Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 234 of 343
Found at i:76988855 original size:20 final size:20
Alignment explanation
Indices: 76988830--76988885 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
76988820 ATTGGGCCTT
*
76988830 GCCCATATT-AAAATAGTTGG
1 GCCCATATTCAAAACAGTT-G
76988850 GCCCAT-TTCAAAACAGTTG
1 GCCCATATTCAAAACAGTTG
*
76988869 GCCCATA-ACAAAACAGT
1 GCCCATATTCAAAACAGT
76988886 CTCATATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (20 bp):
GCCCATATTCAAAACAGTTG
Found at i:76993641 original size:28 final size:27
Alignment explanation
Indices: 76993608--76993702 Score: 77
Period size: 33 Copynumber: 3.3 Consensus size: 27
76993598 TCAATGTTTA
76993608 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAATATTAAT
*
76993636 CTGGGCCATAGTGCCTTACAATATC-ATAGTATAT
1 CTGGGCC-TA--GCC---C-ATATCAATATTA-AT
*
76993670 -TGGGCCTAGCCCATATCAGTATTAAT
1 CTGGGCCTAGCCCATATCAATATTAAT
76993696 CTGGGCC
1 CTGGGCC
76993703 GTTGCCCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
26 7 0.13
27 11 0.20
28 9 0.17
30 6 0.11
32 2 0.04
33 12 0.22
34 7 0.13
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAATATTAAT
Found at i:76993729 original size:60 final size:59
Alignment explanation
Indices: 76993609--76993745 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
76993599 CAATGTTTAC
*
76993609 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGTGCCTTACAATATCATAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATCTGGGCCATA-TGCCTTACAATATCAGAGTATAT
* * *
76993670 TGGGCCTAGCCCATATCAGTATTAATCTGGGCCGT-TGCCCTATTACAA-GTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTGGGCCATATG-CC--TTACAATATCAGAG-TATAT
*
76993730 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
76993746 TAAAATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
58 2 0.03
59 4 0.06
60 49 0.73
61 12 0.18
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATTAATCTGGGCCATATGCCTTACAATATCAGAGTATAT
Found at i:76993763 original size:20 final size:20
Alignment explanation
Indices: 76993738--76993793 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
76993728 ATTGGGCCTT
*
76993738 GCCCATATT-AAAATAGTTGG
1 GCCCATATTCAAAACAGTT-G
76993758 GCCCAT-TTCAAAACAGTTG
1 GCCCATATTCAAAACAGTTG
*
76993777 GCCCATA-ACAAAACAGT
1 GCCCATATTCAAAACAGT
76993794 CTCATATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (20 bp):
GCCCATATTCAAAACAGTTG
Found at i:76996425 original size:21 final size:21
Alignment explanation
Indices: 76996401--76996442 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
76996391 TTGCTCAAGG
76996401 AAAGCCGATCGATCCATTTCA
1 AAAGCCGATCGATCCATTTCA
*
76996422 AAAGCTGATCGATCCATTTCA
1 AAAGCCGATCGATCCATTTCA
76996443 GAAGTCGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (21 bp):
AAAGCCGATCGATCCATTTCA
Found at i:76999064 original size:23 final size:22
Alignment explanation
Indices: 76999022--76999101 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 22
76999012 TGAGCTGATG
*
76999022 AACAGTAAGCTC-TATTGAGCAAA
1 AACAGTAAGCTCATA-CGAGC-AA
* **
76999045 AACGGTAAGCTCATACGAGCTG
1 AACAGTAAGCTCATACGAGCAA
*
76999067 AACAGTAAGCTCATACGAGCTGA
1 AACAGTAAGCTCATACGAGC-AA
76999090 AACAGTAAGCTC
1 AACAGTAAGCTC
76999102 CAATGAGCTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 19 0.40
23 27 0.56
24 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
AACAGTAAGCTCATACGAGCAA
Found at i:76999098 original size:45 final size:45
Alignment explanation
Indices: 76999020--76999160 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
76999010 CATGAGCTGA
** *
76999020 TGAACAGTAAGCTC-TATTGAGCAAAAACGGTAAGCTCATACGAGC
1 TGAACAGTAAGCTCATA-TGAGCTGAAACAGTAAGCTCATACGAGC
* *
76999065 TGAACAGTAAGCTCATACGAGCTGAAACAGTAAGCTCCA-ATGAGC
1 TGAACAGTAAGCTCATATGAGCTGAAACAGTAAGCT-CATACGAGC
* * **
76999110 TGAAAATAGTAAGCTCCA-ATGAGCTGAAAATAGTAAGCTTTTACGAGC
1 TG--AACAGTAAGCT-CATATGAGCTG-AAACAGTAAGCTCATACGAGC
76999158 TGA
1 TGA
76999161 TATACCGGTA
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
45 36 0.46
46 5 0.06
47 17 0.22
48 20 0.26
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.21
Consensus pattern (45 bp):
TGAACAGTAAGCTCATATGAGCTGAAACAGTAAGCTCATACGAGC
Found at i:76999157 original size:24 final size:24
Alignment explanation
Indices: 76999013--76999182 Score: 129
Period size: 24 Copynumber: 7.1 Consensus size: 24
76999003 AGCTCCTCAT
* *
76999013 GAGCTGATGAACAGTAAGCTC-TATT
1 GAGCTGA-AAACAGTAAGCTCATA-C
* *
76999038 GAGC-AAAAACGGTAAGCTCATAC
1 GAGCTGAAAACAGTAAGCTCATAC
76999061 GAGCTG--AACAGTAAGCTCATAC
1 GAGCTGAAAACAGTAAGCTCATAC
*
76999083 GAGCTG-AAACAGTAAGCTCCA-AT
1 GAGCTGAAAACAGTAAGCT-CATAC
* *
76999106 GAGCTGAAAATAGTAAGCTCCA-AT
1 GAGCTGAAAACAGTAAGCT-CATAC
* **
76999130 GAGCTGAAAATAGTAAGCTTTTAC
1 GAGCTGAAAACAGTAAGCTCATAC
* *
76999154 GAGCTGATATACCGGTAAGCTCATAC
1 GAGCTGA-A-AACAGTAAGCTCATAC
76999180 GAG
1 GAG
76999183 TTATGGTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
22 21 0.17
23 33 0.27
24 48 0.40
25 5 0.04
26 14 0.12
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCATAC
Found at i:77003383 original size:40 final size:40
Alignment explanation
Indices: 77003316--77003556 Score: 222
Period size: 40 Copynumber: 6.0 Consensus size: 40
77003306 CGGAATTTAA
** *
77003316 CCGGATATAGCT-ACTCGCTTAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
77003356 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
77003396 TCGGATTTAGTAATTCGCACAAATGCCTTTGGGACGT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
77003435 CCGGATATAGTAACTTGCACAAAGGCCTTCGGGACTTACC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
77003475 CCGGGATATAGTAGCTCGCACGAATGCC-TCAGGGACTTAGC
1 CC-GGATATAGTAACTCGCACAAATGCCTTC-GGGACTTAGC
** * *
77003516 CCGGA-ATTAGCCACTAGCTCAAATGCTCTT-GGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGC-CTTCGGGACTTAGC
77003556 C
1 C
77003557 TGGTTATCAT
Statistics
Matches: 161, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
39 34 0.21
40 93 0.58
41 33 0.20
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:77015911 original size:43 final size:43
Alignment explanation
Indices: 77015863--77016059 Score: 333
Period size: 43 Copynumber: 4.6 Consensus size: 43
77015853 CGGCTTTACA
* *
77015863 CCTGCTAGGCACGAAGGCCCGAATACACTTCACTGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAAG
77015906 CCTGCTAGGCACGAAGGCCCGAATACACATCA-TCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACTAAG
* *
77015949 CCTGCTAGGCATGAAGGCACGAATACACATCACTGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAAG
*
77015992 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAAG
77016035 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
77016060 TAATACCAGC
Statistics
Matches: 145, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
42 1 0.01
43 143 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAAG
Found at i:77027024 original size:29 final size:29
Alignment explanation
Indices: 77026928--77027027 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
77026918 TACTTGTATC
* * * *
77026928 TGGCCTATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
77026956 TGGCCCATTAAGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
77026985 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
77027014 TGGCCCGTTAGGCC
1 TGGCCCATTAGGCC
77027028 TAGCCACATT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 14 0.23
29 48 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:77027265 original size:8 final size:8
Alignment explanation
Indices: 77027252--77027295 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
77027242 TGAGCCAAAC
77027252 TTTCGGCA
1 TTTCGGCA
77027260 TTTCGGCA
1 TTTCGGCA
* *
77027268 TTTAGGCT
1 TTTCGGCA
*
77027276 TTTCGACA
1 TTTCGGCA
*
77027284 TTTCGGTA
1 TTTCGGCA
77027292 TTTC
1 TTTC
77027296 AGCTTTTGCC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (8 bp):
TTTCGGCA
Found at i:77027285 original size:24 final size:24
Alignment explanation
Indices: 77027252--77027302 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
77027242 TGAGCCAAAC
*
77027252 TTTCGGCATTTCGGCATTT-AGGCT
1 TTTCGACATTTCGGCATTTCA-GCT
*
77027276 TTTCGACATTTCGGTATTTCAGCT
1 TTTCGACATTTCGGCATTTCAGCT
77027300 TTT
1 TTT
77027303 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (24 bp):
TTTCGACATTTCGGCATTTCAGCT
Found at i:77033163 original size:21 final size:21
Alignment explanation
Indices: 77033146--77033237 Score: 148
Period size: 21 Copynumber: 4.4 Consensus size: 21
77033136 GTGTGTGCGC
* *
77033146 CCTTTACACGGGCATGTGAGG
1 CCTTCACACAGGCATGTGAGG
77033167 CCTTCACACAGGCATGTGAGG
1 CCTTCACACAGGCATGTGAGG
77033188 CCTTCACACAGGCATGTGAGG
1 CCTTCACACAGGCATGTGAGG
*
77033209 CCTTCACACAGGCATGTGTGG
1 CCTTCACACAGGCATGTGAGG
*
77033230 CCTCCACA
1 CCTTCACA
77033238 TGGGCGTGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (21 bp):
CCTTCACACAGGCATGTGAGG
Found at i:77040635 original size:21 final size:21
Alignment explanation
Indices: 77040606--77040646 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
77040596 GCTCCAATAG
77040606 AGTTAAAAGAATTGAAAGATC
1 AGTTAAAAGAATTGAAAGATC
* * *
77040627 AGTTGAAAGAGTTGACAGAT
1 AGTTAAAAGAATTGAAAGAT
77040647 AGAGGTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (21 bp):
AGTTAAAAGAATTGAAAGATC
Found at i:77043289 original size:89 final size:89
Alignment explanation
Indices: 77043133--77043301 Score: 293
Period size: 89 Copynumber: 1.9 Consensus size: 89
77043123 TTTTGGTGAG
*
77043133 TTAATTGTGACGTTAGTGAGCCCAATTATGAAAAAGGACTAAATCGCATAAAATGCAAAAGTCCT
1 TTAATTGTAACGTTAGTGAGCCCAATTATGAAAAAGGACTAAATCGCATAAAATGCAAAAGTCCT
77043198 ATTTTGATAGCTAAAGGTGCATAA
66 ATTTTGATAGCTAAAGGTGCATAA
* * * *
77043222 TTAATTGTAACGTTTGTGAGCCCAATTGTGAAACAGGACTAAATCGCATAAAATGCAAAAGTGCT
1 TTAATTGTAACGTTAGTGAGCCCAATTATGAAAAAGGACTAAATCGCATAAAATGCAAAAGTCCT
77043287 ATTTTGATAGCTAAA
66 ATTTTGATAGCTAAA
77043302 AGTGAAAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (89 bp):
TTAATTGTAACGTTAGTGAGCCCAATTATGAAAAAGGACTAAATCGCATAAAATGCAAAAGTCCT
ATTTTGATAGCTAAAGGTGCATAA
Found at i:77054429 original size:46 final size:46
Alignment explanation
Indices: 77054299--77054514 Score: 242
Period size: 46 Copynumber: 4.7 Consensus size: 46
77054289 TGTGTGAGCT
* * * * *
77054299 AGTGTAAGACTTGTCTGGGACATGCATCAGCCAC-ATTATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
* *
77054345 AATGTAAGACGATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
77054393 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* * *
77054439 AGTGTAAGACATGTCTGGGACATGCATC-GACTACTAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
* *
77054483 AGTGTAAGACCATATCTGGGTCATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
77054515 TATAGATATG
Statistics
Matches: 149, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.07
45 15 0.10
46 71 0.48
47 26 0.17
48 25 0.17
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:77055649 original size:39 final size:39
Alignment explanation
Indices: 77055596--77055700 Score: 147
Period size: 39 Copynumber: 2.7 Consensus size: 39
77055586 GGACTTTTGC
* * * *
77055596 CCGGACATATTTCCAGCACGTAGCTTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
77055635 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* *
77055674 TCGGATATAATTCCAGCATATAGCCTG
1 CCGGATATAATTCCAGCACATAGCCTG
77055701 TGGGTCTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:77062932 original size:39 final size:39
Alignment explanation
Indices: 77062889--77062986 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
77062879 CCGGACATAT
* ** *
77062889 TTCCAGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
*
77062928 TTCCAGCACATTGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
*
77062967 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
77062987 GTCTTTAAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
Found at i:77067845 original size:40 final size:40
Alignment explanation
Indices: 77067748--77067933 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
77067738 TTGAATGATG
* * * *
77067748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77067788 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77067828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77067868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
77067909 -CCGGACTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77067934 AATGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77067951 original size:80 final size:79
Alignment explanation
Indices: 77067801--77067966 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
77067791 GGACTAAGAT
** **
77067801 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGAACGAGTTACTA
*
77067866 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
77067881 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGTCCCGAAGGCATTTGAACGAGTTA-C
* *
77067944 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
77067960 CCGAAGG
1 CCGAAGG
77067967 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:77074452 original size:40 final size:40
Alignment explanation
Indices: 77074353--77074556 Score: 272
Period size: 40 Copynumber: 5.1 Consensus size: 40
77074343 TGGATGATAA
* *
77074353 CCGGGCTATGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
77074394 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77074434 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77074474 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77074514 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
77074553 CCGG
1 CCGG
77074557 TTAAATCCCA
Statistics
Matches: 148, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 18 0.12
40 101 0.68
41 23 0.16
42 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77086630 original size:39 final size:40
Alignment explanation
Indices: 77086585--77086752 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
77086575 CGGGGTTTAG
* * *
77086585 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
77086624 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
77086664 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
77086704 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
77086745 CCGGATAT
1 CCGGATAT
77086753 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:77086735 original size:41 final size:40
Alignment explanation
Indices: 77086608--77086752 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
77086598 CTCGCACAAG
* * * * *
77086608 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
77086648 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
77086688 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
77086729 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
77086753 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:77090209 original size:39 final size:39
Alignment explanation
Indices: 77090095--77090309 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 39
77090085 AAGCCAAGTA
* * * * *
77090095 CCTTCGGGATTTAACCC-GATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
*
77090134 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
77090174 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
77090213 CCTTCGGGACTTAGCCCGG-ATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
* * * **
77090251 CCTTCGGGACTTATCCCGGAACTAGTCACTAGCGTAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
77090291 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
77090310 TTATCATACA
Statistics
Matches: 159, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 37 0.23
39 54 0.34
40 68 0.43
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:77097111 original size:31 final size:31
Alignment explanation
Indices: 77097060--77097138 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
77097050 AAATATCTCG
*
77097060 ATTACATCATTTA-TCATGATCATAGATATA
1 ATTACAACATTTATTCATGATCATAGATATA
77097090 ATTACAACATTTATTCATGATCATAGATATA
1 ATTACAACATTTATTCATGATCATAGATATA
77097121 ATTACAACATTTATTCAT
1 ATTACAACATTTATTCAT
77097139 ATATGTATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 12 0.26
31 35 0.74
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTACAACATTTATTCATGATCATAGATATA
Found at i:77097419 original size:45 final size:45
Alignment explanation
Indices: 77097325--77097545 Score: 279
Period size: 45 Copynumber: 5.0 Consensus size: 45
77097315 CGAATTCATC
* *
77097325 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
** *
77097367 CACCGGCATTATAGCCTGCTAGGCTTGAAGGCCTGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* *
77097412 CACCGGCATTTTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* ** *
77097457 CACCGGCATTGTAGCCTATTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* * *
77097502 CACCGGCATCATAGCCTGCTTGGCTCAAAGGCCCGAATATTATT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
77097546 GTGCGATATT
Statistics
Matches: 157, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 10 0.06
43 16 0.10
44 4 0.03
45 126 0.80
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:77100356 original size:55 final size:55
Alignment explanation
Indices: 77100242--77100359 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
77100232 TTAAACTTTT
* * * *
77100242 AAGTTAGTATTGTCCATGGGTAGGCCACACGGGCGTGTGGCATAGCCGTGTCTGT
1 AAGTCAGTATTATCCATGGGTAGGCCACACGGGCGTGTGGCATAGCCGTGCCTGA
* * * * *
77100297 AAGTCAGTATTATCCATGGGTAGGCCATATGGGCGTGTGTCATGGTCGTGCCCT-A
1 AAGTCAGTATTATCCATGGGTAGGCCACACGGGCGTGTGGCATAGCCGTG-CCTGA
77100352 AAGTCAGT
1 AAGTCAGT
77100360 GTTGCACACG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 51 0.96
56 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (55 bp):
AAGTCAGTATTATCCATGGGTAGGCCACACGGGCGTGTGGCATAGCCGTGCCTGA
Found at i:77101299 original size:18 final size:19
Alignment explanation
Indices: 77101273--77101317 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
77101263 TTATGGCAAA
* *
77101273 CTGTGTTAAAT-TGGTGAT
1 CTGTATTAAATATGGTGAG
77101291 CTGTATT-AATATGGTGAG
1 CTGTATTAAATATGGTGAG
77101309 CTGTATTAA
1 CTGTATTAA
77101318 TTTGTCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (19 bp):
CTGTATTAAATATGGTGAG
Found at i:77101318 original size:18 final size:18
Alignment explanation
Indices: 77101284--77101318 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77101274 TGTGTTAAAT
*
77101284 TGGTGATCTGTATTAATA
1 TGGTGAGCTGTATTAATA
77101302 TGGTGAGCTGTATTAAT
1 TGGTGAGCTGTATTAAT
77101319 TTGTCAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.43
Consensus pattern (18 bp):
TGGTGAGCTGTATTAATA
Found at i:77102708 original size:40 final size:39
Alignment explanation
Indices: 77102664--77102845 Score: 192
Period size: 39 Copynumber: 4.6 Consensus size: 39
77102654 ACGAATGATG
* * *
77102664 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-GAGTTACTATA
* *
77102704 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCGAGTTACTATA
* *
77102743 TTCCGGGCTAAG-CCCGAAGGCATT-TGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTACTATA
* *
77102781 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTACTATA
* *
77102820 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
77102846 AACGAGAGCT
Statistics
Matches: 120, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
37 21 0.17
38 15 0.12
39 40 0.33
40 36 0.30
41 8 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTACTATA
Found at i:77102798 original size:77 final size:78
Alignment explanation
Indices: 77102664--77102845 Score: 210
Period size: 77 Copynumber: 2.3 Consensus size: 78
77102654 ACGAATGATG
* *
77102664 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATT-TGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-TT
77102729 GTGCGAGATACTA-A
64 GTGCGAGATACTATA
* * * **
77102743 TTCCGGGCTAAG-CCCGAAGGCATTTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
77102805 GTGCGAGTTACTATA
64 GTGCGAGATACTATA
* *
77102820 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77102846 AACGAGAGCT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
76 24 0.27
77 40 0.45
78 3 0.03
79 11 0.12
80 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTGT
GCGAGATACTATA
Found at i:77102866 original size:77 final size:76
Alignment explanation
Indices: 77102717--77102877 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 76
77102707 GGACTAAGAT
*
77102717 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGAGTTACTAAAT
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGCGAG-TACTAAAT
*
77102782 CCGGGTTAAGTC
65 CCGGGTTAAATC
* *
77102794 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-AGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTG--CGAGTA-CT
* *
77102856 ATATCC-GGTTAAATT
61 AAATCCGGGTTAAATC
77102871 CCGAAGG
1 CCGAAGG
77102878 TACGTGATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
75 2 0.03
76 22 0.30
77 38 0.52
78 7 0.10
79 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGCGAGTACTAAATC
CGGGTTAAATC
Found at i:77109988 original size:39 final size:40
Alignment explanation
Indices: 77109888--77110072 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
77109878 TTGAATGATG
* * *
77109888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
77109927 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
77109968 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
77110007 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
77110046 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
77110073 AACAAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:77110094 original size:79 final size:79
Alignment explanation
Indices: 77109941--77110105 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
77109931 GGACTAAGAT
* * ** *
77109941 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAA
*
77110006 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
77110020 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-C
* *
77110083 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
77110099 CCGAAGG
1 CCGAAGG
77110106 TACGTTATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:77111652 original size:51 final size:51
Alignment explanation
Indices: 77111597--77111704 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
77111587 ATGATTAAGC
* *
77111597 ATGAACTATTATTTTGCATGAATTGTTATTTGGTATGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTCATTTGGTAAGAACTGATATTTCAT
* *
77111648 ATGAACTATTATTTTGCATGAGTTGTCATTTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTCATTTGGTAAGAACTGATATTTCAT
77111699 ATGAAC
1 ATGAAC
77111705 AGTTGTTTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAATTGTCATTTGGTAAGAACTGATATTTCAT
Found at i:77111695 original size:17 final size:17
Alignment explanation
Indices: 77111597--77111720 Score: 77
Period size: 17 Copynumber: 7.3 Consensus size: 17
77111587 ATGATTAAGC
* * *
77111597 ATGAACTATTATTTTGC
1 ATGAACTGTTATTTGGT
*
77111614 ATGAATTGTTATTTGGT
1 ATGAACTGTTATTTGGT
* **
77111631 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTGGT
* * *
77111648 ATGAACTATTATTTTGC
1 ATGAACTGTTATTTGGT
** *
77111665 ATGAGTTGTCATTTGGT
1 ATGAACTGTTATTTGGT
* **
77111682 AAGAACTGTTATTTCAT
1 ATGAACTGTTATTTGGT
* *
77111699 ATGAACAGTTGTTTGGT
1 ATGAACTGTTATTTGGT
*
77111716 GTGAA
1 ATGAA
77111721 TTCATAATTT
Statistics
Matches: 76, Mismatches: 31, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 76 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.44
Consensus pattern (17 bp):
ATGAACTGTTATTTGGT
Found at i:77126480 original size:38 final size:38
Alignment explanation
Indices: 77126429--77126508 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
77126419 TTCACATCCA
77126429 TCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
1 TCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
77126467 TCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
1 TCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
77126505 TCAC
1 TCAC
77126509 ATTCATCACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (38 bp):
TCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
Found at i:77126516 original size:85 final size:87
Alignment explanation
Indices: 77126403--77126795 Score: 394
Period size: 94 Copynumber: 4.3 Consensus size: 87
77126393 TTCGGGACTC
* * * * * * * *
77126403 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
* *
77126468 CACGT-T-GGCCACTCGGCCCT
66 CACATATCGGCCACTAGGCCCT
* *
77126488 GTCACATATATACACTTTCACATTCATCACATCCGCCATTAGGCCTTATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
* *
77126553 CACATTCATCACATCGGCCATTAGGCCTT
66 --CA--CAT---ATCGGCCACTAGGCCCT
77126582 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
* *
77126647 CACATTCATCACATCGGCCATTAGGCCTT
66 --CA--CAT---ATCGGCCACTAGGCCCT
*
77126676 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
* *
77126741 TTCACATTCATCACATCGGCCATTAGGCCTT
64 TT--CA--CAT---ATCGGCCACTAGGCCCT
77126772 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
77126796 TATTCAAATA
Statistics
Matches: 280, Mismatches: 17, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
85 55 0.20
87 2 0.01
89 2 0.01
93 1 0.00
94 154 0.55
96 66 0.24
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (87 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
CACATATCGGCCACTAGGCCCT
Found at i:77126558 original size:47 final size:47
Alignment explanation
Indices: 77126489--77126795 Score: 578
Period size: 47 Copynumber: 6.5 Consensus size: 47
77126479 CTCGGCCCTG
*
77126489 TCACATATATACACTTTCACATTCATCACATCCGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77126536 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77126583 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77126630 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
77126677 TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77126724 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77126773 TCACATATATACACTTTCACATT
1 TCACATATATACACTTTCACATT
77126796 TATTCAAATA
Statistics
Matches: 255, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 209 0.82
49 46 0.18
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:77129210 original size:29 final size:29
Alignment explanation
Indices: 77129166--77129277 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
77129156 ATAATATGAT
*
77129166 TTGGGCCTAATAGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
77129195 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
77129224 CTGGG-CTAGATGGGACATATGAATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* * *
77129252 TTGGGCCCAATGGGGCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
77129278 ATATAGGGGT
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 22 0.33
29 44 0.67
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:77130086 original size:17 final size:18
Alignment explanation
Indices: 77130053--77130087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77130043 CTTTAAGAAG
77130053 AGTTTTCAATGAAAACAC
1 AGTTTTCAATGAAAACAC
*
77130071 AGTTTTCACT-AAAACAC
1 AGTTTTCAATGAAAACAC
77130088 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (18 bp):
AGTTTTCAATGAAAACAC
Found at i:77132438 original size:27 final size:27
Alignment explanation
Indices: 77132335--77132440 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
77132325 CATGGCTGCC
* * *
77132335 AGAACAGAT-AATGTGACAGAGTCACC
1 AGAACAGATAAATGTGGCAGAGCCACT
* * *
77132361 AGAATAGATAATTGTGGCAGAGCTACT
1 AGAACAGATAAATGTGGCAGAGCCACT
* *
77132388 AGAACAGATATATGAGGCAGAGCCACT
1 AGAACAGATAAATGTGGCAGAGCCACT
* *
77132415 AGATCAGATAAATGTGGCATAGCCAC
1 AGAACAGATAAATGTGGCAGAGCCAC
77132441 CTGGACGCTT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 8 0.12
27 56 0.88
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (27 bp):
AGAACAGATAAATGTGGCAGAGCCACT
Found at i:77133907 original size:24 final size:24
Alignment explanation
Indices: 77133872--77133924 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
77133862 CCAACATCGT
77133872 TCTCCCTAATCAGCTC-CTAAATCC
1 TCTCCCTAATCAGCTCTC-AAATCC
* *
77133896 TCTCCCTTATCAGCTCTCAAATCT
1 TCTCCCTAATCAGCTCTCAAATCC
77133920 TCTCC
1 TCTCC
77133925 TGACAGCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCTCAAATCC
Found at i:77136435 original size:29 final size:29
Alignment explanation
Indices: 77136402--77136494 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
77136392 ATAATTTGAT
*
77136402 TTGGGCCTAATGGGCTATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
77136431 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
*
77136460 TTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
77136488 TTGGGCC
1 TTGGGCC
77136495 CAGTGAGGCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 9 0.16
29 46 0.84
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:77136506 original size:28 final size:29
Alignment explanation
Indices: 77136402--77136508 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
77136392 ATAATTTGAT
* * * *
77136402 TTGGGCCTAATGGGCTATATGAATGTGAA
1 TTGGGCCCAGTGGGCCATATGAATGAGAA
* *
77136431 TTGGGCCTAGTGGGCCATAAGAAT-ATGAA
1 TTGGGCCCAGTGGGCCATATGAATGA-GAA
77136460 TTGGG-CCAGATGGGCCATATGAATGAG-A
1 TTGGGCCCAG-TGGGCCATATGAATGAGAA
77136488 TTGGGCCCAGTGAGG-CATATG
1 TTGGGCCCAGTG-GGCCATATG
77136509 TATGTATGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
28 17 0.25
29 49 0.73
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (29 bp):
TTGGGCCCAGTGGGCCATATGAATGAGAA
Found at i:77141341 original size:42 final size:41
Alignment explanation
Indices: 77141270--77141401 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 41
77141260 TCTTACCTAT
* *
77141270 AATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACTCGA
1 AATCAAATA-CGATGCCA-TGTCCCAGACAGGGTCTTACACGA
* *
77141313 AATCAAATACGATGCCGATGTCCCAGACAAGGTCTTACACAAA
1 AATCAAATACGATGCC-ATGTCCCAGACAGGGTCTTACAC-GA
*
77141356 AATCTCAAAT-CGATGCCAACGTCCCAGAC-GTGGTCTTACACGA
1 AA--TCAAATACGATGCC-ATGTCCCAGACAG-GGTCTTACACGA
77141399 AAT
1 AAT
77141402 TAGATACTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.34
43 16 0.21
44 27 0.36
45 6 0.08
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCAAATACGATGCCATGTCCCAGACAGGGTCTTACACGA
Found at i:77149002 original size:44 final size:43
Alignment explanation
Indices: 77148856--77149012 Score: 121
Period size: 44 Copynumber: 3.7 Consensus size: 43
77148846 CAATGCAAAC
* * *
77148856 GTCCCAGACGTGGTCTT--ACATGTAATCAAATATCGATGCTACT
1 GTCCCAGACGTGGTCTTACACATGAAATC-AA-ATCGATGCCAAT
* * *
77148899 ATCCCAGACAG-GGTCTTACAC--GAAATCAAATATGATGCCGAT
1 GTCCCAGAC-GTGGTCTTACACATGAAATCAAAT-CGATGCCAAT
* * * * *
77148941 GGCCCAAACTTGATCTTACACATAAATATCAAATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACACATGAA-ATCAAATCGATGCCAAT
77148985 GTCCCAGACGTGGTCTTACAC--GAAATCA
1 GTCCCAGACGTGGTCTTACACATGAAATCA
77149013 CATATCGGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
41 6 0.07
42 25 0.29
43 19 0.22
44 28 0.32
45 9 0.10
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACATGAAATCAAATCGATGCCAAT
Found at i:77150142 original size:12 final size:13
Alignment explanation
Indices: 77150105--77150142 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
77150095 AATATTTGAT
77150105 TTGTTCTTAATTA
1 TTGTTCTTAATTA
*
77150118 TGTGTTCTTAATTC
1 T-TGTTCTTAATTA
77150132 TTGTT-TTAATT
1 TTGTTCTTAATT
77150143 GTAACACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.63
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:77168907 original size:27 final size:26
Alignment explanation
Indices: 77168877--77168939 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
77168867 CCTCGACTTG
77168877 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* *
77168904 TAAAATTACCCAAATATCCTCGATTTA
1 TAAAATTA-CCAAATACCCCCGATTTA
*
77168931 TAGAATTAC
1 TAAAATTAC
77168940 TATTTTACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.81
28 5 0.16
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:77168951 original size:27 final size:27
Alignment explanation
Indices: 77168921--77169603 Score: 826
Period size: 27 Copynumber: 25.3 Consensus size: 27
77168911 ACCCAAATAT
77168921 CCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77168948 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77168975 CATCGATTTACAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77169002 CCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77169029 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
*
77169056 CCTTGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
77169083 CCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77169110 CCTCGATTTATAAAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
*
77169137 CCTCGATTTATAGAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
77169164 CCTC-AGTTTATAGAATTACTATTTTAC
1 CCTCGA-TTTATAGAATTACTATTTTAC
*
77169191 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
** * * *
77169218 CCTTAATTTGTAAAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
* **
77169245 CCTCAATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
77169272 CCTC-AGTTTATAGAATTACTATTTTAC
1 CCTCGA-TTTATAGAATTACTATTTTAC
* *
77169299 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
77169326 CCTCGATTTGTAAAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
*
77169353 CCTCGATTTACAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77169380 CCTC-AGTTTACAGAATTACTGTTTTAC
1 CCTCGA-TTTATAGAATTACTATTTTAC
* *
77169407 CCTCGATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
*
77169434 CCTC-AGTTTATAGAATTACTGTTTTAC
1 CCTCGA-TTTATAGAATTACTATTTTAC
*
77169461 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
77169488 CCTCGATTTGTAAAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
77169515 CCTTGATTTATAGAATTACTAGTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
77169542 CCTCAATTTACAAAATTA-TCATTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
* * *
77169569 CCTCAATTTACAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
77169596 CCTCGATT
1 CCTCGATT
77169604 GTGAAATTAC
Statistics
Matches: 583, Mismatches: 55, Indels: 36
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.01
27 568 0.97
28 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACTATTTTAC
Found at i:77169638 original size:27 final size:27
Alignment explanation
Indices: 77169608--77169803 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
77169598 TCGATTGTGA
*
77169608 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77169635 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
77169662 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
77169689 AATTACCAAAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
77169716 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77169743 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
77169770 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
77169797 AATTACC
1 AATTACC
77169804 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:77170040 original size:27 final size:26
Alignment explanation
Indices: 77170002--77170084 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
77169992 CGGAGGAAGC
*
77170002 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
77170029 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
77170055 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
77170082 GTT
1 GTT
77170085 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:77170204 original size:22 final size:22
Alignment explanation
Indices: 77170172--77170230 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
77170162 CCCGTTATTA
*
77170172 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
77170194 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
77170216 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
77170231 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:77170408 original size:25 final size:26
Alignment explanation
Indices: 77170380--77170463 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
77170370 TGCCACGTAT
* * *
77170380 TCTGTT-AGGTGGGTTTGCCACATTA
1 TCTGTTCAGGTGGCTCTGCCACAATA
*
77170405 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAGGTGGCTCTGCCACAATA
* * * *
77170431 TCTGTATCTGGTGACTCTGTCACGATA
1 TCTGT-TCAGGTGGCTCTGCCACAATA
77170458 TCTGTT
1 TCTGTT
77170464 GACCGGTCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.12
26 21 0.42
27 23 0.46
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
TCTGTTCAGGTGGCTCTGCCACAATA
Found at i:77170448 original size:27 final size:26
Alignment explanation
Indices: 77170395--77170463 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
77170385 TAGGTGGGTT
* *
77170395 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
77170421 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
77170448 TGTCACGATATCTGTT
1 TGCCACAATATCTGTT
77170464 GACCGGTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 15 0.39
27 23 0.61
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:77170583 original size:22 final size:22
Alignment explanation
Indices: 77170551--77170609 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
77170541 CCCGTTATTA
*
77170551 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
77170573 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
77170595 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
77170610 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:77170723 original size:379 final size:379
Alignment explanation
Indices: 77170015--77170843 Score: 1559
Period size: 379 Copynumber: 2.2 Consensus size: 379
77170005 CTGGTGGCTA
* * *
77170015 TGCCACAAATATCTGTTCTGGTGGCTCTGCCACAATATCTGTATTTGGTGACTCTGTCACAATAT
1 TGCCAC-ATTATCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATAT
77170080 CTGTTGACCGATCGATGGCTAAGTGCCGATCACGCTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
65 CTGTTGACCGATCGATGGCTAAGTGCCGATCACGCTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
77170145 TTCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTTGTGCCATC
130 TTCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTTGTGCCATC
*
77170210 TTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGAC
195 TTGACTATGGCTTCGTGCCAAACGTATTTACCTATAGCTATGTGCCTAACATATTTGTTGACGAC
*
77170275 TCTGTGTCGATCATATTTACCGAAGGCTGTGCTCCAGTTATATTACCGTCACTGATGGCTATGTG
260 TCTGTGTCGATCATATTTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTG
*
77170340 CCAAAGTTATTACAGTTTTCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
325 CCAAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
77170395 TGCCACATTATCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATATC
1 TGCCACATTATCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATATC
*
77170460 TGTTGACCGGTCGATGGCTAAGTGCCGATCACGCTACCGAAGGCTGTGTGCCGTTGTTGTGGGCT
66 TGTTGACCGATCGATGGCTAAGTGCCGATCACGCTACCGAAGGCTGTGTGCCGTTGTTGTGGGCT
77170525 TCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTTGTGCCATCT
131 TCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTTGTGCCATCT
77170590 TGACTATGGCTTCGTGCCAAACGTATTTACCTATAGCTATGTGCCTAACATATTTGTTGACGACT
196 TGACTATGGCTTCGTGCCAAACGTATTTACCTATAGCTATGTGCCTAACATATTTGTTGACGACT
* *
77170655 CTGTGTCGATCATATTTATCGAAGGCTGTGCGCTAGTTATATTACCGTCACTGATGGCTATGTGC
261 CTGTGTCGATCATATTTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
77170720 CAAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
326 CAAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
77170774 TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATAT
1 TGCCACATTATCTG-TTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATAT
77170839 CTGTT
65 CTGTT
77170844 CTGGCAGCCA
Statistics
Matches: 439, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
379 378 0.86
380 61 0.14
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (379 bp):
TGCCACATTATCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATATC
TGTTGACCGATCGATGGCTAAGTGCCGATCACGCTACCGAAGGCTGTGTGCCGTTGTTGTGGGCT
TCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTTGTGCCATCT
TGACTATGGCTTCGTGCCAAACGTATTTACCTATAGCTATGTGCCTAACATATTTGTTGACGACT
CTGTGTCGATCATATTTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
CAAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
Found at i:77170796 original size:27 final size:27
Alignment explanation
Indices: 77170774--77170847 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
77170764 TAGGTGGGTT
*
77170774 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
77170801 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
77170828 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
77170848 CAGCCATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:77170974 original size:6 final size:6
Alignment explanation
Indices: 77170965--77171090 Score: 127
Period size: 6 Copynumber: 20.8 Consensus size: 6
77170955 CTGCATTCAT
* * *
77170965 ATTCTG ATTCTG ATTCTG -TCACCTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
77171014 -TTACTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
77171062 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
77171091 CATTTTGGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
5 8 0.08
6 85 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:77171023 original size:24 final size:24
Alignment explanation
Indices: 77170991--77171090 Score: 146
Period size: 24 Copynumber: 3.9 Consensus size: 24
77170981 TGTCACCTAA
77170991 TACTGATTCTGATTCTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
77171015 TACTGATTCTGATTCTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
77171039 TACTAATATTGATTCTGATTCTGATTCTGT
1 TAC------TGATTCTGATTCTGATTCTGT
77171069 TACTGATTCTGATTCTGATTCT
1 TACTGATTCTGATTCTGATTCT
77171091 CATTTTGGTT
Statistics
Matches: 70, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
24 46 0.66
30 24 0.34
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (24 bp):
TACTGATTCTGATTCTGATTCTGT
Found at i:77171111 original size:30 final size:30
Alignment explanation
Indices: 77170965--77171090 Score: 158
Period size: 30 Copynumber: 4.4 Consensus size: 30
77170955 CTGCATTCAT
* *
77170965 ATTCTGATTCTGATTCTGTCACCTAATACTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
77170996 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
77171020 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
77171050 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
77171080 ATTCTGATTCT
1 ATTCTGATTCT
77171091 CATTTTGGTT
Statistics
Matches: 85, Mismatches: 2, Indels: 17
0.82 0.02 0.16
Matches are distributed among these distances:
24 21 0.25
25 1 0.01
26 1 0.01
27 2 0.02
28 1 0.01
29 1 0.01
30 40 0.47
31 18 0.21
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:77172580 original size:21 final size:20
Alignment explanation
Indices: 77172554--77172593 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
77172544 ATGTATTTTA
77172554 ATGTTTGATGATAGATTATAG
1 ATGTTTGATGATAG-TTATAG
77172575 ATGTTTGATGATAGTTATA
1 ATGTTTGATGATAGTTATA
77172594 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATAG
Found at i:77172602 original size:21 final size:21
Alignment explanation
Indices: 77172556--77172600 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
77172546 GTATTTTAAT
* *
77172556 GTTTGATGATAGATTATAGAT
1 GTTTGATGATAGATTATACAA
77172577 GTTTGATGATAG-TTATACAA
1 GTTTGATGATAGATTATACAA
77172597 GTTT
1 GTTT
77172601 TGTTAAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (21 bp):
GTTTGATGATAGATTATACAA
Found at i:77177317 original size:19 final size:19
Alignment explanation
Indices: 77177293--77177356 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
77177283 AAAATGTATG
77177293 TGAAATGTATGATTAATTA
1 TGAAATGTATGATTAATTA
*
77177312 TGAAAT-T-TGGA-AAATGTA
1 TGAAATGTAT-GATTAAT-TA
*
77177330 TGTGAAATGTACGATTAATTA
1 --TGAAATGTATGATTAATTA
77177351 TGAAAT
1 TGAAAT
77177357 AAATTCAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 12 0.34
20 6 0.17
21 5 0.14
22 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.38
Consensus pattern (19 bp):
TGAAATGTATGATTAATTA
Found at i:77177322 original size:39 final size:39
Alignment explanation
Indices: 77177279--77177356 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
77177269 TTATTTGGAA
*
77177279 TTGGAAAATGTATGTGAAATGTATGATTAATTATGAAAT
1 TTGGAAAATGTATGTGAAATGTACGATTAATTATGAAAT
77177318 TTGGAAAATGTATGTGAAATGTACGATTAATTATGAAAT
1 TTGGAAAATGTATGTGAAATGTACGATTAATTATGAAAT
77177357 AAATTCAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (39 bp):
TTGGAAAATGTATGTGAAATGTACGATTAATTATGAAAT
Found at i:77179512 original size:46 final size:45
Alignment explanation
Indices: 77179431--77179545 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 45
77179421 TGAGTGCTAG
*
77179431 TGTAAGACATGTCTGGGACATGCATTAGCCTCGAGACG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATGAG-CTCGAGACGAT-AGCCAA
* ** *
77179477 TGTAAGAAATGTCTGGGACATGCATCGAG-TACGAGACGATAGTTAG
1 TGTAAGACATGTCTGGGACATGCAT-GAGCT-CGAGACGATAGCCAA
77179523 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
77179546 GAATCGACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.02
46 41 0.69
47 17 0.29
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATGAGCTCGAGACGATAGCCAA
Found at i:77179568 original size:93 final size:93
Alignment explanation
Indices: 77179387--77179599 Score: 234
Period size: 93 Copynumber: 2.3 Consensus size: 93
77179377 AGCCAGTGTT
* *
77179387 AGACCATGTCTAGGACATGGCATCGGTATCGAGATGAGTGCTAGTGTAAGACATGTCTGGGACAT
1 AGACAATGTCTAGGACAT-GCATCGGTATCGAGACGAGTGCTAGTGTAAGACATGTCTGGGACAT
* * * *
77179452 GCATTAGCCTCGAGACGTAAGCCAATGTA
65 GCAATAGACTCGAGACATAAGCCAATATA
* *
77179481 AGA-AATGTCTGGGACATGCATCGAGTA-CGAGACGA-TAGTTAGTGTAAGACCATGTCTGGGAC
1 AGACAATGTCTAGGACATGCATCG-GTATCGAGACGAGT-GCTAGTGTAAGA-CATGTCTGGGAC
* * * * *
77179543 ATGGAATCGACTTGAGATATGAGCCAATATA
63 ATGCAATAGACTCGAGACATAAGCCAATATA
*
77179574 AGACCATGTCTAGGACATGTCATCGG
1 AGACAATGTCTAGGACATG-CATCGG
77179600 CACCTTACCC
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.24
93 52 0.53
94 17 0.17
95 5 0.05
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (93 bp):
AGACAATGTCTAGGACATGCATCGGTATCGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATG
CAATAGACTCGAGACATAAGCCAATATA
Found at i:77182055 original size:31 final size:32
Alignment explanation
Indices: 77182011--77182075 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
77182001 TTCCTAAAAG
* * *
77182011 AAAAGTTACCAAGCCACAGACCAA-AAATAATT
1 AAAAATTACCAAGCCA-AAACCAATAAAGAATT
77182043 AAAAATTA-CAAGCCAAAACCAATAAAGAATT
1 AAAAATTACCAAGCCAAAACCAATAAAGAATT
77182074 AA
1 AA
77182076 TAATACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.55
32 7 0.24
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.15
Consensus pattern (32 bp):
AAAAATTACCAAGCCAAAACCAATAAAGAATT
Found at i:77182175 original size:27 final size:27
Alignment explanation
Indices: 77182137--77182191 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
77182127 GAGTCCGGTC
77182137 ATAATTTTGAGGTTTACCTAAAAAGTT
1 ATAATTTTGAGGTTTACCTAAAAAGTT
*
77182164 ATAATTTTGAGGTTTACCTGAAAAGTT
1 ATAATTTTGAGGTTTACCTAAAAAGTT
77182191 A
1 A
77182192 AACACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (27 bp):
ATAATTTTGAGGTTTACCTAAAAAGTT
Found at i:77185240 original size:26 final size:26
Alignment explanation
Indices: 77185172--77185297 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 26
77185162 ACCCTTAATC
77185172 AGGTAAAATGACCAAAATACTCCC-AT
1 AGGTAAAATGACCAAAATAC-CCCTAT
*
77185198 AGGATAAAATGACCAAAATACCCCGAT
1 AGG-TAAAATGACCAAAATACCCCTAT
* *
77185225 AGGTAAAATGAGCAAAATACCCTTAT
1 AGGTAAAATGACCAAAATACCCCTAT
* * *
77185251 AGGGTAAAATAATCGAAATACCCCTAT
1 A-GGTAAAATGACCAAAATACCCCTAT
*
77185278 ATGGTAAAATGACTAAAATA
1 A-GGTAAAATGACCAAAATA
77185298 TCTCTATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.32
27 58 0.68
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (26 bp):
AGGTAAAATGACCAAAATACCCCTAT
Found at i:77185253 original size:53 final size:52
Alignment explanation
Indices: 77185172--77185297 Score: 146
Period size: 53 Copynumber: 2.3 Consensus size: 52
77185162 ACCCTTAATC
*
77185172 AGGTAAAATGACCAAAATACTCCCATAGGATAAAATGACCAAAATACCCCGAT
1 AGGTAAAATGA-CAAAATACTCCCATAGGATAAAATAACCAAAATACCCCGAT
* * * * *
77185225 AGGTAAAATGAGCAAAATAC-CCTTATAGGGTAAAATAATCGAAATACCCCTAT
1 AGGTAAAATGA-CAAAATACTCC-CATAGGATAAAATAACCAAAATACCCCGAT
77185278 ATGGTAAAATGACTAAAATA
1 A-GGTAAAATGAC-AAAATA
77185298 TCTCTATAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
52 2 0.03
53 45 0.71
54 16 0.25
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (52 bp):
AGGTAAAATGACAAAATACTCCCATAGGATAAAATAACCAAAATACCCCGAT
Found at i:77185355 original size:27 final size:26
Alignment explanation
Indices: 77185302--77185386 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
77185292 AAAATATCTC
* * *
77185302 TATAATGTATAATGATTGTAATTCCCT
1 TATAAGGTAAAATGATTGT-TTTCCCT
*
77185329 TATAGGGTAAAATGATTGTTTTACCCT
1 TATAAGGTAAAATGATTGTTTT-CCCT
* * *
77185356 TGTAAGGTAAAATGACTATTTTGCCCT
1 TATAAGGTAAAATGATTGTTTT-CCCT
77185383 TATA
1 TATA
77185387 TGTTAAGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (26 bp):
TATAAGGTAAAATGATTGTTTTCCCT
Found at i:77185884 original size:34 final size:35
Alignment explanation
Indices: 77185819--77185901 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 35
77185809 TATATTGCGG
77185819 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
1 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
* * *
77185854 TGGGCTAAGGCCCAGACTG-TTACTGTTACTAATA
1 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
77185888 TGGGCTTAGGCCCA
1 TGGGCTTAGGCCCA
77185902 AAATGTATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 26 0.59
35 18 0.41
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (35 bp):
TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
Found at i:77188508 original size:16 final size:17
Alignment explanation
Indices: 77188487--77188520 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
77188477 TTTTTATCAC
77188487 TCAATTTACT-CCTTTT
1 TCAATTTACTCCCTTTT
*
77188503 TCAATTTAGTCCCTTTT
1 TCAATTTACTCCCTTTT
77188520 T
1 T
77188521 TATGCATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.56
Consensus pattern (17 bp):
TCAATTTACTCCCTTTT
Found at i:77195543 original size:12 final size:12
Alignment explanation
Indices: 77195526--77195552 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
77195516 ATTCCGAAGT
77195526 ATATATATATAC
1 ATATATATATAC
77195538 ATATATATATAC
1 ATATATATATAC
77195550 ATA
1 ATA
77195553 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:77196050 original size:27 final size:28
Alignment explanation
Indices: 77195966--77196063 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
77195956 CATGAGATTG
* * * * *
77195966 GCACAAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
77195995 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77196023 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77196050 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77196064 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.35
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77196074 original size:27 final size:27
Alignment explanation
Indices: 77195994--77196076 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
77195984 TAAATTGTAC
* *
77195994 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
77196022 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
77196049 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
77196076 A
1 A
77196077 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:77204311 original size:27 final size:26
Alignment explanation
Indices: 77204238--77204332 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 26
77204228 CATGAGATTG
* * **
77204238 GCACTAAGTGTGCGGGTTTAAATTGCA
1 GCACTAAGTGTGC-GGTTTGATTTATA
77204265 GCACTAAGTGTGCGGTTTGATTATATA
1 GCACTAAGTGTGCGGTTTGATT-TATA
77204292 GCACTAAGTGTGCGAG-TTGATTTATA
1 GCACTAAGTGTGCG-GTTTGATTTATA
*
77204318 GCACTGAGTGTGCGG
1 GCACTAAGTGTGCGG
77204333 ACTTAATATA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.02
26 24 0.39
27 35 0.57
28 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (26 bp):
GCACTAAGTGTGCGGTTTGATTTATA
Found at i:77319647 original size:25 final size:25
Alignment explanation
Indices: 77319619--77319695 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
77319609 CTAATGGCCG
77319619 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* ****
77319644 ATGTGAT-AA--TGCAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
77319664 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
77319689 ATGTGAT
1 ATGTGAT
77319696 AGCCTAATGG
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
20 7 0.19
21 4 0.11
22 4 0.11
23 4 0.11
24 4 0.11
25 14 0.38
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:77319824 original size:47 final size:47
Alignment explanation
Indices: 77319606--77320007 Score: 658
Period size: 47 Copynumber: 8.6 Consensus size: 47
77319596 ATGATAGTAT
77319606 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
77319653 TG-C-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
77319697 -GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
77319743 -GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
77319789 -GCCTAATGGCCGTATGTGATGAATGTGAAAGTGTATATATGTGATAAA
1 GGCCTAATGGCCG-ATGTGATGAATGTGAAAGTGTATATATGTGAT-AA
*
77319837 TG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
77319883 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTTA-ATAGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-GTGATAA
*
77319930 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
77319979 GGCCTAATGGCCGATGTGATTGAATGTGA
1 GGCCTAATGGCCGATGTGA-TGAATGTGA
77320008 TAAAGTCCGA
Statistics
Matches: 338, Mismatches: 5, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 80 0.24
46 65 0.19
47 138 0.41
48 12 0.04
49 29 0.09
50 11 0.03
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:77319838 original size:25 final size:25
Alignment explanation
Indices: 77319801--77319882 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
77319791 CTAATGGCCG
*
77319801 TATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAATGTGAAAGTGTATA
***
77319826 TATGTGATAAATGCT--AA-TG-GCC
1 TATGTGATAAATG-TGAAAGTGTATA
* *
77319848 GATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAATGTGAAAGTGTATA
77319873 TATGTGATAA
1 TATGTGATAA
77319883 GGCCTAATGG
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
21 1 0.02
22 11 0.27
23 4 0.10
24 4 0.10
25 20 0.49
26 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (25 bp):
TATGTGATAAATGTGAAAGTGTATA
Found at i:77320185 original size:35 final size:35
Alignment explanation
Indices: 77320131--77320206 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
77320121 CCGAGCTCTA
* *
77320131 AAGACCCGATGACTACGTGTGGGGATTTTG-CCGGGT
1 AAGA-CCGATAACTACGTGT-GGGATTATGTCCGGGT
*
77320167 AAGACCGATAACTTCGTGTGGGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGGATTATGTCCGGGT
77320202 AAGAC
1 AAGAC
77320207 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 8 0.22
35 24 0.67
36 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (35 bp):
AAGACCGATAACTACGTGTGGGATTATGTCCGGGT
Found at i:77332556 original size:72 final size:71
Alignment explanation
Indices: 77332413--77332561 Score: 185
Period size: 70 Copynumber: 2.1 Consensus size: 71
77332403 GGTATTTTGA
* *
77332413 TATTTTTATTTATATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACG
1 TATTTTTATTTATATTTTCAAAATTCAACTCATATTACGAGAAATGAGCTGAGCATCAAGACACG
*
77332478 TTGAGG
66 TCGAGG
* ** *
77332484 TAATTTTTATTTCTATTTTC-AAA-TCAACTCATATTACGAGAGGTGAGCTGAGCATCAGGTCAC
1 T-ATTTTTATTTATATTTTCAAAATTCAACTCATATTACGAGAAATGAGCTGAGCATCAAG--AC
*
77332547 ATGTCGAGG
63 ACGTCGAGG
77332556 TATTTT
1 TATTTT
77332562 CAAAGTATGC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
70 31 0.46
71 9 0.13
72 27 0.40
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (71 bp):
TATTTTTATTTATATTTTCAAAATTCAACTCATATTACGAGAAATGAGCTGAGCATCAAGACACG
TCGAGG
Found at i:77332697 original size:74 final size:74
Alignment explanation
Indices: 77332574--77333642 Score: 1134
Period size: 74 Copynumber: 13.9 Consensus size: 74
77332564 AAGTATGCTT
* *
77332574 TTTCAATTTATTTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTCAATTTCTGTTT-TC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
77332639 CGCTGAGGTAA
64 CGCTGAGGTAA
*
77332650 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
*
77332715 TTGAGGTAA
66 CTGAGGTAA
** ** *
77332724 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
* *
77332789 TTGAGGTAT
66 CTGAGGTAA
* * *
77332798 TTTCAATTTCTATTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACA
*
77332863 TGCTGAGGTAA
64 CGCTGAGGTAA
* * *
77332874 TTTCAATTCCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCCCGGGTCAC
1 TTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--AC
* *
77332936 ATG-TCGAGGTAT
63 ACGCT-GAGGTAA
* ** * * ** *
77332948 TTTCAAAGTATGCT-TTTTCAATTTATTTTTGTCAAAAAAAAATCCA-ACT-CGTATTGCGAGAG
1 TTTC-AA-T-TTCTGTTTTCAA---A--------AAAATCAACT-CATATTGCG-AGAG-GTGAG
* *
77333010 GTGAGTTGAGTCTCGGGACACGCTGAGGTAA
49 TTGAG-----CCTCGGGACACGCTGAGGTAA
77333041 TTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
77333106 GCTGAGGTAA
65 GCTGAGGTAA
* *
77333116 TTTCAATTTCTGTTTTCAAAAAAATCAACTCGTATTGTGAGAGGTGAGTTGAGCCTCGGGACACG
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
77333181 CTGAGGTAA
66 CTGAGGTAA
77333190 TTTCAATTTCTGTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TTTCAATTTCTGTTTTC-----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
77333255 ACACGTTGAGGTAA
61 ACACGCTGAGGTAA
* ** **
77333269 TTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
* *
77333334 TTGAGGTAT
66 CTGAGGTAA
* * *
77333343 TTTCAATTTCTGTTTCCAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGTTCACA
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACA
*
77333408 TGCTGAGGTAA
64 CGCTGAGGTAA
* * * *
77333419 TTTTAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGACACG
1 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
77333484 CTGAGGT-A
66 CTGAGGTAA
* **
77333492 TTGTCAATTTTTTGTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
1 TT-TCAA-TTTCTG--T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
77333557 ACATGCTGAGGT-A
61 ACACGCTGAGGTAA
* * *
77333570 TTGTCAATTTTTTGTATGCTTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGG
1 TT-TCAA-TTTCTGT-T--TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
77333633 ACACGCTGAG
61 ACACGCTGAG
77333643 TAAGTTGAGC
Statistics
Matches: 853, Mismatches: 90, Indels: 100
0.82 0.09 0.10
Matches are distributed among these distances:
73 4 0.00
74 418 0.49
75 48 0.06
76 156 0.18
77 6 0.01
78 71 0.08
79 70 0.08
80 10 0.01
81 11 0.01
82 2 0.00
88 2 0.00
89 12 0.01
90 13 0.02
91 6 0.01
92 4 0.00
93 14 0.02
94 1 0.00
95 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (74 bp):
TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
CTGAGGTAA
Found at i:77333442 original size:228 final size:225
Alignment explanation
Indices: 77332976--77333642 Score: 914
Period size: 228 Copynumber: 2.9 Consensus size: 225
77332966 CAATTTATTT
*
77332976 TTGTC-AAAAAAAAATCCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCGGGACACGCTGAGGTA
1 TTGTCAAAAAAAAAAT-CAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
* **
77333040 ATTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
65 ATTTCAATTTCTTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
77333105 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCGTATTGTGAGAGGTGAGTTGAGC
129 CGCTGAGGTATTTTCAATTTCTGTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
77333170 CTCGGGACACGCTGAGGTAATTTCAATTTCTG
194 CTCGGCACACGCTGAGGTAATTTCAATTTCTG
* * *
77333202 TTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGT
1 TTGTC--AAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
**
77333267 AATTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
64 AATTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
77333332 CGTTGAGGTATTTTCAATTTCTGTTTCCAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGC
129 CGCTGAGGTATTTTCAATTTCTGTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
77333397 CTCGGTTCACATGCTGAGGTAATTTTAATTTCTG
194 CTCGG--CACACGCTGAGGTAATTTCAATTTCTG
*
77333431 TTGTC---AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGACACGCTGAGGT-A
1 TTGTCAAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
*
77333492 TTGTCAATTTTTTGTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TT-TCAA-TTTCT-T-T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* * * * *** *
77333557 ACATGCTGAGGTATTGTCAATTTTTTGTATGCTTCAAAAATCAACTCATATTGCGAGAGGTGAAT
126 ACACGCTGAGGTATTTTCAA-TTTCTGT-TTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
77333622 TGAGCCTCAGG-ACACGCTGAG
189 TGAGCCTC-GGCACACGCTGAG
77333643 TAAGTTGAGC
Statistics
Matches: 392, Mismatches: 36, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
223 3 0.01
224 56 0.14
225 4 0.01
226 5 0.01
227 107 0.27
228 133 0.34
229 44 0.11
230 38 0.10
231 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (225 bp):
TTGTCAAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
TTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTATTTTCAATTTCTGTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGGCACACGCTGAGGTAATTTCAATTTCTG
Found at i:77333535 original size:78 final size:78
Alignment explanation
Indices: 77333353--77333642 Score: 380
Period size: 76 Copynumber: 3.8 Consensus size: 78
77333343 TTTCAATTTC
* *
77333353 TGTTTCCAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGT
1 TGTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGT
* *
77333417 AATT-TTAA-TTTCTGT-
62 -ATTGTCAATTTTTTGTA
* * *
77333432 TG--TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGACACGCTGAGGTATTG
1 TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
77333495 TCAATTTTTTGTA
66 TCAATTTTTTGTA
* *
77333508 TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTG
1 TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
77333573 TCAATTTTTTGTA
66 TCAATTTTTTGTA
* *
77333586 TGCTTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGAG
1 TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
77333643 TAAGTTGAGC
Statistics
Matches: 190, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
73 3 0.02
74 14 0.07
75 6 0.03
76 88 0.46
77 3 0.02
78 74 0.39
79 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (78 bp):
TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
TCAATTTTTTGTA
Found at i:77335692 original size:3 final size:3
Alignment explanation
Indices: 77335371--77335675 Score: 172
Period size: 3 Copynumber: 100.7 Consensus size: 3
77335361 TGAATTTCTA
77335371 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
77335419 TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT TAT T-T ATAC
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT -TAT
* *
77335467 TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA- TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
77335511 T-T TAC TAT TAT TAT ATAT AAA TAT TAGT GTA- TAT T-T TAT T-T TAA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT
* *
77335555 TAT CAT TA- TAA TAT GT-T TACT T-T T-T TGAAT T-T CTA- TAT TAT
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT TAT TAT
* * * *
77335596 TAT TAT TAT TAT TGT TACT TAT TAT TAT CAC TAT TAT GTACA TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TAT
* *
77335644 T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TA
1 TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
77335676 CATTTACTAT
Statistics
Matches: 235, Mismatches: 35, Indels: 64
0.70 0.10 0.19
Matches are distributed among these distances:
2 26 0.11
3 180 0.77
4 25 0.11
5 4 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:77335733 original size:12 final size:13
Alignment explanation
Indices: 77335707--77335735 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
77335697 AATATTAGTG
77335707 TATATTTTTATTA
1 TATATTTTTATTA
77335720 TATATTTTTA-TA
1 TATATTTTTATTA
77335732 TATA
1 TATA
77335736 CTCTTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATTTTTATTA
Found at i:77335867 original size:3 final size:3
Alignment explanation
Indices: 77335855--77335924 Score: 104
Period size: 3 Copynumber: 22.7 Consensus size: 3
77335845 GTATTTTTAC
*
77335855 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
77335901 TAT TAT TAT TAT ATAA TAT TAT TA
1 TAT TAT TAT TAT -TAT TAT TAT TA
77335925 ATAGGTACTT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 56 0.92
4 5 0.08
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:77337277 original size:20 final size:19
Alignment explanation
Indices: 77337249--77337286 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
77337239 CGAACTATCG
77337249 ACTCCCTTTACTTGTCTAAA
1 ACTCCCTTTACTTG-CTAAA
*
77337269 ACTCTCTTTACTTGCTAA
1 ACTCCCTTTACTTGCTAA
77337287 CCAACTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (19 bp):
ACTCCCTTTACTTGCTAAA
Found at i:77346772 original size:40 final size:41
Alignment explanation
Indices: 77346616--77346758 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 41
77346606 AATGATGTCT
* * * *
77346616 GGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCAT-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCC
*
77346656 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
77346696 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
77346736 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
77346759 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 77 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
Found at i:77347122 original size:47 final size:47
Alignment explanation
Indices: 77346983--77347342 Score: 567
Period size: 47 Copynumber: 7.6 Consensus size: 47
77346973 AAGGGTTGGT
77346983 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
77347030 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77347079 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77347126 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
77347175 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77347222 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
77347269 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
77347316 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
77347343 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 199 0.69
49 90 0.31
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:77347147 original size:96 final size:96
Alignment explanation
Indices: 77346983--77347342 Score: 593
Period size: 96 Copynumber: 3.8 Consensus size: 96
77346973 AAGGGTTGGT
*
77346983 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
77347048 TATGTGATAAGGTCTAATAGCCGATGTGATG
66 TATGTGATAAGGTCTAATGGCCGATGTGATG
77347079 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
77347144 TATGTGATAAGGTCTAATGGCCGATGTGATG
66 TATGTGATAAGGTCTAATGGCCGATGTGATG
*
77347175 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
77347238 TATGCGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGTCTAATGGCCGATGTGATG
* * * * * *
77347269 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
77347333 -ATGTGATAAG
66 TATGTGATAAG
77347343 TCCCGAAGGG
Statistics
Matches: 249, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
94 94 0.38
95 1 0.00
96 154 0.62
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGTCTAATGGCCGATGTGATG
Found at i:77347241 original size:143 final size:141
Alignment explanation
Indices: 77346983--77347342 Score: 567
Period size: 143 Copynumber: 2.5 Consensus size: 141
77346973 AAGGGTTGGT
77346983 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
* *
77347048 TATGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAAT
77347113 GGCCAATGTGATG
129 GGCCAATGTGATG
*
77347126 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
77347191 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAAT
*
77347256 GGCCGATGTGATG
129 GGCCAATGTGATG
* * * * * * * *
77347269 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
77347334 TGTGATAAG
66 TGTGATAAG
77347343 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 53 0.26
143 102 0.51
145 46 0.23
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAATGG
CCAATGTGATG
Found at i:77353989 original size:63 final size:61
Alignment explanation
Indices: 77353860--77353989 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 61
77353850 GGGTACAAGT
* *
77353860 CCGTGTGCCTGGCCGTGTGGTTTTATTCCACAAACAGCGATTACACGGCTAATACACACGC
1 CCGTGTGCCTGGCCGTGTGGTTTTATACCACAAACAGCGATTACACAGCTAATACACACGC
* * * * * * *
77353921 TCGTGTGCCTTGCTCGTGTGGTTTTGTACCACAAATAGTGAGTTACACATCT-CTGACACACGC
1 CCGTGTGCCTGGC-CGTGTGGTTTTATACCACAAACAGCGA-TTACACAGCTAAT-ACACACGC
77353984 CCGTGT
1 CCGTGT
77353990 CCATTGCCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
61 11 0.20
62 24 0.43
63 21 0.38
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (61 bp):
CCGTGTGCCTGGCCGTGTGGTTTTATACCACAAACAGCGATTACACAGCTAATACACACGC
Found at i:77354117 original size:5 final size:5
Alignment explanation
Indices: 77354109--77354137 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
77354099 AAAATAAAAA
77354109 TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTAT
77354138 GGTTGGCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:77363011 original size:49 final size:49
Alignment explanation
Indices: 77362948--77363173 Score: 274
Period size: 49 Copynumber: 4.6 Consensus size: 49
77362938 CTGGTACGTA
* *
77362948 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
** * ** *
77362997 TAGTAGCCTGCACTTAGTACTACACACATGACGTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGAC-CAATTATCTGGTACACG
* * * * *
77363047 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACG
*
77363098 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCT-GGTACACG
*
77363147 TAGTAGCCTGTACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
77363174 ATGACCTCAC
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
49 63 0.42
50 48 0.32
51 38 0.26
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:77363112 original size:101 final size:98
Alignment explanation
Indices: 77362948--77363173 Score: 274
Period size: 101 Copynumber: 2.3 Consensus size: 98
77362938 CTGGTACGTA
* * * *
77362948 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
* *
77363013 GTACTACACACATGACGTAACCA-TCTGATACACG
66 GTACTACACACACGAC-CAACCATTC-GATACACG
* * *
77363047 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACT
** ** *
77363112 TAGTACTACACATGCGACCAATTATTCGGTACACG
64 TAGTACTACACACACGACCAACCATTCGATACACG
*
77363147 TAGTAGCCTGTACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
77363174 ATGACCTCAC
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 28 0.26
100 39 0.36
101 42 0.39
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACACGACCAACCATTCGATACACG
Found at i:77364515 original size:9 final size:8
Alignment explanation
Indices: 77364493--77364537 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
77364483 ATTAAATAGC
77364493 AAAAATAA
1 AAAAATAA
*
77364501 ATAAATAA
1 AAAAATAA
77364509 GAAAAATAA
1 -AAAAATAA
*
77364518 AAAAA-AT
1 AAAAATAA
77364525 AAAAATAA
1 AAAAATAA
77364533 AAAAA
1 AAAAA
77364538 ACCAATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:77364519 original size:22 final size:21
Alignment explanation
Indices: 77364493--77364535 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
77364483 ATTAAATAGC
77364493 AAAAATAAATAAATAAGAAAAAT
1 AAAAA-AAATAAA-AAGAAAAAT
*
77364516 AAAAAAAATAAAAATAAAAA
1 AAAAAAAATAAAAAGAAAAA
77364536 AAACCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAAAATAAAAAGAAAAAT
Found at i:77364530 original size:15 final size:15
Alignment explanation
Indices: 77364493--77364538 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
77364483 ATTAAATAGC
77364493 AAAAATAAATAAATAAG
1 AAAAATAAA-AAA-AAG
*
77364510 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAG
77364525 AAAAATAAAAAAAA
1 AAAAATAAAAAAAA
77364539 CCAATCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 3 0.11
17 9 0.32
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (15 bp):
AAAAATAAAAAAAAG
Found at i:77364538 original size:9 final size:9
Alignment explanation
Indices: 77364493--77364538 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
77364483 ATTAAATAGC
77364493 AAAAAT-AA
1 AAAAATAAA
* *
77364501 ATAAATAAG
1 AAAAATAAA
77364510 AAAAATAAA
1 AAAAATAAA
77364519 AAAAATAAA
1 AAAAATAAA
77364528 AATAAA-AAA
1 AA-AAATAAA
77364537 AA
1 AA
77364539 CCAATCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 5 0.16
9 24 0.75
10 3 0.09
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:77366496 original size:29 final size:28
Alignment explanation
Indices: 77366442--77366497 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
77366432 GATAACAATA
* *
77366442 TAAAAATATAATATTTCTATTAAAAATT
1 TAAAAATATAAAATTACTATTAAAAATT
* *
77366470 TAAAATATATAAAATTACTGTTTAAAAT
1 TAAAA-ATATAAAATTACTATTAAAAAT
77366498 GAATCTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAAATATAAAATTACTATTAAAAATT
Found at i:77367133 original size:15 final size:16
Alignment explanation
Indices: 77367115--77367145 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77367105 AAAAATATAT
77367115 TTTTTTTAT-ATTTTA
1 TTTTTTTATAATTTTA
77367130 TTTTTTTATAATTTTA
1 TTTTTTTATAATTTTA
77367146 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTATAATTTTA
Found at i:77369849 original size:28 final size:28
Alignment explanation
Indices: 77369817--77369881 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
77369807 ATTTACTAGA
*
77369817 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
77369845 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
77369873 ATACCCCTA
1 ATACCCCTA
77369882 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:77370045 original size:27 final size:28
Alignment explanation
Indices: 77369987--77370076 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
77369977 AGGAAGCGTC
*
77369987 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
77370015 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
77370042 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
77370071 CTGGTG
1 CTGGTG
77370077 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:77370087 original size:29 final size:28
Alignment explanation
Indices: 77369997--77370087 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
77369987 CTGGTGGCTA
* * *
77369997 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
77370025 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
77370052 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
77370081 TGTCACA
1 TGCCACA
77370088 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:77370095 original size:55 final size:56
Alignment explanation
Indices: 77369987--77370101 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
77369977 AGGAAGCGTC
* * *
77369987 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
77370042 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
77370098 CTGG
1 CTGG
77370102 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:77370564 original size:19 final size:19
Alignment explanation
Indices: 77370540--77370578 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
77370530 TTTTAATTAT
* *
77370540 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
77370559 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
77370578 T
1 T
77370579 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:77372388 original size:18 final size:18
Alignment explanation
Indices: 77372319--77372411 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 18
77372309 TGTTGTAAAC
* *
77372319 TTTTCGTGTTTCCAAAAT
1 TTTTCGTGTTTTCAAAAA
77372337 TTTTCGTGTTTTTCTAAAAAAA
1 TTTTCGTG-TTTTC---AAAAA
**
77372359 AATTCAG-G-TTTCAAAAA
1 TTTTC-GTGTTTTCAAAAA
77372376 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
77372393 TTTTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
77372410 TT
1 TT
77372412 CTCATTTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 31 0.51
18 12 0.20
19 4 0.07
20 4 0.07
22 8 0.13
23 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:77373798 original size:12 final size:12
Alignment explanation
Indices: 77373781--77373816 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
77373771 ATTCATTTGA
77373781 CATTCATGCATT
1 CATTCATGCATT
*
77373793 CATTCATGCATC
1 CATTCATGCATT
*
77373805 CATTCATTCATT
1 CATTCATGCATT
77373817 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:77373810 original size:16 final size:17
Alignment explanation
Indices: 77373789--77373820 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
77373779 GACATTCATG
77373789 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
77373805 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
77373821 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:77382187 original size:63 final size:63
Alignment explanation
Indices: 77382096--77382219 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
77382086 CGTATGTTTC
* * * *
77382096 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTCAAAA
1 AAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAA
*
77382159 AAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
1 AAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
77382220 TTTCTGTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (63 bp):
AAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAA
Found at i:77382295 original size:76 final size:74
Alignment explanation
Indices: 77382157--77382298 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
77382147 GTATTTTCAA
* * *
77382157 AAAAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATAGTGCGACAGGCGAGTTGAGCCTCGGCACACGCCGAGGTAATTTCAATT
77382222 TCTGTTGTC
66 TCTGTTGTC
* * *
77382231 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATAGTGCGACAGGCGAGTTGAGCCTC-GG-CACACGCCGAGGTAATTTCAA
77382296 TTT
64 TTT
77382299 TCGTTTTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 37 0.62
75 2 0.03
76 21 0.35
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (74 bp):
AAAAAAATCAACTCATAGTGCGACAGGCGAGTTGAGCCTCGGCACACGCCGAGGTAATTTCAATT
TCTGTTGTC
Found at i:77382427 original size:167 final size:166
Alignment explanation
Indices: 77382151--77382613 Score: 655
Period size: 167 Copynumber: 2.8 Consensus size: 166
77382141 GCTGAGGTAT
* * *
77382151 TTTCAAAAAAAAATCAACTCATAGTGCGACAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
77382216 TCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
*
77382281 CCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCC
130 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
77382318 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
77382383 TCAATTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACATG
66 TCAATTTCTGTTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
77382448 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
130 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
* * * * * * *
77382485 TTTC-AAAAAAAATCGACTTATATTGCAAGAGGTAAGTTGAACCT-TGG-CTTACGTGCTGAGCT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC--AC--GCTGAGGT
* ** * * * *
77382547 ATTTTCAATTTCTGTCT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGATCA
62 AATTTCAATTTCTGT-TGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
77382611 CAC
126 CAC
77382614 ACTAAGGTAT
Statistics
Matches: 268, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
164 1 0.00
165 2 0.01
166 37 0.14
167 205 0.76
168 22 0.08
169 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (166 bp):
TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGC
CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
Found at i:77382430 original size:74 final size:75
Alignment explanation
Indices: 77382323--77382466 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 75
77382313 CTGCCTTTCA
* *
77382323 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
77382387 TTTCTGTTGT
66 TTTCTGTTGT
* * *
77382397 AAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
77382462 ATTTC
65 ATTTC
77382467 CGTTTTTCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 42 0.67
76 21 0.33
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTGT
Found at i:77382713 original size:79 final size:79
Alignment explanation
Indices: 77382567--77382713 Score: 168
Period size: 79 Copynumber: 1.9 Consensus size: 79
77382557 TCTGTCTTTC
* * * * ***
77382567 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGATCACACACTAAGGTATTTTTTCAA
1 AAAAATCAACGCACATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACCAAGGTATTTTAAAAA
77382632 TTTATATTTTTCAA
66 TTTATATTTTTCAA
* * * * ** *
77382646 AAAAATCAACGCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTAAAAA
1 AAAAATCAACGCACATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACCAAGGTATTTTAAAAA
77382711 TTT
66 TTT
77382714 GTTTTTCAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
79 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (79 bp):
AAAAATCAACGCACATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACCAAGGTATTTTAAAAA
TTTATATTTTTCAA
Found at i:77382773 original size:24 final size:24
Alignment explanation
Indices: 77382739--77382787 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
77382729 TTTTCAAAAA
*
77382739 TCAACTTATATTGCGAGAAGTGAG
1 TCAACTCATATTGCGAGAAGTGAG
77382763 TCAACTCATATTGCGAGAAGTGAG
1 TCAACTCATATTGCGAGAAGTGAG
77382787 T
1 T
77382788 TGAGCCTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
TCAACTCATATTGCGAGAAGTGAG
Found at i:77382899 original size:30 final size:30
Alignment explanation
Indices: 77382853--77382912 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
77382843 TCAACTCATA
77382853 TTGCGAGAGGTGAGTTGAG-CTTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTC-TTTTAATTT
* *
77382883 TTGCTAGAGTTGAGTTGAGTCTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
77382913 CTATTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (30 bp):
TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
Done.