Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 185 of 335
Found at i:55624999 original size:42 final size:41
Alignment explanation
Indices: 55624936--55625099 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 41
55624926 TTAGGGTTAC
* * **
55624936 TGAGATTATGTGTAAGGCCATATATGGGATATGGCATCTTTA
1 TGAGATT-TGTGTAAGACCATATCTGGGATATGGCATCGATA
*
55624978 TGAGATTTCGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGATTT-GTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
55625020 TGAGCCTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAG-ATTTGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* ** *
55625063 CGAGATTACATGTAAGACTATATCTGGGATATGGCAT
1 TGAGATT-TGTGTAAGACCATATCTGGGATATGGCAT
55625100 TGGTATGGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 67 0.65
43 35 0.34
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (41 bp):
TGAGATTTGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:55625091 original size:85 final size:84
Alignment explanation
Indices: 55624944--55625099 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 84
55624934 ACTGAGATTA
* * ** * * * *
55624944 TGTGTAAGGCCATATATGGGATATGGCATCTTTATGAGATTTCGTGTAAGACCATATTTGGGATA
1 TGTGTAAGACCATAGATGGGATATGGCATCGATACGAGATTACATGTAAGACCATATCTGGGATA
55625009 TGGCATCGATATGAGCCTT
66 TGGCATCGATATGAGCCTT
* * *
55625028 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACTATATCTGGGAT
1 TGTGTAAGACCATAGATGGGATA-TGGCATCGATACGAGATTACATGTAAGACCATATCTGGGAT
55625093 ATGGCAT
65 ATGGCAT
55625100 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
84 19 0.32
85 41 0.68
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (84 bp):
TGTGTAAGACCATAGATGGGATATGGCATCGATACGAGATTACATGTAAGACCATATCTGGGATA
TGGCATCGATATGAGCCTT
Found at i:55628907 original size:46 final size:46
Alignment explanation
Indices: 55628857--55629032 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55628847 TGGTTGAGCA
55628857 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55628903 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55628948 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55628996 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55629033 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55629013 original size:93 final size:93
Alignment explanation
Indices: 55628854--55629025 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55628844 GGATGGTTGA
* *
55628854 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55628919 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55628947 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55629012 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55629026 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55638362 original size:39 final size:39
Alignment explanation
Indices: 55638308--55638459 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
55638298 AATGTTCGAG
*
55638308 TGATATCCGGGCTAAGCCCGAAGGCAATTCTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
55638347 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
55638386 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55638425 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
55638460 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:55638475 original size:40 final size:39
Alignment explanation
Indices: 55638308--55638489 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
55638298 AATGTTCGAG
* * *
55638308 TGATATCCGGGCTAAGCCCGAAGGCAATTCTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
55638347 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
55638386 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
55638425 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
55638465 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
55638490 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:55645104 original size:38 final size:39
Alignment explanation
Indices: 55645008--55645158 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
55644998 AATGTTCGAG
55645008 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55645047 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55645086 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55645124 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
55645159 GGTTACCATA
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.34
39 51 0.50
40 17 0.17
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:55645104 original size:77 final size:79
Alignment explanation
Indices: 55645008--55645157 Score: 241
Period size: 77 Copynumber: 1.9 Consensus size: 79
55644998 AATGTTCGAG
55645008 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGTCCCGAAGGC
55645072 AATTGTGCAAGCTA
66 AATTGTGCAAGCTA
* * * *
55645086 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGTCCCGAAGGC
*
55645150 ATTTGTGC
66 AATTGTGC
55645158 GGGTTACCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 45 0.68
78 21 0.32
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.22
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCAAGCTA
Found at i:55645174 original size:40 final size:39
Alignment explanation
Indices: 55645008--55645188 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
55644998 AATGTTCGAG
*
55645008 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55645047 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55645086 TGAT-ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * * *
55645124 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** *
55645164 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
55645189 TGTTTTGAAC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 34 0.27
39 50 0.40
40 40 0.32
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:55652374 original size:40 final size:39
Alignment explanation
Indices: 55652193--55652344 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
55652183 AATGTTCGAG
55652193 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
55652232 TGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
55652271 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
55652310 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
55652345 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:55661213 original size:144 final size:144
Alignment explanation
Indices: 55660966--55661231 Score: 399
Period size: 144 Copynumber: 1.8 Consensus size: 144
55660956 TTGCGGACCG
* *** *
55660966 ACGCTTCCAACTGATAAACTTCAACATAGCTTGTGGACCTATGTTACCAGCTGATGTTTAAAGGT
1 ACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACACTACCAACTGATGTTTAAAGGT
* * *
55661031 CAGATGAGTTATACTCATAACCTTCATTTATTTAAGTAAGCTGAGTTAAGCTTGCTATTCTGGAA
66 CAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTAAGCTTGCTATTCTGGAA
55661096 TAGCTCGCGAACGT
131 TAGCTCGCGAACGT
* * *
55661110 ACGCTTCCAACTGATAAATTTCAACATAGCTAGTGGACCTACACTCCCAATTGATGTTTAAAGGA
1 ACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACACTACCAACTGATGTTTAAAGG-
* *
55661175 T-AGATAAATTATACTCAGAACCTTCTTTTATTTGAGTAAGCTGAGTTAAGCTTGCTA
65 TCAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTAAGCTTGCTA
55661232 CTCCAGAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
144 107 0.99
145 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (144 bp):
ACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACACTACCAACTGATGTTTAAAGGT
CAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTAAGCTTGCTATTCTGGAA
TAGCTCGCGAACGT
Found at i:55667363 original size:50 final size:49
Alignment explanation
Indices: 55667250--55667425 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
55667240 CTGGTACGCA
* * **
55667250 TAGTAGCCTGCACTTAGTACTACACATGCGACTAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACAGTCTAATACACG
* *
55667299 TAGTACCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CT-AACAGTCTAATACACG
* * *** * *
55667349 TAGTAGCCTGCACTTAATACTACACACGTGA-TCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACAG---TCTAATACACG
55667400 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
55667426 TGCGGCCTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.27
50 40 0.38
51 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAACAGTCTAATACACG
Found at i:55667435 original size:101 final size:99
Alignment explanation
Indices: 55667250--55667436 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 99
55667240 CTGGTACGCA
* * * *
55667250 TAGTAGCCTGCACTTAGTACTACACATGCGACTAACAGTCTGGTACACGTAGTACCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACACGCGACTAACAGTCGGGTACACATAGTACCCTGCACTTA
*
55667315 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
55667349 TAGTAGCCTGCACTTAATACTACACACGTGA-TCACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAATACTACACACGCGACTAACAG---TCGGGTACACATAGTACCCTGCAC
* *
55667413 TTAGTACTACACATGCGGCCTCAC
63 TTAGTACTACACACGCGACCTCAC
55667437 AATAGATCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
98 5 0.07
99 28 0.38
101 41 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACACGCGACTAACAGTCGGGTACACATAGTACCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:55670716 original size:30 final size:30
Alignment explanation
Indices: 55670680--55670741 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
55670670 TTCAACCTTA
55670680 TAATCATTTTCAATTACATATCATACCCTG
1 TAATCATTTTCAATTACATATCATACCCTG
*
55670710 TAATCATTTTCAATTACATATCATACTCTG
1 TAATCATTTTCAATTACATATCATACCCTG
55670740 TA
1 TA
55670742 CAATATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (30 bp):
TAATCATTTTCAATTACATATCATACCCTG
Found at i:55678173 original size:43 final size:43
Alignment explanation
Indices: 55678100--55678194 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
55678090 GTGACATAGT
* * *
55678100 CCAGACTGTGTGGGTATTTGAAGCAGGGACACACAGCTGTGTC
1 CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
* ** *
55678143 CCAGCCTGTGTGGGTATTCGAAGTAAGGACACATGGTTGTGTC
1 CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
55678186 CCAGCCTGT
1 CCAGCCTGT
55678195 ATGTCTATCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (43 bp):
CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
Found at i:55680864 original size:40 final size:40
Alignment explanation
Indices: 55680790--55681000 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
55680780 TCTTCGGAAT
** * *
55680790 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
55680828 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
55680868 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
55680908 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTTGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * * *
55680948 TTAGTCCGGATATAGTTACTAGCATAAAAGCCTTTGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
55680988 TTAGCCCAGATAT
1 TTAGCCCGGATAT
55681001 CATTCGAATA
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 125 0.86
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:55683049 original size:29 final size:29
Alignment explanation
Indices: 55682982--55683081 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
55682972 AATTTCACAT
*
55682982 ACATGTATCTGGCCCACTA-AGCCC-AATC
1 ACATGTATATGGCCCACTAGA-CCCAAATC
* *
55683010 ATAT-TCATATGGCCCACTAGGCCCAAATC
1 ACATGT-ATATGGCCCACTAGACCCAAATC
* * *
55683039 TCCTGTATATGGCCCATTAGACCCAAATC
1 ACATGTATATGGCCCACTAGACCCAAATC
*
55683068 ACATTTATATGGCC
1 ACATGTATATGGCC
55683082 TGTTAGGCCC
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 18 0.32
29 37 0.65
30 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATGTATATGGCCCACTAGACCCAAATC
Found at i:55683087 original size:29 final size:28
Alignment explanation
Indices: 55683003--55683105 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 28
55682993 GCCCACTAAG
* * * *
55683003 CCCAATCATATTCATATGGCCCACTAGG
1 CCCAATCACATTTATATGGCCCATTAGA
* * *
55683031 CCCAAATCTCCTGTATATGGCCCATTAGA
1 CCC-AATCACATTTATATGGCCCATTAGA
** *
55683060 CCCAAATCACATTTATATGGCCTGTTAGG
1 CCC-AATCACATTTATATGGCCCATTAGA
* *
55683089 CCCAGTCACATTCATAT
1 CCCAATCACATTTATAT
55683106 TCATGCTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
28 15 0.25
29 44 0.75
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
CCCAATCACATTTATATGGCCCATTAGA
Found at i:55685019 original size:46 final size:46
Alignment explanation
Indices: 55684959--55685324 Score: 592
Period size: 46 Copynumber: 8.0 Consensus size: 46
55684949 TTTGACATGA
* * * * * *
55684959 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
55685005 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
55685051 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
55685097 TGCCATGGTATCTTTCAACCATGGTCTTACACATATT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGT
* *
55685143 TGCCATGGTGTCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
55685189 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
55685235 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
55685281 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55685325 AGAGCACACT
Statistics
Matches: 303, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
45 6 0.02
46 295 0.97
47 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:55687828 original size:30 final size:30
Alignment explanation
Indices: 55687761--55687828 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
55687751 TACCCTTAAA
* * *
55687761 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
55687791 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
55687820 AGTATTTAC
1 A-TATTTAC
55687829 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:55694481 original size:5 final size:5
Alignment explanation
Indices: 55694471--55694503 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
55694461 CTGTGTGTTC
*
55694471 TTTAT TTTAT TTTAT TTTAT TTTAT TTTGT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
55694504 CACAGATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:55702535 original size:46 final size:48
Alignment explanation
Indices: 55702463--55702567 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
55702453 GACAGGATAG
* * *
55702463 GACAGAAATGAGCCATGTAAGTCCATATCAG-T-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
*
55702509 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAG--ATATATATGGCATTGGA
55702559 GACAGGAAT
1 GACAGGAAT
55702568 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 28 0.55
49 1 0.02
50 22 0.43
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
Found at i:55712328 original size:37 final size:36
Alignment explanation
Indices: 55712278--55712364 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
55712268 TACGAAGTCT
55712278 TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
*
55712314 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
55712351 TCACCCGGAACATA
1 T-ACCCGG-ACATA
55712365 TTTCCATGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCAGGTC
Found at i:55712500 original size:49 final size:49
Alignment explanation
Indices: 55712433--55712685 Score: 443
Period size: 49 Copynumber: 5.1 Consensus size: 49
55712423 TTTACCACAT
* *
55712433 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
55712482 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
55712531 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
55712580 ATACATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
55712629 ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCTC
1 --ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
55712680 ATATAT
1 ATATAT
55712686 TATTATGTAC
Statistics
Matches: 196, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
49 150 0.77
51 46 0.23
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:55719134 original size:40 final size:40
Alignment explanation
Indices: 55719090--55719240 Score: 239
Period size: 40 Copynumber: 3.8 Consensus size: 40
55719080 GGCTAAGTCT
55719090 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
*
55719130 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
* *
55719170 CGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
* ** *
55719210 CGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGG
55719241 CTAAATTCTG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
Found at i:55719210 original size:80 final size:80
Alignment explanation
Indices: 55719077--55719244 Score: 257
Period size: 80 Copynumber: 2.1 Consensus size: 80
55719067 TGAATGATAC
* * * * *
55719077 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
*
55719142 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
55719157 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
**
55719222 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
55719237 CC-GGCTAA
1 CCGGGCTAA
55719245 ATTCTGAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 6 0.08
80 74 0.93
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:55727254 original size:40 final size:40
Alignment explanation
Indices: 55727199--55727406 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
55727189 TGAATGATAC
* * *
55727199 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
55727239 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55727279 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55727319 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
55727359 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55727399 CC-GGCTAA
1 CCGGGCTAA
55727407 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:55734932 original size:44 final size:43
Alignment explanation
Indices: 55734818--55734945 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 43
55734808 GTAATTCAGT
* * *
55734818 ATCGATGCCTCTGTCCCAGATAGGGTCTTACACGAAATCT--A
1 ATCGATGCCTATGTCCCAGAAACGGTCTTACACGAAATCTCAA
* *
55734859 ATGCGATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGAAACGGTCTTACACG-AAATCTCAA
* * * *
55734904 ATCGAGGCCTGTGTGCCAGAAACGGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGAAACGGTCTTACACGAAATCTCA
55734946 TATCAATGTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.03
42 29 0.39
43 13 0.18
44 27 0.36
45 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGAAACGGTCTTACACGAAATCTCAA
Found at i:55734932 original size:86 final size:84
Alignment explanation
Indices: 55734786--55734943 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 84
55734776 ACACTCATAA
* * * * * *
55734786 ATGTCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGATAGGGTCTTACAC
1 ATGTCCAGACATGGTCTTACACGTAATTCAGAATCGAGGCCTCTGTCCCAGAAACGGTCTTACAC
55734851 GAAATCTAATGCGATGCCT
66 GAAATCTAATGCGATGCCT
* *
55734870 ATGTCCCAGACATGGTCTTACACGTAAATCTCA-AATCGAGGCCTGTGTGCCAGAAACGGTCTTA
1 ATGT-CCAGACATGGTCTTACACGT-AAT-TCAGAATCGAGGCCTCTGTCCCAGAAACGGTCTTA
*
55734934 CACGATATCT
63 CACGAAATCT
55734944 CATATCAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 4 0.06
85 18 0.29
86 37 0.60
87 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (84 bp):
ATGTCCAGACATGGTCTTACACGTAATTCAGAATCGAGGCCTCTGTCCCAGAAACGGTCTTACAC
GAAATCTAATGCGATGCCT
Found at i:55742916 original size:40 final size:39
Alignment explanation
Indices: 55742886--55743063 Score: 234
Period size: 39 Copynumber: 4.5 Consensus size: 39
55742876 GGACTAAGAT
* *
55742886 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
*
55742925 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
* *
55742964 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAG-C
*
55743004 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-C
* *
55743044 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
55743064 CGTTATATCC
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 73 0.57
40 48 0.38
41 7 0.05
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGC
Found at i:55742941 original size:39 final size:40
Alignment explanation
Indices: 55742833--55743063 Score: 258
Period size: 40 Copynumber: 5.8 Consensus size: 40
55742823 TTGAATGATG
* ** * *
55742833 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAA
** * * *
55742873 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55742913 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55742952 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55742991 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55743032 -CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGT
1 TCC-GGGTTAAGTCCCGAAGGCATTTGTGCGAGT
55743064 CGTTATATCC
Statistics
Matches: 168, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 73 0.43
40 82 0.49
41 13 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55743079 original size:79 final size:79
Alignment explanation
Indices: 55742833--55743064 Score: 220
Period size: 79 Copynumber: 2.9 Consensus size: 79
55742823 TTGAATGATG
* * ** * * ** * *
55742833 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTG-CGAGTTACTAAATCCGGGTTAAG-CCCGAAGGCATT
* * * *
55742897 CGTGCGAGTTAATAAA
64 TGAGCGAGTCACTAAA
*
55742913 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTG
* *
55742977 TGCGAGTTACTAAA
66 AGCGAGTCACTAAA
* *
55742991 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-CCCGAAGGCAT
55743054 TTGAGCGAGTC
63 TTGAGCGAGTC
55743065 GTTATATCCG
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
78 34 0.26
79 54 0.41
80 43 0.33
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTG
AGCGAGTCACTAAA
Found at i:55751042 original size:40 final size:39
Alignment explanation
Indices: 55750908--55751085 Score: 241
Period size: 39 Copynumber: 4.5 Consensus size: 39
55750898 GGACTAAGAT
* * * *
55750908 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGC
*
55750947 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGC
55750986 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-C
* * *
55751026 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCCGGGTTAAG-C
*
55751066 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
55751086 CGTTATATCC
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 73 0.57
40 46 0.36
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGC
Found at i:55760401 original size:47 final size:47
Alignment explanation
Indices: 55760347--55760540 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
55760337 TTAGGATTTT
** * *
55760347 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55760394 ATGTGATGAATGTGAACATGCATATAGGTGATAATGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55760441 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55760488 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55760535 ATGTGA
1 ATGTGA
55760541 AATATGTATG
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55760668 original size:98 final size:96
Alignment explanation
Indices: 55760511--55760694 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
55760501 GAACATGCAT
*
55760511 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
55760576 ATGGCTAATGTGAAGTATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
55760607 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
* *
55760671 TGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
55760695 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.03
98 51 0.64
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:55760710 original size:50 final size:48
Alignment explanation
Indices: 55760510--55760694 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
55760500 TGAACATGCA
55760510 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
55760558 TATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
55760606 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
55760656 TATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55760695 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:55760881 original size:37 final size:37
Alignment explanation
Indices: 55760840--55760985 Score: 265
Period size: 37 Copynumber: 3.9 Consensus size: 37
55760830 GGAAATATAT
*
55760840 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55760877 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55760914 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
55760951 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55760986 CGTCTGAGCT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55773178 original size:47 final size:47
Alignment explanation
Indices: 55773124--55773219 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
55773114 GTTGAATTTA
*
55773124 AAGCTTGTTAAATTTGCTCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
* *
55773171 AAGCTTGTTAAATTTTCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
55773218 AA
1 AA
55773220 AGAAAATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:55774550 original size:31 final size:31
Alignment explanation
Indices: 55774506--55774584 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
55774496 CTTGACATAT
*
55774506 ACTGGGCCAAAGCCTTTCCATAAATCATACC
1 ACTGGGCCGAAGCCTTTCCATAAATCATACC
* * *
55774537 AGTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATACC
55774568 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
55774585 ACTGTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTCCATAAATCATACC
Found at i:55774659 original size:42 final size:42
Alignment explanation
Indices: 55774612--55774699 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
55774602 CCTTAGGCCC
*
55774612 ATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCA
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCA
*
55774654 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCT
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCA
55774696 ATTT
1 ATTT
55774700 GGGAAGACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (42 bp):
ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCA
Found at i:55776684 original size:45 final size:44
Alignment explanation
Indices: 55776620--55776822 Score: 293
Period size: 45 Copynumber: 4.5 Consensus size: 44
55776610 CGCATAGTAT
*
55776620 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
55776665 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTC-GGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
55776710 TATTTGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
55776755 TATTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
55776800 TATT-GGGCTTTGAGCCTAGCAGG
1 TATTCGGGCTTTGAGCCTAGCAGG
55776823 GGAAATGCTG
Statistics
Matches: 145, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
43 11 0.08
44 13 0.09
45 118 0.81
46 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:55790051 original size:27 final size:27
Alignment explanation
Indices: 55790017--55790216 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
55790007 TGGATAAGTT
* *
55790017 GTAGAATTAACGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
55790044 GTAAAATTATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
55790071 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
55790098 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
55790125 GTCGAATTACTGAAATACCCTTGAAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
55790152 GTAGAAATACCAAAATACCGCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
55790179 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
55790206 GTAAAATTACC
1 GTAGAATTACC
55790217 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:55792011 original size:17 final size:17
Alignment explanation
Indices: 55791991--55792042 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 17
55791981 ATCTTTTCCA
55791991 TCTATCTTATTTATTGT
1 TCTATCTTATTTATTGT
55792008 TCTAACTCTTTGATTTATTGT
1 TCT-A-TC-TT-ATTTATTGT
*
55792029 TCTATTTTATTTAT
1 TCTATCTTATTTAT
55792043 ATTAGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 9 0.30
18 3 0.10
19 3 0.10
20 3 0.10
21 12 0.40
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.63
Consensus pattern (17 bp):
TCTATCTTATTTATTGT
Found at i:55793388 original size:47 final size:47
Alignment explanation
Indices: 55793317--55793485 Score: 143
Period size: 46 Copynumber: 3.6 Consensus size: 47
55793307 GGACTATTGT
* * * *
55793317 GAGCCAGTGTAAAACATGTTTGGGACATGCATCAGCCACAT-TG-CGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-ATGAGACGA
* *
55793363 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCAGTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAATGAGACGA
* * * *
55793411 GAGCTAGAGTAAGACATGTCTGAGACATGCATCAACC--TCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAAT-GAGACG-A
* *
55793458 -AGCCAGTGTAAGACATGTCTAGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
55793486 TATCGGCTAC
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 47 0.47
47 32 0.32
48 21 0.21
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.21
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAATGAGACGA
Found at i:55794417 original size:22 final size:22
Alignment explanation
Indices: 55794392--55794438 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
55794382 GTCTTTAGTG
* *
55794392 TTATTATTAATTATTTTTATTT
1 TTATTATTAATTACTTTTACTT
* *
55794414 TTATTTTTATTTACTTTTACTT
1 TTATTATTAATTACTTTTACTT
55794436 TTA
1 TTA
55794439 CTTGGCGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTATTAATTACTTTTACTT
Found at i:55797742 original size:11 final size:11
Alignment explanation
Indices: 55797726--55797755 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
55797716 TTATATGATC
55797726 TTTTATTATTA
1 TTTTATTATTA
55797737 TTTTATTATTA
1 TTTTATTATTA
55797748 TTTTATTA
1 TTTTATTA
55797756 GTATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:55799355 original size:16 final size:16
Alignment explanation
Indices: 55799334--55799371 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
55799324 GCATATAGAA
55799334 TTTGATTTATGTTAAG
1 TTTGATTTATGTTAAG
55799350 TTTGATTTATGTTAAG
1 TTTGATTTATGTTAAG
55799366 TTTGAT
1 TTTGAT
55799372 ATGAATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTGATTTATGTTAAG
Found at i:55800967 original size:40 final size:40
Alignment explanation
Indices: 55800884--55801104 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
55800874 ACCCAAGTAT
** * *
55800884 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** *
55800922 CTTCGGGTCTTAGCCCGGATATGGTTGCTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55800962 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55801002 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55801042 CTTCGGATCTTAGTCCGGATATAATCACATAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
55801083 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55801105 CATTTGAATA
Statistics
Matches: 150, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 13 0.09
40 96 0.64
41 29 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55801018 original size:80 final size:79
Alignment explanation
Indices: 55800884--55801104 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
55800874 ACCCAAGTAT
* * * * * *
55800884 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTT
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTA
* *
55800948 GCTAGCATAAATGC
66 ACTAGCACAAATGC
* * * * *
55800962 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGCCCGGATATAGT
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
55801027 AACTCGCACAAATGC
65 AACTAGCACAAATGC
*
55801042 CTTC-GGATCTTAGTCCGGATATAATCACATAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAC-TAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
55801105 CATTTGAATA
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 12 0.10
79 19 0.16
80 58 0.49
81 30 0.25
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTA
ACTAGCACAAATGC
Found at i:55808948 original size:40 final size:40
Alignment explanation
Indices: 55808858--55809078 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
55808848 ACCCAAGTAT
* ** * *
55808858 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55808896 CTTCGGGTCTTAGCCCGGATATGGTCGCTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
55808936 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAACTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
55808976 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
55809016 CTTC-GGATCTTAGTCCGGATATAATCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
55809057 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55809079 CATTTGAATA
Statistics
Matches: 147, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
38 11 0.07
39 16 0.11
40 90 0.61
41 27 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55811888 original size:39 final size:39
Alignment explanation
Indices: 55811833--55811970 Score: 172
Period size: 39 Copynumber: 3.5 Consensus size: 39
55811823 GGACTAAGAT
* *
55811833 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* *
55811872 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
*
55811911 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACC-GGGTTAAGTC
* *
55811951 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
55811971 CGTTATATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 9 0.10
39 49 0.56
40 25 0.29
41 4 0.05
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:55815670 original size:28 final size:28
Alignment explanation
Indices: 55815609--55815706 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
55815599 TCACAAATTG
** * *
55815609 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
55815638 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
55815666 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
55815694 GCACTAAGTGTGC
1 GCACTAAGTGTGC
55815707 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:55824075 original size:29 final size:29
Alignment explanation
Indices: 55824041--55824115 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
55824031 TACTCGATTT
*
55824041 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
55824070 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
55824099 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
55824116 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:55824132 original size:29 final size:29
Alignment explanation
Indices: 55824099--55824172 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55824089 CCTTCGAGCT
55824099 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55824128 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55824157 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55824173 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55834575 original size:40 final size:39
Alignment explanation
Indices: 55834531--55834660 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
55834521 TCGAATACAA
55834531 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
55834571 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
55834611 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
55834651 CCGGATATAA
1 CCGGATATAA
55834661 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:55837166 original size:43 final size:43
Alignment explanation
Indices: 55837100--55837242 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
55837090 CTTTGCTCGA
** * ** *
55837100 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCAAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCTGAATACAC
* *
55837143 ATCACCGGCACGAAGCCTACTAGGAACGAAGGCCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCTGAATACAC
* * * *
55837186 ATCACCAGCACAAAGCCTGCTAGGCATGAAGGCCTGATTACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCTGAATACAC
55837229 ATCACCGGCACGAA
1 ATCACCGGCACGAA
55837243 TGCCCTTCAG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.34, C:0.31, G:0.21, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCTGAATACAC
Found at i:55837296 original size:40 final size:40
Alignment explanation
Indices: 55837231--55837391 Score: 268
Period size: 40 Copynumber: 4.0 Consensus size: 40
55837221 GATTACACAT
* * * *
55837231 CACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
55837271 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
55837311 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55837351 CACCAGCACGAATGCTCTTCGGGACTTATCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
55837391 C
1 C
55837392 TCTCAATTCT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:55847563 original size:31 final size:31
Alignment explanation
Indices: 55847520--55847598 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
55847510 TTTAACGGTT
*
55847520 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
55847551 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
55847582 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
55847599 ACTATAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:55847888 original size:26 final size:26
Alignment explanation
Indices: 55847804--55847992 Score: 224
Period size: 26 Copynumber: 7.3 Consensus size: 26
55847794 TTGGAGGCCT
55847804 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
55847828 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
55847853 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
55847879 AGCCCTTTTCGGTAAACTGGGGGCATA
1 AGCCCTTTTCAATAAACT-GGGGCATA
* *
55847906 AGCCCTTTTCAATAAACTAGAGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
55847932 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* * *
55847958 ATCTCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
55847984 AGCCCTTTT
1 AGCCCTTTT
55847993 GCACTTCCTC
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.04
24 5 0.04
25 33 0.23
26 75 0.53
27 24 0.17
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:55847976 original size:52 final size:52
Alignment explanation
Indices: 55847804--55847992 Score: 278
Period size: 52 Copynumber: 3.7 Consensus size: 52
55847794 TTGGAGGCCT
*
55847804 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
55847853 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACT-GGGGCATA
* *
55847906 AGCCCTTTTCAATAAACTAGAGCATAAGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* *
55847958 ATCTCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
55847993 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
48 5 0.04
49 7 0.05
50 10 0.08
51 19 0.15
52 45 0.35
53 43 0.33
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:55848825 original size:27 final size:27
Alignment explanation
Indices: 55848790--55848881 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
55848780 GGGCATATTC
*
55848790 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCCTACAGGGGCT-TTACG
*
55848817 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
* *
55848844 GTCTTTTTACCCTACAGGAGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
55848871 GTCTTTTTACC
1 GTCATTTTACC
55848882 TAATAGGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:55848965 original size:27 final size:27
Alignment explanation
Indices: 55848932--55849311 Score: 167
Period size: 27 Copynumber: 14.0 Consensus size: 27
55848922 TTGGTAAATC
*
55848932 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
55848959 TGTAAACCAATGGTATTTCCA-TAATTTT
1 TACAAATCAAGGGTATTT-CAGTAA-TTT
* * *
55848987 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * **
55849015 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
55849042 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * **
55849069 CACAAA-CCAGTGTTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
55849096 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
* **
55849123 TACAAATCGAGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
55849150 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** ** *** *
55849177 TGTAAATTGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
** ** *
55849204 TGTAAATCAAGGGTAAAAT-AGTAATTC
1 TACAAATCAAGGGT-ATTTCAGTAATTT
* * *** * *
55849231 TATAAATCGAGGGTAAAACGGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
55849258 TATAAATCGAGGGTACTTT-GGTAATTT
1 TACAAATCAAGGGTA-TTTCAGTAATTT
* **
55849285 TACAATTTGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
55849312 GGTAAACTAA
Statistics
Matches: 281, Mismatches: 61, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
26 8 0.03
27 239 0.85
28 21 0.07
29 13 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:55849177 original size:54 final size:54
Alignment explanation
Indices: 55848920--55849191 Score: 217
Period size: 54 Copynumber: 5.0 Consensus size: 54
55848910 TACAAAGGTG
* * * * * *
55848920 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
*** * * *
55848974 TTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC-AGGGGTA
1 TTTTGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCGA-GGGTA
*** ** *** * *
55849030 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGTTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAG-GGTA
* * * **
55849084 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
* *
55849138 TTTTTGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
55849192 AAACAGTAAT
Statistics
Matches: 173, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
53 2 0.01
54 119 0.69
55 18 0.10
56 34 0.20
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
Found at i:55849191 original size:81 final size:79
Alignment explanation
Indices: 55848995--55849183 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 79
55848985 TTTAGAAAGT
* *
55848995 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTT-TGTAATTTTGTAAAT-AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
55849060 CGGTAATTTCACAAAC
64 CGGTAATTTCACAAAC
* **
55849076 C-AGTGTTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
1 CAAG-GGTATTTT-GTAATTTTGTAAA-TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
** *
55849140 TTTGTAATTTTACAAAC
63 TCGGTAATTTCACAAAC
55849157 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTT-GTAATTTTGTAAAT
55849184 TGAGGGTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
80 4 0.04
81 85 0.92
82 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (79 bp):
CAAGGGTATTTTGTAATTTTGTAAATAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
GTAATTTCACAAAC
Found at i:55850382 original size:27 final size:27
Alignment explanation
Indices: 55850344--55850398 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
55850334 GCTCCATGGC
55850344 CTCCAAGTTTGAGAGAATTTCTTTAAA
1 CTCCAAGTTTGAGAGAATTTCTTTAAA
55850371 CTCCAAGTTTGAGAGAATTTCTTTAAA
1 CTCCAAGTTTGAGAGAATTTCTTTAAA
55850398 C
1 C
55850399 ACTGTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
CTCCAAGTTTGAGAGAATTTCTTTAAA
Found at i:55862234 original size:27 final size:27
Alignment explanation
Indices: 55862109--55862220 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
55862099 GGTCGTTAGG
* * *
55862109 ACCCTTGTAGTGCAAAATTACTGAAAT
1 ACCCTCGTAGTGTAAAATTACAGAAAT
* *
55862136 ACCC-CTATAGTGCAAAATTATC-GAAAT
1 ACCCTC-GTAGTGTAAAATTA-CAGAAAT
55862163 ACCCTCGTAGTGTAAAATTACCA-AAAT
1 ACCCTCGTAGTGTAAAATTA-CAGAAAT
* *
55862190 ACCCTCG-ATTTGTGAAATTACAGAAAT
1 ACCCTCGTA-GTGTAAAATTACAGAAAT
55862217 ACCC
1 ACCC
55862221 CTGTATGGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.04
27 67 0.93
28 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (27 bp):
ACCCTCGTAGTGTAAAATTACAGAAAT
Found at i:55862242 original size:27 final size:27
Alignment explanation
Indices: 55862212--55862266 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
55862202 TGAAATTACA
* *
55862212 GAAATACCCCTGTATGGTAAAATGACT
1 GAAATACCCCTGCATGATAAAATGACT
* * *
55862239 GAAATGCCCTTGCATGATAAATTGACT
1 GAAATACCCCTGCATGATAAAATGACT
55862266 G
1 G
55862267 TTTTGCCCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTGCATGATAAAATGACT
Found at i:55865329 original size:40 final size:40
Alignment explanation
Indices: 55865274--55865461 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
55865264 ATAACCACAA
* *
55865274 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
55865314 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
55865354 ACACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
55865394 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * * *
55865434 GCATAAATACCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
55865462 GTATCATTCA
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:55865391 original size:80 final size:79
Alignment explanation
Indices: 55865254--55865461 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 79
55865244 TCTTCAGAAT
* * *
55865254 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
55865318 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
55865333 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCA
1 TTAGCCCGGATATAAC-ACT-AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCA
55865397 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* * * * *
55865413 TTAACCCGGATATAATCACTAGCATAAATACCTTCGGGGCTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
55865462 GTATCATTCA
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
79 6 0.05
80 108 0.93
81 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:55869167 original size:24 final size:24
Alignment explanation
Indices: 55869131--55869181 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
55869121 TAACTAGATA
* *
55869131 CTCTGATTTGTTATAGGTGCGGTG
1 CTCTGATTGGTTATAAGTGCGGTG
55869155 CTCTGATTGGTTATAAGTGCGGTG
1 CTCTGATTGGTTATAAGTGCGGTG
55869179 CTC
1 CTC
55869182 GTGAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.16, G:0.31, T:0.39
Consensus pattern (24 bp):
CTCTGATTGGTTATAAGTGCGGTG
Found at i:55882897 original size:21 final size:21
Alignment explanation
Indices: 55882870--55882930 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
55882860 TATAATGAGT
55882870 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
55882891 ATCTCATTA-CATATCATGTGC
1 ATATCA-TAGCATATCATGTGC
55882912 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
55882931 ATAACAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:55882929 original size:10 final size:11
Alignment explanation
Indices: 55882856--55882930 Score: 75
Period size: 10 Copynumber: 7.1 Consensus size: 11
55882846 ACCCAACCTA
*
55882856 TGCATATAATG
1 TGCATATCATG
* *
55882867 AGTATATCAT-
1 TGCATATCATG
*
55882877 AGCATATCATG
1 TGCATATCATG
*
55882888 TGCATCTCAT-
1 TGCATATCATG
*
55882898 TACATATCATG
1 TGCATATCATG
55882909 TGCATATCATG
1 TGCATATCATG
55882920 T-CATATCATG
1 TGCATATCATG
55882930 T
1 T
55882931 ATAACAATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
10 27 0.51
11 26 0.49
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (11 bp):
TGCATATCATG
Found at i:55883335 original size:21 final size:20
Alignment explanation
Indices: 55883280--55883336 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
55883270 TGGGCCCAAA
*
55883280 AGCCCATTGGGCCTAATTCC
1 AGCCCATTGGGCCCAATTCC
*
55883300 AACCCATTGGGCCCAATTCC
1 AGCCCATTGGGCCCAATTCC
55883320 AGCCCATTGAGGCCCAA
1 AGCCCATTG-GGCCCAA
55883337 CTTACCATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.25, C:0.37, G:0.19, T:0.19
Consensus pattern (20 bp):
AGCCCATTGGGCCCAATTCC
Found at i:55886208 original size:13 final size:13
Alignment explanation
Indices: 55886190--55886216 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55886180 GGTTGTTTAT
55886190 TAAACTAATTAAC
1 TAAACTAATTAAC
55886203 TAAACTAATTAAC
1 TAAACTAATTAAC
55886216 T
1 T
55886217 GATTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:55888215 original size:76 final size:76
Alignment explanation
Indices: 55888129--55888282 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
55888119 AAGGGTAAAT
55888129 TAAGTAAGAAGATTTCAACAATAATAGGTTAATGGGTTAATGATGAGGGTTAATCAATAAAAAAT
1 TAAGTAAGAAGATTTCAACAATAATAGGTTAATGGGTTAATGATGAGGGTTAATCAATAAAAAAT
55888194 AAAAAAGTTAG
66 AAAAAAGTTAG
55888205 TAAGTAAGAAGATTTCAACAATAATAGGTTAATGGGTTAATGATGAGGGTTAATCAATAAAAAAT
1 TAAGTAAGAAGATTTCAACAATAATAGGTTAATGGGTTAATGATGAGGGTTAATCAATAAAAAAT
55888270 AAAAAAGTTAG
66 AAAAAAGTTAG
55888281 TA
1 TA
55888283 GGCTCAAAGG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (76 bp):
TAAGTAAGAAGATTTCAACAATAATAGGTTAATGGGTTAATGATGAGGGTTAATCAATAAAAAAT
AAAAAAGTTAG
Found at i:55889226 original size:6 final size:6
Alignment explanation
Indices: 55889217--55889291 Score: 98
Period size: 6 Copynumber: 12.5 Consensus size: 6
55889207 AATAAAATTG
* * *
55889217 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAG AGATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
55889265 AAATAA AATATAA AAA-AG AAATAA AAA
1 AAATAA AA-ATAA AAATAA AAATAA AAA
55889292 GATAGGAGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
5 4 0.07
6 50 0.83
7 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:55889259 original size:30 final size:30
Alignment explanation
Indices: 55889223--55889291 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
55889213 ATTGAAATGA
55889223 AAATAAAAATAAAAATAAAA-ATAAAAATAG
1 AAATAAAAATAAAAATAAAATATAAAAA-AG
*
55889253 AGATAAAAATAAAAATAAAATATAAAAAAG
1 AAATAAAAATAAAAATAAAATATAAAAAAG
55889283 AAATAAAAA
1 AAATAAAAA
55889292 GATAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 29 0.81
31 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (30 bp):
AAATAAAAATAAAAATAAAATATAAAAAAG
Found at i:55894740 original size:13 final size:13
Alignment explanation
Indices: 55894722--55894748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55894712 GGTTGTTTAT
55894722 TAAACTAATTAAC
1 TAAACTAATTAAC
55894735 TAAACTAATTAAC
1 TAAACTAATTAAC
55894748 T
1 T
55894749 GATTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:55898137 original size:28 final size:28
Alignment explanation
Indices: 55898103--55898174 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
55898093 TTTTGTATGA
* **
55898103 GTGGCTTTGCCACGTATTTTCTG-TTTTG
1 GTGGCTTTGCCACG-ATATTCTGATACTG
*
55898131 GTGGCTTAGCCAC-ATATTCTGATACTG
1 GTGGCTTTGCCACGATATTCTGATACTG
55898158 GTGGCTTTGCCACGATA
1 GTGGCTTTGCCACGATA
55898175 CTTTTATTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.19
27 15 0.41
28 15 0.41
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (28 bp):
GTGGCTTTGCCACGATATTCTGATACTG
Found at i:55898661 original size:27 final size:27
Alignment explanation
Indices: 55898609--55898661 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
55898599 TATTTTTGGG
*
55898609 TTTGATTTTGTAATAAGGGCACTTGAA
1 TTTGATTTTGTAATAAGGCCACTTGAA
* * *
55898636 TTTGATTTTTTTATAAGGCCATTTGA
1 TTTGATTTTGTAATAAGGCCACTTGA
55898662 GGTTAACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (27 bp):
TTTGATTTTGTAATAAGGCCACTTGAA
Found at i:55899099 original size:28 final size:29
Alignment explanation
Indices: 55899057--55899113 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
55899047 TTTAAAATTT
*
55899057 TTTTTCTCTCAAATTAGGGTTTT-GAAAAG
1 TTTTTCTCTAAAATT-GGGTTTTGGAAAAG
*
55899086 TTTTTCT-TAAAATTTGGTTTTGGAAAAG
1 TTTTTCTCTAAAATTGGGTTTTGGAAAAG
55899114 ATGATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 12 0.48
29 7 0.28
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (29 bp):
TTTTTCTCTAAAATTGGGTTTTGGAAAAG
Found at i:55903750 original size:71 final size:72
Alignment explanation
Indices: 55903668--55903829 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 72
55903658 CATCATGTGT
* * * **
55903668 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55903732 CATGTAG
66 CATGTAG
* * *
55903739 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55903803 CATGTAG
66 CATGTAG
55903810 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
55903830 ATCGGTTAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.04
71 75 0.94
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:55911257 original size:70 final size:72
Alignment explanation
Indices: 55911176--55911336 Score: 229
Period size: 70 Copynumber: 2.3 Consensus size: 72
55911166 CATCATGTGT
* * * **
55911176 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATTCC-AGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55911239 CATGTAG
66 CATGTAG
* * *
55911246 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55911310 CATGTAG
66 CATGTAG
55911317 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
55911337 ATCGGTTAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 3 0.04
70 39 0.49
71 35 0.44
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:55913238 original size:29 final size:29
Alignment explanation
Indices: 55913205--55913278 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55913195 CCTTCGAGCT
55913205 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55913234 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55913263 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55913279 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55913239 original size:58 final size:58
Alignment explanation
Indices: 55913146--55913278 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
55913136 ATACTCGATT
* * * * *
55913146 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
55913204 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
55913262 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
55913279 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:55921085 original size:29 final size:28
Alignment explanation
Indices: 55921015--55921089 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
55921005 ATACTCGATT
* *
55921015 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
55921043 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
55921072 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
55921090 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:55921106 original size:29 final size:29
Alignment explanation
Indices: 55921073--55921146 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55921063 CCTTCGAGCT
55921073 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55921102 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55921131 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55921147 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55923393 original size:28 final size:28
Alignment explanation
Indices: 55923332--55923429 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
55923322 TCACAAATTG
** * *
55923332 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
55923361 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
55923389 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
55923417 GCACTAAGTGTGC
1 GCACTAAGTGTGC
55923430 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:55927408 original size:20 final size:20
Alignment explanation
Indices: 55927383--55927420 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55927373 AAAAGCATAC
*
55927383 AAAATTTTAAAAATATATTA
1 AAAATTATAAAAATATATTA
*
55927403 AAAATTATAAAATTATAT
1 AAAATTATAAAAATATAT
55927421 AGAATTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTATAAAAATATATTA
Found at i:55927850 original size:18 final size:18
Alignment explanation
Indices: 55927809--55927850 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
55927799 GAGATTATTA
55927809 TATTATAAATTTTATATG
1 TATTATAAATTTTATATG
* *
55927827 TCTTATAATTTTTATGAT-
1 TATTATAAATTTTAT-ATG
55927845 TATTAT
1 TATTAT
55927851 GTTTATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
TATTATAAATTTTATATG
Found at i:55927920 original size:18 final size:18
Alignment explanation
Indices: 55927897--55928032 Score: 68
Period size: 18 Copynumber: 7.6 Consensus size: 18
55927887 ACCATTTCCT
55927897 ATATTTTTATATTTTATA
1 ATATTTTTATATTTTATA
*
55927915 ATATTTTTAGATTTTTTTATA
1 ATATTTTT--A-TATTTTATA
** * *
55927936 A-ATTTAAAATATTTTTTTT
1 ATATTT-TTATA-TTTTATA
* *
55927955 ATATTTTTACATTTTCTA
1 ATATTTTTATATTTTATA
** *
55927973 ATAAATTT-TCTTTTATA
1 ATATTTTTATATTTTATA
* *
55927990 A-ATTTTTGTATTTCA-A
1 ATATTTTTATATTTTATA
55928006 ATA-TTTTATAATTTT-TA
1 ATATTTTTAT-ATTTTATA
55928023 ATATTTTTAT
1 ATATTTTTAT
55928033 TGATTAAAAT
Statistics
Matches: 85, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
16 11 0.13
17 21 0.25
18 26 0.31
19 9 0.11
20 9 0.11
21 9 0.11
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
ATATTTTTATATTTTATA
Found at i:55929431 original size:20 final size:20
Alignment explanation
Indices: 55929366--55929432 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
55929356 AAAAATATAA
*
55929366 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAGAAATT
*
55929386 ATTTT-AAGTTTTAGAAATT
1 ATTTTGAATTTTTAGAAATT
55929405 ATTTTTGAATTTTT-GAAAATT
1 A-TTTTGAATTTTTAG-AAATT
55929426 ATTTTGA
1 ATTTTGA
55929433 TTCTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.25
19 2 0.05
20 16 0.40
21 12 0.30
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAGAAATT
Found at i:55931899 original size:2 final size:2
Alignment explanation
Indices: 55931860--55931884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55931850 GGGTTATTTA
55931860 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55931885 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55932595 original size:3 final size:3
Alignment explanation
Indices: 55932589--55932621 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55932579 TGACAAAAAC
55932589 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55932622 AAGGTCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55936145 original size:50 final size:50
Alignment explanation
Indices: 55936029--55936308 Score: 294
Period size: 50 Copynumber: 5.5 Consensus size: 50
55936019 GTGAGAACAT
* * ** * *
55936029 ATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTT-TTGGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATTGTTAGGTCAC
* *
55936081 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* * * * *
55936131 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAGCTTCGATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TTAGGTCAC
* * * * * *
55936182 GTGTGTAGTACTAAGTGCAGACTACTACGTGTATCTGATGGTTAGGTCAT
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* * * *
55936232 GTGTATAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
55936282 ATGTGTAGTACTAAGTGCAGGCTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTA
55936309 TTCGTACCAG
Statistics
Matches: 189, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.02
50 118 0.62
51 40 0.21
52 28 0.15
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
Found at i:55936207 original size:101 final size:99
Alignment explanation
Indices: 55936077--55936308 Score: 297
Period size: 101 Copynumber: 2.3 Consensus size: 99
55936067 CGGTTTTGGG
*
55936077 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTG-TAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT--CATGTGATAGTA
* * *
55936141 CTAAGTGCAGGCTACTATGCGTACTC-GATAGCTTCGA
64 CTAAGTGCAAGCTACTACGCGTAC-CAGATAG-TTAGA
* * *
55936178 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCTGATGGTTAGGTCATGTGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCATGTG-ATAGTAC
* * *
55936243 TAAGTGCAAGCTACTACGTGTACCAGATTGTTAGG
65 TAAGTGCAAGCTACTACGCGTACCAGATAGTTAGA
* *
55936278 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
55936309 TTCGTACCAG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 6 0.05
100 32 0.28
101 77 0.67
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCATGTGATAGTACT
AAGTGCAAGCTACTACGCGTACCAGATAGTTAGA
Found at i:55936306 original size:151 final size:152
Alignment explanation
Indices: 55936030--55936315 Score: 448
Period size: 151 Copynumber: 1.9 Consensus size: 152
55936020 TGAGAACATA
* * * * * *
55936030 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTTTTGGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTATAAGACGG-TTTAGGTCACGTGTATAGTACTAA
*
55936095 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
55936160 CGTACTCGATAGCTTCGATCACG
130 CGTACTCGATAGCTTCGATCACG
** * *
55936183 TGTGTAGTACTAAGTGCAGACTACTACGTGTATCTGATGG-TTAGGTCATGTGTATAGTACTAAG
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTATAAGACGGTTTAGGTCACGTGTATAGTACTAAG
*
55936247 TGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATTC
66 TGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
55936312 GTAC
131 GTAC
55936316 CAGAGAGCTT
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
151 88 0.73
153 33 0.27
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGACTACTACGTGTATAAGACGGTTTAGGTCACGTGTATAGTACTAAG
TGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACTCGATAGCTTCGATCACG
Found at i:55939264 original size:11 final size:11
Alignment explanation
Indices: 55939250--55939280 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
55939240 CAGGCCTACC
55939250 ACACGGCCTGT
1 ACACGGCCTGT
55939261 ACACGGCCTGT
1 ACACGGCCTGT
55939272 ACACGGCCT
1 ACACGGCCT
55939281 TGTGGTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.26, T:0.16
Consensus pattern (11 bp):
ACACGGCCTGT
Found at i:55942837 original size:350 final size:350
Alignment explanation
Indices: 55942190--55942888 Score: 1240
Period size: 350 Copynumber: 2.0 Consensus size: 350
55942180 TGTAACAGCC
* *
55942190 TGATTCAGACCCTAATCGGAACGGTGGTTTTGAGACCACGAATCTGAGTCAGAAAAATATTTAAA
1 TGATTCAGACCCTAATCAGAACGGTGGTTTAGAGACCACGAATCTGAGTCAGAAAAATATTTAAA
*
55942255 AATTATTTTCTGTGTTTTTTTTGTGTGAATTTATATTTGTGAAATTTTCGTGATTTAATTTTGTC
66 AATTATTTTCTGTGTTTATTTTGTGTGAATTTATATTTGTGAAATTTTCGTGATTTAATTTTGTC
* *
55942320 GTTTAGGTGTTCGATTAAATAAAAGGACTTAATCGTGTAAAATGAAAATTCTGTGGTTTTTCTAA
131 GTTTAGGTGTTCGATTAAATAAAAGGACTTAATCGCGTAAAATGAAAATTCGGTGGTTTTTCTAA
55942385 AAAGGGCTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAG
196 AAAGGGCTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAG
55942450 AATAAGTGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAG
261 AATAAGTGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAG
55942515 TAATTAGATAAAATGTTATTATATT
326 TAATTAGATAAAATGTTATTATATT
* *
55942540 TGATTTAGACCCTAATTAGAACGGTGGTTTCAG-GACCACGAATC-GAGTCAGAAAAATATTTAA
1 TGATTCAGACCCTAATCAGAACGGTGGTTT-AGAGACCACGAATCTGAGTCAGAAAAATATTTAA
* * * *
55942603 AATTTTTTTTCTGTGTTTATTTTGTGTGAATTTATATTTGTGAATTTTTTGTGATTTAATTTTGT
65 AAATTATTTTCTGTGTTTATTTTGTGTGAATTTATATTTGTGAAATTTTCGTGATTTAATTTTGT
55942668 CGTTTAGGTGTTCGATTAAATAAAAGGACTTAATCGCGTAAAATGAAAATTCGGTGGTTTTTTCT
130 CGTTTAGGTGTTCGATTAAATAAAAGGACTTAATCGCGTAAAATGAAAATTCGGTGG-TTTTTCT
*
55942733 AAAAAGGGCTAAATTGTACTTGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAG
194 AAAAAGGGCTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAG
**
55942798 AGAATAAGTGGATGGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATA
259 AGAATAAGTGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATA
55942863 AGTAATTAGATAAAATGTTATTATAT
324 AGTAATTAGATAAAATGTTATTATAT
55942889 GTTATTATAT
Statistics
Matches: 333, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
349 134 0.40
350 198 0.59
351 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (350 bp):
TGATTCAGACCCTAATCAGAACGGTGGTTTAGAGACCACGAATCTGAGTCAGAAAAATATTTAAA
AATTATTTTCTGTGTTTATTTTGTGTGAATTTATATTTGTGAAATTTTCGTGATTTAATTTTGTC
GTTTAGGTGTTCGATTAAATAAAAGGACTTAATCGCGTAAAATGAAAATTCGGTGGTTTTTCTAA
AAAGGGCTAAATTGTACTGGGCTTTTTAAATGGAAGCCTTAAAGTTGCAATTAACCCATTAAGAG
AATAAGTGGACAGTACTAGGCATATGTTATATGGCTTTGTTATAATATTATTAAGGTTAAATAAG
TAATTAGATAAAATGTTATTATATT
Found at i:55942892 original size:10 final size:10
Alignment explanation
Indices: 55942877--55942903 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
55942867 ATTAGATAAA
55942877 ATGTTATTAT
1 ATGTTATTAT
55942887 ATGTTATTAT
1 ATGTTATTAT
55942897 ATGTTAT
1 ATGTTAT
55942904 AATTTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (10 bp):
ATGTTATTAT
Found at i:55945722 original size:39 final size:39
Alignment explanation
Indices: 55945609--55945802 Score: 194
Period size: 39 Copynumber: 4.9 Consensus size: 39
55945599 CTCGTTCAAA
* * * *
55945609 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC-AAT
* * *
55945650 -GCCTTTGGGACTTAACCCGGATATCACAACTCGCACAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* *
55945689 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* * * * *
55945728 TGCCTTCGAGCTTAGCCC-GATATCACAATTCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* * *
55945766 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
55945803 TTCATACACA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 34 0.26
39 62 0.47
40 37 0.28
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:55945771 original size:77 final size:79
Alignment explanation
Indices: 55945609--55945804 Score: 227
Period size: 77 Copynumber: 2.5 Consensus size: 79
55945599 CTCGTTCAAA
* * * * * ** * *
55945609 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTTGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGAGACTTAACCCGGATAT
55945674 CACAACTCGCACAAT
65 CACAACTCGCACAAT
*
55945689 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGAG-CTTAGCCC-GATATC
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGAGACTTAACCCGGATATC
* *
55945752 ACAATTCGCACATT
66 ACAACTCGCACAAT
* *
55945766 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
55945805 CATACACATC
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 52 0.51
78 9 0.09
79 30 0.30
80 10 0.10
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (79 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGAGACTTAACCCGGATATC
ACAACTCGCACAAT
Found at i:55945803 original size:39 final size:39
Alignment explanation
Indices: 55945649--55945804 Score: 217
Period size: 39 Copynumber: 4.0 Consensus size: 39
55945639 CCCGCACAAA
* * * *
55945649 TGCCTTTGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* *
55945689 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
*
55945728 TGCCTTCGAGCTTAGCCC-GATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
55945766 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
55945805 CATACACATC
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
38 34 0.33
39 61 0.59
40 8 0.08
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:55948730 original size:2 final size:2
Alignment explanation
Indices: 55948723--55948761 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
55948713 TATGCATGTG
55948723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55948762 GTTTGGATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55950821 original size:14 final size:15
Alignment explanation
Indices: 55950793--55950821 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55950783 CTCTTTCTTG
55950793 GACAAGAATAATCCA
1 GACAAGAATAATCCA
55950808 GACAAGAA-AATCCA
1 GACAAGAATAATCCA
55950822 TATGAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (15 bp):
GACAAGAATAATCCA
Found at i:55954648 original size:96 final size:96
Alignment explanation
Indices: 55954484--55954663 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 96
55954474 TAAATTTCCA
* * * * *
55954484 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
*
55954549 TGGTCTTACTCTAGCTCTCGTAACATTGCCG
66 TGGTCTTACACTAGCTCTCGTAACATTGCCG
* * *
55954580 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACAT-ATCGAGGCTGATGCCATGTCCCAAAC
*
55954644 ATGGTCTTACACTGGCTCTC
65 ATGGTCTTACACTAGCTCTC
55954664 ATAATGTGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATAGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCGTAACATTGCCG
Found at i:55954667 original size:48 final size:48
Alignment explanation
Indices: 55954484--55954671 Score: 225
Period size: 48 Copynumber: 3.9 Consensus size: 48
55954474 TAAATTTCCA
* * * * *
55954484 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCACAT-GTCGAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
* * * * ** * *
55954532 ATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
* *
55954580 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATAATGTGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
55954628 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
55954672 ATCTTACATT
Statistics
Matches: 116, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTG
Found at i:55954688 original size:25 final size:25
Alignment explanation
Indices: 55954648--55954696 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
55954638 CCAAACATGG
55954648 TCTTACACTGGCTCTCATAATGTGA
1 TCTTACACTGGCTCTCATAATGTGA
* *
55954673 TCTTACATTGGTTCTCATAATGTG
1 TCTTACACTGGCTCTCATAATGTG
55954697 GCCGATGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (25 bp):
TCTTACACTGGCTCTCATAATGTGA
Found at i:55961187 original size:14 final size:13
Alignment explanation
Indices: 55961154--55961190 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
55961144 TTACCTAAAT
55961154 AAACTTTAAATAA
1 AAACTTTAAATAA
55961167 AAACTTTAAATAA
1 AAACTTTAAATAA
55961180 AAACCTTTAAA
1 AAA-CTTTAAA
55961191 ATTCATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (13 bp):
AAACTTTAAATAA
Found at i:55965685 original size:32 final size:32
Alignment explanation
Indices: 55965644--55965760 Score: 180
Period size: 32 Copynumber: 3.7 Consensus size: 32
55965634 TGATATTGAA
55965644 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
55965676 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
* * * * *
55965708 ATAGGCTAAGCCCAACTGATATTGATTTTGAG
1 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
*
55965740 ATGGGCTAGGCCCAATTGATA
1 ATGGGCTAGGCCCAACTGATA
55965761 CTGTGATGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
Found at i:55975589 original size:40 final size:39
Alignment explanation
Indices: 55975544--55975673 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
55975534 CGGAATACAA
55975544 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
55975584 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
55975624 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
55975664 CCGGATATAA
1 CCGGATATAA
55975674 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:55983625 original size:40 final size:39
Alignment explanation
Indices: 55983580--55983709 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
55983570 CGGAATACAA
55983580 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
55983620 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
55983660 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
55983700 CCGGATATAA
1 CCGGATATAA
55983710 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:55988783 original size:71 final size:72
Alignment explanation
Indices: 55988701--55988862 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 72
55988691 CATCATGTGT
* * * **
55988701 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55988765 CATGTAG
66 CATGTAG
* * *
55988772 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55988836 CATGTAG
66 CATGTAG
55988843 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
55988863 ATCGGTTAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.04
71 75 0.94
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:55996292 original size:70 final size:72
Alignment explanation
Indices: 55996211--55996371 Score: 229
Period size: 71 Copynumber: 2.3 Consensus size: 72
55996201 CATCATGTGT
* * * **
55996211 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGA-TCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55996274 CATGTAG
66 CATGTAG
* * *
55996281 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
55996345 CATGTAG
66 CATGTAG
55996352 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
55996372 ATCGGTTAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 3 0.04
70 35 0.44
71 39 0.49
72 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:56001473 original size:27 final size:27
Alignment explanation
Indices: 56001397--56001474 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
56001387 TTGGAGGAAG
* *
56001397 TTCTGTACTAGTGGCTTTGCCACGTAT
1 TTCTGTACTGGTGGCTTTGCCACATAT
* *
56001424 TTGCTGTTCTGGTGGCTTAGCCACATA-
1 TT-CTGTACTGGTGGCTTTGCCACATAT
56001451 TTCTGATACTGGTGGCTTTGCCAC
1 TTCTG-TACTGGTGGCTTTGCCAC
56001475 GATACTGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.07
27 20 0.47
28 20 0.47
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.38
Consensus pattern (27 bp):
TTCTGTACTGGTGGCTTTGCCACATAT
Found at i:56002825 original size:30 final size:29
Alignment explanation
Indices: 56002686--56002835 Score: 156
Period size: 29 Copynumber: 5.1 Consensus size: 29
56002676 TGTGCTAAAC
** * * *
56002686 GATGGTTGAAACCATCTCTTTTCATTAATC
1 GATGGTTGTCACCATCCCTTTTCA-TAGTT
**
56002716 GATGGTCATCACCATCCCTTTTCATAGTT
1 GATGGTTGTCACCATCCCTTTTCATAGTT
* * **
56002745 GATGGTCGTCACTATCTGTTTTCATAGTT
1 GATGGTTGTCACCATCCCTTTTCATAGTT
*
56002774 AATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTTGTCACCATCCCTTTTCATAGTT
* *
56002803 GATGGTTTTTACCATCCCCTTTTCATAGTT
1 GATGGTTGTCACCAT-CCCTTTTCATAGTT
56002833 GAT
1 GAT
56002836 AGTCAAAAAC
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
29 64 0.64
30 36 0.36
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (29 bp):
GATGGTTGTCACCATCCCTTTTCATAGTT
Found at i:56004029 original size:22 final size:22
Alignment explanation
Indices: 56003990--56004031 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56003980 CCTTTAGCCA
*
56003990 TCCTGTCTATGACGTTGAGCTG
1 TCCTGTCTATGACATTGAGCTG
*
56004012 TCCTGTCTATGATATTGAGC
1 TCCTGTCTATGACATTGAGC
56004032 CGTCTTGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (22 bp):
TCCTGTCTATGACATTGAGCTG
Found at i:56007685 original size:27 final size:27
Alignment explanation
Indices: 56007654--56007705 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56007644 CATCTGATAT
*
56007654 TGATTCTG-TACTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGC-TAGGCCCACC
56007681 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTGTTAATGGGCTAGGCCCA
56007706 ACTGTTACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.31
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAGGCCCACC
Found at i:56008498 original size:29 final size:29
Alignment explanation
Indices: 56008440--56008510 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
56008430 GGTCATTACC
* * **
56008440 ATTCCTTTTCATAGTTGATGGTTGCCACT
1 ATTCCTTTTCATAGTTGATAGTCGAAACT
*
56008469 ATTCCTTTTCATCGTTGATAGTCGAAACT
1 ATTCCTTTTCATAGTTGATAGTCGAAACT
56008498 A-TCCATTTTCATA
1 ATTCC-TTTTCATA
56008511 TTCGATGCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (29 bp):
ATTCCTTTTCATAGTTGATAGTCGAAACT
Found at i:56034908 original size:33 final size:34
Alignment explanation
Indices: 56034861--56034928 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
56034851 AGCCCAGATA
*
56034861 AGTAACAGTCTGGGCCTGAGCCCATTACAG-AAC
1 AGTAACAGTCTGGGCCTGAGCCCAATACAGTAAC
* *
56034894 AGTAACAGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTAACAGTCTGGGCCTGAGCCCAATACAGTAAC
56034928 A
1 A
56034929 ATACAGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (34 bp):
AGTAACAGTCTGGGCCTGAGCCCAATACAGTAAC
Done.