Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 177 of 345
Found at i:49942771 original size:12 final size:12
Alignment explanation
Indices: 49942732--49942772 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
49942722 GCCACACACT
49942732 CGTGTGCTAGGC
1 CGTGTGCTAGGC
* * *
49942744 CATTTGCTAGGT
1 CGTGTGCTAGGC
49942756 CGTGTGCTAGGC
1 CGTGTGCTAGGC
49942768 CGTGT
1 CGTGT
49942773 AACTACCTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.37, T:0.32
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:49948399 original size:39 final size:39
Alignment explanation
Indices: 49948345--49948496 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
49948335 AATGTTCGAG
49948345 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
49948384 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
** * *
49948423 TGATGCCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
49948462 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
49948497 GGTTACCATA
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 85 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:49948512 original size:40 final size:40
Alignment explanation
Indices: 49948351--49948526 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
49948341 CGAGTGATAT
* ** *
49948351 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** **
49948390 CCGGGCTAAG-CCCGAAGGCAATTGTGCAAGCTATGATGC
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
49948429 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
49948468 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
49948508 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49948527 AGTTTTGAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 79 0.66
40 40 0.34
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:49952636 original size:16 final size:16
Alignment explanation
Indices: 49952617--49952648 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49952607 AATTGTTTTA
49952617 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
49952633 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
49952649 ACTACATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:49952956 original size:50 final size:50
Alignment explanation
Indices: 49952859--49953133 Score: 228
Period size: 50 Copynumber: 5.6 Consensus size: 50
49952849 CTGGTACGCA
* * * * * * *
49952859 TAGTA-CCTACACTTAGTACTACAAATGCGACCTATCAATCTCG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TTGATACACG
* * *
49952908 TAGTAGCTTGCACTTAGTGCTACACACGTGACTTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
49952958 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
* * * * *
49953008 TAGTAGCCTGCACTTAG---T----ACGTGATCGAAGC-TATCGAGTACCCG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TTGA-TACACG
* * ** * * ** *
49953052 TAGTAGCCTGCACTTAGTACTACAGAAGCAACCTATCAACATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
*
49953102 TAGTAGCCCGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
49953134 TCACAGCGGA
Statistics
Matches: 178, Mismatches: 36, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 13 0.07
44 22 0.12
47 2 0.01
49 7 0.04
50 127 0.71
51 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
Found at i:49956084 original size:15 final size:14
Alignment explanation
Indices: 49956048--49956109 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 14
49956038 GATATAGATA
* *
49956048 ATAAGAAAACCAGG
1 ATAAGAAATCCAAG
*
49956062 ATTAAGAAGTCCAAG
1 A-TAAGAAATCCAAG
49956077 ATAGAGAAATCCAAG
1 ATA-AGAAATCCAAG
49956092 ATAAGGAAATCCAAG
1 ATAA-GAAATCCAAG
49956107 ATA
1 ATA
49956110 CAATATCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 4 0.10
15 37 0.90
ACGTcount: A:0.53, C:0.13, G:0.19, T:0.15
Consensus pattern (14 bp):
ATAAGAAATCCAAG
Found at i:49959195 original size:16 final size:16
Alignment explanation
Indices: 49959176--49959207 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49959166 AGTTGTTTTA
49959176 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
49959192 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
49959208 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:49959509 original size:50 final size:50
Alignment explanation
Indices: 49959410--49959748 Score: 295
Period size: 50 Copynumber: 6.8 Consensus size: 50
49959400 AAGCTCTCTA
* * *
49959410 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * *
49959460 GTACACATTGTAGCCTGCAGTTAGTAGTACACACGTGACTTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * *
49959510 ATACACATAGTAGCTTGCACTTAGTACTACACATGTGATCAAAGTTAA-CAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAATCTG
* * * * ***
49959561 GTACGCATAGTAGCTTGCACTTAATACTACACATGCGACCTAACAATAAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * *
49959611 GTACACGTAGTAGCCTACACTTAGTACTAAACAAGTGACCTAACCATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * *
49959661 ATACACGTAGTAGCCCGCACTTAGTACTACACAT-TCGATCTATCGATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGT-GACCTAACAATCTG
* * * *
49959711 GTACACGTACTATCCTGCACTTAGTACTACACACGTGA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA
49959749 ATCACAACGG
Statistics
Matches: 228, Mismatches: 56, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
49 3 0.01
50 184 0.81
51 40 0.18
52 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
Found at i:49959684 original size:151 final size:151
Alignment explanation
Indices: 49959410--49959694 Score: 408
Period size: 151 Copynumber: 1.9 Consensus size: 151
49959400 AAGCTCTCTA
* * *** *
49959410 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATTGTAGCC
1 GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACAATAAAGTACACATAGTAGCC
* * * * * * **
49959475 TGCAGTTAGTAGTACACACGTGACTTAACCATCTGATACACATAGTAGCTTGCACTTAGTACTAC
66 TACACTTAGTACTAAACAAGTGACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTAC
49959540 ACATGTGATCAAAGTTAACAG
131 ACATGTGATCAAAGTTAACAG
* *
49959561 GTACGCATAGTAGCTTGCACTTAATACTACACATGCGACCTAACAATAAAGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACAATAAAGTACACATAGTAGCC
* *
49959626 TACACTTAGTACTAAACAAGTGACCTAACCATTTGATACACGTAGTAGCCCGCACTTAGTACTAC
66 TACACTTAGTACTAAACAAGTGACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTAC
49959691 ACAT
131 ACAT
49959695 TCGATCTATC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACAATAAAGTACACATAGTAGCC
TACACTTAGTACTAAACAAGTGACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTAC
ACATGTGATCAAAGTTAACAG
Found at i:49960126 original size:19 final size:20
Alignment explanation
Indices: 49960098--49960144 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
49960088 AAGAACATGT
49960098 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
49960119 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
49960138 TATATAT
1 TATATAT
49960145 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:49966045 original size:46 final size:46
Alignment explanation
Indices: 49965995--49966167 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
49965985 TGGTTGAGCA
*
49965995 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49966041 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
49966086 CATCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
49966134 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49966168 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49966151 original size:93 final size:93
Alignment explanation
Indices: 49965992--49966162 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49965982 GGATGGTTGA
* * * *
49965992 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49966057 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
49966085 GCATCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
49966150 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
49966163 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49977009 original size:45 final size:45
Alignment explanation
Indices: 49976937--49977109 Score: 278
Period size: 45 Copynumber: 3.9 Consensus size: 45
49976927 TGTACAGTAC
49976937 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * * *
49976982 TATTTGGACCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
49977027 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
49977072 TATTCGGGCC-TTGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
49977110 ATGAATTTGG
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 11 0.09
44 15 0.13
45 91 0.78
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:49984984 original size:45 final size:45
Alignment explanation
Indices: 49984917--49985137 Score: 338
Period size: 45 Copynumber: 5.0 Consensus size: 45
49984907 TATTGTACAG
*
49984917 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
49984962 TACTATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
49985007 TATTATTCGGGCCTTTGAGCCTAGGAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
49985052 TAATATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
49985097 TATTATTCGGGCC-TTGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
49985138 ATGAATTCGG
Statistics
Matches: 161, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 10 0.06
44 15 0.09
45 136 0.84
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:49990903 original size:40 final size:40
Alignment explanation
Indices: 49990806--49990984 Score: 171
Period size: 40 Copynumber: 4.5 Consensus size: 40
49990796 CGAATGGTGT
* * * * *
49990806 CCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
49990847 TCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
49990887 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
49990927 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
49990967 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
49990985 ACAATCGAGC
Statistics
Matches: 111, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
40 88 0.79
41 23 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:49991005 original size:40 final size:40
Alignment explanation
Indices: 49990927--49991010 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
49990917 GTTATTAAAT
* * *
49990927 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
49990967 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
49991007 CCGG
1 CCGG
49991011 TTAAATTCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:49991019 original size:80 final size:80
Alignment explanation
Indices: 49990840--49991010 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
49990830 GTGCTAAGTG
* * * * * *
49990840 ACTAAATTCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * *
49990904 GGCATTCGTGCGAGTT
65 GACAATCGAGCGAGTC
* * * *
49990920 ATTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
49990985 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
49991000 GCTATATCCGG
1 ACTAAATCCGG
49991011 TTAAATTCCA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
80 72 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:49994969 original size:40 final size:41
Alignment explanation
Indices: 49994924--49995128 Score: 207
Period size: 41 Copynumber: 5.0 Consensus size: 41
49994914 TTTTAAAATT
*
49994924 CAGAGCAATAGCGGCG-TTCTAAAAAAAACGCCGGT-AAAAC
1 CAGAGCATTAGCGGCGCTT-TAAAAAAAACGCCGGTAAAAAC
* *** *
49994964 TAGAGCATTAGCGGCGCTTTAGGGAAAACGCCGTTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAAAAAAAACGCCGGTAAAAAC
*** **
49995005 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAAAAAAAACGCCGGTAAAAAC
*** *
49995046 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAAAAAAAACGCCGGTAAAAAC
* *** *
49995087 CAGAGCATTAGCGGTGCTTTAGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAAAAAAAACGCCGGTAAAAAC
49995128 C
1 C
49995129 CCATAACCCC
Statistics
Matches: 151, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 26 0.17
41 125 0.83
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTAAAAAAAACGCCGGTAAAAAC
Found at i:49995127 original size:41 final size:41
Alignment explanation
Indices: 49994948--49995128 Score: 301
Period size: 41 Copynumber: 4.4 Consensus size: 41
49994938 CGTTCTAAAA
* * *
49994948 AAAACGCCGGT-AAAACTAGAGCATTAGCGGCGCTTTAGGG
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
49994988 AAAACGCCGTTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
49995029 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
49995070 AAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
49995111 AAAACGCCGCTAAAAACC
1 AAAACGCCGCTAAAAACC
49995129 CCATAACCCC
Statistics
Matches: 133, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 10 0.08
41 123 0.92
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:49995307 original size:14 final size:15
Alignment explanation
Indices: 49995290--49995323 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
49995280 ATCATTATAT
49995290 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
49995304 TTTAA-GATATATGG
1 TTTAAGGATATATGG
49995318 TTTAAG
1 TTTAAG
49995324 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:49996235 original size:15 final size:15
Alignment explanation
Indices: 49996215--49996246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49996205 TTTATTTTAG
*
49996215 AAGATAAATGTATAT
1 AAGATAAATATATAT
49996230 AAGATAAATATATAT
1 AAGATAAATATATAT
49996245 AA
1 AA
49996247 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:49997105 original size:199 final size:199
Alignment explanation
Indices: 49996573--49997183 Score: 1125
Period size: 199 Copynumber: 3.1 Consensus size: 199
49996563 GTTTATACAT
*
49996573 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAGCGCCACAAAATTTCATTATAC
1 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
* *
49996638 ATTACAGTAAAACGGCGTCATTTCCTCAGAATAGTAGTGGCTTTAGCGGCATTTCTATAATAAAC
66 ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
49996703 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
131 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
49996768 GCTG
196 GCTG
49996772 AAAACGCCGCAAAAGATAGAAAATAGCGGCG-TTTTTTAGAAAACGCCACAAAATTTCATTATAC
1 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
*
49996836 ATTATAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
66 ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
* *
49996901 GCCACAAAGCGTATTAGAATGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
131 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
49996966 GCTG
196 GCTG
*
49996970 AAAACGCCGCAAAAGATAGAAAATAGCGGAGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
1 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
49997035 ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
66 ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
* * *
49997100 GCCACAACGCGTATTAGAACAGCATCGTTTTATTGTGTATATAAAATAGGTATTAGTGGTGCTTT
131 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
49997165 GCTG
196 GCTG
49997169 AAAACGCCGCAAAAG
1 AAAACGCCGCAAAAG
49997184 GTCTTATTAG
Statistics
Matches: 398, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
198 191 0.48
199 207 0.52
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (199 bp):
AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
GCTG
Found at i:49997632 original size:18 final size:18
Alignment explanation
Indices: 49997598--49997632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49997588 TTTAGATTAA
*
49997598 TGATGTTGATATTGATGT
1 TGATGTTGATATCGATGT
*
49997616 TGATGTTGATCTCGATG
1 TGATGTTGATATCGATG
49997633 ATTATACCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.46
Consensus pattern (18 bp):
TGATGTTGATATCGATGT
Found at i:49999643 original size:134 final size:133
Alignment explanation
Indices: 49999423--49999672 Score: 455
Period size: 134 Copynumber: 1.9 Consensus size: 133
49999413 TGATTCCATC
*
49999423 TTGGTTATTTAGACGTTATTTTGGTATGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
1 TTGGTTATTCAGACGTTATTTTGGTATGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
49999488 ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
66 ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
49999553 ATT
131 ATT
* * *
49999556 TTGGTTATTCAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTG
1 TTGGTTATTCAGACGTTATTTTGGTATG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTG
49999621 GACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
49999673 TGTTGAATTC
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 24 0.21
134 88 0.79
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.51
Consensus pattern (133 bp):
TTGGTTATTCAGACGTTATTTTGGTATGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
ATT
Found at i:50001765 original size:21 final size:21
Alignment explanation
Indices: 50001736--50001775 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50001726 GTTTTTATAT
*
50001736 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
50001757 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
50001776 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:50003532 original size:9 final size:9
Alignment explanation
Indices: 50003520--50003717 Score: 147
Period size: 9 Copynumber: 22.6 Consensus size: 9
50003510 TATTTGATAT
*
50003520 CATAATTTA
1 CATAACTTA
50003529 CATAACTTA
1 CATAACTTA
50003538 CATAACTTA
1 CATAACTTA
*
50003547 TATAAC-TA
1 CATAACTTA
50003555 CATAACTTA
1 CATAACTTA
*
50003564 TATAACTTA
1 CATAACTTA
*
50003573 TATAACTTA
1 CATAACTTA
* *
50003582 GATAA-ATA
1 CATAACTTA
*
50003590 TATAAC-TA
1 CATAACTTA
50003598 CATAACTTA
1 CATAACTTA
*
50003607 TATAACTTA
1 CATAACTTA
*
50003616 TATAACTTA
1 CATAACTTA
* *
50003625 GATAA-ATA
1 CATAACTTA
*
50003633 TATAACTTA
1 CATAACTTA
50003642 CATAACTTA
1 CATAACTTA
*
50003651 TATAACTTA
1 CATAACTTA
* *
50003660 GATAA-ATA
1 CATAACTTA
* *
50003668 TATAATTTA
1 CATAACTTA
*
50003677 CATAA-ATA
1 CATAACTTA
* * *
50003685 TATATCATA
1 CATAACTTA
*
50003694 TCATAAATTA
1 -CATAACTTA
50003704 CATAACTTA
1 CATAACTTA
50003713 CATAA
1 CATAA
50003718 TACTTAAATA
Statistics
Matches: 154, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
8 37 0.24
9 112 0.73
10 5 0.03
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:50003560 original size:26 final size:26
Alignment explanation
Indices: 50003527--50003657 Score: 149
Period size: 26 Copynumber: 5.0 Consensus size: 26
50003517 TATCATAATT
*
50003527 TACATAACTTACATAACTTATATAAC
1 TACATAACTTATATAACTTATATAAC
50003553 TACATAACTTATATAACTTATATAAC
1 TACATAACTTATATAACTTATATAAC
* * *
50003579 TTAGATAA-ATATATAAC-TACATAAC
1 -TACATAACTTATATAACTTATATAAC
* * *
50003604 TTATATAACTTATATAACTTAGATAAA
1 -TACATAACTTATATAACTTATATAAC
* *
50003631 TATATAACTTACATAACTTATATAAC
1 TACATAACTTATATAACTTATATAAC
50003657 T
1 T
50003658 TAGATAAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
25 14 0.15
26 65 0.71
27 12 0.13
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (26 bp):
TACATAACTTATATAACTTATATAAC
Found at i:50003569 original size:35 final size:35
Alignment explanation
Indices: 50003520--50003717 Score: 186
Period size: 35 Copynumber: 5.6 Consensus size: 35
50003510 TATTTGATAT
50003520 CATAATTTACATAACTTACATAACTTATATAAC-TA
1 CATAA-TTACATAACTTACATAACTTATATAACTTA
* * * *
50003555 CATAACTTATATAACTTATATAACTTAGATAA-ATA
1 CATAA-TTACATAACTTACATAACTTATATAACTTA
* * *
50003590 TATAACTACATAACTTATATAACTTATATAACTTA
1 CATAATTACATAACTTACATAACTTATATAACTTA
* * *
50003625 GATAAATATATAACTTACATAACTTATATAACTTA
1 CATAATTACATAACTTACATAACTTATATAACTTA
* * * * * * *
50003660 GATAAATATATAATTTACATAA-ATATATATCATA
1 CATAATTACATAACTTACATAACTTATATAACTTA
50003694 TCATAAATTACATAACTTACATAA
1 -CAT-AATTACATAACTTACATAA
50003718 TACTTAAATA
Statistics
Matches: 138, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
34 32 0.23
35 90 0.65
36 16 0.12
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (35 bp):
CATAATTACATAACTTACATAACTTATATAACTTA
Found at i:50003621 original size:78 final size:78
Alignment explanation
Indices: 50003520--50003717 Score: 245
Period size: 78 Copynumber: 2.5 Consensus size: 78
50003510 TATTTGATAT
* * * *
50003520 CATAATTTACATAACTTACATAACTTATATAACTACATAACTTATATAACTTATATAACTTAGAT
1 CATAA-TTATATAACTTATATAACTTACATAACTACATAACTTACATAACTTATATAACTTAGAT
50003585 AAATATATAA-CTA
65 AAATATATAATCTA
* * *
50003598 CATAACTTATATAACTTATATAACTTAGATAAATATATAACTTACATAACTTATATAACTTAGAT
1 CATAA-TTATATAACTTATATAACTTACATAACTACATAACTTACATAACTTATATAACTTAGAT
*
50003663 AAATATATAATTTA
65 AAATATATAATCTA
* * * *
50003677 CATAAATATATATCATATCATAAATTACATAACTTACATAA
1 CATAATTATATAACTTAT-ATAACTTACATAAC-TACATAA
50003718 TACTTAAATA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
78 78 0.76
79 18 0.18
80 6 0.06
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (78 bp):
CATAATTATATAACTTATATAACTTACATAACTACATAACTTACATAACTTATATAACTTAGATA
AATATATAATCTA
Found at i:50003672 original size:26 final size:27
Alignment explanation
Indices: 50003539--50003717 Score: 136
Period size: 26 Copynumber: 6.8 Consensus size: 27
50003529 CATAACTTAC
* *
50003539 ATAACTTATATAAC-TACATAACTTAT
1 ATAACTTAGATAACTTATATAACTTAT
* * *
50003565 ATAACTTATATAACTTAGATAA-ATAT
1 ATAACTTAGATAACTTATATAACTTAT
*
50003591 ATAAC-TACATAACTTATATAACTTAT
1 ATAACTTAGATAACTTATATAACTTAT
* *
50003617 ATAACTTAGATAA-ATATATAACTTAC
1 ATAACTTAGATAACTTATATAACTTAT
* * *
50003643 ATAACTTATATAACTTAGATAA-ATAT
1 ATAACTTAGATAACTTATATAACTTAT
* * * * *
50003669 ATAATTTACATAA-ATATATATCATAT
1 ATAACTTAGATAACTTATATAACTTAT
* * *
50003695 CATAAATTACATAACTTACATAA
1 -ATAACTTAGATAACTTATATAA
50003718 TACTTAAATA
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
25 19 0.15
26 70 0.56
27 30 0.24
28 5 0.04
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (27 bp):
ATAACTTAGATAACTTATATAACTTAT
Found at i:50003765 original size:43 final size:45
Alignment explanation
Indices: 50003669--50003767 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 45
50003659 AGATAAATAT
* *
50003669 ATAATTTACATAAATATATATCATATCATAAATTACATAACTTAC
1 ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
* **
50003714 ATAA--TACTTAAATATATATCATATCATACATAAC-TAGTTTAC
1 ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
50003756 A-AATTTACTTAA
1 ATAATTTACTTAA
50003768 CTTACATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.04
42 7 0.15
43 34 0.72
45 4 0.09
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (45 bp):
ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
Found at i:50009378 original size:21 final size:21
Alignment explanation
Indices: 50009345--50009395 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
50009335 ACAACTTAGA
*
50009345 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
50009366 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
50009387 GCAGAGGCA
1 GCAGAGGCA
50009396 CGATGGTAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:50009692 original size:31 final size:31
Alignment explanation
Indices: 50009646--50009712 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
50009636 TGGTTGTATT
* *
50009646 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
50009677 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
50009708 TTTTA
1 TTTTA
50009713 ATACAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:50009850 original size:43 final size:42
Alignment explanation
Indices: 50009786--50010035 Score: 177
Period size: 43 Copynumber: 5.8 Consensus size: 42
50009776 ATAAAAAAAG
* **
50009786 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTGTGGCA-AAA
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGTTT-TACCACAAA
* *
50009828 GCGCCGCTAAAAGCAC-TAACCTTTAACGGCGCTTTTATCACAAA
1 -CGCCGCTAAAAGC-CTTAACCTTTAGCGGCG-TTTTACCACAAA
* * ** * *
50009872 CGTCGCTAAAAAGCCTTGATATTTAGCGGCGCTTCTCCCACAAA
1 CGCCGCT-AAAAGCCTTAACCTTTAGCGGCG-TTTTACCACAAA
** * * * * ***
50009916 CGTTGCT-AAAG-GTCAAGGCTTTTAGTGGCGTTTGTGGGA-AAA
1 CGCCGCTAAAAGCCTTAA--CCTTTAGCGGCGTTT-TACCACAAA
50009958 GCGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTACCACAAA
1 -CGCCGCTAAAAGCCTTAACCTTTAGCGGCG-TTTTACCACAAA
*
50010002 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGTTTT
50010036 TTTCCAATAA
Statistics
Matches: 161, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.01
42 13 0.08
43 93 0.58
44 50 0.31
45 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTAACCTTTAGCGGCGTTTTACCACAAA
Found at i:50011515 original size:27 final size:27
Alignment explanation
Indices: 50011475--50011580 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
50011465 AGGAAGCGTC
*
50011475 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
50011502 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* **
50011529 CTGGTGGCTCTACCACGTTTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
50011557 CTGGTGACTCTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
50011581 TTCCGGTAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.03
27 47 0.71
28 17 0.26
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:50011581 original size:54 final size:54
Alignment explanation
Indices: 50011475--50011583 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
50011465 AGGAAGCGTC
* * *
50011475 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* ** *
50011529 CTGGTGGCTCTACCACGTTTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
50011583 C
1 C
50011584 CGGTAGCGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:50012664 original size:11 final size:10
Alignment explanation
Indices: 50012636--50012669 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
50012626 AGCCTGTAAG
50012636 TATTCTGAAT
1 TATTCTGAAT
*
50012646 TTTTCTGAAT
1 TATTCTGAAT
50012656 ATATTCTGAAT
1 -TATTCTGAAT
50012667 TAT
1 TAT
50012670 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:50019327 original size:27 final size:27
Alignment explanation
Indices: 50019287--50019399 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
50019277 AGCAAGCGTC
*
50019287 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
50019314 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
50019341 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
50019369 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
50019395 CTGGT
1 CTGGT
50019400 AGCGATGCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.12
27 49 0.64
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:50019393 original size:54 final size:54
Alignment explanation
Indices: 50019287--50019399 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
50019277 AGCAAGCGTC
* *
50019287 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
50019341 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
50019395 CTGGT
1 CTGGT
50019400 AGCGATGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:50022839 original size:215 final size:215
Alignment explanation
Indices: 50022468--50022882 Score: 830
Period size: 215 Copynumber: 1.9 Consensus size: 215
50022458 TTGGGCTGGG
50022468 TTGTAACACCCCGAACCCGAGAGCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCA
1 TTGTAACACCCCGAACCCGAGAGCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCA
50022533 CTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTGTCGCCTTAAA
66 CTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTGTCGCCTTAAA
50022598 AAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCAT
131 AAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCAT
50022663 ATATCATGATACCAATAAAA
196 ATATCATGATACCAATAAAA
50022683 TTGTAACACCCCGAACCCGAGAGCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCA
1 TTGTAACACCCCGAACCCGAGAGCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCA
50022748 CTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTGTCGCCTTAAA
66 CTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTGTCGCCTTAAA
50022813 AAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCAT
131 AAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCAT
50022878 ATATC
196 ATATC
50022883 CATCCATGGA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 200 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (215 bp):
TTGTAACACCCCGAACCCGAGAGCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCA
CTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTGTCGCCTTAAA
AAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCAT
ATATCATGATACCAATAAAA
Found at i:50024230 original size:39 final size:39
Alignment explanation
Indices: 50024117--50024339 Score: 338
Period size: 39 Copynumber: 5.7 Consensus size: 39
50024107 CCGGCCCAAA
* * * * * *
50024117 TGCCTTCGGGACTTAACCCGGATATCACAACCCGCCCAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAAT
* * *
50024157 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAAT
*
50024197 TGCCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
50024236 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
50024275 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
50024314 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCA
50024340 CTCGAACATT
Statistics
Matches: 175, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 128 0.73
40 47 0.27
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
Found at i:50030573 original size:215 final size:215
Alignment explanation
Indices: 50030202--50030626 Score: 796
Period size: 215 Copynumber: 2.0 Consensus size: 215
50030192 TAGCTCTGAC
*
50030202 ACCAATAAAATTGTAACACCCCGAACCCGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAA
1 ACCAATAAAATTGTAACACCCCGAACCCGAGACCATTGCCGGTGTCGGACACGAGGGGTTAACAA
* *
50030267 GCCAAAACCACTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCGTCGCTG
66 GCCAAAACCACTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCATCACTG
*
50030332 TCGCCTTAAAAAGCATATCTCGAGTTTCACAACTCGGAAACTGATTCCGTAAATTATACCTGAAT
131 TCGCCTTAAAAAGCATATCTCGAGTTTCACAACTCAGAAACTGATTCCGTAAATTATACCTGAAT
50030397 TTAGACTCATATATCATGAT
196 TTAGACTCATATATCATGAT
50030417 ACCAATAAAATTGTAACACCCCGAACCCGAGACCATTGCCGGTGTCGGACACGAGGGGTTAACAA
1 ACCAATAAAATTGTAACACCCCGAACCCGAGACCATTGCCGGTGTCGGACACGAGGGGTTAACAA
50030482 GCCAAAACCACTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCATCACTG
66 GCCAAAACCACTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCATCACTG
* *
50030547 TCGCCTTAAAAAGCATATCTCGAGTTTCACAACTCAGAAACTGATTCTGTAAATTTTACCTGAAT
131 TCGCCTTAAAAAGCATATCTCGAGTTTCACAACTCAGAAACTGATTCCGTAAATTATACCTGAAT
50030612 TTAGACTCATATATC
196 TTAGACTCATATATC
50030627 CATCCATGGA
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 204 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (215 bp):
ACCAATAAAATTGTAACACCCCGAACCCGAGACCATTGCCGGTGTCGGACACGAGGGGTTAACAA
GCCAAAACCACTTATGGCACCGACCAATTTGACATTCCCAGGCAAGCTGGGAAACTGCATCACTG
TCGCCTTAAAAAGCATATCTCGAGTTTCACAACTCAGAAACTGATTCCGTAAATTATACCTGAAT
TTAGACTCATATATCATGAT
Found at i:50031937 original size:39 final size:39
Alignment explanation
Indices: 50031856--50032048 Score: 305
Period size: 39 Copynumber: 4.9 Consensus size: 39
50031846 TATGGTAACC
* * * *
50031856 CGCACAAATGCCTTCGGGACTTAACCCGGATATCAAAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
50031896 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
50031935 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
50031974 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCC-GG-ATATCATAGCT
50032015 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
50032049 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 86 0.60
40 21 0.15
41 36 0.25
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:50034274 original size:30 final size:30
Alignment explanation
Indices: 50034219--50034275 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50034209 TTTCTGAAAA
*
50034219 TATTTACAAAAAGAGGCACCTAATTTTTAT
1 TATTTACAAAAAGAGGCACCAAATTTTTAT
*
50034249 TATTTACGAAAAGA-GCAACCAAATTTT
1 TATTTACAAAAAGAGGC-ACCAAATTTT
50034276 AAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCACCAAATTTTTAT
Found at i:50040946 original size:27 final size:28
Alignment explanation
Indices: 50040886--50040958 Score: 112
Period size: 27 Copynumber: 2.6 Consensus size: 28
50040876 TTAAAATTTG
**
50040886 TATAGCACTAAGTGTGCGAATTTGATTA
1 TATAGCACTAAGTGTGCGAAGCTGATTA
*
50040914 GATAGCACTAAGTGTGCG-AGCTGATTA
1 TATAGCACTAAGTGTGCGAAGCTGATTA
50040941 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
50040959 GACTCACTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAAGCTGATTA
Found at i:50046097 original size:37 final size:36
Alignment explanation
Indices: 50046044--50046127 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 36
50046034 TTATTACGAA
50046044 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCC-GACATAATCTCCACACGTAGTCATCGG
50046081 GTCTTACCCGATCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGA-CATAATCTCCACACGTAGTCATCGG
*
50046118 GTCTCACCCG
1 GTCTTACCCG
50046128 GAACATATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 2 0.04
37 43 0.96
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGACATAATCTCCACACGTAGTCATCGG
Found at i:50046122 original size:21 final size:21
Alignment explanation
Indices: 50046061--50046122 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
50046051 CCGGACATAA
50046061 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
* * **
50046082 TCT-TACCCG-A-TCAT--AA
1 TCTCCACACGTAGTCATCGGG
50046098 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
50046119 TCTC
1 TCTC
50046123 ACCCGGAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 5 0.18
19 5 0.18
20 4 0.14
21 7 0.25
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.27
Consensus pattern (21 bp):
TCTCCACACGTAGTCATCGGG
Found at i:50046285 original size:49 final size:49
Alignment explanation
Indices: 50046230--50046546 Score: 562
Period size: 49 Copynumber: 6.5 Consensus size: 49
50046220 TTTTACATTA
*
50046230 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
50046279 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
50046328 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
50046377 GCCGTTAGGCCTTATCACATATACATACACTTTCAAATTAACCACCTCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
50046426 GCCGTTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
50046475 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACCTCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
50046524 GCCATTAGGCCTTATCACATATA
1 GCCATTAGGCCTTATCACATATA
50046547 TATATCTCAT
Statistics
Matches: 256, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 256 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:50060193 original size:40 final size:40
Alignment explanation
Indices: 50060136--50060401 Score: 252
Period size: 39 Copynumber: 6.7 Consensus size: 40
50060126 ATATTTGATG
* * *
50060136 TGTATCCGGGCTAAAAGACCTGCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
*
50060176 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * **
50060216 TGTATCCTGACTT-AAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
*
50060255 TGTATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
** * * * *
50060295 TGTATCTAGACTT-AAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * ** * * * *
50060334 TATATCCGGACTT-AAGGTCTGCAGGCTTCGTACTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * *
50060373 TATATCCGAGCTTAAAGTCCCGTAGGCTT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTT
50060402 TGTGTTGGTG
Statistics
Matches: 193, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 103 0.53
40 90 0.47
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:50060288 original size:79 final size:79
Alignment explanation
Indices: 50060167--50060348 Score: 287
Period size: 79 Copynumber: 2.3 Consensus size: 79
50060157 GCAGGCTATA
*
50060167 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCT-GACTTAA
1 TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTAT-CTAGACTTAA
*
50060231 GGTCCGCAGGCTTCG
65 GATCCGCAGGCTTCG
*
50060246 TGCTGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCTAGACTTAAG
1 TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCTAGACTTAAG
50060311 ATCCGCAGGCTTCG
66 ATCCGCAGGCTTCG
* *
50060325 TGCTGGTACTATATCC-GGACTTAA
1 TGCTGGAATTATATCCAGG-CTTAA
50060349 GGTCTGCAGG
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 4 0.04
79 91 0.96
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (79 bp):
TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCTAGACTTAAG
ATCCGCAGGCTTCG
Found at i:50072690 original size:28 final size:28
Alignment explanation
Indices: 50072621--50072721 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
50072611 GACAAGATTG
* * * *
50072621 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
50072651 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
50072679 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
50072708 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50072722 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:50072715 original size:29 final size:28
Alignment explanation
Indices: 50072650--50072721 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
50072640 AAAATTGTAC
*
50072650 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
50072678 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
50072707 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
50072722 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:50085075 original size:44 final size:44
Alignment explanation
Indices: 50085025--50085462 Score: 315
Period size: 44 Copynumber: 9.9 Consensus size: 44
50085015 GATGCCATAT
* * *
50085025 TATCTTCGATCTACTCTTTGACAATACAGAGACGCCAAATTTGC
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
* * * **
50085069 TATCTTCAATCTGCTC-CTTGAAAATACAGGGTTGCCAAATCTG-
1 TATCTTCGATCTGCTCTC-TGACAATACAGAGACGCCAAATCTGC
* * * * * * ** *
50085112 TTTCTTGGATTTGCTC-CTCGTCGAATACAAAGATGTGAAATCTAC
1 TATCTTCGATCTGCTCTCT-GAC-AATACAGAGACGCCAAATCTGC
* * * * *
50085157 TATC-TCTGATTTACTCTCTGACCATAAAGAGATGCCAAATCTGC
1 TATCTTC-GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
* * *
50085201 TAATC-TCGATCTACTCCCTGACAAATACAGAGACGCCAAATCTAC
1 T-ATCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTGC
* * *
50085246 AATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAA--T-C
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
* * * * *
50085287 -ATCTTAGATTTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCTGC
* * * *
50085331 TATGTCTTCGATCTGCTCCCTGACAATACAGGGTCGCCAAATTTGC
1 TA--TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
*
50085377 TATCTTCGATCTGCTCTCTGACAAATACAGAGACACCAAATCTGC
1 TATCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTGC
* *
50085422 TATCTTTGATCTGCTCTCTGACAATACAGAGACACCAAATC
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
50085463 ATCTTAGATT
Statistics
Matches: 311, Mismatches: 60, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 16 0.05
41 8 0.03
42 2 0.01
43 15 0.05
44 138 0.44
45 90 0.29
46 14 0.05
47 15 0.05
48 5 0.02
49 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGC
Found at i:50085356 original size:87 final size:86
Alignment explanation
Indices: 50085248--50085554 Score: 338
Period size: 87 Copynumber: 3.5 Consensus size: 86
50085238 AAATCTACAA
*
50085248 TCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
1 TCTTTGATCTGCTCCCTGACAATACAG-GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
50085313 CGTGAAAGCCAAATCTGCTATG
65 CGTGAAAGCCAAATCTGCTATG
* * * * *
50085335 TCTTCGATCTGCTCCCTGACAATACAGGGTCGCCAAATTTGCTATCTTCGATCTGCTCTCTGAC-
1 TCTTTGATCTGCTCCCTGACAATACAGGAT-GCCAAA--T-C-ATCTTAGATTTGCT-TCAG-CG
* * *
50085399 -AAATACAGAGACA-CCAAATCTGCTA--
59 TAAACAC-GTGAAAGCCAAATCTGCTATG
* **
50085424 TCTTTGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACA
1 TCTTTGATCTGCTCCCTGACAATACAG-GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
50085489 CGTGAAAGCCAAATCTGCTATG
65 CGTGAAAGCCAAATCTGCTATG
* *
50085511 TCTTTGATCTGCTCCTTGTAAACATA-AGGATGCCAAATCATCTT
1 TCTTTGATCTGCTCCCTG-ACA-ATACAGGATGCCAAATCATCTT
50085555 GGATCTACTT
Statistics
Matches: 179, Mismatches: 25, Indels: 32
0.76 0.11 0.14
Matches are distributed among these distances:
83 1 0.01
84 7 0.04
85 29 0.16
86 3 0.02
87 62 0.35
88 4 0.02
89 34 0.19
90 2 0.01
91 29 0.16
92 7 0.04
93 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (86 bp):
TCTTTGATCTGCTCCCTGACAATACAGGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
GTGAAAGCCAAATCTGCTATG
Found at i:50085418 original size:176 final size:176
Alignment explanation
Indices: 50085190--50085525 Score: 575
Period size: 176 Copynumber: 1.9 Consensus size: 176
50085180 ATAAAGAGAT
*
50085190 GCCAAATCTGCTAATCTCGATCTACTCCCTGACAAATACAGAGACGCCAAATCTACAATCTTTGA
1 GCCAAATCTGCTAATCTCGATCTACTCCCTGACAAATACAGAGACACCAAATCTACAATCTTTGA
**
50085255 TCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAA
66 TCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAA
50085320 GCCAAATCTGCTATGTCTTCGATCTGCTCCCTGACAATACAGGGTC
131 GCCAAATCTGCTATGTCTTCGATCTGCTCCCTGACAATACAGGGTC
* * * * *
50085366 GCCAAATTTGCT-ATCTTCGATCTGCTCTCTGACAAATACAGAGACACCAAATCTGCTATCTTTG
1 GCCAAATCTGCTAATC-TCGATCTACTCCCTGACAAATACAGAGACACCAAATCTACAATCTTTG
50085430 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAA
65 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAA
*
50085495 AGCCAAATCTGCTATGTCTTTGATCTGCTCC
130 AGCCAAATCTGCTATGTCTTCGATCTGCTCC
50085526 TTGTAAACAT
Statistics
Matches: 150, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 3 0.02
176 147 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (176 bp):
GCCAAATCTGCTAATCTCGATCTACTCCCTGACAAATACAGAGACACCAAATCTACAATCTTTGA
TCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAA
GCCAAATCTGCTATGTCTTCGATCTGCTCCCTGACAATACAGGGTC
Found at i:50085615 original size:176 final size:175
Alignment explanation
Indices: 50085190--50085563 Score: 517
Period size: 176 Copynumber: 2.1 Consensus size: 175
50085180 ATAAAGAGAT
*** * * *
50085190 GCCAAATCTGCTAATC-TCGATCTACTCCCTGACAAATACAGAGACGCCAAATCTACAATCTTTG
1 GCCAAAT-TGCT-ATCTTCGATCTACTATATGACAAATACAGAGACACCAAATCTGCTATCTTTG
**
50085254 ATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAA
64 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAA
* *
50085319 AGCCAAATCTGCTATGTCTTCGATCTGCTCCCTGACAATACAGGGTC
129 AGCCAAATCTGCTATGTCTTCGATCTGCTCCCTGAAAATACAGGATC
* * *
50085366 GCCAAATTTGCTATCTTCGATCTGCTCTCTGACAAATACAGAGACACCAAATCTGCTATCTTTGA
1 GCCAAA-TTGCTATCTTCGATCTACTATATGACAAATACAGAGACACCAAATCTGCTATCTTTGA
50085431 TCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAA
65 TCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAA
* *
50085496 GCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACATA-AGGAT-
130 GCCAAATCTGCTATGTCTTCGATCTGCTCCCTG-AAA-ATACAGGATC
*
50085542 GCCAAA-T-C-ATCTTGGATCTACT
1 GCCAAATTGCTATCTTCGATCTACT
50085564 TTAATATGGA
Statistics
Matches: 181, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
172 12 0.07
173 1 0.01
174 1 0.01
175 3 0.02
176 154 0.85
177 7 0.04
178 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (175 bp):
GCCAAATTGCTATCTTCGATCTACTATATGACAAATACAGAGACACCAAATCTGCTATCTTTGAT
CTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAG
CCAAATCTGCTATGTCTTCGATCTGCTCCCTGAAAATACAGGATC
Found at i:50099515 original size:50 final size:50
Alignment explanation
Indices: 50099390--50099685 Score: 243
Period size: 50 Copynumber: 5.9 Consensus size: 50
50099380 ATTGTAAGAA
* * * *** *
50099390 CACATGTATAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
50099442 CACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * ** * * * *
50099492 CGCATCTGTAGTACTAAGCGCAGGCTACTATGCGTACTTGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGT
* * * *
50099543 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTCAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
50099593 CACGTGTGTAGCACTAACTGCAGGCTACTACATGTACTAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * **
50099642 CGCATGTGTAGTACTAAATGCAGGCTACTATGCATACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
50099686 CTTTGATTAC
Statistics
Matches: 187, Mismatches: 56, Indels: 5
0.75 0.23 0.02
Matches are distributed among these distances:
49 37 0.20
50 78 0.42
51 37 0.20
52 35 0.19
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:50099574 original size:101 final size:101
Alignment explanation
Indices: 50099441--50099622 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 101
50099431 TGGTTTTAGG
* * * * *
50099441 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATCTGTAGTAC
1 TCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
50099506 TAAGC-GCAGGCTACTATGCGTACTTGACAACTTCGA
66 TAA-CTGCAGGCTACTATGCGTACTTGACAACTTCGA
* * * * *
50099542 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTCAGGTCACGTGTGTAGCAC
1 TCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
50099607 TAACTGCAGGCTACTA
66 TAACTGCAGGCTACTA
50099623 CATGTACTAG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 69 0.99
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (101 bp):
TCACATGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
TAACTGCAGGCTACTATGCGTACTTGACAACTTCGA
Found at i:50099630 original size:101 final size:99
Alignment explanation
Indices: 50099441--50099671 Score: 248
Period size: 101 Copynumber: 2.3 Consensus size: 99
50099431 TGGTTTTAGG
* * * * * *
50099441 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATCTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
** *
50099506 TAAGCGCAGGCTACTATGCGTACTTGACAACTTCGA
66 TAAGCGCAGGCTACTACACGTACTAGA-AACTT-GA
* * * *
50099542 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTCAGGTCACGTGTGTAGCAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
* *** *
50099607 TAA-CTGCAGGCTACTACATGTACTAGATTGTTGG
66 TAAGC-GCAGGCTACTACACGTACTAGAAACTTGA
* *
50099641 TCGCATGTGTAGTACTAAATGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
50099672 TGCATACCAG
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 30 0.28
100 3 0.03
101 76 0.70
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTCAGGTCACATCTGTAGCAC
TAAGCGCAGGCTACTACACGTACTAGAAACTTGA
Found at i:50099714 original size:150 final size:152
Alignment explanation
Indices: 50099398--50099717 Score: 376
Period size: 150 Copynumber: 2.1 Consensus size: 152
50099388 AACACATGTA
* * * * * *
50099398 TAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACAAAGTGC
1 TAGTAATATGTGCAGGCTACTACGTGTTCAAGATGG-TTCAGGTCACGTGTGTAGCACAAACTGC
* * *
50099463 AGGCTACTACGTGTACCAGATAGTTAGGTCGCATCTGTAGTACTAAGCGCAGGCTACTATGCGTA
65 AGGCTACTACATGTACCAGATAGTTAGGTCGCATCTGTAGTACTAAACGCAGGCTACTATGCATA
** * *
50099528 CTTGACAACTTCGATCACATGTG
130 CCAGACAACTTCGATCACAAGGG
* * *
50099551 TAGTACTAAGTGCAGGCTACTACGTGTATCAA-ATGG-TCAGGTCACGTGTGTAGCACTAACTGC
1 TAGTAATATGTGCAGGCTACTACGTGT-TCAAGATGGTTCAGGTCACGTGTGTAGCACAAACTGC
* * * *
50099614 AGGCTACTACATGTACTAGATTGTT-GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCATA
65 AGGCTACTACATGTACCAGATAGTTAGGTCGCATCTGTAGTACTAAACGCAGGCTACTATGCATA
* * * *
50099678 CCAGATAGCTTTGATTACAAGGG
130 CCAGACAACTTCGATCACAAGGG
*
50099701 TGGTAATATGTGCAGGC
1 TAGTAATATGTGCAGGC
50099718 AACTGTGTAT
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
150 64 0.45
151 45 0.32
153 29 0.21
154 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (152 bp):
TAGTAATATGTGCAGGCTACTACGTGTTCAAGATGGTTCAGGTCACGTGTGTAGCACAAACTGCA
GGCTACTACATGTACCAGATAGTTAGGTCGCATCTGTAGTACTAAACGCAGGCTACTATGCATAC
CAGACAACTTCGATCACAAGGG
Found at i:50114781 original size:120 final size:120
Alignment explanation
Indices: 50114568--50114810 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
50114558 TTTAGCCGAA
*
50114568 TATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC
1 TATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC
50114633 GAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGT
66 GAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGT
*
50114688 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC
1 TATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC
*
50114753 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGT
66 GAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGT
50114808 TAT
1 TAT
50114811 CATCCGAATA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (120 bp):
TATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC
GAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGT
Found at i:50114801 original size:40 final size:40
Alignment explanation
Indices: 50114549--50114794 Score: 406
Period size: 40 Copynumber: 6.2 Consensus size: 40
50114539 AACCCAAGTA
* * * *
50114549 CCTTCGGGATTTAG-CCGAATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50114588 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
50114628 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
50114668 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
50114708 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50114748 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50114788 CCTTCGG
1 CCTTCGG
50114795 ATCTTAGTCC
Statistics
Matches: 194, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.08
40 176 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:50116226 original size:13 final size:13
Alignment explanation
Indices: 50116210--50116237 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50116200 TTTATTATTT
50116210 TTAACACAAAATA
1 TTAACACAAAATA
50116223 TTAACACAAAATA
1 TTAACACAAAATA
50116236 TT
1 TT
50116238 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:50116864 original size:31 final size:31
Alignment explanation
Indices: 50116826--50116887 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
50116816 AATTTTGGTT
50116826 GGTTTTGAACTTAGGGACTAATATGAAAACA
1 GGTTTTGAACTTAGGGACTAATATGAAAACA
*
50116857 GGTTTTGAACTTAGGGACTAATCTGAAAACA
1 GGTTTTGAACTTAGGGACTAATATGAAAACA
50116888 AGTTAATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (31 bp):
GGTTTTGAACTTAGGGACTAATATGAAAACA
Found at i:50117534 original size:20 final size:20
Alignment explanation
Indices: 50117482--50117534 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
50117472 ACATTTGTGC
*
50117482 CTCTATTTGCACTTTGGAGT
1 CTCTATTTGCACTTTAGAGT
* * *
50117502 CTCTACTTACACTTTAGTGT
1 CTCTATTTGCACTTTAGAGT
*
50117522 CTCTGTTTGCACT
1 CTCTATTTGCACT
50117535 ACAATGCCTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (20 bp):
CTCTATTTGCACTTTAGAGT
Found at i:50122245 original size:42 final size:42
Alignment explanation
Indices: 50122198--50122306 Score: 128
Period size: 43 Copynumber: 2.6 Consensus size: 42
50122188 GATTACGTGT
* **
50122198 AAGACCATATCTGGGATATGGCATCGATATGAGACTTCATGG
1 AAGACCATATCTGGGATATGGCATCGATATAAGACCCCATGG
** * * *
50122240 AAGACCATAGGTGGGCTATTGGCTTCGATATAAGACCCCATGT
1 AAGACCATATCTGGGATA-TGGCATCGATATAAGACCCCATGG
*
50122283 AAGACCATATCTAGGATATGGCAT
1 AAGACCATATCTGGGATATGGCAT
50122307 TGGTATGGTG
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 20 0.38
43 33 0.62
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATCGATATAAGACCCCATGG
Found at i:50126517 original size:49 final size:49
Alignment explanation
Indices: 50126343--50126861 Score: 834
Period size: 49 Copynumber: 10.7 Consensus size: 49
50126333 CCCTTCGGGA
* * * * * *
50126343 CTTATCACAT-T-TATACACTTTAACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50126390 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50126437 CTTGTCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50126484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50126533 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATGAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50126582 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50126631 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50126680 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50126729 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50126778 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50126827 CTTATCACATATATATACACTTTCACATTCATCAC
1 CTTATCACATATATATACACTTTCACATTCATCAC
50126862 GTAAAATCTT
Statistics
Matches: 445, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 88 0.20
49 356 0.80
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50133186 original size:43 final size:42
Alignment explanation
Indices: 50133110--50133216 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 42
50133100 AGATTACGTA
* * *
50133110 TAAGACCATATCTAGGATATGGTATCGATATGAGA-CTTCATG
1 TAAGACTATATCTAGGATATGGCATCGATATGAGATC-CCATG
* *
50133152 TAAGACTATACCTAGGCTATTGGCATCGATATGAGATCCCATG
1 TAAGACTATATCTAGGATA-TGGCATCGATATGAGATCCCATG
*
50133195 TAACACTATATCTAGGATATGG
1 TAAGACTATATCTAGGATATGG
50133217 AATTGGTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 19 0.35
43 35 0.64
44 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGACTATATCTAGGATATGGCATCGATATGAGATCCCATG
Found at i:50135482 original size:31 final size:31
Alignment explanation
Indices: 50135440--50135500 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
50135430 CCGTGTGTTT
*
50135440 CACACGACCAAAGACACGTCGGTGTCACAGA
1 CACACGACCAAAGACACGCCGGTGTCACAGA
*
50135471 CACACGGCCAAAGACACGCCGGTGTCACAG
1 CACACGACCAAAGACACGCCGGTGTCACAG
50135501 GCCGTGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.34, G:0.25, T:0.08
Consensus pattern (31 bp):
CACACGACCAAAGACACGCCGGTGTCACAGA
Found at i:50137989 original size:93 final size:93
Alignment explanation
Indices: 50137877--50138048 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50137867 GCCCATAAGT
* *
50137877 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50137942 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50137970 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50138035 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50138049 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50138044 original size:46 final size:46
Alignment explanation
Indices: 50137869--50138044 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50137859 TGTAACCCGC
* * *
50137869 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50137915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50137965 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50138008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50138045 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:50140413 original size:12 final size:12
Alignment explanation
Indices: 50140396--50140420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50140386 TTATTATGCA
50140396 AGTATTGTTATT
1 AGTATTGTTATT
50140408 AGTATTGTTATT
1 AGTATTGTTATT
50140420 A
1 A
50140421 TTGATTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (12 bp):
AGTATTGTTATT
Found at i:50140703 original size:47 final size:44
Alignment explanation
Indices: 50140581--50140695 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 44
50140571 GGAATTGACG
* *
50140581 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
1 GTTAAGGAT-CCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** * *
50140626 GGCAAGGATTCCGTGTAAGACCATGTCAAGACATGGCATCGGCATT
1 GTTAAGGA-TCCATGTAAGACCATGTCAAGACATGGCATCGGCA-A
50140672 GATTAAGGACTCCATGTAAGACCA
1 G-TTAAGGA-TCCATGTAAGACCA
50140696 CATCAAGATG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
45 37 0.65
46 2 0.04
47 18 0.32
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (44 bp):
GTTAAGGATCCATGTAAGACCATGTCAAGACATGGCATCGGCAA
Found at i:50140778 original size:47 final size:47
Alignment explanation
Indices: 50140718--50140839 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
50140708 GCATTGGCAC
* *
50140718 TAAGACAAGGATACCCTGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
50140765 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * ** *
50140812 TAAGATAAGGATATTATGCAAGACCATG
1 TAAGACAAAGATACCATGTAAGACCATG
50140840 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:50140889 original size:54 final size:54
Alignment explanation
Indices: 50140831--50141065 Score: 204
Period size: 54 Copynumber: 4.5 Consensus size: 54
50140821 GATATTATGC
*
50140831 AAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGAAAGGAAATCATGT
1 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGT
*** * *
50140885 AAGACCATG-TTTGGAACATGGCATT--T--G----GTAA-GATAAGGATATCATGT
1 AAGACCATGCCAAGG--CATGGCATTGATAAGTTCTATAAGGA-AAGGAAATCATGT
* * *
50140932 AAGACCTTGCCAAGGGATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGT
1 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGT
* * * * ***
50140986 AAGACAATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGG-TCCCATGT
1 AAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-AAAGGAAATCATGT
50141041 AAGACCATGCCAAGGCATGGCATTG
1 AAGACCATGCCAAGGCATGGCATTG
50141066 GTGTGTAACA
Statistics
Matches: 139, Mismatches: 27, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
46 10 0.07
47 23 0.17
48 3 0.02
50 1 0.01
51 1 0.01
53 3 0.02
54 50 0.36
55 44 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGT
Found at i:50140900 original size:101 final size:101
Alignment explanation
Indices: 50140779--50140995 Score: 371
Period size: 101 Copynumber: 2.1 Consensus size: 101
50140769 ACAAAGATAC
*
50140779 CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATTATGCAAGACCATGCCAA
1 CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGCAAGACCATGCCAA
50140844 GGCATGGAATTGATAAGTTCTATAAGGAAAGGAAAT
66 GGCATGGAATTGATAAGTTCTATAAGGAAAGGAAAT
* *
50140880 CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCTTGCCAA
1 CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGCAAGACCATGCCAA
* * *
50140945 GGGATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
66 GGCATGGAATTGATAAGTTCTATAAGGAAAGGAAAT
*
50140981 CATGTAAGACAATGT
1 CATGTAAGACCATGT
50140996 CAAGACATGG
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 109 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (101 bp):
CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGCAAGACCATGCCAA
GGCATGGAATTGATAAGTTCTATAAGGAAAGGAAAT
Found at i:50142023 original size:44 final size:44
Alignment explanation
Indices: 50141886--50142037 Score: 227
Period size: 44 Copynumber: 3.5 Consensus size: 44
50141876 TCAGCATTTC
* *
50141886 GCCTGCTAGGCTCGAA-GCCCGATATCATTTCACCAGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
* * *
50141929 GCCTGCTAGGCTCGAAGGCCCGACTAGT-ATCTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGA-TA-TCATTTCACCGGCATTATA
50141974 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
50142018 GCCTGCTAGGCTCAAAGGCC
1 GCCTGCTAGGCTCAAAGGCC
50142038 TGATTAGTAA
Statistics
Matches: 99, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
43 17 0.17
44 43 0.43
45 38 0.38
46 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
Found at i:50146495 original size:33 final size:33
Alignment explanation
Indices: 50146397--50146495 Score: 189
Period size: 33 Copynumber: 3.0 Consensus size: 33
50146387 GTTTTTGATG
*
50146397 ATTTCTATGTTTTTATGATCCTTGCTTCATGTC
1 ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
50146430 ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
1 ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
50146463 ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
1 ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
50146496 CTAGCTAGCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.15, C:0.16, G:0.12, T:0.57
Consensus pattern (33 bp):
ATTTCTATGTTTTTATGATCCTTGCTTCATGTT
Found at i:50147275 original size:43 final size:43
Alignment explanation
Indices: 50147180--50147281 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
50147170 TATGAGATGT
* * * * *
50147180 GATTACATGTAAGACCATGTCTGGGACATTGGCTTTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATCA
*
50147223 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATCA
*
50147267 -ATTTCGTGTAAGACC
1 GATTACGTGTAAGACC
50147282 CTATACGGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATCA
Found at i:50149973 original size:30 final size:30
Alignment explanation
Indices: 50149937--50150096 Score: 204
Period size: 29 Copynumber: 5.5 Consensus size: 30
50149927 GACAAGATTG
* * * * *
50149937 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
50149967 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
50149995 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
50150024 GCACTAAGTGTGCGAGCTAAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50150054 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50150083 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50150097 GATTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.40
30 44 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:50150065 original size:59 final size:57
Alignment explanation
Indices: 50149937--50150096 Score: 212
Period size: 59 Copynumber: 2.8 Consensus size: 57
50149927 GACAAGATTG
* * * * * ***
50149937 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTAAAATTATACA
*
50149995 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTAAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-T-AAAATTATACA
50150054 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
50150097 GATTCACTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
57 20 0.22
58 21 0.23
59 50 0.55
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTAAAATTATACA
Found at i:50152647 original size:2 final size:2
Alignment explanation
Indices: 50152640--50152665 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50152630 ACATTCGGAC
50152640 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
50152666 GCATGTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50153154 original size:29 final size:29
Alignment explanation
Indices: 50153119--50153192 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
50153109 GTTGTGAGAT
* *
50153119 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50153148 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
50153177 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50153193 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50160931 original size:29 final size:29
Alignment explanation
Indices: 50160896--50160969 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
50160886 GTTGTGAGAT
* *
50160896 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50160925 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
50160954 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50160970 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50166543 original size:30 final size:30
Alignment explanation
Indices: 50166507--50166607 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
50166497 GACAAGATTG
* * *
50166507 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50166537 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
50166565 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
50166594 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50166608 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:50166619 original size:29 final size:28
Alignment explanation
Indices: 50166536--50166611 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
50166526 AAAATTGTAC
* *
50166536 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
50166564 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
50166593 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
50166612 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:50170610 original size:26 final size:26
Alignment explanation
Indices: 50170580--50170716 Score: 159
Period size: 27 Copynumber: 5.2 Consensus size: 26
50170570 AGCATGGCTG
* *
50170580 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
50170606 CCAGAATAGATAATCGTGGCA-AGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
50170632 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
50170659 CTAGATCAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
50170686 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
50170713 CCAG
1 CCAG
50170717 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 35 0.35
27 64 0.65
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50172144 original size:24 final size:24
Alignment explanation
Indices: 50172106--50172206 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
50172096 CCAACACTGT
* *
50172106 TCTCCCTAATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
50172130 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
50172154 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
*
50172178 TCTCCCTTATCAGCTTCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
50172202 TCTCC
1 TCTCC
50172207 TAACAGACTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:50180980 original size:47 final size:48
Alignment explanation
Indices: 50180881--50181180 Score: 432
Period size: 47 Copynumber: 6.3 Consensus size: 48
50180871 GTATGAGATA
50180881 TATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
50180929 TATATATGTGATAAGGCCT-ATGGCCGATGTGA-GAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
*
50180976 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
50181025 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* *
50181072 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * * *
50181119 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
50181166 TATAAATGTGATAAG
1 TATATATGTGATAAG
50181181 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 11, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
47 133 0.56
48 38 0.16
49 66 0.28
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:50181073 original size:96 final size:95
Alignment explanation
Indices: 50180881--50181180 Score: 439
Period size: 96 Copynumber: 3.2 Consensus size: 95
50180871 GTATGAGATA
50180881 TATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATATGTGATAAGG
50180945 CCT-ATGGCCGATGTGA-GAATGTGAAAGTGTG
65 CCTAATGGCCGATGTGATGAATGTG-AAG-GTG
50180976 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATATGTGATAAGG
50181041 CCTAATGGCCGATGTGATGAATGTGAAGGTG
65 CCTAATGGCCGATGTGATGAATGTGAAGGTG
* * *
50181072 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATATATGTGATAGGGC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGC
* * * * *
50181136 CGAGTGGCCAACGTGATGGATGTGGAA-GTG
66 CTAATGGCCGATGTGATGAATGT-GAAGGTG
*
50181166 TATAAATGTGATAAG
1 TATATATGTGATAAG
50181181 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
94 51 0.27
95 10 0.05
96 107 0.56
97 16 0.08
98 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (95 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAGGTG
Found at i:50185270 original size:25 final size:25
Alignment explanation
Indices: 50185241--50185288 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50185231 CTATAACATG
* * *
50185241 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50185266 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50185289 GTTTATGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50185379 original size:9 final size:9
Alignment explanation
Indices: 50185329--50185381 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
50185319 ATAAACATGG
50185329 TATGTATGA
1 TATGTATGA
50185338 TATGCTCATGA
1 TATG-T-ATGA
*
50185349 CATGTATGA
1 TATGTATGA
*
50185358 TATGCACATGA
1 TATG--TATGA
50185369 TATGTATGA
1 TATGTATGA
50185378 TATG
1 TATG
50185382 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:50185389 original size:20 final size:20
Alignment explanation
Indices: 50185323--50185389 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
50185313 ATTTTGATAA
*
50185323 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
50185343 TCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50185363 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50185383 ACATGAT
1 ACATGAT
50185390 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50185467 original size:22 final size:23
Alignment explanation
Indices: 50185439--50185592 Score: 214
Period size: 22 Copynumber: 7.0 Consensus size: 23
50185429 AGGAAGTGAA
50185439 AAAGGGCTTATGCCCCAGTTAT-
1 AAAGGGCTTATGCCCCAGTTATC
50185461 AAAGGGCTTATG-CCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATC
50185483 AAA--GCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATC
*
50185504 AAA-AGCTTATGCCCCAGTTAT-
1 AAAGGGCTTATGCCCCAGTTATC
*
50185525 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATC
*
50185548 AAA-GGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTA-TC
*
50185571 AAAGGGCTTTTGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
50185593 TAAAAGAGGC
Statistics
Matches: 122, Mismatches: 3, Indels: 13
0.88 0.02 0.09
Matches are distributed among these distances:
20 7 0.06
21 25 0.20
22 66 0.54
23 8 0.07
24 16 0.13
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATC
Found at i:50185518 original size:64 final size:67
Alignment explanation
Indices: 50185438--50185592 Score: 244
Period size: 64 Copynumber: 2.3 Consensus size: 67
50185428 GAGGAAGTGA
50185438 AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATG-CCCAGTTATCAAA-GCTTATGCCCCAGTT
1 AAAA-GGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAGGCTTATGCCCCAGTT
50185501 ATC
65 ATC
*
50185504 AAAA-GCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATTAAAGGCTTATGCCCCAGTTA
1 AAAAGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAGGCTTATGCCCCAGTTA
*
50185568 TT
66 TC
*
50185570 AAAAGGGCTTTTGCCCCAGTTAT
1 AAAA-GGCTTATGCCCCAGTTAT
50185593 TAAAAGAGGC
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
64 29 0.35
65 12 0.15
66 25 0.30
68 16 0.20
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (67 bp):
AAAAGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAGGCTTATGCCCCAGTTA
TC
Found at i:50185613 original size:25 final size:24
Alignment explanation
Indices: 50185438--50185613 Score: 153
Period size: 22 Copynumber: 7.8 Consensus size: 24
50185428 GAGGAAGTGA
*
50185438 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTAGGCCCCAGTTATT
*
50185461 -AAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTAGGCCCCAGTTATT
* * *
50185482 CAAA--GCTTATGCCCCAGTTATC
1 AAAAGGGCTTAGGCCCCAGTTATT
*
50185504 AAAA--GCTTATGCCCCAGTTA-T
1 AAAAGGGCTTAGGCCCCAGTTATT
*
50185525 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
50185548 -AAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
**
50185570 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
50185594 AAAAGAGGC-TAGGCCTCCAG
1 AAAAG-GGCTTAGGCC-CCAG
50185614 ATATATGATA
Statistics
Matches: 137, Mismatches: 6, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.07
21 17 0.12
22 69 0.50
23 7 0.05
24 27 0.20
25 7 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:50185844 original size:30 final size:28
Alignment explanation
Indices: 50185808--50185868 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
50185798 CGTTTACAGT
50185808 AAAGGCTTC-GCCCAAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAAGT--TATG-AATATG
*
50185838 AAAGGCTTCGGCCCATGTTATGAATATG
1 AAAGGCTTCGGCCCAAGTTATGAATATG
50185866 AAA
1 AAA
50185869 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 9 0.31
29 4 0.14
30 9 0.31
31 7 0.24
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (28 bp):
AAAGGCTTCGGCCCAAGTTATGAATATG
Found at i:50193450 original size:9 final size:9
Alignment explanation
Indices: 50193400--50193452 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
50193390 ATAAACATGG
50193400 TATGTATGA
1 TATGTATGA
50193409 TATGCTCATGA
1 TATG-T-ATGA
*
50193420 CATGTATGA
1 TATGTATGA
*
50193429 TATGCACATGA
1 TATG--TATGA
50193440 TATGTATGA
1 TATGTATGA
50193449 TATG
1 TATG
50193453 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:50193460 original size:20 final size:20
Alignment explanation
Indices: 50193394--50193460 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
50193384 ATTTTGATAA
*
50193394 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
50193414 TCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50193434 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50193454 ACATGAT
1 ACATGAT
50193461 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50193578 original size:47 final size:46
Alignment explanation
Indices: 50193509--50193659 Score: 230
Period size: 47 Copynumber: 3.2 Consensus size: 46
50193499 GAGGAAGTGA
50193509 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
50193555 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
50193603 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
*
50193651 AAAAAGGCT
1 AAAAGGGCT
50193660 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
47 65 0.68
48 30 0.32
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:50193625 original size:71 final size:71
Alignment explanation
Indices: 50193509--50193659 Score: 266
Period size: 71 Copynumber: 2.1 Consensus size: 71
50193499 GAGGAAGTGA
50193509 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
50193574 GTTATC
66 GTTATC
* *
50193580 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
50193645 GTTATT
66 GTTATC
*
50193651 AAAAAGGCT
1 AAAAGGGCT
50193660 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:50193669 original size:24 final size:24
Alignment explanation
Indices: 50193509--50193659 Score: 252
Period size: 24 Copynumber: 6.4 Consensus size: 24
50193499 GAGGAAGTGA
50193509 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50193533 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
50193556 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
50193580 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50193604 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50193627 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50193651 AAAAAGGCT
1 AAAAGGGCT
50193660 AGGCCTCCAG
Statistics
Matches: 121, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 45 0.37
24 76 0.63
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50193903 original size:31 final size:31
Alignment explanation
Indices: 50193865--50193928 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
50193855 CGTTTACAGT
*
50193865 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
* ** *
50193896 AAAGGCTTCGGCCCAATGTTATGAATTATGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
50193927 AA
1 AA
50193929 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATAATATGAAATATGA
Found at i:50196455 original size:236 final size:237
Alignment explanation
Indices: 50196039--50196513 Score: 907
Period size: 236 Copynumber: 2.0 Consensus size: 237
50196029 CTACAGCTCC
50196039 CCGAATGCCATTTGCCACAATGCAGACACTCCGCTCTCTCCCGGCGATCATTTCCACCACCGGCG
1 CCGAATGCCATTTGCCACAATGCAGACACTCCGCTCTCTCCCGGCGATCATTTCCACCACCGGCG
50196104 ATCGAAGTGACTCGTGTCGTCACAGGGGGTCGATCGCGGTCTCGTCTAGAAAAGCCCGAAGCGCC
66 ATCGAAGTGACTCGTGTCGTCACAGGGGGTCGATCGCGGTCTCGTCTAGAAAAGCCCGAAGCGCC
50196169 TCTAGACCGGCTCACATCATCTCGAAATCTCTTCGATGCCTGTCGAAGAGACTTTCCCGAGGACC
131 TCTAGACCGGCTCACATCATCTCGAAATCTCTTCGATGCCTGTCGAAGAGACTTTCCCGAGGACC
50196234 T-TTTCGAAATTCTCCAGTTCCCACATCAACTTTTTGTTTCT
196 TCTTTCGAAATTCTCCAGTTCCCACATCAACTTTTTGTTTCT
50196275 CCGAATGCCATTTGCCACAATGCAGACACTCCGCTCTCTCCCGGCGATCATTTCCACCACCGGCG
1 CCGAATGCCATTTGCCACAATGCAGACACTCCGCTCTCTCCCGGCGATCATTTCCACCACCGGCG
*
50196340 ATCGAAGTGACTCGTGTGGTCACAGGGGGTCGATCGCGGTCTCGTCTAGAAAAGCCCGAAGCGCC
66 ATCGAAGTGACTCGTGTCGTCACAGGGGGTCGATCGCGGTCTCGTCTAGAAAAGCCCGAAGCGCC
*
50196405 TCTAGACCGGCTCACATCATCTCGAAATCTCTTCGATGCCTGTTGAAGAGACTTTCCCGAGGACC
131 TCTAGACCGGCTCACATCATCTCGAAATCTCTTCGATGCCTGTCGAAGAGACTTTCCCGAGGACC
* *
50196470 TCTTTCGGAATTCTCCAGTTCCCACATCAGCTTTTTGTTTCT
196 TCTTTCGAAATTCTCCAGTTCCCACATCAACTTTTTGTTTCT
50196512 CC
1 CC
50196514 TTTCTAAGCT
Statistics
Matches: 234, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
236 194 0.83
237 40 0.17
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (237 bp):
CCGAATGCCATTTGCCACAATGCAGACACTCCGCTCTCTCCCGGCGATCATTTCCACCACCGGCG
ATCGAAGTGACTCGTGTCGTCACAGGGGGTCGATCGCGGTCTCGTCTAGAAAAGCCCGAAGCGCC
TCTAGACCGGCTCACATCATCTCGAAATCTCTTCGATGCCTGTCGAAGAGACTTTCCCGAGGACC
TCTTTCGAAATTCTCCAGTTCCCACATCAACTTTTTGTTTCT
Found at i:50198943 original size:39 final size:39
Alignment explanation
Indices: 50198864--50199024 Score: 250
Period size: 39 Copynumber: 4.1 Consensus size: 39
50198854 TGGTAACCCA
* *
50198864 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCG
* *
50198904 CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
* *
50198943 CACCATTGCCTTCGAGCTTAGCCCGGATATCACAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
*
50198982 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
50199021 CACA
1 CACA
50199025 TTCATACACA
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.86
40 15 0.14
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
Found at i:50209410 original size:19 final size:19
Alignment explanation
Indices: 50209382--50209418 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50209372 TGAAAGAAAT
50209382 TTCTTCTGGTAAGATTTTC
1 TTCTTCTGGTAAGATTTTC
*
50209401 TTCTTTTGGTAAGATTTT
1 TTCTTCTGGTAAGATTTT
50209419 TGGGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.57
Consensus pattern (19 bp):
TTCTTCTGGTAAGATTTTC
Found at i:50215114 original size:13 final size:14
Alignment explanation
Indices: 50215086--50215117 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
50215076 TCTTTCCTTA
50215086 CATAATGGGAATAT
1 CATAATGGGAATAT
50215100 CATAATGGG-ATAT
1 CATAATGGGAATAT
50215113 CATAA
1 CATAA
50215118 ACTTTCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (14 bp):
CATAATGGGAATAT
Found at i:50219864 original size:406 final size:406
Alignment explanation
Indices: 50219112--50219919 Score: 1544
Period size: 406 Copynumber: 2.0 Consensus size: 406
50219102 ACCAATGTTT
*
50219112 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAATATACCTGCATCAGTAACCATCTGCCATA
1 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
50219177 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAATAATACTTTTTAGGCAGGAA
66 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAATAATACTTTTTAGGCAGGAA
50219242 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
131 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
* *
50219307 GATGGCTGAGTTTTGTTCCAATTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGATTC
196 GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
50219372 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
261 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
50219437 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
326 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
50219502 TGGATGCCTAAAGTTG
391 TGGATGCCTAAAGTTG
*
50219518 ATACAGTTGCCGAAAACCCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
1 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
*
50219583 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
66 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAATAATACTTTTTAGGCAGGAA
50219648 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
131 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
*
50219713 GATTGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
196 GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
*
50219778 CTAAGAAATCTTGACTCGTCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
261 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
*
50219843 ACAATCCAGGTGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
326 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
50219908 TGGATGCCTAAA
391 TGGATGCCTAAA
50219920 CCATATCAGG
Statistics
Matches: 394, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
406 394 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (406 bp):
ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAATAATACTTTTTAGGCAGGAA
TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
TGGATGCCTAAAGTTG
Found at i:50220234 original size:15 final size:15
Alignment explanation
Indices: 50220214--50220254 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
50220204 AAGAAATCAT
50220214 CTTGCACTTATTTTC
1 CTTGCACTTATTTTC
50220229 CTTGCACTTATTTTC
1 CTTGCACTTATTTTC
50220244 CTTGCA-TTATT
1 CTTGCACTTATT
50220255 ATTTGTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.15, C:0.24, G:0.07, T:0.54
Consensus pattern (15 bp):
CTTGCACTTATTTTC
Found at i:50221854 original size:2 final size:2
Alignment explanation
Indices: 50221847--50221871 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50221837 ATCATAAAGC
50221847 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50221872 AAGTCAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50225792 original size:5 final size:5
Alignment explanation
Indices: 50225772--50225822 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
50225762 ATATATACAT
*
50225772 ATATC ATAT- GTA-C ATATC ATATC ATATC ATATC ATATC ATATC ATAT-
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
50225819 ATAT
1 ATAT
50225823 TGTATATCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
4 8 0.19
5 34 0.81
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:50229330 original size:32 final size:32
Alignment explanation
Indices: 50229289--50229350 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
50229279 CATCTATTTT
50229289 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
50229321 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
50229351 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:50231082 original size:18 final size:18
Alignment explanation
Indices: 50231059--50231093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50231049 TATTTAATAT
* *
50231059 TTAAATTTTTAATTTTAA
1 TTAAATATTAAATTTTAA
50231077 TTAAATATTAAATTTTA
1 TTAAATATTAAATTTTA
50231094 TTATTATTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATATTAAATTTTAA
Found at i:50231186 original size:19 final size:19
Alignment explanation
Indices: 50231147--50231200 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
50231137 TAATATTCTA
50231147 AAATAAAAA-ATA-AAA-T
1 AAATAAAAATATATAAATT
50231163 AAATAAAAATATATAAATT
1 AAATAAAAATATATAAATT
* **
50231182 TAATATTAATATATAAATT
1 AAATAAAAATATATAAATT
50231201 GCATAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.28
17 3 0.09
18 3 0.09
19 17 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAAAATATATAAATT
Found at i:50240795 original size:24 final size:24
Alignment explanation
Indices: 50240763--50240863 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
50240753 AAGTCTGTCA
50240763 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
50240787 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
50240811 GGAGAGGATTTGGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
50240835 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
50240859 GGAGA
1 GGAGA
50240864 ACAGTGTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.32, C:0.03, G:0.44, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:50241985 original size:27 final size:27
Alignment explanation
Indices: 50241948--50242050 Score: 147
Period size: 27 Copynumber: 3.8 Consensus size: 27
50241938 AAGCATCTTG
*
50241948 GTGGCTATGCCACA-ATTATCTGATCTA
1 GTGGCTCTGCCACATA-TATCTGATCTA
50241975 GTGGCTCTGCCACATATATCTGATCTA
1 GTGGCTCTGCCACATATATCTGATCTA
* *
50242002 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTA
50242029 GTGGCTCTGCCACGAT-TATCTG
1 GTGGCTCTGCCAC-ATATATCTG
50242051 TTCTGGCAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACATATATCTGATCTA
Found at i:50244029 original size:25 final size:25
Alignment explanation
Indices: 50244001--50244079 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
50243991 ACTCGGCCCT
*
50244001 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** *
50244026 ATCACAT-T-GGC-CATTCGACCTT-
1 ATCACATATATACACATTC-ACATTC
*
50244048 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
50244073 ATCACAT
1 ATCACAT
50244080 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:50244125 original size:49 final size:49
Alignment explanation
Indices: 50243951--50244255 Score: 424
Period size: 49 Copynumber: 6.3 Consensus size: 49
50243941 CCCTTCGGGA
* * * * * *
50243951 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
50243998 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244045 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244092 CTTATCACATATATATACACTTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50244141 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244190 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50244239 CTTATCACATATATATA
1 CTTATCACATATATATA
50244256 TCTCATACAT
Statistics
Matches: 234, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 88 0.38
49 145 0.62
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50249269 original size:17 final size:18
Alignment explanation
Indices: 50249227--50249275 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
50249217 AGTTGAAAAG
50249227 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
50249246 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
50249263 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
50249276 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:50250164 original size:40 final size:40
Alignment explanation
Indices: 50250098--50250264 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
50250088 AAATTGAATG
* * *
50250098 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
50250137 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50250177 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50250217 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50250257 ATATCCGG
1 ATATCCGG
50250265 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.