Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004258.1 Hibiscus syriacus cultivar Beakdansim tig00009329_pilon, whole genome shotgun sequence
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: 94066
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:10056 original size:91 final size:91
Alignment explanation
Indices: 9900--10264 Score: 475
Period size: 91 Copynumber: 4.0 Consensus size: 91
9890 CGAGCAAAAA
* * * *
9900 GTTGATGCAAGGTTGAACAAATTCTTCTCATGATGAACTTCTTCTCCCTCT-TCGGATGAGCTCT
1 GTTGATGCAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTCCCT-TGTTGGATGAGTTCT
* * * * *
9964 TCTTATTATGAACACCCCGCTTGAAAT
65 TCTCATTATGAACTCTCCACTGGAAAT
* *
9991 GTTGATGCAAGGTTGAACAAGTTCTTCTCATTATGAAATTTTTCTCCCTTGTTGGATGAGTTCTT
1 GTTGATGCAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTCCCTTGTTGGATGAGTTCTT
* *
10056 CTCATTATAAACTCTCCACTGGGAAT
66 CTCATTATGAACTCTCCACTGGAAAT
* * * * *
10082 TTTGA-GCCAAGGTTGAACAATTTCTTCTCATTGTGAACTTTTTGTCCCTCGTTGGATGAGTTCT
1 GTTGATG-CAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTCCCTTGTTGGATGAGTTCT
* *
10146 TCTCATTATGAACTTTCCACTGGAAAC
65 TCTCATTATGAACTCTCCACTGGAAAT
* *
10173 GCTGAT-CAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTTGTTGGATGAGTTCT
1 GTTGATGC-AAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTCCCTTGTTGGATGAGTTCT
*
10237 TCTCATTATGAACTCTCCATTGGAAAT
65 TCTCATTATGAACTCTCCACTGGAAAT
10264 G
1 G
10265 ACAATCCCTC
Statistics
Matches: 237, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
90 3 0.01
91 234 0.99
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (91 bp):
GTTGATGCAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTCCCTTGTTGGATGAGTTCTT
CTCATTATGAACTCTCCACTGGAAAT
Found at i:10790 original size:75 final size:75
Alignment explanation
Indices: 10658--10841 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 75
10648 AGAAGAGTTC
* * * *
10658 TCTCGAGTGAGATAAAATTTATTGTTTCAAGGGAAAATTATCTCAAGAGAGACGAAGTTGGTTTT
1 TCTCAAGTGAGAT-AAATTTTTTGTTTCAAGGGAAAACTATCTCAAGAGAGACGAAGTTAGTTTT
*
10723 AAGAAAAACCA
65 AAGAAAAAACA
* * * *
10734 TCTCAAGTGAGATATATTTTTTGTTTCAAGGTAAAACTGTCTCAAGCA-AGATGAAGTTAGTTTT
1 TCTCAAGTGAGATAAATTTTTTGTTTCAAGGGAAAACTATCTCAAG-AGAGACGAAGTTAGTTTT
*
10798 AAGAAAAAACG
65 AAGAAAAAACA
* *
10809 TCTCAAGTGAGATACA--TTTTATTTCAAGGGAAA
1 TCTCAAGTGAGATAAATTTTTTGTTTCAAGGGAAA
10842 CGGGTTCAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
73 15 0.16
75 66 0.70
76 13 0.14
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (75 bp):
TCTCAAGTGAGATAAATTTTTTGTTTCAAGGGAAAACTATCTCAAGAGAGACGAAGTTAGTTTTA
AGAAAAAACA
Found at i:10940 original size:36 final size:36
Alignment explanation
Indices: 10861--11119 Score: 234
Period size: 36 Copynumber: 7.4 Consensus size: 36
10851 AGATTTTGCA
* *
10861 TTTC-AGGAGAAACTGTCTC-AGGAAGACAAAACTTA
1 TTTCAAGG-GAAACTGTCTCAAGGGAGACAAAACTTG
*
10896 TTTCAAGGGAAAATGTCTCAAGGGAGACAAAACTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTG
* * ***
10932 TTTGAAGGGAAAC-GTTTTCAA---AG--TTTA--TG
1 TTTCAAGGGAAACTG-TCTCAAGGGAGACAAAACTTG
* *
10961 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTA
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTG
* * *
10997 TTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAAC-TTG
* *
11034 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAAC-TTG
* * *
11071 TTTCAAGGTAAACTTTCTCAAGGGAGACGAAA-TTCG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTT-G
11107 TTTCAAGGGAAAC
1 TTTCAAGGGAAAC
11120 ATTTTTAAAG
Statistics
Matches: 183, Mismatches: 28, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
29 19 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 17 0.09
36 78 0.43
37 62 0.34
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTG
Found at i:11014 original size:101 final size:102
Alignment explanation
Indices: 10830--11046 Score: 289
Period size: 101 Copynumber: 2.1 Consensus size: 102
10820 ATACATTTTA
*
10830 TTTCAAGGGAAACGGGTTCAAAGATTTTGCATTTCAGGAGAAACTGTCTCAGGAAGACAAAACTT
1 TTTCAAGGGAAACGGGTTCAAAGATTTTG-ATTTCAGGAGAAACTGTCTCAAGAAGACAAAACTT
* * *
10895 ATTTCAAGGGAAAATGTCTCAAGGGAGACAAAAC-TTG
65 ATTTCAAGGGAAAATGTCTAAAGAGAGAAAAAACTTTG
* **
10932 TTTGAAGGGAAACGTTTTCAAAG-TTTATG-TTTCAAGG-GAAACTGTCTCAAGAGAGACAAAAC
1 TTTCAAGGGAAACGGGTTCAAAGATTT-TGATTTC-AGGAGAAACTGTCTCAAGA-AGACAAAAC
*
10994 TTATTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTTTG
63 TTATTTCAAGGGAAAATGTCTAAAGAGAGAAAAAACTTTG
*
11034 TTTCAAGAGAAAC
1 TTTCAAGGGAAAC
11047 TGTCTCAAGG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
100 18 0.18
101 47 0.47
102 36 0.36
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (102 bp):
TTTCAAGGGAAACGGGTTCAAAGATTTTGATTTCAGGAGAAACTGTCTCAAGAAGACAAAACTTA
TTTCAAGGGAAAATGTCTAAAGAGAGAAAAAACTTTG
Found at i:11047 original size:37 final size:37
Alignment explanation
Indices: 10959--11119 Score: 200
Period size: 37 Copynumber: 4.4 Consensus size: 37
10949 TCAAAGTTTA
*
10959 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC-T
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAACTT
* *
10995 TATTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAACTT
* * *
11032 TGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAACTT
* * * **
11069 TGTTTCAAGGTAAACTTTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAACTT
*
11105 CGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
11120 ATTTTTAAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
36 47 0.43
37 62 0.57
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAACTT
Found at i:11110 original size:73 final size:73
Alignment explanation
Indices: 10960--11119 Score: 205
Period size: 73 Copynumber: 2.2 Consensus size: 73
10950 CAAAGTTTAT
10960 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTATTTCAAGGGAAACTGTCTAAAGAGAGAA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTATTTCAAGGGAAACTGTCTAAAGAGAGAA
*
11025 AAAACTTT
66 AAAACTTC
* * * * * * * *
11033 GTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAGGTAAACTTTCTCAAGGGAGA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC-TTATTTCAAGGGAAACTGTCTAAAGAGAGA
**
11098 CGAAA-TTC
65 AAAAACTTC
11106 GTTTCAAGGGAAAC
1 GTTTCAAGGGAAAC
11120 ATTTTTAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
73 46 0.62
74 28 0.38
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (73 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTATTTCAAGGGAAACTGTCTAAAGAGAGAA
AAAACTTC
Found at i:11117 original size:175 final size:173
Alignment explanation
Indices: 10861--11184 Score: 463
Period size: 175 Copynumber: 1.9 Consensus size: 173
10851 AGATTTTGCA
*
10861 TTTCAGGAGAAACTGTCTCAGGAAGACAAAACTTATTTCAAGGGAAAATGTCTCAAGGGAGACAA
1 TTTCAAGAGAAACTGTCTCAGGAAGACAAAACTTATTTCAAGGGAAAATGTCTCAAGGGAGACAA
* * * *
10926 AACTTGTTTGAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
66 AACTTGTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGAGAGACAA
10991 AACTT-ATTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTTTG
131 AA-TTCATTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTTTG
* * * * * *
11034 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAGGTAAACTTTCTCAAGGGAGAC
1 TTTCAAGAGAAACTGTCTC-AGGAAGACAAAAC-TTATTTCAAGGGAAAATGTCTCAAGGGAGAC
* *
11099 GAAA-TTCGTTTCAAGGGAAACATTTTTAAAGTTTATATTTCAAGAGAAACTGTCTCAAGAGAGA
64 AAAACTT-GTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGAGAGA
* *
11163 CAAAATTCATTTTAAGTGAAAC
128 CAAAATTCATTTCAAGGGAAAC
11185 ATTTTCAAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
173 18 0.14
174 15 0.11
175 99 0.75
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (173 bp):
TTTCAAGAGAAACTGTCTCAGGAAGACAAAACTTATTTCAAGGGAAAATGTCTCAAGGGAGACAA
AACTTGTTTCAAGGGAAACATTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGAGAGACAA
AATTCATTTCAAGGGAAACTGTCTAAAGAGAGAAAAAACTTTG
Found at i:11184 original size:65 final size:65
Alignment explanation
Indices: 11071--11194 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
11061 TAAAACTTTG
* * * * *
11071 TTTCAAGGTAAACTTTCTCAAGGGAGACGAAATTCGTTTCAAGGGAAACATTTTTAAAGTTTATA
1 TTTCAAGGTAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAGTTTATA
* *
11136 TTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATTCATTTTAAGTGAAACATTTTCAAAG
1 TTTCAAG-GTAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAG
11195 AAACTATCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 50 0.98
66 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (65 bp):
TTTCAAGGTAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAGTTTATA
Found at i:11207 original size:65 final size:65
Alignment explanation
Indices: 11080--11207 Score: 150
Period size: 65 Copynumber: 2.0 Consensus size: 65
11070 GTTTCAAGGT
* * * * * ** *
11080 AAACTTTCTCAAGGGAGACGAAATTCGTTTCAAGGGAAACATTTTTAAAGTTTATATTTCAAGAG
1 AAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAGTAAATATCTCAAGAG
* *
11145 AAACTGTCTCAAGAGAGACAAAATTCATTTTAAGTGAAACATTTTCAAAG-AAACTATCTCAAG
1 AAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAGTAAA-TATCTCAAG
11208 GGAGACAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 1 0.02
65 51 0.98
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (65 bp):
AAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACATTTTCAAAGTAAATATCTCAAGAG
Found at i:11209 original size:152 final size:153
Alignment explanation
Indices: 11034--11336 Score: 427
Period size: 152 Copynumber: 2.0 Consensus size: 153
11024 AAAAACTTTG
* *
11034 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAACTTTGTTTCAAG-GTAAACTTTCTCAAGGGAGA
1 TTTCAAGAGAAACTATCTCAAGGGAGA-AAAACTTTGTTTCAAGAG-AAACTGTCTCAAGGGAGA
* *
11098 CGAAA-TTCGTTTCAAGGGAAAC-ATTTTTAAAG-TTTATATTTCAAGAGAAACTGTCTCAAGAG
64 CAAAACTT-GTTTCAAGGGAAACGA-TTTCAAAGATTTATATTTCAAGAGAAACTGTCTCAAGAG
* *
11160 AGACAAAATTCATTTTAAGTGAAACAT
127 AGACAAAATTCATTTAAAGGGAAACAT
* *
11187 TTTCAA-AGAAACTATCTCAAGGGAGACAAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
1 TTTCAAGAGAAACTATCTCAAGGGAGAAAAACTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
* * *
11251 AAACTTGTTTCAAGGGAAACGATTTCAAAGATTTATGTTTCAAGAGAAATTGTCTCAAGGGAGAC
66 AAACTTGTTTCAAGGGAAACGATTTCAAAGATTTATATTTCAAGAGAAACTGTCTCAAGAGAGAC
*
11316 AAAATTCGTTTAAAGGGAAAC
131 AAAATTCATTTAAAGGGAAAC
11337 GATCTCAAAG
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
151 56 0.42
152 72 0.54
153 6 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (153 bp):
TTTCAAGAGAAACTATCTCAAGGGAGAAAAACTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
AAACTTGTTTCAAGGGAAACGATTTCAAAGATTTATATTTCAAGAGAAACTGTCTCAAGAGAGAC
AAAATTCATTTAAAGGGAAACAT
Found at i:11234 original size:36 final size:36
Alignment explanation
Indices: 11187--11424 Score: 139
Period size: 36 Copynumber: 7.0 Consensus size: 36
11177 AGTGAAACAT
*
11187 TTTCAA-AGAAACTATCTCAAGGGAGACAAATTTTG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTG
* *
11222 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTG
* * * *
11258 TTTCAAGGGAAACGATTTCAA---AG----ATTTATG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATT-TG
* * *
11288 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTCG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTG
* * *
11324 TTTAAAGGGAAACGATCTCAA---AG-----ATTGGTG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATT--TG
* * *
11354 TTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTG
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTG
* * * * * *
11390 TTTTAAGAAAAACCATCTCGAGTGAGATAAAATTT
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
11425 CTTATTTCAG
Statistics
Matches: 151, Mismatches: 33, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
28 3 0.02
29 2 0.01
30 37 0.25
33 8 0.05
35 6 0.04
36 89 0.59
37 3 0.02
38 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTG
Found at i:11234 original size:50 final size:51
Alignment explanation
Indices: 11136--11234 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 51
11126 AAAGTTTATA
* * *
11136 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTTAAGTGAAACAT
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAACAT
* * **
11187 TTTCAA-AGAAACTATCTCAAGGGAGACAAATTTTGTTTCAAGAGAAAC
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAAC
11235 TGTCTCAAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 35 0.85
51 6 0.15
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (51 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAACAT
Found at i:11408 original size:66 final size:66
Alignment explanation
Indices: 11220--11392 Score: 265
Period size: 66 Copynumber: 2.6 Consensus size: 66
11210 AGACAAATTT
* * * *
11220 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGAAACGATTTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACGATCTCAAAGATTG
11285 A
66 A
* *
11286 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTCGTTTAAAGGGAAACGATCTCAAAGATTG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACGATCTCAAAGATTG
*
11351 G
66 A
* *
11352 TGTTTCAAGGGAAACTGTCTCAAGGGAGAAAAAATTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
11393 TAAGAAAAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 96 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACGATCTCAAAGATTG
A
Found at i:11568 original size:74 final size:73
Alignment explanation
Indices: 11363--11707 Score: 329
Period size: 74 Copynumber: 4.6 Consensus size: 73
11353 GTTTCAAGGG
* * * * * *
11363 AAACTGTCTCAAGGGAGAAAAAATTTGTTTTAAGAAAAACCATCTCGAGTGAGATAAAATTTCTT
1 AAACTGTCTCAAGCGAGACAAAA--TATTTTAAGAAAAACAATCTCGAGTGAAATAAAATGTCTT
11428 ATTTC-AGGTA
64 ATTTCGA-GTA
* * * *
11438 AAATCTGTCTCAAGCGAGACAAATCTAGTTTTAAGAAAACCAATCT-GTTGTGAAATGAAATGTC
1 AAA-CTGTCTCAAGCGAGACAAA-ATA-TTTTAAGAAAAACAATCTCG-AGTGAAATAAAATGTC
*
11502 TTGTTTCGAGTAA
62 TTATTTCGAGT-A
* * *
11515 AAACTGTCTCAAGCGAGACAAAATATTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTCTTCT
1 AAACTGTCTCAAGCGAGACAAAATATTTTAAGAAAAACAATCTCGAGTGAAATAAAATGTCTTAT
11580 TTCGAGT-
66 TTCGAGTA
* * * *
11587 AAACTGTCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATAT-TC
1 AAACTGTCTCAAGCGAGACAAA--ATATTTTAAGAAAAACAATCTCGAGTGAAATAAAATGTCT-
*
11651 TATTTCGAGTG
63 TATTTCGAGTA
* * * * *
11662 AAACTATCTCAAGCGAGATAAAACATGTTTCAGGAGAAACAATCTC
1 AAACTGTCTCAAGCGAGACAAAATAT-TTT-AAGAAAAACAATCTC
11708 AAAGTTTATC
Statistics
Matches: 229, Mismatches: 28, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
72 22 0.10
73 3 0.01
74 86 0.38
75 41 0.18
76 72 0.31
77 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (73 bp):
AAACTGTCTCAAGCGAGACAAAATATTTTAAGAAAAACAATCTCGAGTGAAATAAAATGTCTTAT
TTCGAGTA
Found at i:11708 original size:36 final size:36
Alignment explanation
Indices: 11593--11709 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
11583 GAGTAAACTG
* * * * *
11593 TCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAA
1 TCTCAAGCGAGATAAAATATGTTTCAGGAGAAACAA
* * * *
11629 TCTCAAGTGAGATAAAATATTCTATTTC-GAGTGAAACTA
1 TCTCAAGCGAGATAAAATA---TGTTTCAG-GAGAAACAA
*
11668 TCTCAAGCGAGATAAAACATGTTTCAGGAGAAACAA
1 TCTCAAGCGAGATAAAATATGTTTCAGGAGAAACAA
11704 TCTCAA
1 TCTCAA
11710 AGTTTATCAA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
36 34 0.55
37 1 0.02
39 27 0.44
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (36 bp):
TCTCAAGCGAGATAAAATATGTTTCAGGAGAAACAA
Found at i:11802 original size:36 final size:36
Alignment explanation
Indices: 11754--11948 Score: 160
Period size: 36 Copynumber: 5.3 Consensus size: 36
11744 AGAATTTGTA
*
11754 TTTTAAAGAAAAACTGTCTCTAGTGAGACGAAATTTG
1 TTTT-AAGAAAAACTGTCTCAAGTGAGACGAAATTTG
* * *
11791 TTTTGAGAAAAAGATGTCTCAAGTAAGAC-AAATTTG
1 TTTTAAGAAAAA-CTGTCTCAAGTGAGACGAAATTTG
* ** ** *
11827 TTTTTTAGAGAAAACAATCTCAAGTGAGATTAATTTTG
1 -TTTTAAGA-AAAACTGTCTCAAGTGAGACGAAATTTG
* * * * *
11865 TTTTAAGGAAAATTATCTCTAGCGAGACGAAATTTG
1 TTTTAAGAAAAACTGTCTCAAGTGAGACGAAATTTG
* * *
11901 TTTTTAAG-AAAACTGTCTCGAGCGAGACAAAATTTG
1 -TTTTAAGAAAAACTGTCTCAAGTGAGACGAAATTTG
11937 TTCTTAAGAAAA
1 TT-TTAAGAAAA
11949 CTCGTCTTTA
Statistics
Matches: 127, Mismatches: 24, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.02
36 64 0.50
37 51 0.40
38 10 0.08
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTTAAGAAAAACTGTCTCAAGTGAGACGAAATTTG
Found at i:14437 original size:14 final size:15
Alignment explanation
Indices: 14417--14453 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
14407 GCAAATGCAA
14417 AGATGCAAAAATATG
1 AGATGCAAAAATATG
*
14432 AG-TGC-AAAATGTG
1 AGATGCAAAAATATG
14445 AGATGCAAA
1 AGATGCAAA
14454 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.19
Consensus pattern (15 bp):
AGATGCAAAAATATG
Found at i:14908 original size:149 final size:149
Alignment explanation
Indices: 14606--14898 Score: 390
Period size: 149 Copynumber: 2.0 Consensus size: 149
14596 TTCAATACTT
* ** * * *
14606 CTACTTCATCTCCTACTTTCAGATGTCTTTCATGCTGGTTCGTGATCTTCAATTGCTGGTTTCGA
1 CTACTTCATCTCCTAATTTCAGAAATATTTCAGGCTGGTTCGTGATCTTCAATTGCTGGCTTCGA
* * * * *
14671 CGTCGAATCGTCTCGAGTCCAACTTGTCACCTCGGCATGCAGATATCTAGCTCATCTCCTTAGTG
66 CGTCAAATCGTCTCGAGTCCAACTTGTCACCTCAGCAGGCAAATATCTAGCTCATCTCCTTAGTA
14736 GGTAGACTCCCTCTAGCTC
131 GGTAGACTCCCTCTAGCTC
* *
14755 CTACTTCATCTCCTAATTTCAGAAATATTTCGGGCTGGTTCGTGATCTTCAATTGTTGGCTTC-A
1 CTACTTCATCTCCTAATTTCAGAAATATTTCAGGCTGGTTCGTGATCTTCAATTGCTGGCTTCGA
* * * * * *
14819 GCGTCAAATCGTCTCGAGTCTAACTTGTTACCTCAGTAGGCAAATGTCTGGCTCGTCTCCTTAGT
66 -CGTCAAATCGTCTCGAGTCCAACTTGTCACCTCAGCAGGCAAATATCTAGCTCATCTCCTTAGT
*
14884 AGGTAGGCTCCCTCT
130 AGGTAGACTCCCTCT
14899 TGACGCTACT
Statistics
Matches: 123, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
148 1 0.01
149 122 0.99
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.35
Consensus pattern (149 bp):
CTACTTCATCTCCTAATTTCAGAAATATTTCAGGCTGGTTCGTGATCTTCAATTGCTGGCTTCGA
CGTCAAATCGTCTCGAGTCCAACTTGTCACCTCAGCAGGCAAATATCTAGCTCATCTCCTTAGTA
GGTAGACTCCCTCTAGCTC
Found at i:15923 original size:18 final size:18
Alignment explanation
Indices: 15882--15924 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15872 AAAACCGGGC
*
15882 GATTTTAATAAAATATTT
1 GATTTTAATAAAATATAT
*
15900 TATTTTAATAAAATA-AT
1 GATTTTAATAAAATATAT
15917 GAGTTTTA
1 GA-TTTTA
15925 GGGTTTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
GATTTTAATAAAATATAT
Found at i:16974 original size:15 final size:17
Alignment explanation
Indices: 16944--16975 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16934 GTTTGGGGGA
16944 CTAAAAATGATAATAAC
1 CTAAAAATGATAATAAC
16961 CTAAAAA-G-TAATAAC
1 CTAAAAATGATAATAAC
16976 ACATACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (17 bp):
CTAAAAATGATAATAAC
Found at i:18089 original size:13 final size:13
Alignment explanation
Indices: 18073--18103 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18063 TTTCTTTACT
18073 TTTTTTATTTTTC
1 TTTTTTATTTTTC
18086 TTTTTTATTTTTC
1 TTTTTTATTTTTC
18099 TTTTT
1 TTTTT
18104 GCTTTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:18096 original size:19 final size:18
Alignment explanation
Indices: 18061--18109 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
18051 CTTATTACTT
*
18061 TTTTTCTTTACTTTTTTTA
1 TTTTTCTTT-TTTTTTTTA
*
18080 TTTTTCTTTTTTATTTTTC
1 TTTTTCTTTTTT-TTTTTA
18099 TTTTTGCTTTT
1 TTTTT-CTTTT
18110 ACTTGAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 5 0.19
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTTA
Found at i:21767 original size:21 final size:21
Alignment explanation
Indices: 21743--21803 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
21733 CCAACTTTGA
21743 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
21764 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
21778 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
21799 AAATG
1 AAATG
21804 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:21776 original size:35 final size:35
Alignment explanation
Indices: 21737--21842 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
21727 TGGCAACCAA
21737 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
21772 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
21807 CTTTGAAAAATGTTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTTG-AAAATG-GTTTTCAAAGTTTGGTAAATGTTT
21843 GGTAGATGTT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 40 0.59
36 10 0.15
37 18 0.26
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:30880 original size:10 final size:10
Alignment explanation
Indices: 30865--30890 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30855 TATCTTTTTG
30865 CTATCCTCTC
1 CTATCCTCTC
30875 CTATCCTCTC
1 CTATCCTCTC
30885 CTATCC
1 CTATCC
30891 CAGTATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (10 bp):
CTATCCTCTC
Found at i:32843 original size:15 final size:15
Alignment explanation
Indices: 32823--32851 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32813 TTAATATTAT
32823 ATAAAATAAACCTAC
1 ATAAAATAAACCTAC
32838 ATAAAATAAACCTA
1 ATAAAATAAACCTA
32852 AAATAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAATAAACCTAC
Found at i:33736 original size:13 final size:13
Alignment explanation
Indices: 33718--33759 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
33708 CACAATGAAA
*
33718 ATAAATAAATAGT
1 ATAAATAAATAAT
33731 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
33745 A-AAATAAAGAAT
1 ATAAATAAATAAT
33757 ATA
1 ATA
33760 TACAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 11 0.44
14 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:33892 original size:12 final size:12
Alignment explanation
Indices: 33875--33930 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
33865 ATACCATAAT
33875 AATAATAAAATA
1 AATAATAAAATA
33887 AATAAT-AAA-A
1 AATAATAAAATA
* * *
33897 CATAATATATTA
1 AATAATAAAATA
33909 AATAATAAAATA
1 AATAATAAAATA
33921 AATAAATAAA
1 AAT-AATAAA
33931 TAGATGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 19 0.54
13 6 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:33900 original size:28 final size:30
Alignment explanation
Indices: 33842--33903 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
33832 GGAAAAAAAC
* *
33842 AATAATAATAAGAATAGAATAATATACCAT
1 AATAATAATAAGAATAGAATAATAAAACAT
33872 AATAATAATAA-AATA-AATAATAAAACAT
1 AATAATAATAAGAATAGAATAATAAAACAT
33900 AATA
1 AATA
33904 TATTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 15 0.50
29 4 0.13
30 11 0.37
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (30 bp):
AATAATAATAAGAATAGAATAATAAAACAT
Found at i:33910 original size:22 final size:22
Alignment explanation
Indices: 33876--33932 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
33866 TACCATAATA
33876 ATAATAAAATAAATAATAAAAC
1 ATAATAAAATAAATAATAAAAC
* * *
33898 ATAATATATTAAATAATAAAAT
1 ATAATAAAATAAATAATAAAAC
33920 A-AAT-AAATAAATA
1 ATAATAAAATAAATA
33933 GATGAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 20 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAATAAAATAAATAATAAAAC
Found at i:33943 original size:34 final size:35
Alignment explanation
Indices: 33875--33949 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
33865 ATACCATAAT
*
33875 AATAATAAAATAAATAATAAAACATAATATATT-A
1 AATAATAAAATAAATAATAAAACATAATAAATTAA
*
33909 AATAATAAAATAAATAA-ATAA-ATAGATGAAATTAA
1 AATAATAAAATAAATAATAAAACATA-AT-AAATTAA
33944 AATAAT
1 AATAAT
33950 GAAACACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 3 0.08
33 5 0.14
34 21 0.58
35 7 0.19
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (35 bp):
AATAATAAAATAAATAATAAAACATAATAAATTAA
Found at i:35337 original size:36 final size:36
Alignment explanation
Indices: 35288--35424 Score: 149
Period size: 36 Copynumber: 3.8 Consensus size: 36
35278 AAAGCTTTGG
* *
35288 TGTTTCAATAGAAAC-ATGTTCAAAGATTTTCTTTTT
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTTTCTTTTT
**
35324 TGTTTCAAGAGAAATAATTTCAAAGGTTTTC-TTTT
1 TGTTTCAAGAGAAACGATTTCAAAGGTTTTCTTTTT
* *
35359 TGTGTCCTAAGAGAAACGATTTCAAAGG--TT-TTTTG
1 TGT-TTC-AAGAGAAACGATTTCAAAGGTTTTCTTTTT
35394 TGTTTCAAGAGAAAACGATTTCAAAGGTTTT
1 TGTTTCAAGAG-AAACGATTTCAAAGGTTTT
35425 TTTCAAGAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.06
34 17 0.20
35 15 0.17
36 29 0.34
37 20 0.23
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (36 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTTTCTTTTT
Found at i:35415 original size:34 final size:33
Alignment explanation
Indices: 35319--35427 Score: 125
Period size: 34 Copynumber: 3.2 Consensus size: 33
35309 AAAGATTTTC
35319 TTTTTTGTTTCAAGAGAAATA--ATTTCAAAGGTTT
1 TTTTTTGTTTCAAGAGAAA-ACGATTTCAAAGG--T
*
35353 TCTTTTTGTGTCCTAAGAG-AAACGATTTCAAAGGT
1 T-TTTTTGT-TTC-AAGAGAAAACGATTTCAAAGGT
35388 TTTTTGTGTTTCAAGAGAAAACGATTTCAAAGGT
1 TTTTT-TGTTTCAAGAGAAAACGATTTCAAAGGT
35422 TTTTTT
1 TTTTTT
35428 CAAGAGAAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
33 6 0.09
34 28 0.42
35 13 0.20
36 4 0.06
37 15 0.23
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (33 bp):
TTTTTTGTTTCAAGAGAAAACGATTTCAAAGGT
Found at i:35514 original size:30 final size:29
Alignment explanation
Indices: 35452--35536 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
35442 TCCAGGGAGG
* *
35452 CAAAATTTTGTTTCAAGAGAAA-TATATT
1 CAAAGTTTTGTTTCAAGAGAAACTGTATT
* *
35480 CAAAGGTTTTGTTTCAAGGGAAACTGTTTT
1 CAAA-GTTTTGTTTCAAGAGAAACTGTATT
35510 CAAAGTTTATGTTTCAAGAGAAACTGT
1 CAAAGTTT-TGTTTCAAGAGAAACTGT
35537 CTCAAGGGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.08
29 20 0.41
30 25 0.51
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (29 bp):
CAAAGTTTTGTTTCAAGAGAAACTGTATT
Found at i:35569 original size:36 final size:36
Alignment explanation
Indices: 35519--35706 Score: 142
Period size: 36 Copynumber: 5.4 Consensus size: 36
35509 TCAAAGTTTA
* * *
35519 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
35555 TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * *
35591 CATTTCAAGGGAAA-TATTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACTA-TCTCAAGAGAGACAAAATT
* * *
35619 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
* *
35657 TGTTTTAAAGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
35693 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
35707 TGTTTTCAAT
Statistics
Matches: 114, Mismatches: 26, Indels: 24
0.70 0.16 0.15
Matches are distributed among these distances:
28 2 0.02
29 14 0.12
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 3 0.03
36 59 0.52
37 29 0.25
38 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:35687 original size:102 final size:102
Alignment explanation
Indices: 35425--35795 Score: 499
Period size: 102 Copynumber: 3.7 Consensus size: 102
35415 CAAAGGTTTT
* * * *
35425 TTTCAAGAGAAACTGTCTCCAGGGAGGCAAAATTTTGTTTCAAGAGAAA-TATATTCAA-AG-G-
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTAT-CTCAAGAGAGA
* ** *
35486 ----TTTTGTTTCAAGGGAAACTGTTTTCAAAGTTTATG
65 CAAAATTCATTTCAAGGGAAA-TGTTTTCAATGTTTATG
*
35521 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAAAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
35585 AAAATTCATTTCAAGGGAAATATTTTCAATGTTTATG
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
* *
35622 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAAGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
35687 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
* * *
35724 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-TGTTTCAAGGGAAACTATCTCAAGAGAG
*
35789 ATAAAAT
64 ACAAAAT
35796 CTTGTTTATG
Statistics
Matches: 244, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
95 19 0.08
96 34 0.14
97 1 0.00
101 47 0.19
102 110 0.45
103 3 0.01
104 30 0.12
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (102 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
Found at i:35782 original size:39 final size:38
Alignment explanation
Indices: 35739--35866 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 38
35729 AGAGAAATTG
35739 TCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTA
1 TCTCAAGGGAGACAAAATTTT-TGTTTCGAGGGAAACTA
* * * **
35778 TCTCAAGCGAGATAAAATCTTGTTTATGTTTCAATAGAAAC-A
1 TCTCAAGGGAGACAAAA---T-TTT-TGTTTCGAGGGAAACTA
*
35820 GTCTCAAGGGAGACAAAATTTTTAGTATCGAGGGAAACTA
1 -TCTCAAGGGAGACAAAATTTTT-GTTTCGAGGGAAACTA
35860 TCTCAAG
1 TCTCAAG
35867 TGATATAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.01
39 35 0.50
40 2 0.03
42 2 0.03
43 30 0.43
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (38 bp):
TCTCAAGGGAGACAAAATTTTTGTTTCGAGGGAAACTA
Found at i:35808 original size:82 final size:82
Alignment explanation
Indices: 35716--35884 Score: 268
Period size: 82 Copynumber: 2.1 Consensus size: 82
35706 ATGTTTTCAA
** *
35716 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTCT-GTTTCGAGGGAAACTATC
1 TGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTTT-TAGTATCGAGGGAAACTATC
35780 TCAAGCGAGATAAAATCT
65 TCAAGCGAGATAAAATCT
*
35798 TGTTTATGTTTCAATAGAAACAGTCTCAAGGGAGACAAAATTTTTAGTATCGAGGGAAACTATCT
1 TGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTTTTAGTATCGAGGGAAACTATCT
* *
35863 CAAGTGATATAAAATCT
66 CAAGCGAGATAAAATCT
35880 TGTTT
1 TGTTT
35885 TAATAAAAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 1 0.01
82 79 0.99
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (82 bp):
TGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTTTTAGTATCGAGGGAAACTATCT
CAAGCGAGATAAAATCT
Found at i:35914 original size:36 final size:36
Alignment explanation
Indices: 35874--35988 Score: 119
Period size: 36 Copynumber: 3.2 Consensus size: 36
35864 AAGTGATATA
35874 AAATCTTGTTTTAATAAAAACAATCTTGAGGGAAAT
1 AAATCTTGTTTTAATAAAAACAATCTTGAGGGAAAT
* * ** * *
35910 AAATCTT-TTTTCGAGT-AAAACAGTCTCAAGTGAAAC
1 AAATCTTGTTTT--AATAAAAACAATCTTGAGGGAAAT
*
35946 AAAGTC-TGTTTTAAGAAAAACAATCTTGAGGGAAAT
1 AAA-TCTTGTTTTAATAAAAACAATCTTGAGGGAAAT
35982 AAATCTT
1 AAATCTT
35989 CTTTCAAGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
35 7 0.12
36 45 0.75
37 8 0.13
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (36 bp):
AAATCTTGTTTTAATAAAAACAATCTTGAGGGAAAT
Found at i:35967 original size:72 final size:72
Alignment explanation
Indices: 35860--36164 Score: 403
Period size: 72 Copynumber: 4.2 Consensus size: 72
35850 AGGGAAACTA
* * * * ** * *
35860 TCTCAAGTGATATAAAATCTTGTTTTAATAAAAACAATCTTGAGGGAAATAAATCTTTTTTCGAG
1 TCTCAAGTGAGACAAAGTC-TGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAG
35925 TAAAACAG
65 TAAAACAG
* **
35933 TCTCAAGTGAAACAAAGTCTGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGT
1 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGT
35998 AAAACAG
66 AAAACAG
* ** **
36005 TCTCAAGTGAGACAAGGTCAATTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTTTCAAGT
1 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGT
36070 AAAACAG
66 AAAACAG
* * ** * *
36077 ACTCAAGTGAGACAAGGTCTGTTTTAAGAATGATAATCTCAAGGGAAATAAATTTTCTTTCAAGT
1 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGT
36142 AAAACAG
66 AAAACAG
36149 TCTCAAGTGAGACAAA
1 TCTCAAGTGAGACAAA
36165 TCATCTATAT
Statistics
Matches: 211, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
72 195 0.92
73 16 0.08
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (72 bp):
TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGT
AAAACAG
Found at i:36002 original size:36 final size:35
Alignment explanation
Indices: 35890--36003 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 35
35880 TGTTTTAATA
*
35890 AAAACAATCTTGAGGGAAATAAATCTTTTTTCGAGT
1 AAAACAATCTTGAGGGAAATAAATC-TTTTTCAAGT
* ** * * *
35926 AAAACAGTCTCAAGTGAAACAAAGTCTGTTTT-AAGA
1 AAAACAATCTTGAGGGAAATAAA-TCT-TTTTCAAGT
35962 AAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGT
1 AAAACAATCTTGAGGGAAATAAATCTT-TTTCAAGT
35998 AAAACA
1 AAAACA
36004 GTCTCAAGTG
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
34 1 0.02
35 6 0.10
36 48 0.79
37 6 0.10
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (35 bp):
AAAACAATCTTGAGGGAAATAAATCTTTTTCAAGT
Found at i:36082 original size:36 final size:35
Alignment explanation
Indices: 35902--36155 Score: 119
Period size: 36 Copynumber: 7.1 Consensus size: 35
35892 AACAATCTTG
* *
35902 AGGGAAATAAATCTTTTTTCGAGTAAAACAGTCTCA
1 AGGGAAATAAATC-TTTTTCAAGTAAAACAGACTCA
* * * **
35938 AGTGAAACAAAGTCTGTTTT-AAGAAAAACA-ATCTTG
1 AGGGAAATAAA-TCT-TTTTCAAGTAAAACAGA-CTCA
*
35974 AGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCA
1 AGGGAAATAAATCTT-TTTCAAGTAAAACAGACTCA
* * * * * *
36010 AGTGAGACAAGGTCAATTTT-AAG-AATGACA-ATCTCA
1 AGGGAAATAA-ATC-TTTTTCAAGTAA-AACAGA-CTCA
36046 AGGGAAATAAATCTTCTTTCAAGTAAAACAGACTCA
1 AGGGAAATAAATCTT-TTTCAAGTAAAACAGACTCA
* * * * * *
36082 AGTGAGACAAGGTCTGTTTT-AAG-AATGATA-ATCTCA
1 AGGGAAATAA-ATCT-TTTTCAAGTAA-AACAGA-CTCA
* *
36118 AGGGAAATAAATTTTCTTTCAAGTAAAACAGTCTCA
1 AGGGAAATAAATCTT-TTTCAAGTAAAACAGACTCA
36154 AG
1 AG
36156 TGAGACAAAT
Statistics
Matches: 156, Mismatches: 40, Indels: 44
0.65 0.17 0.18
Matches are distributed among these distances:
34 3 0.02
35 21 0.13
36 108 0.69
37 22 0.14
38 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (35 bp):
AGGGAAATAAATCTTTTTCAAGTAAAACAGACTCA
Found at i:40853 original size:17 final size:17
Alignment explanation
Indices: 40833--41059 Score: 59
Period size: 18 Copynumber: 12.1 Consensus size: 17
40823 AACACAATGA
*
40833 AAAT-AAATAAATAGAAT
1 AAATAAAAT-AATAAAAT
40850 AAATAAAATAATAAAAT
1 AAATAAAATAATAAAAT
* *
40867 AAAGAATAT-ATACAAAT
1 AAATAAAATAATA-AAAT
* * *
40884 ATAA-AAATGTATGTATAAT
1 A-AATAAA-ATA-ATAAAAT
*
40903 AGAATAAAATACTAAAAT
1 A-AATAAAATAATAAAAT
*
40921 -AATAATAATAAATAAACGAG
1 AAATAA-AAT-AATAAA--AT
* *
40941 AAATGAAAAGGAAAAAAAAT
1 AAAT-AAAA--TAATAAAAT
*
40961 AACAATAATAATAATAGAAT
1 -A-AATAA-AATAATAAAAT
**
40981 AATATACCATAATAATAAT
1 AA-ATAAAATAATAA-AAT
41000 CAAAT-AAATAATAAAACAT
1 -AAATAAAATAAT-AAA-AT
41019 AATATATTAAATAATAAAAT
1 AA-ATA--AAATAATAAAAT
*
41039 AAATAAATAAAATTAAAAT
1 AAATAAA-ATAA-TAAAAT
41058 AA
1 AA
41060 TGAAACATGA
Statistics
Matches: 156, Mismatches: 25, Indels: 56
0.66 0.11 0.24
Matches are distributed among these distances:
16 8 0.05
17 30 0.19
18 35 0.22
19 34 0.22
20 19 0.12
21 11 0.07
22 19 0.12
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (17 bp):
AAATAAAATAATAAAAT
Found at i:41011 original size:12 final size:11
Alignment explanation
Indices: 40994--41049 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
40984 ATACCATAAT
40994 AATAATCAAATA
1 AATAAT-AAATA
41006 AATAATAAA-A
1 AATAATAAATA
* *
41016 CATAATATATTA
1 AATAATA-AATA
41028 AATAATAAAATA
1 AATAAT-AAATA
41040 AATAAATAAA
1 AAT-AATAAA
41050 ATTAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 21 0.58
13 4 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAAATA
Found at i:41019 original size:28 final size:27
Alignment explanation
Indices: 40964--41045 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
40954 AAAAAATAAC
* *
40964 AATAATAATAATAGAATAATATACCAT
1 AATAATAATAATAGAATAATAAAACAT
40991 AATAATAATCAAATA-AATAATAAAACAT
1 AATAATAAT--AATAGAATAATAAAACAT
*
41019 AATATATTAAATAATAAAATAAATAAA
1 AATA-A-T-AATAATAGAAT-AATAAA
41046 TAAAATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
27 9 0.20
28 15 0.33
29 9 0.20
30 4 0.09
31 9 0.20
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (27 bp):
AATAATAATAATAGAATAATAAAACAT
Found at i:42481 original size:36 final size:36
Alignment explanation
Indices: 42434--42575 Score: 134
Period size: 36 Copynumber: 3.8 Consensus size: 36
42424 AAAGCTTTGG
42434 TGTTTCAAGAGAAAC-ATGTTCAAAGGTTTTCTTTTT
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTTTCTTTTT
42470 TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTTGT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTT-T
* *
42507 GAGAAAATGTTCAAGAGAAAC-ATTTCAAAGG--TT-TTTTG
1 -TG----T-TTCAAGAGAAACAATTTCAAAGGTTTTCTTTTT
42545 TGTTTCAAGAGAAA-ATGATTTCAAAGGTTTT
1 TGTTTCAAGAGAAACA--ATTTCAAAGGTTTT
42576 TTTCAAGAGA
Statistics
Matches: 90, Mismatches: 3, Indels: 26
0.76 0.03 0.22
Matches are distributed among these distances:
32 11 0.12
33 1 0.01
34 10 0.11
36 34 0.38
37 4 0.04
38 1 0.01
39 4 0.04
40 2 0.02
42 11 0.12
43 12 0.13
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTTT
Found at i:42586 original size:75 final size:78
Alignment explanation
Indices: 42437--42587 Score: 204
Period size: 75 Copynumber: 2.0 Consensus size: 78
42427 GCTTTGGTGT
*
42437 TTCAAGAGAAACATGTTCAAAGGTTTTCTTTTTTGTTTCAAGAGAAACAATTTCAAAGGTTTTCT
1 TTCAAGAGAAACATGTTCAAAGG-TTTCTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTCT
***
42502 TTTGTGAGAAAATG
65 TTCAAGAGAAAATG
42516 TTCAAGAGAAACAT-TTCAAAGG-TT-TTTTGTGTTTCAAGAGAAA-ATGATTTCAAAGGTTTT-
1 TTCAAGAGAAACATGTTCAAAGGTTTCTTTTGTGTTTCAAGAGAAACA--ATTTCAAAGGTTTTC
42576 TTTCAAGAGAAA
64 TTTCAAGAGAAA
42588 CTGTCTCCAG
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
74 1 0.02
75 27 0.41
76 16 0.24
78 8 0.12
79 14 0.21
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (78 bp):
TTCAAGAGAAACATGTTCAAAGGTTTCTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTCTT
TCAAGAGAAAATG
Found at i:42644 original size:29 final size:28
Alignment explanation
Indices: 42603--42684 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
42593 TCCAGGGAGG
*
42603 CAAAATTTTGTTTCAAGAGAAACATATT
1 CAAAGTTTTGTTTCAAGAGAAACATATT
* ** *
42631 CAAAGGTTTTGTTTCAAGGGAAATTGTTTT
1 CAAA-GTTTTGTTTCAAGAGAAA-CATATT
42661 CAAAGTTTATGTTTCAAGAGAAAC
1 CAAAGTTT-TGTTTCAAGAGAAAC
42685 TGTCTCAAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.09
29 20 0.45
30 20 0.45
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (28 bp):
CAAAGTTTTGTTTCAAGAGAAACATATT
Found at i:42717 original size:36 final size:36
Alignment explanation
Indices: 42670--42852 Score: 157
Period size: 36 Copynumber: 5.2 Consensus size: 36
42660 TCAAAGTTTA
*
42670 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
42706 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * ** * *
42742 CATTTCAAGGGAAA-TGTTTTTA-A-TG-----TTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
42770 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
42808 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
**
42844 CATTTCAAG
1 TGTTTCAAG
42853 GGAATTGTTT
Statistics
Matches: 112, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
28 2 0.02
29 11 0.10
30 5 0.04
32 1 0.01
33 1 0.01
34 1 0.01
35 4 0.04
36 54 0.48
37 31 0.28
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:42822 original size:37 final size:36
Alignment explanation
Indices: 42771--42856 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 36
42761 TTAATGTTTA
* * *
42771 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
42808 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
42844 CATTTCAAGGGAA
1 TGTTTCAAGGGAA
42857 TTGTTTTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 13 0.30
37 31 0.70
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:42833 original size:102 final size:102
Alignment explanation
Indices: 42576--42947 Score: 510
Period size: 102 Copynumber: 3.7 Consensus size: 102
42566 CAAAGGTTTT
* *
42576 TTTCAAGAGAAACTGTCTCCAGGGAGGCAAAATTTTGTTTCAAGAGAAACATAT-TCAA-AG-G-
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAAC-TATCTCAAGAGAGA
* ** *
42637 ----TTTTGTTTCAAGGGAAATTGTTTTCAAAGTTTATG
65 CAAAATTCATTTCAAGGGAAA-TGTTTTCAATGTTTATG
42672 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
42736 AAAATTCATTTCAAGGGAAATGTTTTTAATGTTTATG
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
*
42773 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
42838 AAAATTCATTTCAAGGGAATTGTTTTCAATGTTTATG
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
* * * * *
42875 TTTCAAGAGAAATTGTCTTAAGGGAGACAAAATTTTCTATTTCGAGGGAAACTATCTCAAGAGAG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-TGTTTCAAGAGAAACTATCTCAAGAGAG
*
42940 ATAAAATT
64 ACAAAATT
42948 TTGTTTATGT
Statistics
Matches: 250, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
94 3 0.01
95 21 0.08
96 32 0.13
97 1 0.00
101 47 0.19
102 110 0.44
103 3 0.01
104 33 0.13
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (102 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
Found at i:42959 original size:82 final size:82
Alignment explanation
Indices: 42867--43028 Score: 279
Period size: 82 Copynumber: 2.0 Consensus size: 82
42857 TTGTTTTCAA
*
42867 TGTTTATGTTTCAAGAGAAATTGTCTTAAGGGAGACAAAATTTTCTATTTCGAGGGAAACTATCT
1 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTCTATTTCGAGGGAAACTATCT
42932 CAAGAGAGATAAAATTT
66 CAAGAGAGATAAAATTT
* *
42949 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTTTCTATTTCGAGGGAAACTATTT
1 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTCTATTTCGAGGGAAACTATCT
* *
43014 CAAGCGATATAAAAT
66 CAAGAGAGATAAAAT
43029 CTTATTTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (82 bp):
TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTCTATTTCGAGGGAAACTATCT
CAAGAGAGATAAAATTT
Found at i:42984 original size:43 final size:43
Alignment explanation
Indices: 42867--42992 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
42857 TTGTTTTCAA
* *
42867 TGTTTATGTTTCAAGAGAAATTGTCTTAAGGGAGACAAAA-TT
1 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTT
* * * * * *
42909 T-TCTA--TTTCGAGGGAAACTATCTCAAGAGAGATAAAATTT
1 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTT
42949 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTT
1 TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTT
42992 T
1 T
42993 CTATTTCGAG
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
39 25 0.38
40 3 0.05
41 6 0.09
42 1 0.02
43 31 0.47
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (43 bp):
TGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTT
Found at i:43028 original size:39 final size:39
Alignment explanation
Indices: 42898--43028 Score: 136
Period size: 39 Copynumber: 3.3 Consensus size: 39
42888 TGTCTTAAGG
*
42898 GAGACAAAATTTTCTATTTCGAGGGAAACTATCTCAAGA
1 GAGATAAAATTTTCTATTTCGAGGGAAACTATCTCAAGA
* * * * * *
42937 GAGATAAAATTTTGTTTATGTTTCAAGAGAAATTGTCTCAAGG
1 GAGATAAAA-TTT-TCTA--TTTCGAGGGAAACTATCTCAAGA
* *
42980 GAGATAAAATTTTCTATTTCGAGGGAAACTATTTCAAGC
1 GAGATAAAATTTTCTATTTCGAGGGAAACTATCTCAAGA
*
43019 GATATAAAAT
1 GAGATAAAAT
43029 CTTATTTTCA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 34 0.47
40 3 0.04
41 6 0.08
42 3 0.04
43 27 0.37
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (39 bp):
GAGATAAAATTTTCTATTTCGAGGGAAACTATCTCAAGA
Found at i:43081 original size:36 final size:36
Alignment explanation
Indices: 43025--43139 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
43015 AAGCGATATA
*
43025 AAATCTTATTTTCAGAAAAACAATCTTGAGGGAAAT
1 AAATCTTATTTTAAGAAAAACAATCTTGAGGGAAAT
* * * * ** * * *
43061 AAATCTTTTTTTGAGTAAAACATTCTCAAGTGAGAC
1 AAATCTTATTTTAAGAAAAACAATCTTGAGGGAAAT
* *
43097 AAAGTC-TGTTTTAAGAAAAATAATCTTGAGGGAAAT
1 AAA-TCTTATTTTAAGAAAAACAATCTTGAGGGAAAT
43133 AAATCTT
1 AAATCTT
43140 CTTTCAAGTA
Statistics
Matches: 58, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
35 2 0.03
36 54 0.93
37 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (36 bp):
AAATCTTATTTTAAGAAAAACAATCTTGAGGGAAAT
Found at i:43122 original size:72 final size:72
Alignment explanation
Indices: 43033--43315 Score: 377
Period size: 72 Copynumber: 3.9 Consensus size: 72
43023 TAAAATCTTA
* ** * ** *
43033 TTTTCAGAAAAACAATCTTGAGGGAAATAAATCTTTTTTTGAGTAAAACATTCTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
43098 AAGTCTG
66 AAGTCTG
* ** * *
43105 TTTTAAGAAAAATAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAATAGTCTCAAGTGAGGCA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
* *
43170 AGGTTTG
66 AAGTCTG
** * *
43177 TTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAATAGACTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
*
43242 AGGTCTG
66 AAGTCTG
**
43249 TTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
43314 AA
66 AA
43316 TCATCTATAT
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 190 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
AAGTCTG
Found at i:43317 original size:36 final size:36
Alignment explanation
Indices: 43074--43317 Score: 135
Period size: 36 Copynumber: 6.8 Consensus size: 36
43064 TCTTTTTTTG
*
43074 AGTAAAACATTCTCAAGTGAGACAAAGTCTGT-TTT-A
1 AGTAAAACAATCTCAAGTGAGACAAA-TCT-TCTTTCA
* * ** * * *
43110 AGAAAAATAATCTTGAGGGAAATAAATCTTCTTTCA
1 AGTAAAACAATCTCAAGTGAGACAAATCTTCTTTCA
* * * * * *
43146 AGTAAAATAGTCTCAAGTGAGGCAAGGT-TTGTTTTA
1 AGTAAAACAATCTCAAGTGAGACAA-ATCTTCTTTCA
* * * *
43182 AG-AATGACAATCTCAAGGGAAATAAATCTTCTTTCA
1 AGTAA-AACAATCTCAAGTGAGACAAATCTTCTTTCA
* *
43218 AGTAAAATAGA-CTCAAGTGAGACAAGGTCTGT-TTT-A
1 AGTAAAACA-ATCTCAAGTGAGACAA-ATCT-TCTTTCA
* * * *
43254 AG-AATGACAATCTCAAGGGAAATAAATCTTCTTTCA
1 AGTAA-AACAATCTCAAGTGAGACAAATCTTCTTTCA
*
43290 AGTAAAACAGTCTCAAGTGAGACAAATC
1 AGTAAAACAATCTCAAGTGAGACAAATC
43318 ATCTATATTA
Statistics
Matches: 148, Mismatches: 46, Indels: 28
0.67 0.21 0.13
Matches are distributed among these distances:
34 2 0.01
35 18 0.12
36 115 0.78
37 12 0.08
38 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
AGTAAAACAATCTCAAGTGAGACAAATCTTCTTTCA
Found at i:44731 original size:95 final size:95
Alignment explanation
Indices: 44568--44750 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
44558 AATATGTAAA
* * *
44568 TACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGAAGTTTAACCAATTGCCTTAGAGG
1 TACCTTTATCAGGCTAGCTAAATATTATCCATAAAGTCGGGAAGTTTAACCAATTGCCTTAGAGG
* *
44633 GACAGCTGAAACTTTATTGTATAGAATAAT
66 GACAACTCAAACTTTATTGTATAGAATAAT
** *
44663 TACCTTTATCAGGCTAGCTAAATATTATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGG
1 TACCTTTATCAGGCTAGCTAAATATTATCCATAAAGTCGGGAAGTTTAACCAATTGCCTTAGAGG
*
44728 GACAACTCAAGCTTTATTGTATA
66 GACAACTCAAACTTTATTGTATA
44751 TAAATAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (95 bp):
TACCTTTATCAGGCTAGCTAAATATTATCCATAAAGTCGGGAAGTTTAACCAATTGCCTTAGAGG
GACAACTCAAACTTTATTGTATAGAATAAT
Found at i:48740 original size:13 final size:13
Alignment explanation
Indices: 48722--48775 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
48712 CACAATGAAA
*
48722 ATAAATAAATAGT
1 ATAAATAAATAAT
48735 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
48749 A-AAATAAAGAAT
1 ATAAATAAATAAT
48761 AT--ATAAA-AAT
1 ATAAATAAATAAT
48771 ATAAA
1 ATAAA
48776 AATGTATGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 8 0.23
13 10 0.29
14 7 0.20
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:48902 original size:28 final size:30
Alignment explanation
Indices: 48844--48928 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 30
48834 AAAGGAAAAA
** *
48844 AATAATAATAAAAATAGAATAATTTACCAT
1 AATAATAATAAAAATAGAATAATAAAACAT
48874 AATAATAAT-AAAATA-AATAATAAAACAT
1 AATAATAATAAAAATAGAATAATAAAACAT
* *
48902 AAT-ATATTAAATAATAAAATAAATAAA
1 AATAATAATAAA-AATAGAAT-AATAAA
48929 TGAAATTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.09
28 15 0.32
29 10 0.21
30 12 0.26
31 6 0.13
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (30 bp):
AATAATAATAAAAATAGAATAATAAAACAT
Found at i:48912 original size:22 final size:22
Alignment explanation
Indices: 48878--48928 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
48868 TACCATAATA
48878 ATAATAAAATAAATAATAAAAC
1 ATAATAAAATAAATAATAAAAC
* * *
48900 ATAATATATTAAATAATAAAAT
1 ATAATAAAATAAATAATAAAAC
48922 A-AATAAA
1 ATAATAAA
48929 TGAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAATAAAATAAATAATAAAAC
Found at i:48925 original size:12 final size:12
Alignment explanation
Indices: 48877--48927 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
48867 TTACCATAAT
48877 AATAATAAAATA
1 AATAATAAAATA
48889 AATAAT-AAA-A
1 AATAATAAAATA
* * *
48899 CATAATATATTA
1 AATAATAAAATA
48911 AATAATAAAATA
1 AATAATAAAATA
48923 AATAA
1 AATAA
48928 ATGAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 21 0.68
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:50368 original size:36 final size:36
Alignment explanation
Indices: 50328--50463 Score: 165
Period size: 36 Copynumber: 3.8 Consensus size: 36
50318 AAAGCTTTGG
50328 TGTTTCAAGAGAAAC-ATGTTCAAAGGTTTTCTTTTT
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTTTCTTTTT
*
50364 TGTTTCAAGAGAAACTATTTCAAAGGTTTTCTTTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTTT
* * *
50400 GTGTTCCAAGAGAAA-GATTTCAAAGG--TT-TTTTG
1 -TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTTT
*
50433 TGTTTCAAGAGAAAACAATTTCAAAGCTTTT
1 TGTTTCAAGAG-AAACAATTTCAAAGGTTTT
50464 TTTCAAGAGA
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.11
33 7 0.08
34 11 0.12
36 45 0.51
37 15 0.17
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTCTTTTT
Found at i:50614 original size:35 final size:35
Alignment explanation
Indices: 50560--50643 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
50550 AAAGTTTATG
* * * **
50560 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAA-TATCTCAAGAGAGACAAAATTCA
*
50596 TTTTAAGGGAAATATCTCAAGAGAGACAAAATTCA
1 TTTCAAGGGAAATATCTCAAGAGAGACAAAATTCA
50631 TTTCAAGGGAAAT
1 TTTCAAGGGAAAT
50644 GATTTCAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 31 0.76
36 10 0.24
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (35 bp):
TTTCAAGGGAAATATCTCAAGAGAGACAAAATTCA
Found at i:50674 original size:100 final size:101
Alignment explanation
Indices: 50530--50831 Score: 444
Period size: 102 Copynumber: 3.0 Consensus size: 101
50520 AATGGTTTTG
*
50530 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
50595 GTTTTAAGGGAAA-TATCTCAAGAGAGACAAAATTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
50631 TTTCAAGGGAAATGATTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT
* * * *
50696 GTTTCAAGGGAAATTATCACAATAGAGACAAAATTCT
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* * **
50733 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTTAAGGGAGACAATTTTCT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-T
* * *
50798 GTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
50832 CTTGTTTATG
Statistics
Matches: 181, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
100 47 0.26
101 29 0.16
102 105 0.58
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:50844 original size:80 final size:82
Alignment explanation
Indices: 50754--50916 Score: 249
Period size: 82 Copynumber: 2.0 Consensus size: 82
50744 ATGTTTTCAA
* * * *
50754 TGTTTATGTTTCAAGAGAAATTGTCT-TAAGG-GAGACAATTTTCTGTTTCGAGGGAAACTATCT
1 TGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAATTTTCTGTTTCGAGGGAAACTATCT
*
50817 CAAGCGAGATAAAATCT
66 CAAGCAAGATAAAATCT
*
50834 TGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGAAAAAATTTTCTGTTTCGAGGGAAACTATCT
1 TGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAATTTTCTGTTTCGAGGGAAACTATCT
*
50899 CAAGCAATATAAAATCT
66 CAAGCAAGATAAAATCT
50916 T
1 T
50917 ATTTTAAGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 24 0.32
81 4 0.05
82 46 0.62
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (82 bp):
TGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAATTTTCTGTTTCGAGGGAAACTATCT
CAAGCAAGATAAAATCT
Found at i:50894 original size:39 final size:41
Alignment explanation
Indices: 50790--50901 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 41
50780 TAAGGGAGAC
50790 AATTTTCTGTTTCGAGGGAAACTATCTC-AAGCGAGATAAA
1 AATTTTCTGTTTCGAGGGAAACTATCTCAAAGCGAGATAAA
* * * ** *
50830 ATCTTGTTTATGTTTCAATAGAAACTGTCTCAAAG-GAGA-AAA
1 A--AT-TTTCTGTTTCGAGGGAAACTATCTCAAAGCGAGATAAA
50872 AATTTTCTGTTTCGAGGGAAACTATCTCAA
1 AATTTTCTGTTTCGAGGGAAACTATCTCAA
50902 GCAATATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
39 22 0.39
40 2 0.04
42 5 0.09
43 24 0.43
44 3 0.05
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (41 bp):
AATTTTCTGTTTCGAGGGAAACTATCTCAAAGCGAGATAAA
Found at i:50913 original size:39 final size:38
Alignment explanation
Indices: 50790--50913 Score: 106
Period size: 39 Copynumber: 3.1 Consensus size: 38
50780 TAAGGGAGAC
*
50790 AATTTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
1 AATTTTCTGTTTCGAGGGAAACTATCTCAAGC-AAATAA
* * ** * *
50829 AATCTTGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGAA-AA
1 AA---T-TTTCTGTTTCGAGGGAAACTATCTC-AAGCA-AATAA
50872 AATTTTCTGTTTCGAGGGAAACTATCTCAAGCAATATAA
1 AATTTTCTGTTTCGAGGGAAACTATCTCAAGCAA-ATAA
50911 AAT
1 AAT
50914 CTTATTTTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 27 0.42
40 1 0.02
42 1 0.02
43 25 0.39
44 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (38 bp):
AATTTTCTGTTTCGAGGGAAACTATCTCAAGCAAATAA
Found at i:50950 original size:36 final size:36
Alignment explanation
Indices: 50910--51202 Score: 173
Period size: 36 Copynumber: 8.1 Consensus size: 36
50900 AAGCAATATA
**
50910 AAATCTTATTTTAAGAAAAACAATCTTTAGGGAAAT
1 AAATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
* * * * * *
50946 AAATCTT-TTTTCGAGTAAAACAGTCTCAAGTGAGAC
1 AAATCTTATTTT-AAGAAAAACAATCTCAAGGGAAAT
* **
50982 AAAGTC-TGTTTTAAGAAAAACAATCTTGAGGGAAAT
1 AAA-TCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
* * * * * *
51018 AAATCTTCTTTCAAGTAAAACAATCTCAAGTGAGAC
1 AAATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
* **
51054 AAGGTC-TATTTTAAGAATGACAATCTCAAGGGAAAT
1 AA-ATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
* * * * * * *
51090 AAATCTTCTTTCAAGTAAAATAGA-CTCAAGTGAGAC
1 AAATCTTATTTTAAGAAAAACA-ATCTCAAGGGAAAT
* * **
51126 AAGGTC-TGTTTTAAGAATGACAATCTCAAGGGAAAT
1 AA-ATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
* * * * * *
51162 AAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGAT
1 AAATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
51198 AAATC
1 AAATC
51203 ATCTATATTA
Statistics
Matches: 185, Mismatches: 62, Indels: 20
0.69 0.23 0.07
Matches are distributed among these distances:
35 11 0.06
36 163 0.88
37 11 0.06
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (36 bp):
AAATCTTATTTTAAGAAAAACAATCTCAAGGGAAAT
Found at i:51003 original size:72 final size:72
Alignment explanation
Indices: 50918--51196 Score: 423
Period size: 72 Copynumber: 3.9 Consensus size: 72
50908 TAAAATCTTA
** * *
50918 TTTTAAGAAAAACAATCTTTAGGGAAATAAATCTTTTTTCGAGTAAAACAGTCTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
*
50983 AAGTCTG
66 AGGTCTG
** *
50990 TTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAATCTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
*
51055 AGGTCTA
66 AGGTCTG
** * *
51062 TTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAATAGACTCAAGTGAGACA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
51127 AGGTCTG
66 AGGTCTG
**
51134 TTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
1 TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
51197 TAAATCATCT
Statistics
Matches: 191, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 191 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (72 bp):
TTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGACA
AGGTCTG
Found at i:52621 original size:95 final size:95
Alignment explanation
Indices: 52453--52634 Score: 267
Period size: 95 Copynumber: 1.9 Consensus size: 95
52443 ATATGTAAAT
* * * *
52453 ACCTTTATAAGGTTAGCTGAATCTTATCCATAAAGCCAGGGTGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATAAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGGG
*
52518 ACAGCTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
* ** *
52548 ACCTTTATCAGGCTAGC-GAAATATTATCCATAAAGCTGGGGCGTTTAACCAATTACTTTAGAGG
1 ACCTTTATAAGGCTAGCTG-AATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGG
52612 GACAACTCAAGCTTTATTGTATA
65 GACAACTCAAGCTTTATTGTATA
52635 TAAATAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 1 0.01
95 76 0.99
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (95 bp):
ACCTTTATAAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:56207 original size:13 final size:13
Alignment explanation
Indices: 56189--56242 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
56179 CACAATGAAA
*
56189 ATAAATAAATAGT
1 ATAAATAAATAAT
56202 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
56216 A-AAATAAAGAAT
1 ATAAATAAATAAT
56228 AT--ATAAA-AAT
1 ATAAATAAATAAT
56238 ATAAA
1 ATAAA
56243 AATGTATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 8 0.23
13 10 0.29
14 7 0.20
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:56361 original size:12 final size:12
Alignment explanation
Indices: 56344--56394 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
56334 ATACCATAAT
56344 AATAATAAAATA
1 AATAATAAAATA
56356 AATAAT-AAA-A
1 AATAATAAAATA
* * *
56366 CATAATATATTA
1 AATAATAAAATA
56378 AATAATAAAATA
1 AATAATAAAATA
56390 AATAA
1 AATAA
56395 ATGAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 21 0.68
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:56379 original size:22 final size:22
Alignment explanation
Indices: 56345--56395 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
56335 TACCATAATA
56345 ATAATAAAATAAATAATAAAAC
1 ATAATAAAATAAATAATAAAAC
* * *
56367 ATAATATATTAAATAATAAAAT
1 ATAATAAAATAAATAATAAAAC
56389 A-AATAAA
1 ATAATAAA
56396 TGAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAATAAAATAAATAATAAAAC
Found at i:57859 original size:36 final size:35
Alignment explanation
Indices: 57812--57952 Score: 171
Period size: 36 Copynumber: 4.0 Consensus size: 35
57802 AAAGCTTTGG
57812 TGTTTCAAGAGAAAC-ATGTTCAAAGGTTTTCTTTTT
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTTT-TTTTT
* * *
57848 TGTTTTAAGAGAAACAATTTCAAAAGTTTTCTTTTT
1 TGTTTCAAGAGAAACGATTTCAAAGGTTTT-TTTTT
* *
57884 GTGTTCCAAGAGAAACGATTTCAAAGG--TTTTTTG
1 -TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTTTT
57918 TGTTTCAAGAGAAAACGATTTCAAAGGTTTTTTTT
1 TGTTTCAAGAG-AAACGATTTCAAAGGTTTTTTTT
57953 AAGAGAAACT
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
33 10 0.11
34 19 0.21
35 2 0.02
36 37 0.40
37 24 0.26
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (35 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTTTT
Found at i:58018 original size:29 final size:29
Alignment explanation
Indices: 57976--58058 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
57966 TCCAGGGAGG
* *
57976 CAAATTTTTTTTTCAAGAGAAAC-ATATT
1 CAAAGTTTTGTTTCAAGAGAAACTATATT
* * *
58004 CAAAGGTTTTGTTTCAAGGGAAACTGTTTT
1 CAAA-GTTTTGTTTCAAGAGAAACTATATT
58034 CAAAGTTTATGTTTCAAGAGAAACT
1 CAAAGTTT-TGTTTCAAGAGAAACT
58059 GTCTCAAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.09
29 20 0.43
30 22 0.48
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (29 bp):
CAAAGTTTTGTTTCAAGAGAAACTATATT
Found at i:58038 original size:30 final size:30
Alignment explanation
Indices: 57986--58060 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
57976 CAAATTTTTT
* *
57986 TTTCAAGAGAAAC-ATATTCAAAGGTTT-TG
1 TTTCAAGAGAAACTGTTTTCAAA-GTTTATG
*
58015 TTTCAAGGGAAACTGTTTTCAAAGTTTATG
1 TTTCAAGAGAAACTGTTTTCAAAGTTTATG
58045 TTTCAAGAGAAACTGT
1 TTTCAAGAGAAACTGT
58061 CTCAAGGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (30 bp):
TTTCAAGAGAAACTGTTTTCAAAGTTTATG
Found at i:58093 original size:36 final size:36
Alignment explanation
Indices: 58043--58230 Score: 160
Period size: 36 Copynumber: 5.4 Consensus size: 36
58033 TCAAAGTTTA
* *
58043 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
58079 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
58115 CATTTCAAAGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* *
58143 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
58181 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
**
58217 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
58231 TGTTTTCAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
28 2 0.02
29 13 0.11
30 3 0.03
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 61 0.52
37 31 0.26
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:58195 original size:37 final size:36
Alignment explanation
Indices: 58144--58230 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 36
58134 TCAATGTTTA
* * *
58144 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
58181 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
58217 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
58231 TGTTTTCAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.31
37 31 0.69
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:58207 original size:102 final size:102
Alignment explanation
Indices: 58015--58319 Score: 504
Period size: 102 Copynumber: 3.0 Consensus size: 102
58005 AAAGGTTTTG
*
58015 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
58079 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
58117 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
58182 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* * *
58219 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTATCTTAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT
* * *
58284 CTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
65 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
58320 CTTATTTATG
Statistics
Matches: 191, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
101 48 0.25
102 108 0.57
103 3 0.02
104 32 0.17
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:58333 original size:82 final size:84
Alignment explanation
Indices: 58242--58406 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
58232 GTTTTCAATG
* * * * * * *
58242 TTTATGTTTCAAGAGAAATTATCT-TAAGG-GAGACAAAATTTTCTGTTTCGAGGGAAACTATCT
1 TTTATGTTTCAAGAGAAACTATCTCAAAGGAGAAAAAAAAATTTATGTTTCGAGGGAAACTATAT
*
58305 CAAGCGAGATAAAATCTTA
66 AAAGCGAGATAAAATCTTA
*
58324 TTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAAAAATTTATGTTTCGAGGGAAACTATAT
1 TTTATGTTTCAAGAGAAACTATCTCAAAGGAGAAAAAAAAATTTATGTTTCGAGGGAAACTATAT
* *
58389 AAAGCGATATAAATTCTT
66 AAAGCGAGATAAAATCTT
58407 GTTTTAAGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
82 22 0.31
83 4 0.06
84 44 0.63
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (84 bp):
TTTATGTTTCAAGAGAAACTATCTCAAAGGAGAAAAAAAAATTTATGTTTCGAGGGAAACTATAT
AAAGCGAGATAAAATCTTA
Found at i:58383 original size:41 final size:42
Alignment explanation
Indices: 58276--58401 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 42
58266 TAAGGGAGAC
* *
58276 AAAATTTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAA
1 AAAAATTTATGTTTCGAGGGAAACTATCTCAAGCGAGATAAA
*** * * *
58318 ATCTTATTTATGTTTCAAGAGAAACTGTCTCAAAG-GAGA-AAA
1 A-AAAATTTATGTTTCGAGGGAAACTATCTC-AAGCGAGATAAA
* * *
58360 AAAAATTTATGTTTCGAGGGAAACTATATAAAGCGATATAAA
1 AAAAATTTATGTTTCGAGGGAAACTATCTCAAGCGAGATAAA
58402 TTCTTGTTTT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.05
41 24 0.38
42 8 0.13
43 25 0.40
44 3 0.05
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.29
Consensus pattern (42 bp):
AAAAATTTATGTTTCGAGGGAAACTATCTCAAGCGAGATAAA
Found at i:58457 original size:36 final size:36
Alignment explanation
Indices: 58397--58529 Score: 126
Period size: 36 Copynumber: 3.7 Consensus size: 36
58387 ATAAAGCGAT
*
58397 ATAAATTCTTGTTTT-AAGAAAAACAATCTTGAGGGAA
1 ATAAA-TCTT-TTTTCAAGTAAAACAATCTTGAGGGAA
* * ** * *
58434 ATAAATCTTTTTTCGAGTAAAACAGTCTCAAGTGAG
1 ATAAATCTTTTTTCAAGTAAAACAATCTTGAGGGAA
* * *
58470 ATAAAGTATGTTTT-AAGAAAAACAATCTTGAGGGAA
1 ATAAA-TCTTTTTTCAAGTAAAACAATCTTGAGGGAA
*
58506 ATAAATCTTCTTTCAAGTAAAACA
1 ATAAATCTTTTTTCAAGTAAAACA
58530 GTCTCAAGTG
Statistics
Matches: 73, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
35 9 0.12
36 53 0.73
37 11 0.15
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
ATAAATCTTTTTTCAAGTAAAACAATCTTGAGGGAA
Found at i:58489 original size:72 final size:72
Alignment explanation
Indices: 58406--58689 Score: 408
Period size: 72 Copynumber: 3.9 Consensus size: 72
58396 TATAAATTCT
* *
58406 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTTTTTCGAGTAAAACAGTCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
* * *
58471 TAAAGTA
66 CAAGGTC
58478 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
58543 CAAGGTC
66 CAAGGTC
** ** * * * *
58550 TGTTTTAAGAATGACAATCTCAAGGGAAATAAATATTCTTACAAGTAAAACAGACTCAATTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
58615 CAAGGTC
66 CAAGGTC
* **
58622 TTTTTTAAGAATGACAATC-TGAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAG
1 TGTTTTAAGAAAAACAATCTTG-AGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAG
58686 ACAA
65 ACAA
58690 ATCATCTGTA
Statistics
Matches: 191, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
72 191 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (72 bp):
TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
CAAGGTC
Found at i:58692 original size:36 final size:35
Alignment explanation
Indices: 58434--58692 Score: 148
Period size: 36 Copynumber: 7.2 Consensus size: 35
58424 CTTGAGGGAA
*
58434 ATAAATCTTTTTTCGAGTAAAACAGTCTCAAGTGAG
1 ATAAATC-TTTTTCAAGTAAAACAGTCTCAAGTGAG
* * * ** * *
58470 ATAAAGTATGTTTT-AAGAAAAACAATCTTGAGGGAA
1 ATAAA-TCT-TTTTCAAGTAAAACAGTCTCAAGTGAG
58506 ATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAG
1 ATAAATCTT-TTTCAAGTAAAACAGTCTCAAGTGAG
* * * * * *
58542 ACAAGGTCTGTTTT-AAG-AATGACAATCTCAAGGGAA
1 ATAA-ATCT-TTTTCAAGTAA-AACAGTCTCAAGTGAG
* * * *
58578 ATAAATATTCTTACAAGTAAAACAGACTCAATTGAG
1 ATAAATCTT-TTTCAAGTAAAACAGTCTCAAGTGAG
* * * * * * * *
58614 ACAAGGTCTTTTTTAAG-AATGACAATCTGAAGGGAA
1 ATAA-ATCTTTTTCAAGTAA-AACAGTCTCAAGTGAG
58650 ATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAG
1 ATAAATCTT-TTTCAAGTAAAACAGTCTCAAGTGAG
*
58686 ACAAATC
1 ATAAATC
58693 ATCTGTATTA
Statistics
Matches: 157, Mismatches: 52, Indels: 28
0.66 0.22 0.12
Matches are distributed among these distances:
34 2 0.01
35 17 0.11
36 119 0.76
37 18 0.11
38 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (35 bp):
ATAAATCTTTTTCAAGTAAAACAGTCTCAAGTGAG
Found at i:60008 original size:82 final size:86
Alignment explanation
Indices: 59886--60111 Score: 210
Period size: 94 Copynumber: 2.6 Consensus size: 86
59876 GGCTAGCTGG
** *
59886 ATCCATAAAGCCGGGGCGTTTTGCCAATT-ACTCTAGAGGGACAACTCAA-TAT-GTA-AAT-AC
1 ATCCATAAAGCC-GGGCGTTTAACCAATTGCCT-TAGAGGGACAACTCAATTATAGTATAATCAC
* * *
59946 CTTTATCAGGTTAGCTGAATCTT
64 CTTTATCAGGCTAGCTAAATATT
* *
59969 ATCCATAAAGCCGGGCGTTTAACCAATTGCCTTATAGGGACAGCTCAAGCTTTATTGTATAGTAT
1 ATCCATAAAGCCGGGCGTTTAACCAATTGCCTTAGAGGGACAACTC-A-----A-T-TATAGTAT
60034 AATCACCTTTATCAGGCTAGCTAAATATT
58 AATCACCTTTATCAGGCTAGCTAAATATT
* * * *
60063 ATCCATAAAGCGGGGGCATTTAACCAATTGCTTTAGAGGGATAACTCAA
1 ATCCATAAAGC-CGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAA
60112 GCTTTATTGT
Statistics
Matches: 115, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
82 26 0.23
83 15 0.13
88 1 0.01
89 1 0.01
91 3 0.03
92 3 0.03
93 3 0.03
94 34 0.30
95 29 0.25
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (86 bp):
ATCCATAAAGCCGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAATTATAGTATAATCACCT
TTATCAGGCTAGCTAAATATT
Found at i:60118 original size:95 final size:94
Alignment explanation
Indices: 59944--60124 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 94
59934 ATATGTAAAT
* * * * *
59944 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGCGTTTAACCAATTGCCTTATAGGGA
1 ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGGGCATTTAACCAATTGCCTTAGAGGGA
*
60009 CAGCTCAAGCTTTATTGTATAGTATAATC
66 CAACTCAAGCTTTATTGTATAGTATAATC
* *
60038 ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCGGGGGCATTTAACCAATTGCTTTAGAGGG
1 ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGC-CGGGCATTTAACCAATTGCCTTAGAGGG
*
60103 ATAACTCAAGCTTTATTGTATA
65 ACAACTCAAGCTTTATTGTATA
60125 TAAATAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 33 0.43
95 44 0.57
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCGGGCATTTAACCAATTGCCTTAGAGGGA
CAACTCAAGCTTTATTGTATAGTATAATC
Found at i:64141 original size:13 final size:13
Alignment explanation
Indices: 64123--64164 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
64113 CACAATGAAA
*
64123 ATAAATAAATAGT
1 ATAAATAAATAAT
64136 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
64150 A-AAATAAAGAAT
1 ATAAATAAATAAT
64162 ATA
1 ATA
64165 TACAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 11 0.44
14 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:64252 original size:3 final size:3
Alignment explanation
Indices: 64246--64325 Score: 53
Period size: 3 Copynumber: 26.7 Consensus size: 3
64236 AGAAAAAAAC
*
64246 AAT AAT AAT AAG AAT -AT AAT AAT -AT ACCAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
* *
64290 AAAT AAT AAA ACAT AAT -AT ACT AAAT AAT AA- AAT AA
1 -AAT AAT AAT A-AT AAT AAT AAT -AAT AAT AAT AAT AA
64326 ATAAATGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
2 10 0.16
3 41 0.67
4 7 0.11
5 3 0.05
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:64266 original size:14 final size:13
Alignment explanation
Indices: 64247--64307 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
64237 GAAAAAAACA
64247 ATAATAATAAGAAT
1 ATAATAATAA-AAT
*
64261 ATAATAATATACCAT
1 ATAATAATA-A-AAT
64276 AATAATAATAAAAT
1 -ATAATAATAAAAT
*
64290 A-AATAATAAAAC
1 ATAATAATAAAAT
64302 ATAATA
1 ATAATA
64308 TACTAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 11 0.28
13 5 0.12
14 11 0.28
15 4 0.10
16 9 0.22
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAATAATAAAAT
Found at i:64285 original size:19 final size:19
Alignment explanation
Indices: 64261--64324 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
64251 TAATAAGAAT
*
64261 ATAATAATATACCATAATA
1 ATAATAATATACAATAATA
*
64280 ATAATAAAATA-AATAATA
1 ATAATAATATACAATAATA
* *
64298 AAACATAATATACTA-AATA
1 ATA-ATAATATACAATAATA
64317 ATAA-AATA
1 ATAATAATA
64325 AATAAATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 9 0.24
19 23 0.62
20 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAATAATATACAATAATA
Found at i:64296 original size:12 final size:12
Alignment explanation
Indices: 64279--64329 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
64269 ATACCATAAT
64279 AATAATAAAATA
1 AATAATAAAATA
64291 AATAAT-AAA-A
1 AATAATAAAATA
* * *
64301 CATAATATACTA
1 AATAATAAAATA
64313 AATAATAAAATA
1 AATAATAAAATA
64325 AATAA
1 AATAA
64330 ATGAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 21 0.68
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:64305 original size:22 final size:22
Alignment explanation
Indices: 64280--64330 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
64270 TACCATAATA
64280 ATAATAAAATAAATAATAAAAC
1 ATAATAAAATAAATAATAAAAC
* * *
64302 ATAATATACTAAATAATAAAAT
1 ATAATAAAATAAATAATAAAAC
64324 A-AATAAA
1 ATAATAAA
64331 TGAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
ATAATAAAATAAATAATAAAAC
Found at i:65999 original size:11 final size:10
Alignment explanation
Indices: 65962--66014 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
65952 GATAAAGAGC
65962 TAAATT-TAT
1 TAAATTATAT
*
65971 TAAATTATTT
1 TAAATTATAT
*
65981 TCAATTATGAT
1 TAAATTAT-AT
65992 TAAATTAT-T
1 TAAATTATAT
66001 T-AATTATA-
1 TAAATTATAT
66009 TAAATT
1 TAAATT
66015 TTTAGAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.19
9 12 0.33
10 9 0.25
11 8 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (10 bp):
TAAATTATAT
Found at i:67880 original size:2 final size:2
Alignment explanation
Indices: 67868--67921 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
67858 ATTCAAAACA
67868 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67909 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
67922 ACACTCTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68237 original size:27 final size:27
Alignment explanation
Indices: 68204--68257 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
68194 ACCATCACCG
*
68204 CTTTAAACTTGAAACTCCATAGCATCA
1 CTTTAAACTTGAAACTCCACAGCATCA
*
68231 CTTTAAACTTGAAAGTCCACAGCATCA
1 CTTTAAACTTGAAACTCCACAGCATCA
68258 AAATCTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (27 bp):
CTTTAAACTTGAAACTCCACAGCATCA
Found at i:68530 original size:19 final size:19
Alignment explanation
Indices: 68506--68551 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
68496 AAGAACTGTT
*
68506 GGTTCACACTGCTTTTTCC
1 GGTTCACACTGCTTTTGCC
68525 GGTTCACACTGCTTTTGCC
1 GGTTCACACTGCTTTTGCC
68544 GGTTCACA
1 GGTTCACA
68552 ACCAATTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (19 bp):
GGTTCACACTGCTTTTGCC
Found at i:69296 original size:21 final size:21
Alignment explanation
Indices: 69261--69302 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
69251 TTAAGAAGGT
**
69261 GAAATATTTTCTATTATATTA
1 GAAATATTTAATATTATATTA
*
69282 GAAATATTTAATATTTTATTA
1 GAAATATTTAATATTATATTA
69303 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
GAAATATTTAATATTATATTA
Found at i:71102 original size:21 final size:21
Alignment explanation
Indices: 71078--71134 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
71068 TTTAGTCGAG
*** *
71078 TCAGATGCCACCGTTTCCATA
1 TCAGATGCCACCGCAACAATA
* *
71099 TCAGATGGCACTGCAACAATA
1 TCAGATGCCACCGCAACAATA
71120 TCAGATGCCACCGCA
1 TCAGATGCCACCGCA
71135 GCTGGGTCAG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (21 bp):
TCAGATGCCACCGCAACAATA
Found at i:71162 original size:21 final size:21
Alignment explanation
Indices: 71120--71162 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71110 TGCAACAATA
*
71120 TCAGATGCCACCGCAGCTGGG
1 TCAGATGCCACCGCAGCAGGG
* *
71141 TCAGGTGCCACCGCCGCAGGG
1 TCAGATGCCACCGCAGCAGGG
71162 T
1 T
71163 TTTATGACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.35, G:0.35, T:0.14
Consensus pattern (21 bp):
TCAGATGCCACCGCAGCAGGG
Found at i:73374 original size:189 final size:187
Alignment explanation
Indices: 73035--73407 Score: 712
Period size: 189 Copynumber: 2.0 Consensus size: 187
73025 AAAGAAGATT
73035 GTTACAAACATTCCATTTGATGCATCAATTCTTTTTTGTAGATCTGCAACTAATCTTGGGTGATA
1 GTTACAAACATTCCATTTGATGCATCAATTCTTTTTTGTAGATCTGCAACTAATCTTGGGTGATA
73100 GACATAACCGTTTTGCATCAAGTTTGAGCTTGTCCCGAGCTTGGCAAAAAGCGCTTCCAAACAAA
66 GACATAACCGTTTTGCATCAAGTTTGAGCTTGTCCCGAGCTTGGCAAAAAGCGCTTCCAAACAAA
73165 AATATGTCATTTTAACCAAAGTCATTACTGGTAAATGGCATGCCCCCTTTATGGCGA
131 AATATGTCATTTTAACCAAAGTCATTACTGGTAAATGGCATGCCCCCTTTATGGCGA
73222 GTTACAAACATTCCATTTGATGCATCAATT-TTTTTTGTAGATCTGCAACTAATCTTGGGTGATA
1 GTTACAAACATTCCATTTGATGCATCAATTCTTTTTTGTAGATCTGCAACTAATCTTGGGTGATA
73286 GACATAACCGTTTTGCATCCAAGTTTGAGCTTGTCCCCCGAGCTTGGCAAAAAGCGCTTCCAAAC
66 GACATAACCGTTTTGCAT-CAAGTTTGAGCTTGT--CCCGAGCTTGGCAAAAAGCGCTTCCAAAC
73351 AAAAATATGTCATTTTAACCAAAGTCATTACTGGTAAATGGCATGCCCCCTTTATGG
128 AAAAATATGTCATTTTAACCAAAGTCATTACTGGTAAATGGCATGCCCCCTTTATGG
73408 TCGAATTGAT
Statistics
Matches: 183, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
186 52 0.28
187 45 0.25
189 86 0.47
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (187 bp):
GTTACAAACATTCCATTTGATGCATCAATTCTTTTTTGTAGATCTGCAACTAATCTTGGGTGATA
GACATAACCGTTTTGCATCAAGTTTGAGCTTGTCCCGAGCTTGGCAAAAAGCGCTTCCAAACAAA
AATATGTCATTTTAACCAAAGTCATTACTGGTAAATGGCATGCCCCCTTTATGGCGA
Found at i:75602 original size:24 final size:24
Alignment explanation
Indices: 75570--75626 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
75560 TCCAGAAGCT
*
75570 GAGTCAACTTAGACTAAGTTGACC
1 GAGTCAACTTAGACCAAGTTGACC
75594 GAGTCAACTTAGACCAAGTTGACC
1 GAGTCAACTTAGACCAAGTTGACC
75618 GAGTCAACT
1 GAGTCAACT
75627 CGTTAACCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (24 bp):
GAGTCAACTTAGACCAAGTTGACC
Found at i:77203 original size:15 final size:15
Alignment explanation
Indices: 77183--77215 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
77173 GTATGTGAGT
77183 ACTGTGAGGTTGTGC
1 ACTGTGAGGTTGTGC
77198 ACTGTGAGGTTGTGC
1 ACTGTGAGGTTGTGC
77213 ACT
1 ACT
77216 ATGCTGTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.33
Consensus pattern (15 bp):
ACTGTGAGGTTGTGC
Found at i:77266 original size:24 final size:24
Alignment explanation
Indices: 77239--77301 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
77229 AGCTCGTATA
77239 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
* *
77263 AATTTGCACCGAAGTGCCGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
77287 AA-ATGCACCGTAGTG
1 AATTTGCACCGTAGTG
77302 ACATATAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 11 0.31
24 24 0.69
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Done.