGTTGTTTGTTTGATATATATGTTGCTACATTATTATTATTATTTATATAGTATCACAT
TTGTTTTGTATATATATTTATATGTCTAATTGTATATCATGCATCGTTTTTTAAATTAATTATTA
CTTTGTATGTTCGTATATTTTGCTTATTCATCTTCAATATATGCTATGTA
Found at i:87151152 original size:15 final size:14
Alignment explanation
Indices: 87151128--87151157 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
87151118 TGGAGAGATA
87151128 AAGGTTTAGGGTTT
1 AAGGTTTAGGGTTT
87151142 AAGGTTTTAGGGTTT
1 AAGG-TTTAGGGTTT
87151157 A
1 A
87151158 GGGACATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AAGGTTTAGGGTTT
Found at i:87154565 original size:14 final size:14
Alignment explanation
Indices: 87154546--87154596 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
87154536 TAAATATACC
87154546 TTAATTAACTTTAT
1 TTAATTAACTTTAT
*
87154560 TTAATTAACTTAAT
1 TTAATTAACTTTAT
87154574 CCTTAATTAA-TTTACT
1 --TTAATTAACTTTA-T
87154590 TTAATTA
1 TTAATTA
87154597 TCATTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 20 0.62
15 3 0.09
16 9 0.28
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTAACTTTAT
Found at i:87156541 original size:45 final size:46
Alignment explanation
Indices: 87156456--87156545 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 46
87156446 ATAATGAATA
*
87156456 GAAATAAAGAAATAGAAAACATTCAGAAATGATTATGGTTTTCTCC
1 GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTCC
* * ** *
87156502 GAAATAGAGAAATA-AAATCATTTGGAAATGAATGTGGTTTTCTC
1 GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTC
87156546 AAAAATGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
45 25 0.66
46 13 0.34
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (46 bp):
GAAATAAAGAAATAGAAAACATTCAGAAATGAATATGGTTTTCTCC
Found at i:87158564 original size:28 final size:28
Alignment explanation
Indices: 87158524--87158581 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
87158514 TGTGGTAAGC
87158524 ATTATCATGCAATAGATCAAGAAATTCT
1 ATTATCATGCAATAGATCAAGAAATTCT
*
87158552 ATTATCATGCAATAGATTAAGAAATTCT
1 ATTATCATGCAATAGATCAAGAAATTCT
87158580 AT
1 AT
87158582 CTTCAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (28 bp):
ATTATCATGCAATAGATCAAGAAATTCT
Found at i:87164752 original size:46 final size:46
Alignment explanation
Indices: 87164692--87164868 Score: 230
Period size: 46 Copynumber: 3.8 Consensus size: 46
87164682 TTTGACATGA
* * * *
87164692 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGT
* *
87164738 TGCCATGTTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * *
87164784 CGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * *
87164830 TGCTATGGTATCTTTCAACCATGGTCTTACACAATTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
87164869 ATTAGAGAGC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 4 0.03
46 112 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
Found at i:87167027 original size:11 final size:11
Alignment explanation
Indices: 87167011--87167049 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
87167001 ACTAAATAAT
87167011 TAATAATGAAA
1 TAATAATGAAA
87167022 TAATAATGAAA
1 TAATAATGAAA
*
87167033 TAATAATAAAA
1 TAATAATGAAA
87167044 TAATAA
1 TAATAA
87167050 AATATCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
TAATAATGAAA
Found at i:87167076 original size:20 final size:21
Alignment explanation
Indices: 87167023--87167098 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
87167013 ATAATGAAAT
* *
87167023 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
87167042 AATAATAAAATATCTTATTAA
1 AATAATAAAATATCTAATTAA
*
87167063 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
87167084 TAATCATAAAATATC
1 -AATAATAAAATATC
87167099 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:87168466 original size:28 final size:25
Alignment explanation
Indices: 87168430--87168480 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
87168420 GTAATTTATA
87168430 TATTATTATTTTACATATGATTTATTGT
1 TATTATTATTTT---TATGATTTATTGT
*
87168458 TATTGTTATTTTTATGATTTATT
1 TATTATTATTTTTATGATTTATT
87168481 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
28 11 0.50
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (25 bp):
TATTATTATTTTTATGATTTATTGT
Found at i:87168540 original size:27 final size:28
Alignment explanation
Indices: 87168474--87168548 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
87168464 TATTTTTATG
* **
87168474 ATTTAT-TTTTAATTTTTATATGTATTA
1 ATTTATCTTTAAATTTTTATACATATTA
87168501 A-TTA-CTTTAAAATTTTTATACATA-TA
1 ATTTATCTTT-AAATTTTTATACATATTA
87168527 ATTTATCTTTAAATGTTTTATA
1 ATTTATCTTTAAAT-TTTTATA
87168549 TATTGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 9 0.22
27 20 0.50
28 11 0.28
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (28 bp):
ATTTATCTTTAAATTTTTATACATATTA
Found at i:87171778 original size:13 final size:13
Alignment explanation
Indices: 87171762--87171787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87171752 ACTTTATGGA
87171762 AACAAATGGTTTT
1 AACAAATGGTTTT
87171775 AACAAATGGTTTT
1 AACAAATGGTTTT
87171788 TGGAAACACG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:87174611 original size:40 final size:37
Alignment explanation
Indices: 87174508--87174642 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 37
87174498 TTTTCTTCAT
* * *
87174508 TGAAATACCATACCTAGATTTTACAACTCAGTATGG-
1 TGAAATACCATACCTACATTTCACAACTTAGTATGGA
* * **
87174544 -GAAATGCCATGCCTACATTTCTTAACTTAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTTAGTATGGA
*
87174580 TTTGATAATACCATACCTACATTTCACAACTTGGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTTAGTATGGA
87174620 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
87174643 CTTTGCCATG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
35 49 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTTAGTATGGA
Found at i:87174654 original size:35 final size:35
Alignment explanation
Indices: 87174587--87174654 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
87174577 GGATTTGATA
**
87174587 ATACCATACCTACATTTCACAACTTGGTATGGATG
1 ATACCATACCTACATTTCACAACTTGCCATGGATG
87174622 ATACCATACCTACATTTCAC-ACTTTGCCATGGA
1 ATACCATACCTACATTTCACAAC-TTGCCATGGA
87174655 ACAACCATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTTGCCATGGATG
Found at i:87184289 original size:26 final size:26
Alignment explanation
Indices: 87184253--87184336 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
87184243 CATGAAATTC
87184253 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87184279 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
87184305 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87184331 TTATCA
1 TTATCA
87184337 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87192719 original size:31 final size:31
Alignment explanation
Indices: 87192665--87192723 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
87192655 AAGAAAAATT
87192665 ATATTTTCTATTTTTATTCTCTTTGATTTTTC
1 ATATTTTCTATTTTTATTCTCTTT-ATTTTTC
87192697 ATATTTTC-ATATTTT-TTCTCTTTATTT
1 ATATTTTCTAT-TTTTATTCTCTTTATTT
87192724 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 10 0.38
32 12 0.46
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (31 bp):
ATATTTTCTATTTTTATTCTCTTTATTTTTC
Found at i:87192798 original size:13 final size:13
Alignment explanation
Indices: 87192780--87192804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87192770 GGGAATTTTT
87192780 TGGTTGATTTTAA
1 TGGTTGATTTTAA
87192793 TGGTTGATTTTA
1 TGGTTGATTTTA
87192805 GTTCTCCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TGGTTGATTTTAA
Found at i:87193163 original size:13 final size:13
Alignment explanation
Indices: 87193145--87193184 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
87193135 CACATCAATG
87193145 ATTAATTAAAATT
1 ATTAATTAAAATT
87193158 ATTAATTAAAATT
1 ATTAATTAAAATT
87193171 -TTAAATTCAAAATT
1 ATT-AATT-AAAATT
87193185 CAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTAAAATT
Found at i:87193219 original size:29 final size:29
Alignment explanation
Indices: 87193187--87193251 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
87193177 TCAAAATTCA
*
87193187 AAAAAATTA-TAAAATTAATTTTAAAAAT-T
1 AAAAAATTATTAAAAGT-A-TTTAAAAATAT
* *
87193216 AAAAAAATATTAAAAGTATTTAAAACTAT
1 AAAAAATTATTAAAAGTATTTAAAAATAT
87193245 AAAAAAT
1 AAAAAAT
87193252 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.27
29 16 0.53
30 6 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAAATTATTAAAAGTATTTAAAAATAT
Found at i:87193230 original size:30 final size:27
Alignment explanation
Indices: 87193179--87193254 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 27
87193169 TTTTAAATTC
*
87193179 AAAATTCAAAAAAAT-TATAAAATTAATTTT
1 AAAATT-AAAAAAATAT-TAAAAGT-A-TTT
87193209 AAAAATTAAAAAAATATTAAAAGTATTT
1 -AAAATTAAAAAAATATTAAAAGTATTT
*
87193237 AAAACTATAAAAAATATT
1 AAAATTA-AAAAAATATT
87193255 TTTTTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.15
28 13 0.32
29 1 0.02
30 14 0.34
31 7 0.17
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAATTAAAAAAATATTAAAAGTATTT
Found at i:87204599 original size:24 final size:24
Alignment explanation
Indices: 87204572--87204623 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
87204562 TTAGTAAGTC
*
87204572 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
87204596 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87204620 AAAT
1 AAAT
87204624 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87207693 original size:21 final size:20
Alignment explanation
Indices: 87207655--87207693 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87207645 GAATATTTCA
**
87207655 TTTTTAATATTATTTTAAAT
1 TTTTTAATATTAAATTAAAT
87207675 TTTTATAATATTAAATTAA
1 TTTT-TAATATTAAATTAA
87207694 GTTATTGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTAAATTAAAT
Found at i:87210310 original size:15 final size:15
Alignment explanation
Indices: 87210290--87210323 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
87210280 TAAATCACTC
87210290 TCCTTATTATGTCTT
1 TCCTTATTATGTCTT
87210305 TCCTTATTATGTCTT
1 TCCTTATTATGTCTT
87210320 TCCT
1 TCCT
87210324 CATGCAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.59
Consensus pattern (15 bp):
TCCTTATTATGTCTT
Found at i:87215332 original size:10 final size:10
Alignment explanation
Indices: 87215308--87215359 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
87215298 TGCAATTCTG
*
87215308 TCAAAAATAA
1 TCAAAATTAA
*
87215318 CCAAAATTAA
1 TCAAAATTAA
87215328 TCAAAATTAA
1 TCAAAATTAA
*
87215338 TTATAAAATTAA
1 -T-CAAAATTAA
*
87215350 TTAAAATTAA
1 TCAAAATTAA
87215360 ACATGTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 26 0.72
11 2 0.06
12 8 0.22
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:87216067 original size:13 final size:14
Alignment explanation
Indices: 87216049--87216077 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87216039 ACTCATGCTC
87216049 TTTTTTCT-TTTTT
1 TTTTTTCTCTTTTT
87216062 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
87216076 TT
1 TT
87216078 AAATCGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Found at i:87223897 original size:7 final size:6
Alignment explanation
Indices: 87223877--87223906 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
87223867 AATAAAGTTT
*
87223877 AAATAA AAATAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
87223907 TCAGAGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:87225252 original size:26 final size:26
Alignment explanation
Indices: 87225221--87225277 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
87225211 TAAGTAGCTG
87225221 CTAATTAAATTTTCAACTTATATTGA
1 CTAATTAAATTTTCAACTTATATTGA
87225247 CTAATTAAATTTTCAACTTATATTGA
1 CTAATTAAATTTTCAACTTATATTGA
87225273 CTAAT
1 CTAAT
87225278 ATGATAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.46
Consensus pattern (26 bp):
CTAATTAAATTTTCAACTTATATTGA
Found at i:87227010 original size:13 final size:13
Alignment explanation
Indices: 87226994--87227026 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87226984 TTTAATTAAA
*
87226994 TTAGTTAATTAGT
1 TTAGATAATTAGT
87227007 TTAGATAATTAGT
1 TTAGATAATTAGT
87227020 TTA-ATAA
1 TTAGATAA
87227027 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:87232441 original size:6 final size:6
Alignment explanation
Indices: 87232375--87232465 Score: 80
Period size: 6 Copynumber: 15.5 Consensus size: 6
87232365 TCCTCCTATT
* * * * *
87232375 TTTTTA TTATTTA TTGTTA TTGTTA TTGTTA TTGTTA TTGTTA --TTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
87232422 -TTTTA TTTTTA TTTTTA TTTTTC TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
87232466 CAATTTTATT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 4 0.05
6 62 0.83
7 6 0.08
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:87232448 original size:18 final size:18
Alignment explanation
Indices: 87232418--87232487 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
87232408 GTTATTGTTA
*
87232418 TTTA-TTTTATTTTTATT
1 TTTATTTTTATTTTGATT
*
87232435 TTTATTTTTCTTTTGATT
1 TTTATTTTTATTTTGATT
* * *
87232453 TTTATTTTCA-TTTCAAT
1 TTTATTTTTATTTTGATT
87232470 TTTATTATTTTATTTTGA
1 TTTA-T-TTTTATTTTGA
87232488 AAGACATATC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 13 0.32
18 20 0.49
19 4 0.10
20 4 0.10
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATTTTGATT
Found at i:87247538 original size:7 final size:7
Alignment explanation
Indices: 87247526--87247564 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
87247516 CCTTATTCTA
87247526 AGGGTTT
1 AGGGTTT
87247533 AGGGTTTT
1 AGGG-TTT
87247541 AGGGTTT
1 AGGGTTT
*
87247548 AAGGTTT
1 AGGGTTT
*
87247555 AAGGTTT
1 AGGGTTT
87247562 AGG
1 AGG
87247565 ATTGTGTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:87249548 original size:19 final size:21
Alignment explanation
Indices: 87249509--87249549 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
87249499 GTACTTTGTA
87249509 ATATATGGCTTGAGGTATGTTT
1 ATATATGGCTTGA-GTATGTTT
87249531 ATATATGG-TTGA-TATGTTT
1 ATATATGGCTTGAGTATGTTT
87249550 GACTGGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
ATATATGGCTTGAGTATGTTT
Found at i:87254307 original size:45 final size:45
Alignment explanation
Indices: 87254245--87254334 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
87254235 CCCGTGTGTT
* *
87254245 TGCCTATGTGGAAAAAAATAGGGCTATGTACGAAGCCTTTTTGCC
1 TGCCCATGTGGAAAAAAATAGGGCTATGTACCAAGCCTTTTTGCC
*
87254290 TGCCCATGTGGACAAAAATAGGGCTATGTACCAAGCCTTTTTGCC
1 TGCCCATGTGGAAAAAAATAGGGCTATGTACCAAGCCTTTTTGCC
87254335 ACCCTTACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
TGCCCATGTGGAAAAAAATAGGGCTATGTACCAAGCCTTTTTGCC
Found at i:87255288 original size:95 final size:96
Alignment explanation
Indices: 87255052--87255325 Score: 329
Period size: 95 Copynumber: 2.9 Consensus size: 96
87255042 AGAGGGTGAA
* * * *
87255052 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTCC
* **
87255117 CAGACATGGTCTTACACTGGCTCTCATAATG
66 CAGACAAGGTCTTACACTGGCTCTCATAACC
* * * * * *
87255148 TGGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATACAGATGCCATGTT
1 TTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTC
*
87255212 CCAGA-AAGGTCTTACACTGGCTCTCATTACC
65 CCAGACAAGGTCTTACACTGGCTCTCATAACC
* * * *
87255243 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCA-ATGCCGTGTC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA-AGACAGATGCCATGTC
* *
87255307 CCATACATGGTCTTACACT
65 CCAGACAAGGTCTTACACT
87255326 AGCGCACATA
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
95 76 0.51
96 72 0.49
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGACAGATGCCATGTCC
CAGACAAGGTCTTACACTGGCTCTCATAACC
Found at i:87255334 original size:143 final size:144
Alignment explanation
Indices: 87255057--87255338 Score: 410
Period size: 143 Copynumber: 2.0 Consensus size: 144
87255047 GTGAATTGCC
* *
87255057 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCCAGGCCGATGCCATGTCCCAAAC
* * *
87255122 ATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCG
66 ATGGTCTTACACTGGCTCTCATAATATGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCG
87255187 CACATATCAATACA
131 CACATATCAATACA
* ** *
87255201 GATGCCATGTTCCAGAA-A-GGTCTTACACTGGCTCTCAT-TACCTTGCCGATGCCATGTTCCAA
1 GATGCCATGTTCCA-AACATGGTCTTACACTGGCTCACATGT-CCAGGCCGATGCCATGTCCCAA
* *
87255263 ACATGGTCTTACACTGGCTCTCAT-ATCATGGCCAATGCCGTGTCCCATACATGGTCTTACACTA
64 ACATGGTCTTACACTGGCTCTCATAAT-ATGGCCAATGCCATGTCCCAGACATGGTCTTACACTA
87255327 GCGCACATATCA
128 GCGCACATATCA
87255339 CCCAAATGTC
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
142 3 0.02
143 104 0.84
144 15 0.12
145 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (144 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCCAGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATAATATGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCG
CACATATCAATACA
Found at i:87255338 original size:48 final size:48
Alignment explanation
Indices: 87255054--87255338 Score: 292
Period size: 48 Copynumber: 6.0 Consensus size: 48
87255044 AGGGTGAATT
* * *
87255054 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* *
87255102 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * *
87255150 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * * * * * *
87255198 ACAGATGCCATGTTCCAGA-AAGGTCTTACACTGGCTCTCAT-TACCTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-CATG
* * *
87255245 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * *
87255293 GCCAATGCCGTGTCCCATACATGGTCTTACACTAGCGCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
87255339 CCCAAATGTC
Statistics
Matches: 197, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
46 2 0.01
47 37 0.19
48 155 0.79
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:87265884 original size:56 final size:56
Alignment explanation
Indices: 87265798--87265917 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
87265788 ACAAGGGATG
87265798 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
87265854 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
87265910 ATGGGCAA
1 ATGGGCAA
87265918 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:87266912 original size:47 final size:47
Alignment explanation
Indices: 87266852--87267195 Score: 514
Period size: 47 Copynumber: 7.3 Consensus size: 47
87266842 TGAAAGTGTA
87266852 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
87266899 TGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
87266946 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
*
87266993 -AGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
87267040 TGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
87267087 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
87267134 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
87267181 TATAAATGTGATAAG
1 TATATATGTGATAAG
87267196 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.01
47 266 0.98
48 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:87267073 original size:22 final size:22
Alignment explanation
Indices: 87267046--87267167 Score: 57
Period size: 22 Copynumber: 5.3 Consensus size: 22
87267036 CATGTGTATG
87267046 TGTGATAAGGCCAAATGGCCAA
1 TGTGATAAGGCCAAATGGCCAA
* ** *
87267068 TGTGATGAATGTGAACAT-GCATATA
1 TGTGAT-AAGGCCAA-ATGGC-CA-A
* *
87267093 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCAAATGGCCAA
* ** ***
87267115 TGTGATGAATGTGAAAGTGTATATA
1 TGTGAT-AAGGCCAAA-TGGCCA-A
*
87267140 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCAAATGGCCAA
87267162 TGTGAT
1 TGTGAT
87267168 GGATGTGGAA
Statistics
Matches: 67, Mismatches: 25, Indels: 16
0.62 0.23 0.15
Matches are distributed among these distances:
22 19 0.28
23 18 0.27
24 17 0.25
25 13 0.19
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCAAATGGCCAA
Found at i:87267195 original size:141 final size:141
Alignment explanation
Indices: 87266838--87267174 Score: 588
Period size: 141 Copynumber: 2.4 Consensus size: 141
87266828 TATTTGAATA
87266838 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
**
87266903 TGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
64 TGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
87266968 GGCCAATGTGATG
129 GGCCAATGTGATG
*
87266981 AATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 AATGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
87267044 TGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
64 TGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAT
87267109 GGCCAATGTGATG
129 GGCCAATGTGATG
*
87267122 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
87267175 GAAGTGTATA
Statistics
Matches: 185, Mismatches: 5, Indels: 10
0.93 0.03 0.05
Matches are distributed among these distances:
140 2 0.01
141 171 0.92
142 1 0.01
143 10 0.05
144 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
TGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGG
CCAATGTGATG
Found at i:87269543 original size:15 final size:16
Alignment explanation
Indices: 87269518--87269548 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
87269508 CTCTCAATAA
87269518 TTAATATTATTATTAT
1 TTAATATTATTATTAT
87269534 TTAA-ATTATTATTAT
1 TTAATATTATTATTAT
87269549 CTTAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATATTATTATTAT
Found at i:87271621 original size:14 final size:13
Alignment explanation
Indices: 87271593--87271629 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
87271583 ATCCTGGAAT
87271593 ATTAA-AACAATA
1 ATTAAGAACAATA
87271605 ATTAAGAACACATA
1 ATTAAGAACA-ATA
87271619 ATTAAGAACAA
1 ATTAAGAACAA
87271630 ATCAAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:87274636 original size:51 final size:51
Alignment explanation
Indices: 87274560--87274663 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
87274550 CACTTTTGAG
87274560 GGTTTTAAAGCATTCTAAAGCCTATATAAACACCCCAGAAGAGGATTAAAA
1 GGTTTTAAAGCATTCTAAAGCCTATATAAACACCCCAGAAGAGGATTAAAA
87274611 GGTTTTAAAGCATTCTAAAGCCTATATAAACACCCCAGAAGAGGATTAAAA
1 GGTTTTAAAGCATTCTAAAGCCTATATAAACACCCCAGAAGAGGATTAAAA
87274662 GG
1 GG
87274664 GAGACACGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (51 bp):
GGTTTTAAAGCATTCTAAAGCCTATATAAACACCCCAGAAGAGGATTAAAA
Found at i:87278236 original size:5 final size:5
Alignment explanation
Indices: 87278226--87278266 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
87278216 ACATGTGCTC
87278226 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
87278267 TTAATCACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:87288871 original size:16 final size:15
Alignment explanation
Indices: 87288845--87288875 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
87288835 AAATGGGGAA
87288845 TAAATTAAAATTAAT
1 TAAATTAAAATTAAT
87288860 TAAATTATAAATTAAT
1 TAAATTA-AAATTAAT
87288876 ACACATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTAAAATTAAT
Found at i:87291160 original size:48 final size:46
Alignment explanation
Indices: 87290981--87291162 Score: 152
Period size: 48 Copynumber: 3.8 Consensus size: 46
87290971 AAGGCCAATG
* *
87290981 CATGTCTCAGACATGGTCTTACACTAGTGCACATATCAATGCAGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCGCACATATC-ATGC-GATGC
* * * * * * *
87291029 CATGTTCCTGACATGGTCTTACACT-GCCTCTCATTACCTTACCGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-CGCACA-TATCAT-GCGATGC
* * * *
87291077 CATGTTCCAAACATGGTCTTACAC-AGGCTCTCATATCATGGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTA-GCGCACATATCAT-G-CGATGC
*
87291125 CATGTCCCAGACATGGTCCTACACTAGCGCACATATCA
1 CATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
87291163 CCCAGATGTC
Statistics
Matches: 107, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
47 5 0.05
48 96 0.90
49 6 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCGCACATATCATGCGATGC
Found at i:87296573 original size:31 final size:30
Alignment explanation
Indices: 87296537--87296637 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 30
87296527 TAATCACATT
87296537 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
** *
87296568 AATATTAAATTTAATTTAATATCT-TATAAT-
1 AATATTAAA-TTAATAAAATAT-TATCTAATA
87296598 AATATTAAATTAATAAAATATTATCTATATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
87296629 AATATTAAA
1 AATATTAAA
87296638 GTAAAGTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 13 0.22
30 11 0.19
31 20 0.34
32 13 0.22
33 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATTATCTAATA
Found at i:87296606 original size:61 final size:61
Alignment explanation
Indices: 87296536--87296662 Score: 200
Period size: 61 Copynumber: 2.1 Consensus size: 61
87296526 TTAATCACAT
* * * *
87296536 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCTTATAA
1 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
* *
87296597 TAATATTAAATTAATAAAATATTATCTATATAAATATTAAAGTAAAGTTAATATCTCATAT
1 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
87296658 TAATA
1 TAATA
87296663 AATAGATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (61 bp):
TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAAGTAAAGTTAATATCTCATAA
Found at i:87296704 original size:15 final size:16
Alignment explanation
Indices: 87296671--87296704 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
87296661 TAAATAGATA
87296671 AATATTAAATTAGCTTT
1 AATATTAAATTA-CTTT
87296688 AATATTAAATT-CTTT
1 AATATTAAATTACTTT
87296703 AA
1 AA
87296705 AACAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATTAAATTACTTT
Found at i:87297039 original size:22 final size:21
Alignment explanation
Indices: 87297000--87297040 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
87296990 ACTAGACACA
87297000 AGGGGCACACACCCGTGTGGG
1 AGGGGCACACACCCGTGTGGG
87297021 AGGGGCA-ACACGCCTGTGTG
1 AGGGGCACACAC-CC-GTGTG
87297041 ACCAATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGG
Found at i:87298246 original size:44 final size:45
Alignment explanation
Indices: 87298182--87298296 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 45
87298172 TAATTCCATA
* *
87298182 TCCCAGACATGGTCTTACACTAGCT-CTTCTCGTA-GCCGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTACATCTCG-AGGCCAATGCATG
* * *
87298227 TCCCATACATGTCTTACACTGGCTTACATCTCGAGGCTAATGCATG
1 TCCCAGACATGTCTTACACTAGC-TACATCTCGAGGCCAATGCATG
*
87298273 TCCCAGACATGTCTTACTCTAGCT
1 TCCCAGACATGTCTTACACTAGCT
87298297 TTCGTCTCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 12 0.20
45 12 0.20
46 35 0.59
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTAGCTACATCTCGAGGCCAATGCATG
Found at i:87300745 original size:18 final size:18
Alignment explanation
Indices: 87300703--87300745 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87300693 GCCCATTCCG
* *
87300703 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
87300721 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
87300739 AAGTATG
1 AAGTATG
87300746 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Done.