Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 146 of 186
Found at i:48218997 original size:93 final size:96
Alignment explanation
Indices: 48218802--48219120 Score: 305
Period size: 98 Copynumber: 3.3 Consensus size: 96
48218792 TGTGTGTGCT
* * * * *
48218802 AGTGTAAAACCTATCTGGGACATGGCATCGGCATCGATAG-ATGAAAGCCAGTGTAAGACCTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-TTGAT-GTATGGAAGTCAGTGTAAGACCTGTC
* * **
48218866 TGGGACATGGCATCAGCCTCAAGATA-TGCA-AGTT
64 TGGGACATGGCATC-GACAC-AGATAGTG-AGAGCC
* * * *
48218900 AGTGTAAAACCTGTCTGGGACATGGTATCGGCTTGA-G-GT-G-TGTCAGTGTAAGACCTGTCTG
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTG
48218961 GGACATGGCATCGACACAGATAAGTGAGAGCC
66 GGACATGGCATCGACACAGAT-AGTGAGAGCC
* * * *
48218993 AGTGTAAGACCTGTCTAGGACATGACATCAGACTTGATGTATGGAAGTTAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GGCTTGATGTATGGAAGTCAGTGTAAGACCTGTCT
*
48219058 GGGACATGGCATCGA-ATTAGAT-GTGAGAGCC
65 GGGACATGGCATCGACA-CAGATAGTGAGAGCC
* * *
48219089 AGCGTAAGACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGG
48219121 GATCGTACCC
Statistics
Matches: 185, Mismatches: 26, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
91 4 0.02
92 5 0.03
93 60 0.32
94 6 0.03
95 3 0.02
96 21 0.11
97 19 0.10
98 67 0.36
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTG
GGACATGGCATCGACACAGATAGTGAGAGCC
Found at i:48219054 original size:142 final size:144
Alignment explanation
Indices: 48218793--48219071 Score: 388
Period size: 142 Copynumber: 2.0 Consensus size: 144
48218783 TTTGGGTGAT
*
48218793 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGGCATCGATAGATGAAAGCCAGTGTAA
1 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAA
* *
48218858 GACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAAGTTAGTGTAAAACCTGTCTGGGACAT
66 GACCTGTCTAGGACATGACATCAGCCTCAAGATATGCAAGTTAGTGTAAAACCTGTCTGGGACAT
*
48218923 GGTATCGGCTTGAG
131 GGCATCGGCTTGAG
* * *
48218937 GTGTGT-C-AGTGTAAGACCTGTCTGGGACATGGCATCGACA-CAGATA-AGTGAGAGCCAGTGT
1 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACATC-GATAGA-TGAAAGCCAGTGT
* * * * *
48218998 AAGACCTGTCTAGGACATGACATCAGACTTGATG-TATGGAAGTTAGTGTAAGACCTGTCTGGGA
64 AAGACCTGTCTAGGACATGACATCAG-CCTCAAGATATGCAAGTTAGTGTAAAACCTGTCTGGGA
48219062 CATGGCATCG
128 CATGGCATCG
48219072 AATTAGATGT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
141 2 0.02
142 107 0.89
143 5 0.04
144 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (144 bp):
GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAA
GACCTGTCTAGGACATGACATCAGCCTCAAGATATGCAAGTTAGTGTAAAACCTGTCTGGGACAT
GGCATCGGCTTGAG
Found at i:48221390 original size:93 final size:93
Alignment explanation
Indices: 48221278--48221449 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
48221268 CGCCCATAAG
*
48221278 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
48221342 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
48221371 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48221436 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48221450 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48221444 original size:46 final size:46
Alignment explanation
Indices: 48221271--48221446 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
48221261 TGTAACCCGC
* *
48221271 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
48221317 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48221367 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48221410 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48221447 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48228969 original size:93 final size:93
Alignment explanation
Indices: 48228857--48229028 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48228847 CGCCCATAAG
* *
48228857 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48228922 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48228950 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48229015 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48229029 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48229025 original size:46 final size:46
Alignment explanation
Indices: 48228850--48229025 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48228840 TGTAACCCGC
* * *
48228850 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48228896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48228946 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48228989 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48229026 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48236539 original size:93 final size:93
Alignment explanation
Indices: 48236427--48236598 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48236417 CGCCCATAAG
* *
48236427 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48236492 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48236520 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48236585 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48236599 TCAATCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48236595 original size:46 final size:46
Alignment explanation
Indices: 48236420--48236595 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48236410 TGTAACCCGC
* * *
48236420 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48236466 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48236516 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48236559 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48236596 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48249151 original size:26 final size:26
Alignment explanation
Indices: 48249118--48249227 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
48249108 TGATACAAAT
48249118 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
48249144 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48249170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48249196 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48249222 TGATAA
1 TGATAA
48249228 GAATTTCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48253809 original size:52 final size:52
Alignment explanation
Indices: 48253747--48253851 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
48253737 AATTGTGCGG
48253747 TGGATTCACATCATTGCTGCAAAGCTCATACCAAAACATGTTGGAATCATCA
1 TGGATTCACATCATTGCTGCAAAGCTCATACCAAAACATGTTGGAATCATCA
*
48253799 TGGATTCACATCATTGCTGCAAAGCTCATACCAAAGCATGTTGGAATCATCA
1 TGGATTCACATCATTGCTGCAAAGCTCATACCAAAACATGTTGGAATCATCA
48253851 T
1 T
48253852 CATTGGTGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (52 bp):
TGGATTCACATCATTGCTGCAAAGCTCATACCAAAACATGTTGGAATCATCA
Found at i:48255298 original size:28 final size:28
Alignment explanation
Indices: 48255266--48255326 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
48255256 TAGTGATATT
*
48255266 AATATTAAGAATGGCACTTAGTGTGCGA
1 AATATTAAGAATGACACTTAGTGTGCGA
* *
48255294 GATATTGAGAATGACACTTAGTGTGCGA
1 AATATTAAGAATGACACTTAGTGTGCGA
48255322 AATAT
1 AATAT
48255327 CGAATGATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
AATATTAAGAATGACACTTAGTGTGCGA
Found at i:48262451 original size:55 final size:56
Alignment explanation
Indices: 48262386--48262500 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
48262376 AGCATGGCTG
* *
48262386 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
48262442 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
48262497 CCAG
1 CCAG
48262501 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:48262463 original size:27 final size:27
Alignment explanation
Indices: 48262411--48262500 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
48262401 GTGACAGAGT
48262411 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
48262440 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
48262467 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
48262495 CACCAG
1 CACCAG
48262501 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:48262653 original size:28 final size:28
Alignment explanation
Indices: 48262606--48262670 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
48262596 AAATTAACCC
*
48262606 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
48262634 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
48262662 TAGGGGTAT
1 TAGGGGTAT
48262671 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:48262933 original size:8 final size:8
Alignment explanation
Indices: 48262917--48262948 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
48262907 CCCAAAATAC
48262917 CGGCTTTT
1 CGGCTTTT
*
48262925 CGGCATTT
1 CGGCTTTT
48262933 CGGCTTTT
1 CGGCTTTT
48262941 CGGCTTTT
1 CGGCTTTT
48262949 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:48269074 original size:39 final size:40
Alignment explanation
Indices: 48268972--48269156 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
48268962 TCGAATGATG
* * *
48268972 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
48269011 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
48269052 TCCGGGCTAAG-CGCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48269091 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48269130 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48269157 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:48269178 original size:79 final size:79
Alignment explanation
Indices: 48269025--48269189 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
48269015 GGACTAAGAT
* * **
48269025 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCGCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48269090 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
48269104 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48269167 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48269183 CCGAAGG
1 CCGAAGG
48269190 TACGCTATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48286348 original size:47 final size:44
Alignment explanation
Indices: 48286243--48286466 Score: 175
Period size: 46 Copynumber: 4.8 Consensus size: 44
48286233 TCACTTGTGT
* * * *
48286243 GAGCTACTGTAAGACATGTCTGGGACAT-GCATTGGCCACATTATGA
1 GAGCTAGTGTAAGGCATATCTGGGACATGGCA-T--CGACATTATGA
48286289 GAGCTAGTGTAAGGCATATCTGGGACATGGCATCGACATTGA-GAA
1 GAGCTAGTGTAAGGCATATCTGGGACATGGCATCGACATT-ATG-A
* * *
48286334 GAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCACATTATGA
1 GA--GCTAGTGTAAGGCATATCTGGGACATGGCA-T--CGACATTATGA
*
48286382 GAGCTAGTGTAAGGCATATCTGGGACATGGCATCGGCACAGATATGCTA
1 GAGCTAGTGTAAGGCATATCTGGGACATGGCATC-G-ACA-TTATG--A
* * * *
48286431 GAACTTGTGTAAGACAATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGGC-ATATCTGGGACATGGCATCG
48286467 GCACAGATAT
Statistics
Matches: 147, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
44 8 0.05
45 4 0.03
46 57 0.39
47 35 0.24
48 4 0.03
49 21 0.14
50 18 0.12
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGGCATATCTGGGACATGGCATCGACATTATGA
Found at i:48286409 original size:93 final size:93
Alignment explanation
Indices: 48286245--48286416 Score: 335
Period size: 93 Copynumber: 1.8 Consensus size: 93
48286235 ACTTGTGTGA
48286245 GCTACTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCT
1 GCTACTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCT
48286310 GGGACATGGCATCGACATTGAGAAGAGT
66 GGGACATGGCATCGACATTGAGAAGAGT
*
48286338 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCT
1 GCTACTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCT
48286403 GGGACATGGCATCG
66 GGGACATGGCATCG
48286417 GCACAGATAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (93 bp):
GCTACTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCT
GGGACATGGCATCGACATTGAGAAGAGT
Found at i:48286462 original size:50 final size:49
Alignment explanation
Indices: 48286250--48286513 Score: 242
Period size: 50 Copynumber: 5.5 Consensus size: 49
48286240 TGTGAGCTAC
* * * *
48286250 TGTAAGACATGTCTGGGACAT-GCATTGGCCACA-TTATG--AGAGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGG-CACAGATATGCTAGAACTTG
* * * ** * * ** *
48286296 TGTAAGGCATATCTGGGACATGGCATCGACATTGAGAAG--AGTGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
* * * *
48286343 TGTAAGACATGTCTGGGACAT-GCATTGGCCACA-TTATG--AGAGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGG-CACAGATATGCTAGAACTTG
* *
48286389 TGTAAGGCATATCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
1 TGTAAGACATGTCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
48286438 TGTAAGACAATGTCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
1 TGTAAGAC-ATGTCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
48286488 TGTAAGACAATGTCTGGGACATGGCA
1 TGTAAGAC-ATGTCTGGGACATGGCA
48286514 CTGGCCCCTG
Statistics
Matches: 182, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
46 58 0.32
47 45 0.25
49 13 0.07
50 66 0.36
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (49 bp):
TGTAAGACATGTCTGGGACATGGCATCGGCACAGATATGCTAGAACTTG
Found at i:48286481 original size:93 final size:93
Alignment explanation
Indices: 48286250--48286513 Score: 323
Period size: 93 Copynumber: 2.8 Consensus size: 93
48286240 TGTGAGCTAC
48286250 TGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCTGGGAC
** **
48286315 ATGGCATCGACATTGAGAAGAGTGCTAG
66 ATGGCATCGACACAGAGAAGAGAACTAG
48286343 TGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCTGGGAC
* * * *
48286408 ATGGCATCGGCACAGATATGCTAGAACTTG
66 ATGGCATCGACACAGAGAAG--AGAACTAG
* * * * * *
48286438 TGTAAGACAATGTCTGGGACATGGCATCGG-CACAGATATGCTAGAACTTGTGTAAGACAATGTC
1 TGTAAGAC-ATGTCTGGGACAT-GCATTGGCCACA-TTATG--AGAGCTAGTGTAAGGC-ATATC
48286502 TGGGACATGGCA
60 TGGGACATGGCA
48286514 CTGGCCCCTG
Statistics
Matches: 149, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
93 80 0.54
95 13 0.09
96 17 0.11
97 10 0.07
99 13 0.09
100 16 0.11
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGGCATATCTGGGAC
ATGGCATCGACACAGAGAAGAGAACTAG
Found at i:48298901 original size:15 final size:15
Alignment explanation
Indices: 48298881--48298911 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48298871 AAAGATACTA
48298881 AGTTTATCACACCAT
1 AGTTTATCACACCAT
48298896 AGTTTATCACACCAT
1 AGTTTATCACACCAT
48298911 A
1 A
48298912 TTAATTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (15 bp):
AGTTTATCACACCAT
Found at i:48299471 original size:46 final size:48
Alignment explanation
Indices: 48299343--48299592 Score: 218
Period size: 46 Copynumber: 5.3 Consensus size: 48
48299333 AGGCTGACGC
* * *
48299343 CATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGCCGATG
** *
48299392 CCATGTCTTAGACATGGTCTTATACTGG--C-ACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
* *
48299438 CATGTCCCAGACAT-GTTTTACACTGGCT-TACATCTTG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * * *
48299484 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATTG-CAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTC-GTAGCCGATG
* *
48299530 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-AT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCGTAGCCGATG
48299578 CATGTCCCAGACATG
1 CATGTCCCAGACATG
48299593 TCCTGCACTA
Statistics
Matches: 163, Mismatches: 24, Indels: 29
0.75 0.11 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.10
46 60 0.37
47 33 0.20
48 20 0.12
49 1 0.01
50 23 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:48299623 original size:94 final size:93
Alignment explanation
Indices: 48299341--48299608 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 93
48299331 TGAGGCTGAC
* **
48299341 GCCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGT-GCCGATGCCATGTCTTAGAC
1 GCCATGTCCCAGACAT-GTCTTACACTGGCTCTCACATAT--GTGGCCGATG-CATGTCCCAGAC
* * * *
48299405 ATGGTCTTATACTGGCACA-TCTCGTAGCCGAT
62 AT-GTCTTACACTAGCACACTCTCATAGCCAAT
* * *
48299437 G-CATGTCCCAGACATGTTTTACACTGGCT-T-ACATCTTGAGGCCGATGCATGTCCCAGACATG
1 GCCATGTCCCAGACATGTCTTACACTGGCTCTCACAT-ATGTGGCCGATGCATGTCCCAGACATG
* * *
48299499 TCTTACACTAGCTCTCGTCTCAATTG-CAAT
65 TCTTACACTAGCACAC-TCTC-ATAGCCAAT
48299529 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-ATGTGGCCGATGCATGTCCCAGACATG
1 GCCATGTCCCAGACAT-GTCTTACACTGGCTCTCACATATGTGGCCGATGCATGTCCCAGACATG
* *
48299593 TCCTGCACTAGCACAC
65 TCTTACACTAGCACAC
48299609 ACACATCGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
90 12 0.08
91 13 0.09
92 19 0.13
93 18 0.13
94 62 0.43
95 15 0.10
96 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (93 bp):
GCCATGTCCCAGACATGTCTTACACTGGCTCTCACATATGTGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACACTCTCATAGCCAAT
Found at i:48307412 original size:40 final size:40
Alignment explanation
Indices: 48307318--48307462 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
48307308 TACTCGAATG
*
48307318 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
48307359 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
48307399 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
48307439 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
48307463 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:48313309 original size:11 final size:11
Alignment explanation
Indices: 48313295--48313338 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
48313285 AGATAAATAT
48313295 TATTTTATTAA
1 TATTTTATTAA
*
48313306 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
48313319 TATTTTATTAT
1 TATTTTATTAA
48313330 TATTTTATT
1 TATTTTATT
48313339 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:48315334 original size:35 final size:35
Alignment explanation
Indices: 48315295--48315438 Score: 98
Period size: 35 Copynumber: 4.2 Consensus size: 35
48315285 TGGCTGGACC
48315295 ATGGCAGTGTTTATATGTAAGACCATAATTTGGCT
1 ATGGCAGTGTTTATATGTAAGACCATAATTTGGCT
* * * * *
48315330 ATGGCA-T-TCTA-ATGATAAAACCATAACTTAGTT
1 ATGGCAGTGTTTATATG-TAAGACCATAATTTGGCT
* * ** ** ** *
48315363 ATGGCACTATGAACGTGTAAGACCAT-GGTTGGACC
1 ATGGCAGTGTTTATATGTAAGACCATAATTTGG-CT
* *
48315398 ATGGCAGTGTTTATATGTAAGACCATAGTTGGGCT
1 ATGGCAGTGTTTATATGTAAGACCATAATTTGGCT
48315433 ATGGCA
1 ATGGCA
48315439 TTCTGATGAT
Statistics
Matches: 80, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
32 3 0.04
33 23 0.29
34 5 0.06
35 43 0.54
36 6 0.08
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (35 bp):
ATGGCAGTGTTTATATGTAAGACCATAATTTGGCT
Found at i:48315419 original size:103 final size:101
Alignment explanation
Indices: 48315242--48315483 Score: 376
Period size: 103 Copynumber: 2.4 Consensus size: 101
48315232 TGAATTGATG
*
48315242 GATAAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGCTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGCTGGACCATGGCAGTGTTT
*
48315307 ATATGTAAGACCATAATTTGGCTATGGCATTCTAAT
66 ATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
* ** *
48315343 GATAAAACCATAACTTAGTTATGGCACTATGAACGTGTAAGACCATGGTTGGACCATGGCAGTGT
1 GATAAGACCATAACTGGGTTATGGCACTATGAAC--GTAAGACCATGGCTGGACCATGGCAGTGT
* *
48315408 TTATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
64 TTATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
* *
48315446 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
48315484 ATAACGAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
101 34 0.27
103 92 0.73
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGCTGGACCATGGCAGTGTTT
ATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
Found at i:48320839 original size:20 final size:20
Alignment explanation
Indices: 48320811--48320925 Score: 196
Period size: 20 Copynumber: 5.8 Consensus size: 20
48320801 TCCGCTACTC
48320811 TCATACATATCATGTGCATA
1 TCATACATATCATGTGCATA
*
48320831 TCGTACATATCATGTGCATA
1 TCATACATATCATGTGCATA
48320851 TCATACATATCATGTGCATA
1 TCATACATATCATGTGCATA
*
48320871 TCGTACATATCATGTGCATA
1 TCATACATATCATGTGCATA
48320891 TCATACATATCATGTGCATA
1 TCATACATATCATGTGCATA
48320911 TCATATCA-ATCATGT
1 TCATA-CATATCATGT
48320926 ATATCAAAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
20 88 0.98
21 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TCATACATATCATGTGCATA
Found at i:48320931 original size:9 final size:10
Alignment explanation
Indices: 48320816--48320931 Score: 86
Period size: 9 Copynumber: 11.7 Consensus size: 10
48320806 TACTCTCATA
48320816 CATATCATGT
1 CATATCATGT
48320826 GCATATC--GT
1 -CATATCATGT
48320835 ACATATCATGT
1 -CATATCATGT
*
48320846 GCATATCAT-A
1 -CATATCATGT
48320856 CATATCATGT
1 CATATCATGT
48320866 GCATATC--GT
1 -CATATCATGT
48320875 ACATATCATGT
1 -CATATCATGT
*
48320886 GCATATCAT-A
1 -CATATCATGT
48320896 CATATCATGT
1 CATATCATGT
*
48320906 GCATATCATAT
1 -CATATCATGT
48320917 CA-ATCATGT
1 CATATCATGT
48320926 -ATATCA
1 CATATCA
48320932 AAATCCCATG
Statistics
Matches: 86, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.01
9 42 0.49
10 2 0.02
11 41 0.48
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (10 bp):
CATATCATGT
Found at i:48325190 original size:72 final size:72
Alignment explanation
Indices: 48325101--48325244 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
48325091 TGAAACACTC
48325101 GATTCATTAAATCCATGAATGCTGCCGGTGCATTAGTCAAACCAAAAGGCATCACCAAAAACTCG
1 GATTCATTAAATCCATGAATGCTGCCGGTGCATTAGTCAAACCAAAAGGCATCACCAAAAACTCG
48325166 TAATGAT
66 TAATGAT
*
48325173 GATTCATTAAATCCATGAATGCTGCCGGTGCATTAGTCAAACCAAAAGGCATCACCAGAAACTCG
1 GATTCATTAAATCCATGAATGCTGCCGGTGCATTAGTCAAACCAAAAGGCATCACCAAAAACTCG
48325238 TAATGAT
66 TAATGAT
48325245 CATATCGAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (72 bp):
GATTCATTAAATCCATGAATGCTGCCGGTGCATTAGTCAAACCAAAAGGCATCACCAAAAACTCG
TAATGAT
Found at i:48333726 original size:30 final size:30
Alignment explanation
Indices: 48333691--48333755 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
48333681 ATAATAATGT
* *
48333691 AGAGGGCTTAATTGATTCTTAATTATTTTA
1 AGAGGGCTTAAATAATTCTTAATTATTTTA
* *
48333721 CGAGGGCTTAAATAATTTTTAATTATTTTA
1 AGAGGGCTTAAATAATTCTTAATTATTTTA
48333751 AGAGG
1 AGAGG
48333756 ACTTCTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.43
Consensus pattern (30 bp):
AGAGGGCTTAAATAATTCTTAATTATTTTA
Found at i:48333947 original size:22 final size:23
Alignment explanation
Indices: 48333894--48333966 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 23
48333884 AAATATAAAC
48333894 AATTAAAGAAAATTTATTAAAATGTTA
1 AATT-AAGAAAA-TTATTAAAA--TTA
*
48333921 AATT-AGAAAATTATTAAAAATA
1 AATTAAGAAAATTATTAAAATTA
*
48333943 AATTAAGAAAACT-TTAAAATTA
1 AATTAAGAAAATTATTAAAATTA
48333965 AA
1 AA
48333967 AAATTACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.38
23 7 0.17
24 9 0.21
25 6 0.14
27 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (23 bp):
AATTAAGAAAATTATTAAAATTA
Found at i:48337783 original size:16 final size:16
Alignment explanation
Indices: 48337758--48337795 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48337748 TCAGTTCCAA
*
48337758 AGATGAAAATTCTTTT
1 AGATGGAAATTCTTTT
48337774 AGATGGAAATTCTTTT
1 AGATGGAAATTCTTTT
48337790 AGATGG
1 AGATGG
48337796 TCATATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (16 bp):
AGATGGAAATTCTTTT
Found at i:48341432 original size:251 final size:251
Alignment explanation
Indices: 48340989--48341491 Score: 1006
Period size: 251 Copynumber: 2.0 Consensus size: 251
48340979 ACATGCTGTC
48340989 GTTCACAAGTTTCACATACTCATATAATATCAAGTCTAGACACATTAATCCATATTCATTGACCT
1 GTTCACAAGTTTCACATACTCATATAATATCAAGTCTAGACACATTAATCCATATTCATTGACCT
48341054 TGTCAAGTGACCTTATTTAAACATTAAGCGTTCATGTTTAATCATCATCGTCTTATTTCTGTACC
66 TGTCAAGTGACCTTATTTAAACATTAAGCGTTCATGTTTAATCATCATCGTCTTATTTCTGTACC
48341119 ATACAATTACTTCATGGCTATAACCATTTTGATTGGTCATGAAGCATTTATCATACACACGTCTT
131 ATACAATTACTTCATGGCTATAACCATTTTGATTGGTCATGAAGCATTTATCATACACACGTCTT
48341184 AACACCAATCATGCATGTCCCACAAGCATAAAAAAATCATCACATCGCAAGCATTA
196 AACACCAATCATGCATGTCCCACAAGCATAAAAAAATCATCACATCGCAAGCATTA
48341240 GTTCACAAGTTTCACATACTCATATAATATCAAGTCTAGACACATTAATCCATATTCATTGACCT
1 GTTCACAAGTTTCACATACTCATATAATATCAAGTCTAGACACATTAATCCATATTCATTGACCT
48341305 TGTCAAGTGACCTTATTTAAACATTAAGCGTTCATGTTTAATCATCATCGTCTTATTTCTGTACC
66 TGTCAAGTGACCTTATTTAAACATTAAGCGTTCATGTTTAATCATCATCGTCTTATTTCTGTACC
48341370 ATACAATTACTTCATGGCTATAACCATTTTGATTGGTCATGAAGCATTTATCATACACACGTCTT
131 ATACAATTACTTCATGGCTATAACCATTTTGATTGGTCATGAAGCATTTATCATACACACGTCTT
48341435 AACACCAATCATGCATGTCCCACAAGCATAAAAAAATCATCACATCGCAAGCATTA
196 AACACCAATCATGCATGTCCCACAAGCATAAAAAAATCATCACATCGCAAGCATTA
48341491 G
1 G
48341492 AACTTATCAT
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
251 252 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (251 bp):
GTTCACAAGTTTCACATACTCATATAATATCAAGTCTAGACACATTAATCCATATTCATTGACCT
TGTCAAGTGACCTTATTTAAACATTAAGCGTTCATGTTTAATCATCATCGTCTTATTTCTGTACC
ATACAATTACTTCATGGCTATAACCATTTTGATTGGTCATGAAGCATTTATCATACACACGTCTT
AACACCAATCATGCATGTCCCACAAGCATAAAAAAATCATCACATCGCAAGCATTA
Found at i:48342961 original size:49 final size:49
Alignment explanation
Indices: 48342897--48343027 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 49
48342887 ACATCAAAGT
* *
48342897 CGATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
48342946 CGATGTCTTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* *
48342995 TGATGCCATGTCCCAGACAGGTCTTGCACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
48343028 ACACAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:48343050 original size:98 final size:97
Alignment explanation
Indices: 48342857--48343050 Score: 205
Period size: 98 Copynumber: 2.0 Consensus size: 97
48342847 GCTGACGCCA
*
48342857 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGATAGGTCTT
1 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAGGTCTT
*** * * *
48342922 ACACTGACTTTCATATATCGAGGCCGATGTCT
66 ACACTGACACACATAAAGCGACGCCGATGTCT
** *** *
48342954 TGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGGTGTTGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAGACAGGTC
*
48343018 TTGCACTGACACACA-ACAAGCTGACGCC-ATGTC
64 TTACACTGACACACATA-AAGC-GACGCCGATGTC
48343051 CCAGATAGGT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
96 17 0.22
97 13 0.16
98 44 0.56
99 5 0.06
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (97 bp):
TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAGGTCTT
ACACTGACACACATAAAGCGACGCCGATGTCT
Found at i:48343116 original size:48 final size:46
Alignment explanation
Indices: 48343036--48343210 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 46
48343026 ACACACAACA
* * * *
48343036 AGCTGACGCCATGTCCCAGATAGGTTTTACACTAGCTTGTATATCTCG
1 AGCTGATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCG
* * ** *
48343084 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCA
1 A-GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCG
* * * * *
48343130 ATGCTAATGCATGTCCCAAACATGTCTTACACTGGCTCTCATA-AT-G
1 A-GCTGATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCG
*
48343176 TAGCTGATGCATGTCCCAGACATGCCTTACACTAG
1 -AGCTGATGCATGTCCCAGACATGTCTTACACTAG
48343211 TACACATATC
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
46 65 0.66
47 3 0.03
48 26 0.26
49 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
AGCTGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCG
Found at i:48343153 original size:46 final size:46
Alignment explanation
Indices: 48343090--48343210 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
48343080 CTCGAGGCCG
* *
48343090 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAATGCTA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAA-GCTA
* * ** *
48343136 ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTAGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAAGCTA
*
48343182 ATGCATGTCCCAGACATGCCTTACACTAG
1 ATGCATGTCCCAGACATGTCTTACACTAG
48343211 TACACATATC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 62 0.97
47 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAAGCTA
Found at i:48345541 original size:32 final size:32
Alignment explanation
Indices: 48345505--48345570 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
48345495 AAGGGGGAGT
48345505 AAATACGCGTTGTACTCTTTTTCCCTTAATCA
1 AAATACGCGTTGTACTCTTTTTCCCTTAATCA
48345537 AAATACGCGTTGTACTCTTTTTCCCTTAATCA
1 AAATACGCGTTGTACTCTTTTTCCCTTAATCA
48345569 AA
1 AA
48345571 GTTTTGTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.39
Consensus pattern (32 bp):
AAATACGCGTTGTACTCTTTTTCCCTTAATCA
Found at i:48346292 original size:18 final size:19
Alignment explanation
Indices: 48346262--48346310 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
48346252 TTTTTTATAA
48346262 ATTTTTAAT--TTTTTA-T
1 ATTTTTAATAATTTTTATT
48346278 ATTTTATAA-AA-TTTTATT
1 ATTTT-TAATAATTTTTATT
48346296 ATTTTTAATAATTTT
1 ATTTTTAATAATTTT
48346311 ATCATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 8 0.30
19 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATAATTTTTATT
Found at i:48346311 original size:18 final size:18
Alignment explanation
Indices: 48346262--48346317 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
48346252 TTTTTTATAA
*
48346262 ATTTTTAAT-TTTTTA-T
1 ATTTTTAATAATTTTATT
48346278 ATTTTATAA-AATTTTATT
1 ATTTT-TAATAATTTTATT
*
48346296 ATTTTTAATAATTTTATC
1 ATTTTTAATAATTTTATT
48346314 ATTT
1 ATTT
48346318 AAATTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.15
17 11 0.32
18 18 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTAATAATTTTATT
Found at i:48346473 original size:21 final size:20
Alignment explanation
Indices: 48346448--48346486 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48346438 TATTTTAATT
48346448 TAATAGTTTTAATAGTTTTTA
1 TAATAGTTTTAATA-TTTTTA
* *
48346469 TAATATTTTTGATATTTT
1 TAATAGTTTTAATATTTT
48346487 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
TAATAGTTTTAATATTTTTA
Found at i:48357741 original size:46 final size:45
Alignment explanation
Indices: 48357691--48357866 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
48357681 TGGTTGAGCA
48357691 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48357737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
48357784 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48357830 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48357867 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48357847 original size:93 final size:93
Alignment explanation
Indices: 48357688--48357858 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
48357678 GGATGGTTGA
* *
48357688 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48357753 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
48357781 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48357846 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48357859 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:48360889 original size:29 final size:27
Alignment explanation
Indices: 48360857--48360921 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
48360847 TATATCTTAA
*
48360857 AATTATATATGAACTTTGATTCAATATGC
1 AATTATATATGAACTTTGATT--AGATGC
*
48360886 AATTTGATATATGAATTTTGATTAGATGC
1 AA-TT-ATATATGAACTTTGATTAGATGC
48360915 AATTATA
1 AATTATA
48360922 CACATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
28 2 0.06
29 9 0.28
30 2 0.06
31 16 0.50
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (27 bp):
AATTATATATGAACTTTGATTAGATGC
Found at i:48362548 original size:21 final size:20
Alignment explanation
Indices: 48362502--48362550 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
48362492 TGAATCCTTT
48362502 TAAA-ATTTTATATTATTTA
1 TAAATATTTTATATTATTTA
* *
48362521 AATAATATTTTATTTTATTTTA
1 TA-AATATTTTATATTA-TTTA
48362543 TAAATATT
1 TAAATATT
48362551 ATATCTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 16 0.67
22 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAATATTTTATATTATTTA
Found at i:48365280 original size:49 final size:49
Alignment explanation
Indices: 48365144--48365280 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 49
48365134 TGGGAAGTAT
* *
48365144 GTGGCAGTTTATCTGCAAATCAGTGATGGCTTGTCCACAAAGTGTTCCA
1 GTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTCCA
* * * *
48365193 GTGGCAGTATATCTGCATA-T-GTGGTGGATTGTCCACAAAGT-TTACTA
1 GTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTT-CCA
48365240 GTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAA
1 GTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAA
48365281 TGGTGTTCTG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
46 2 0.03
47 38 0.50
48 1 0.01
49 35 0.46
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (49 bp):
GTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTCCA
Found at i:48366216 original size:16 final size:16
Alignment explanation
Indices: 48366191--48366241 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
48366181 TTTAGATTTG
48366191 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
48366207 AAACTGTAGACTGTGA
1 AAACTATAGACTGTGA
* * *
48366223 AAAATCTAGATTGTGA
1 AAACTATAGACTGTGA
48366239 AAA
1 AAA
48366242 TGATAAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:48369503 original size:22 final size:22
Alignment explanation
Indices: 48369478--48369529 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
48369468 GGACAAGCCA
*
48369478 CCACTGATTTGCAGATATATTG
1 CCACTGATTTGCAGATAAATTG
48369500 CCACTGATTTGCAGATAAATTG
1 CCACTGATTTGCAGATAAATTG
*
48369522 CCATTGAT
1 CCACTGAT
48369530 AACACTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (22 bp):
CCACTGATTTGCAGATAAATTG
Found at i:48370999 original size:25 final size:24
Alignment explanation
Indices: 48370971--48371031 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
48370961 ACTCACCATA
48370971 GCTCGTATGAGCTTACCG-ATATT
1 GCTCGTATGAGCTTACCGTATATT
* *
48370994 CGGCTCGGA-GAAGCTTACCGTTTATT
1 --GCTCGTATG-AGCTTACCGTATATT
48371020 GCTCGTATGAGC
1 GCTCGTATGAGC
48371032 CTACATGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
24 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (24 bp):
GCTCGTATGAGCTTACCGTATATT
Found at i:48381789 original size:47 final size:48
Alignment explanation
Indices: 48381720--48381991 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 48
48381710 AGGGTATAAT
* *
48381720 GTCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-TATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
* * *
48381767 GTCGATGCCATGTCCCAGACATGGTCTTATACT-GACT-ATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC-ATATC-AA
* ***
48381816 GCCGGCACCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATTCATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT--CATA-TCA-A
* * * * *
48381867 CT-GATGCCGTGTCCCATACATGGTCTTACACTA--ACA-CATCTCATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCA-A
* * *
48381912 GAT-GATG-CATATCCCAGACAT-GTCTTGCACTAGCTC-TCATCTCAA
1 G-TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
*
48381957 TGCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTA
48381992 ACACACAAAT
Statistics
Matches: 177, Mismatches: 29, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 25 0.14
47 46 0.26
48 14 0.08
49 32 0.18
50 30 0.17
51 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
Found at i:48382226 original size:33 final size:33
Alignment explanation
Indices: 48382184--48382248 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
48382174 GTGTTCAAAA
48382184 TATGGCGACTATTTCGGCTTAGTCCACTAACAC
1 TATGGCGACTATTTCGGCTTAGTCCACTAACAC
48382217 TATGGCGACTATTTCGGCTTAGTCCACTAACA
1 TATGGCGACTATTTCGGCTTAGTCCACTAACA
48382249 TTGCTTTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (33 bp):
TATGGCGACTATTTCGGCTTAGTCCACTAACAC
Found at i:48397552 original size:46 final size:46
Alignment explanation
Indices: 48397485--48397575 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
48397475 AGGTGAATAC
48397485 TTCTTATTTCCACTATCTCTCGTTTTTCTTTTTCTTTTTTTTACTA
1 TTCTTATTTCCACTATCTCTCGTTTTTCTTTTTCTTTTTTTTACTA
48397531 TTCTTATTTCCACTATCTCTCGTTTTTCTTTTTCTTTTTTTTACT
1 TTCTTATTTCCACTATCTCTCGTTTTTCTTTTTCTTTTTTTTACT
48397576 TTCACTCCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.66
Consensus pattern (46 bp):
TTCTTATTTCCACTATCTCTCGTTTTTCTTTTTCTTTTTTTTACTA
Found at i:48405222 original size:85 final size:84
Alignment explanation
Indices: 48405076--48405314 Score: 361
Period size: 85 Copynumber: 2.8 Consensus size: 84
48405066 GGAATGAAAA
* * *
48405076 AACGTGGTGCTAAGTGAATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATGCCACG
1 AACGTGGTGCTAAGTGGATATACC-CGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
48405141 GTTACATATATTGATTCATT
65 GTTACATATATTGATTCATT
* * * *
48405161 AATGTGGTCCTAAGTGGCTATACTCCGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACA
1 AACGTGGTGCTAAGTGGATATAC-CCGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
48405226 GTTACATATATTGATTCATT
65 GTTACATATATTGATTCATT
* * *
48405246 AACGTGGTGCTAAGTGGATATAACACGATTAAACATGTAATGTGGTGCTAAGTGGATATGCCACG
1 AACGTGGTGCTAAGTGGATAT-ACCCGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
48405311 GTTA
65 GTTA
48405315 TACATGTTAA
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
85 135 0.98
86 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (84 bp):
AACGTGGTGCTAAGTGGATATACCCGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGG
TTACATATATTGATTCATT
Found at i:48407811 original size:45 final size:45
Alignment explanation
Indices: 48407736--48407850 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
48407726 GCCATAACGC
* * * **
48407736 CTTTCAACTATAGTCTCAATC-TTGTTTACCATGATGTCATAGTGT
1 CTTTCAACTATAGTCTTACTCATT-TATACCATGATGTCATAGAAT
*
48407781 CTTTCAACTATGGTCTTACTCATTTATACCATGATGTCATAGAAT
1 CTTTCAACTATAGTCTTACTCATTTATACCATGATGTCATAGAAT
* * **
48407826 CTTTTAGCTATTTTCTTACTCATTT
1 CTTTCAACTATAGTCTTACTCATTT
48407851 TTAAATGTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 57 0.97
46 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (45 bp):
CTTTCAACTATAGTCTTACTCATTTATACCATGATGTCATAGAAT
Found at i:48409486 original size:27 final size:27
Alignment explanation
Indices: 48409456--48409514 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
48409446 TTACACTTCA
* *
48409456 ACACTTTGCA-AAGCATTTCACACTTTG
1 ACACTTCGCAGAA-CATCTCACACTTTG
48409483 ACACTTCGCAGAACATCTCACACTTTG
1 ACACTTCGCAGAACATCTCACACTTTG
48409510 ACACT
1 ACACT
48409515 GGAGACAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.29
Consensus pattern (27 bp):
ACACTTCGCAGAACATCTCACACTTTG
Found at i:48410408 original size:3 final size:3
Alignment explanation
Indices: 48410400--48410449 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
48410390 ATCCAACTGA
48410400 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48410448 AT
1 AT
48410450 GGGTTTGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:48412263 original size:14 final size:15
Alignment explanation
Indices: 48412227--48412266 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
48412217 TATGCCATTA
48412227 CATATTTTAATTTAAT
1 CATATTTTAATTT-AT
48412243 CAT-TTTTAATTT-T
1 CATATTTTAATTTAT
48412256 CATATTTTAAT
1 CATATTTTAAT
48412267 GACTAACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.17
14 7 0.30
15 9 0.39
16 3 0.13
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
CATATTTTAATTTAT
Found at i:48416724 original size:94 final size:92
Alignment explanation
Indices: 48416605--48416775 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
48416595 TATGTATGCC
* **
48416605 AGTGTTAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATG-TATG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGA-CATGCT-TG
48416669 GGACATGACATCGGCATTGAAACGAGGGCT
64 GGACATG-CATCGGCATTGAAACGAGGGCT
* * *
48416699 AGTGTAAGATATGTCTGGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACTTGCTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACATGCTTGGG
48416764 ACATGCATCGGC
66 ACATGCATCGGC
48416776 CTCAAGATGT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 51 0.73
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACATGCTTGGG
ACATGCATCGGCATTGAAACGAGGGCT
Found at i:48416830 original size:46 final size:44
Alignment explanation
Indices: 48416601--48416865 Score: 180
Period size: 46 Copynumber: 5.8 Consensus size: 44
48416591 GAGATATGTA
* *
48416601 TGCCAGTGTTAGACATGTCTGGGACATGCATCGGCCACATA-ATGAG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AGAT--G
* * * *
48416647 AGCCAGTGTAAGACCATGTATGGGACATGACATCGGCATTGAAACGA-G
1 TGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CT-CAA-GATG
* * * ** *
48416695 GGCTAGTGTAAGATATGTCTGGGACATGCATCAACCACATTATGA-G
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA--A-GATG
* *
48416741 AGCCAGTGTAAGACTTG-CTTGGGACATGCATCGGCCTCAAGATG
1 TGCCAGTGTAAGACATGTC-TGGGACATGCATCGGCCTCAAGATG
* * * *
48416785 TTATCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATG
1 -T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATG
* *
48416831 TGCTAGTGTAAGACATGTCTGGGACATACATCGGC
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
48416866 ACGGTTACAT
Statistics
Matches: 170, Mismatches: 34, Indels: 31
0.72 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 4 0.02
46 83 0.49
47 28 0.16
48 19 0.11
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (44 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG
Found at i:48416854 original size:44 final size:45
Alignment explanation
Indices: 48416791--48416902 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
48416781 GATGTTATCC
* * * *
48416791 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-G-AGATGTGCT
1 AGTGTAAGACATGTCTGGGACATACATCGGC-ACGGTACATGTGCT
*
48416835 AGTGTAAGACATGTCTGGGACATACATCGGCACGGTTACATGTGTT
1 AGTGTAAGACATGTCTGGGACATACATCGGCACGG-TACATGTGCT
*
48416881 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
48416903 CGGTATCGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 2 0.03
44 29 0.49
46 28 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCACGGTACATGTGCT
Found at i:48419261 original size:36 final size:36
Alignment explanation
Indices: 48419212--48419281 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
48419202 CTAAAAATAG
48419212 AATAAAATAAAGAAAAGAAAGATATCATCTTTTCGT
1 AATAAAATAAAGAAAAGAAAGATATCATCTTTTCGT
*
48419248 AATAAAATCAAGAAAAGAAAGATATCATCTTTTC
1 AATAAAATAAAGAAAAGAAAGATATCATCTTTTC
48419282 TTCATCTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (36 bp):
AATAAAATAAAGAAAAGAAAGATATCATCTTTTCGT
Found at i:48421516 original size:18 final size:18
Alignment explanation
Indices: 48421472--48421517 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
48421462 GTGTCCCAAG
*
48421472 CCACACGGGCATGTGTGA
1 CCACACGGTCATGTGTGA
*
48421490 CCACACGGTCGTGTGTGA
1 CCACACGGTCATGTGTGA
48421508 CCACACGGTC
1 CCACACGGTC
48421518 TATATCCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (18 bp):
CCACACGGTCATGTGTGA
Found at i:48427371 original size:42 final size:42
Alignment explanation
Indices: 48427319--48427420 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
48427309 CCCAGCTATA
*
48427319 GTCTTACACGAAGTCTTATATCGATGCCATATCGCAAATATG
1 GTCTTACACGAAGTCTTATATAGATGCCATATCGCAAATATG
* * *
48427361 GTCTTACACGAAGTCTCATATAGATGCCATATCTCAGATATG
1 GTCTTACACGAAGTCTTATATAGATGCCATATCGCAAATATG
48427403 GTCTTACAC-ATAGTCTTA
1 GTCTTACACGA-AGTCTTA
48427421 GTAACCCTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
GTCTTACACGAAGTCTTATATAGATGCCATATCGCAAATATG
Found at i:48427387 original size:85 final size:84
Alignment explanation
Indices: 48427257--48427420 Score: 188
Period size: 85 Copynumber: 1.9 Consensus size: 84
48427247 TACCATACCA
* * * * * * *
48427257 ATGCTATATCCCAGATATGGTCTTACATAGGATCTCGTATCGATGCCAATAGCCCAGCTATAGTC
1 ATGCCATATCCCAAATATGGTCTTACAGAAGATCTCATATAGATGCC-ATAGCCCAGATATAGTC
48427322 TTACACGA-AGTCTTATATCG
65 TTACAC-ATAGTCTTATATCG
* * * *
48427342 ATGCCATATCGCAAATATGGTCTTACACGAAG-TCTCATATAGATGCCATATCTCAGATATGGTC
1 ATGCCATATCCCAAATATGGTCTTACA-GAAGATCTCATATAGATGCCATAGCCCAGATATAGTC
48427406 TTACACATAGTCTTA
65 TTACACATAGTCTTA
48427421 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
83 1 0.02
84 26 0.39
85 37 0.56
86 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCCAAATATGGTCTTACAGAAGATCTCATATAGATGCCATAGCCCAGATATAGTCT
TACACATAGTCTTATATCG
Found at i:48433804 original size:26 final size:26
Alignment explanation
Indices: 48433775--48433828 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48433765 CACTCAGAAG
48433775 CTTCCTAGAGATTTCAGAAATTCTTA
1 CTTCCTAGAGATTTCAGAAATTCTTA
48433801 CTTCCTAGAGATTTCAGAAATTCTTA
1 CTTCCTAGAGATTTCAGAAATTCTTA
48433827 CT
1 CT
48433829 CCCCTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (26 bp):
CTTCCTAGAGATTTCAGAAATTCTTA
Found at i:48434825 original size:20 final size:21
Alignment explanation
Indices: 48434787--48434833 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
48434777 TATATATGTT
* *
48434787 ATATATGTTATAATTAATCTTA
1 ATATATGTTACAA-TAATCATA
48434809 ATATATGTTACAA-AATCATA
1 ATATATGTTACAATAATCATA
48434829 ATATA
1 ATATA
48434834 ATAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATGTTACAATAATCATA
Found at i:48436910 original size:10 final size:10
Alignment explanation
Indices: 48436892--48436925 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
48436882 TTGAATGGTA
48436892 TTTGGCATGT
1 TTTGGCATGT
* *
48436902 TTTGACATGA
1 TTTGGCATGT
48436912 TTTGGCATGT
1 TTTGGCATGT
48436922 TTTG
1 TTTG
48436926 TAATGGGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.50
Consensus pattern (10 bp):
TTTGGCATGT
Found at i:48441406 original size:22 final size:24
Alignment explanation
Indices: 48441374--48441419 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
48441364 TGTACCCCTA
48441374 TAAATACTTCAAA-AACAT-TATC
1 TAAATACTTCAAATAACATCTATC
*
48441396 TAAATATTTCAAATAACATCTATC
1 TAAATACTTCAAATAACATCTATC
48441420 AAAACCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATACTTCAAATAACATCTATC
Found at i:48444213 original size:95 final size:95
Alignment explanation
Indices: 48443953--48444324 Score: 365
Period size: 95 Copynumber: 3.9 Consensus size: 95
48443943 CTTTTTAGGC
* ** * * ** * *
48443953 TTACAAAGTTATAAAGCAGACACCTC-GAGAGGAAATTGCTCATTAAGTTTACTAGAAGAATCGC
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
* * *
48444017 TTCTAGCCTTTTAAGGTACTTGGCTAAATT
66 TTCTAGCCTCTTAAGGCACTTAGCTAAATT
** * * ** *
48444047 GAACAAAGTTATAAAGTAGACA-CCTTAAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGC
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
*
48444111 TTCTAGCCTCTTAAGGCACTTAGTTAAATT
66 TTCTAGCCTCTTAAGGCACTTAGCTAAATT
* * * *
48444141 TTACAAAGTTACAAAATAGACACCCCAAATAGGAAGTTGCTCGCTAAGTTTAATAGAATAATCGC
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
* *
48444206 TTCTAGCCTTTTAAGGCACTTAGGC-AAAAT
66 TTCTAGCCTCTTAAGGCACTTA-GCTAAATT
* * * * * * * * * *
48444236 TTA-ATATTTTCAAAAGCAGACACCCCAAAGAGAAAACTACTTGCTAAGTTTAATAAAAGAAGCA
1 TTACAAAGTTACAAAA-TAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCG
*
48444300 CTTCTAGCCTCTTAAAGCACTTAGC
65 CTTCTAGCCTCTTAAGGCACTTAGC
48444325 CAAAATTCAA
Statistics
Matches: 229, Mismatches: 45, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.00
94 106 0.46
95 121 0.53
96 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (95 bp):
TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
TTCTAGCCTCTTAAGGCACTTAGCTAAATT
Found at i:48444329 original size:95 final size:95
Alignment explanation
Indices: 48444073--48444398 Score: 321
Period size: 95 Copynumber: 3.4 Consensus size: 95
48444063 TAGACACCTT
* * * * **
48444073 AAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTCTAGCCTCTTAAGGCACTTAGTTAA
1 AAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTTAAGGCACTTAGCCAA
* * * * *
48444138 ATTTTACAAAGTTACAAAA-TAGACACCCCA
66 AATTTA-ATATTTTCAAAAGCAGACACCCCA
* ** * * * * * *
48444168 AATAGGAAGTTGCTCGCTAAGTTTAATAGAATAATCGCTTCTAGCCTTTTAAGGCACTTAGGCAA
1 AAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTTAAGGCACTTAGCCAA
48444233 AATTTAATATTTTCAAAAGCAGACACCCCA
66 AATTTAATATTTTCAAAAGCAGACACCCCA
* * * *
48444263 AAGAGAAAACTACTTGCTAAGTTTAATAAAAGAAGCACTTCTAGCCTCTTAAAGCACTTAGCCAA
1 AAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTTAAGGCACTTAGCCAA
* ** ** * *
48444328 AATTCAATATAATCTTAAGCTGACACCTCA
66 AATTTAATATTTTCAAAAGCAGACACCCCA
* * * *
48444358 AAGAGGAAACTGTTTGATAAGTTTAATAGAAGAACCACTTC
1 AAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTC
48444399 AGACACTGTA
Statistics
Matches: 191, Mismatches: 39, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
94 9 0.05
95 182 0.95
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (95 bp):
AAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTTAAGGCACTTAGCCAA
AATTTAATATTTTCAAAAGCAGACACCCCA
Found at i:48453769 original size:63 final size:62
Alignment explanation
Indices: 48453686--48453860 Score: 201
Period size: 63 Copynumber: 2.8 Consensus size: 62
48453676 TGGACACACT
** * * *
48453686 CCCGTGTCTTTGGCCAGTGTGTCTCTAATTCTAAAATAGTGAGTTACACAGCCTAGACATACG
1 CCCGTGTCCCTGGCCAGTGTGACTCTAATTC-AAAATAGTGAGTTACACAGCCTAGACACAAG
* * * *
48453749 CCCGTGTCCCTGGCCTGTGTGACTCTAATTCCAAAATAGTAAGATACACAGCCTGGACACAAG
1 CCCGTGTCCCTGGCCAGTGTGACTCTAATT-CAAAATAGTGAGTTACACAGCCTAGACACAAG
*
48453812 CTCGTG-CCCTTGGCCCA-TGTGACTCTAACTTCAAAATAGTGAGTTACAC
1 CCCGTGTCCC-TGG-CCAGTGTGACTCTAA-TTCAAAATAGTGAGTTACAC
48453861 GGGCTATCAC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
62 3 0.03
63 87 0.92
64 5 0.05
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (62 bp):
CCCGTGTCCCTGGCCAGTGTGACTCTAATTCAAAATAGTGAGTTACACAGCCTAGACACAAG
Found at i:48454407 original size:23 final size:23
Alignment explanation
Indices: 48454372--48454416 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48454362 GTAAAAGAGT
*
48454372 AAAAAAGAAAAAAGAAGATAAAGG
1 AAAAAAGAAAAAACAAG-TAAAGG
*
48454396 AAAAAA-ATAAAACAAGTAAAG
1 AAAAAAGAAAAAACAAGTAAAG
48454417 AAGAAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (23 bp):
AAAAAAGAAAAAACAAGTAAAGG
Found at i:48456261 original size:43 final size:41
Alignment explanation
Indices: 48456213--48456381 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 41
48456203 ACGCCGCAAA
* *
48456213 CTTTAGCGGCG-TTTATCTAAAAAATGCCGCTATAGGTCATGAC
1 CTTTAGCGGCGCTTT-TCT-ACAAACGCCGCTA-AGGTCATGAC
* * * * *
48456256 CTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAAGTCAAGAC
1 CTTTAGCGGCGCTTT-TCTACAAACGCCGCT-AAGGTCATGAC
*
48456299 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTGAAGATCATGAC
1 CTTTAGCGGCGCTTTT-CTACAAACGCCGCT-AAGGTCATGAC
* * * *
48456342 CTTTAGCGACGCTTTTCCCAAAAACACCGCTAAAGGTCAT
1 CTTTAGCGGCGCTTTT-CTACAAACGCCGCT-AAGGTCAT
48456382 AAATTTTAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 97 0.95
44 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTCTACAAACGCCGCTAAGGTCATGAC
Found at i:48456309 original size:86 final size:86
Alignment explanation
Indices: 48456213--48456380 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
48456203 ACGCCGCAAA
* *
48456213 CTTTAGCGGCG-TTTAT-CTAAAAAATGCCGCT-ATAGGTCATGACCTTTAGCGACGCTTTCCCC
1 CTTTAGCGGCGCTTT-TCCT-AAAAACGCCGCTGA-AGATCATGACCTTTAGCGACGCTTTCCCC
* *
48456275 ACAAACGCCGCTAAAAGTCAAGAC
63 AAAAACACCGCTAAAAGTCAAGAC
* *
48456299 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTGAAGATCATGACCTTTAGCGACGCTTTTCCCAAA
1 CTTTAGCGGCGCTTTTCCTAAAAACGCCGCTGAAGATCATGACCTTTAGCGACGCTTTCCCCAAA
*
48456364 AACACCGCTAAAGGTCA
66 AACACCGCTAAAAGTCA
48456381 TAAATTTTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
86 66 0.92
87 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTCCTAAAAACGCCGCTGAAGATCATGACCTTTAGCGACGCTTTCCCCAAA
AACACCGCTAAAAGTCAAGAC
Found at i:48456410 original size:10 final size:10
Alignment explanation
Indices: 48456397--48456422 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
48456387 TTAAAAAAAA
48456397 ATAAAATATT
1 ATAAAATATT
48456407 ATAAAATATT
1 ATAAAATATT
48456417 ATAAAA
1 ATAAAA
48456423 GTCATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:48456943 original size:25 final size:25
Alignment explanation
Indices: 48456915--48456965 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
48456905 CCAATCAAAA
*
48456915 ACAGCAAATAATAAATACCAACTTT
1 ACAGCAAACAATAAATACCAACTTT
48456940 ACAGCAAACAATAAATACCAACTTT
1 ACAGCAAACAATAAATACCAACTTT
48456965 A
1 A
48456966 TTCCTTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.22
Consensus pattern (25 bp):
ACAGCAAACAATAAATACCAACTTT
Found at i:48460856 original size:3 final size:3
Alignment explanation
Indices: 48460848--48460882 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48460838 TCTTTCTCTT
48460848 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48460883 TACTAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48461538 original size:42 final size:43
Alignment explanation
Indices: 48461466--48461549 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
48461456 ACCTTAAACC
48461466 CCATAAACTATAAACCCTAACTCTTAACCCC-TAAACTCTAAG
1 CCATAAACTATAAACCCTAACTCTTAACCCCTTAAACTCTAAG
*
48461508 CCATAAAAC-ATAAACCCTAAACT-TCT-ACCCCTTAACCTCTAA
1 CCAT-AAACTATAAACCCT-AACTCT-TAACCCCTTAAACTCTAA
48461550 CACTTACCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
42 19 0.51
43 18 0.49
ACGTcount: A:0.40, C:0.35, G:0.01, T:0.24
Consensus pattern (43 bp):
CCATAAACTATAAACCCTAACTCTTAACCCCTTAAACTCTAAG
Found at i:48461692 original size:9 final size:10
Alignment explanation
Indices: 48461671--48461695 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48461661 TTTTACCTTT
48461671 AAAATTTTAA
1 AAAATTTTAA
48461681 AAAATTTTAA
1 AAAATTTTAA
48461691 AAAAT
1 AAAAT
48461696 CGAAATGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:48464105 original size:40 final size:40
Alignment explanation
Indices: 48464007--48464309 Score: 344
Period size: 40 Copynumber: 7.6 Consensus size: 40
48463997 TCCTCGTTCA
* * * * *
48464007 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48464046 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48464086 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48464126 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
48464166 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
48464206 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
48464246 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
48464286 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48464310 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 39 0.17
40 184 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48464318 original size:41 final size:41
Alignment explanation
Indices: 48464241--48464318 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48464231 TTTGTATCTC
* * *
48464241 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48464282 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48464319 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:48470176 original size:92 final size:92
Alignment explanation
Indices: 48470019--48470202 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
48470009 TTACTTGCTT
*
48470019 TCGGGGTACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAG
1 TCGGGGCACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAG
48470084 CACACTTTAGGCATTCATCGGGTGTAC
66 CACACTTTAGGCATTCATCGGGTGTAC
48470111 TCGGGGCACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAG
1 TCGGGGCACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAG
48470176 CACACTTTAGGCATTCATCGGGTGTAC
66 CACACTTTAGGCATTCATCGGGTGTAC
48470203 AAGATAGCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (92 bp):
TCGGGGCACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAG
CACACTTTAGGCATTCATCGGGTGTAC
Found at i:48470807 original size:200 final size:200
Alignment explanation
Indices: 48470457--48470857 Score: 784
Period size: 200 Copynumber: 2.0 Consensus size: 200
48470447 CACGCTATAG
48470457 AATGCTAGTCTAGCTTCATCATTCGGATTACTAGCATTAGGTTGAGAGTCTGCCGGCACTGTCCC
1 AATGCTAGTCTAGCTTCATCATTCGGATTACTAGCATTAGGTTGAGAGTCTGCCGGCACTGTCCC
*
48470522 TTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGTCACGATCGGGATCCA
66 TTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGTCACGATCGGAATCCA
48470587 TTACTATAAACACATTTACAATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGGCA
131 TTACTATAAACACATTTACAATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGGCA
48470652 TGTAT
196 TGTAT
*
48470657 AATGCTTGTCTAGCTTCATCATTCGGATTACTAGCATTAGGTTGAGAGTCTGCCGGCACTGTCCC
1 AATGCTAGTCTAGCTTCATCATTCGGATTACTAGCATTAGGTTGAGAGTCTGCCGGCACTGTCCC
48470722 TTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGTCACGATCGGAATCCA
66 TTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGTCACGATCGGAATCCA
48470787 TTACTATAAACACATTTACAATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGGCA
131 TTACTATAAACACATTTACAATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGGCA
48470852 TGTAT
196 TGTAT
48470857 A
1 A
48470858 GCTAGACCCA
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (200 bp):
AATGCTAGTCTAGCTTCATCATTCGGATTACTAGCATTAGGTTGAGAGTCTGCCGGCACTGTCCC
TTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGTCACGATCGGAATCCA
TTACTATAAACACATTTACAATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGGCA
TGTAT
Found at i:48478130 original size:40 final size:40
Alignment explanation
Indices: 48478065--48478223 Score: 282
Period size: 40 Copynumber: 4.0 Consensus size: 40
48478055 ATATTCGGAT
*
48478065 TATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
48478105 TATATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
48478145 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
48478185 TATATTCGGGCTAAGTCCCGAAGGCCTTTGTGCGAGTTA
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA
48478224 AGTCCCGAAG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:48478232 original size:26 final size:26
Alignment explanation
Indices: 48478196--48478247 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
48478186 ATATTCGGGC
* *
48478196 TAAGTCCCGAAGGCCTTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGAGCGAGT
48478222 TAAGTCCCGAAGGCATTTGAGCGAGT
1 TAAGTCCCGAAGGCATTTGAGCGAGT
48478248 AGCTATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (26 bp):
TAAGTCCCGAAGGCATTTGAGCGAGT
Found at i:48480397 original size:14 final size:14
Alignment explanation
Indices: 48480375--48480404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48480365 GATAAATACT
*
48480375 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
48480389 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
48480403 TT
1 TT
48480405 CTTGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:48486393 original size:20 final size:20
Alignment explanation
Indices: 48486370--48486408 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48486360 AAGACTTTAC
* *
48486370 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
48486390 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
48486409 ACCTTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:48486904 original size:68 final size:68
Alignment explanation
Indices: 48486795--48486930 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
48486785 TTCACTTCTT
*
48486795 TCCCTCTCTTATGATCTTATATCTATACTTTTCAGTAAGTGTATCTTTGTACATTGAGGACAATA
1 TCCCTATCTTATGATCTTATATCTATACTTTTCAGTAAGTGTATCTTTGTACATTGAGGACAATA
48486860 TAC
66 TAC
48486863 TCCCTATCTTATGATCTTATATCTATACTTTTCAGTAAGTGTATCTTTGTACATTGAGGACAATA
1 TCCCTATCTTATGATCTTATATCTATACTTTTCAGTAAGTGTATCTTTGTACATTGAGGACAATA
48486928 TAC
66 TAC
48486931 ATCTTAAGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (68 bp):
TCCCTATCTTATGATCTTATATCTATACTTTTCAGTAAGTGTATCTTTGTACATTGAGGACAATA
TAC
Found at i:48488560 original size:13 final size:13
Alignment explanation
Indices: 48488542--48488566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48488532 AGCCACCTCA
48488542 CACGGGCATGTCG
1 CACGGGCATGTCG
48488555 CACGGGCATGTC
1 CACGGGCATGTC
48488567 CCTGTCGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGGCATGTCG
Found at i:48489389 original size:13 final size:13
Alignment explanation
Indices: 48489373--48489398 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48489363 CTGTGCATTC
48489373 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
48489386 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
48489399 ACTAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:48490339 original size:16 final size:16
Alignment explanation
Indices: 48490318--48490349 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48490308 CATGTCACTC
*
48490318 ACTTGAAAACCCTTAA
1 ACTTGAAAACACTTAA
48490334 ACTTGAAAACACTTAA
1 ACTTGAAAACACTTAA
48490350 GATTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (16 bp):
ACTTGAAAACACTTAA
Found at i:48491291 original size:18 final size:18
Alignment explanation
Indices: 48491268--48491308 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
48491258 GTATACTTAT
48491268 CATATGTTCATATATATA
1 CATATGTTCATATATATA
48491286 CATATGTTCATATATATA
1 CATATGTTCATATATATA
48491304 CATAT
1 CATAT
48491309 ACATAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
CATATGTTCATATATATA
Found at i:48492188 original size:27 final size:27
Alignment explanation
Indices: 48492158--48492240 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
48492148 ATAATCTCGC
*
48492158 ATTTTCTCGATTTAGACCCGAATTTTG
1 ATTTTCTCGATTTAGACCCGAATTTCG
* *
48492185 ATTTTCTTGATCTA-A--C---TTTCG
1 ATTTTCTCGATTTAGACCCGAATTTCG
48492206 CATTTTCTCGATTTAGACCCGAATTTCG
1 -ATTTTCTCGATTTAGACCCGAATTTCG
48492234 ATTTTCT
1 ATTTTCT
48492241 TGATCTAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 4 0.09
22 12 0.27
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 19 0.43
28 5 0.11
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (27 bp):
ATTTTCTCGATTTAGACCCGAATTTCG
Found at i:48492211 original size:49 final size:49
Alignment explanation
Indices: 48492154--48492252 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
48492144 GTCCATAATC
*
48492154 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
1 TCGCATTTTCTCGATTTAGACCCGAATTTCGATTTTCTTGATCTAACTT
*
48492203 TCGCATTTTCTCGATTTAGACCCGAATTTCGATTTTCTTGATCTAGCTT
1 TCGCATTTTCTCGATTTAGACCCGAATTTCGATTTTCTTGATCTAACTT
48492252 T
1 T
48492253 ACAAATATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (49 bp):
TCGCATTTTCTCGATTTAGACCCGAATTTCGATTTTCTTGATCTAACTT
Found at i:48499440 original size:46 final size:47
Alignment explanation
Indices: 48499328--48499602 Score: 219
Period size: 46 Copynumber: 5.9 Consensus size: 47
48499318 CAGCCATATT
* ** *
48499328 ATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGGATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAG
* * *
48499376 ACGAGAGCTAGTATAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAG
*
48499422 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAG
* * * *
48499468 AT--GTGTCAGTGTAAGACCATATCTGGGACATGGCATCG-GTACGGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-C-GAG
* * * * *
48499514 ATGTGAGAGCCAGTGTAAAACCATTTCTAGGACATGGCATCGACT--TG
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG
* *
48499561 ATGGATGAGCCAGTGTAAGACCATGTCTGGGACGTGGTATCG
1 AT-GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
48499603 GCATTACACC
Statistics
Matches: 187, Mismatches: 27, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 61 0.33
47 48 0.26
48 15 0.08
50 31 0.17
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG
Found at i:48501541 original size:35 final size:35
Alignment explanation
Indices: 48501411--48501549 Score: 170
Period size: 35 Copynumber: 4.0 Consensus size: 35
48501401 CGATTCACAA
** * * * *
48501411 CTCAGTATGGTTAATACCATACCTATGTTTCACAA
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
* *
48501446 CTCGGTATGGAAAATACCATACCTACGTATTATAG
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
* * * *
48501481 CTCGGTATAGAAAATACCTTACCTACATATCATAG
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
48501516 CTCAGTATGGAAAATACCATACCTACGTATCATA
1 CTCAGTATGGAAAATACCATACCTACGTATCATA
48501550 ACTTTACCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGAAAATACCATACCTACGTATCATAG
Found at i:48506694 original size:20 final size:19
Alignment explanation
Indices: 48506669--48506725 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
48506659 CATTAAATTA
48506669 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
48506688 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
**
48506708 AAAATAATATTAAGATAA
1 AATTTAATATTAAGATAA
48506726 ATATAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:48506737 original size:68 final size:70
Alignment explanation
Indices: 48506614--48506749 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 70
48506604 TGATTAAACT
* * ** * *
48506614 TAATCACTTTAATATTTCAATTAATCTAATATTTATCAAGATAAACATTAAATTAAATTTAATAT
1 TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
48506679 TAAGA
66 TAAGA
* *
48506684 TAATCAATTTAATA-TTAAATTAATAAAATA-ATATTAAGATAAATATAAAATTAAATTTAATAT
1 TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
48506747 TAA
66 TAA
48506750 ATCTATTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 32 0.55
69 13 0.22
70 13 0.22
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (70 bp):
TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
TAAGA
Found at i:48511739 original size:30 final size:30
Alignment explanation
Indices: 48511674--48511741 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
48511664 ATGGGGCAGA
* *
48511674 CCGTGCGTCACACATGGTCTAGACACACCC
1 CCGTGTGTCACACACGGTCTAGACACACCC
* *
48511704 CCGTGTGTCACACACGGTCTAGGCACACGC
1 CCGTGTGTCACACACGGTCTAGACACACCC
48511734 CCGTGTGT
1 CCGTGTGT
48511742 ATACACATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (30 bp):
CCGTGTGTCACACACGGTCTAGACACACCC
Found at i:48512644 original size:48 final size:48
Alignment explanation
Indices: 48512584--48512901 Score: 317
Period size: 48 Copynumber: 6.9 Consensus size: 48
48512574 ATATCGGTGC
* * *
48512584 CGATGCCATGTTCCAAACATGGTCTTATACTAGCCCACATGTCGAGAT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
* *
48512632 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAT--AAATT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGA-T
* * **
48512679 CTGATGTCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
1 C-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
*
48512728 CGATGCCATG-TCCGAAACATGGTCTTACACTAGCTCTCATAT--A-A-
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCGAGAT
* * * *
48512772 --ATGCC----TCCAAACATGGTCTTACACTGGATCACATATCGTGGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
* * *
48512814 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT--AAAT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
*
48512860 GCCGATGCCATGTT-CAAACATGGTCTTACACTGGCTCACATA
1 --CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
48512902 ACCCTAGTAT
Statistics
Matches: 223, Mismatches: 30, Indels: 35
0.77 0.10 0.12
Matches are distributed among these distances:
38 25 0.11
39 3 0.01
42 5 0.02
44 5 0.02
46 4 0.02
47 31 0.14
48 148 0.66
49 1 0.00
50 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
Found at i:48512732 original size:96 final size:96
Alignment explanation
Indices: 48512532--48512901 Score: 474
Period size: 96 Copynumber: 3.9 Consensus size: 96
48512522 AGGGTAAGAT
* * * * **
48512532 GTCGATGCCATGTCCCAGACATGGCCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
* * * *
48512597 CAAACATGGTCTTATACTAGCCCACATGTCGAG
64 CAAACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
48512630 ATCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATTCTGATGTCATGTTCCA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
48512695 AACATGGTCTTACACTGGCTCACATATCGAG
66 AACATGGTCTTACACTGGCTCACATATCGAG
* *
48512726 GCCGATGCCATGTCCGAAACATGGTCTTACACTAGCTCTCATAT-AA-----ATGCC----TCCA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* *
48512781 AACATGGTCTTACACTGGATCACATATCGTG
66 AACATGGTCTTACACTGGCTCACATATCGAG
48512812 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTT-CA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
48512876 AACATGGTCTTACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
48512902 ACCCTAGTAT
Statistics
Matches: 237, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
86 75 0.32
87 2 0.01
90 4 0.02
92 5 0.02
95 29 0.12
96 83 0.35
98 39 0.16
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCGAG
Found at i:48512836 original size:86 final size:86
Alignment explanation
Indices: 48512691--48512862 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
48512681 GATGTCATGT
* *
48512691 TCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCGAAACATGGTCTTAC
1 TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
48512756 ACTAGCTCTCATATAAATGCC
66 ACTAGCTCTCATATAAATGCC
* *
48512777 TCCAAACATGGTCTTACACTGGATCACATATCGTGGTCGATGCCATGTCCCAAACATGGTCTTAC
1 TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
48512842 ACTAGCTCTCATATAAATGCC
66 ACTAGCTCTCATATAAATGCC
48512863 GATGCCATGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
ACTAGCTCTCATATAAATGCC
Found at i:48515662 original size:17 final size:18
Alignment explanation
Indices: 48515640--48515674 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
48515630 ATTAGAAACT
48515640 AAATCCAAAA-AGTTTAA
1 AAATCCAAAATAGTTTAA
48515657 AAATCCAAAATAGTTTAA
1 AAATCCAAAATAGTTTAA
48515675 TAAAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATCCAAAATAGTTTAA
Found at i:48519625 original size:97 final size:97
Alignment explanation
Indices: 48519486--48519669 Score: 368
Period size: 97 Copynumber: 1.9 Consensus size: 97
48519476 TCATTTATGT
48519486 TTTCTTCAATATATTTTAAATCAATTTTGTTTAGCCTTTTCATTTAGTTGATTTATTTAATTTTT
1 TTTCTTCAATATATTTTAAATCAATTTTGTTTAGCCTTTTCATTTAGTTGATTTATTTAATTTTT
48519551 AAAGGAATTAGTCATTTATTTTTCGCGGACGA
66 AAAGGAATTAGTCATTTATTTTTCGCGGACGA
48519583 TTTCTTCAATATATTTTAAATCAATTTTGTTTAGCCTTTTCATTTAGTTGATTTATTTAATTTTT
1 TTTCTTCAATATATTTTAAATCAATTTTGTTTAGCCTTTTCATTTAGTTGATTTATTTAATTTTT
48519648 AAAGGAATTAGTCATTTATTTT
66 AAAGGAATTAGTCATTTATTTT
48519670 AATTTTTTGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 87 1.00
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.54
Consensus pattern (97 bp):
TTTCTTCAATATATTTTAAATCAATTTTGTTTAGCCTTTTCATTTAGTTGATTTATTTAATTTTT
AAAGGAATTAGTCATTTATTTTTCGCGGACGA
Found at i:48520467 original size:13 final size:14
Alignment explanation
Indices: 48520432--48520473 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
48520422 AGGAAAAAAA
48520432 TTATGTAAAAATA-
1 TTATGTAAAAATAT
*
48520445 -TATTTATAAAATAT
1 TTATGTA-AAAATAT
48520459 TTATGTAAAAATAT
1 TTATGTAAAAATAT
48520473 T
1 T
48520474 AATAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 8 0.33
15 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TTATGTAAAAATAT
Found at i:48527780 original size:12 final size:12
Alignment explanation
Indices: 48527763--48527794 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
48527753 TCATGTCCCA
48527763 GCCCGTGTTCGT
1 GCCCGTGTTCGT
48527775 GCCCGTGTTCGT
1 GCCCGTGTTCGT
48527787 GCCCGTGT
1 GCCCGTGT
48527795 AACTCACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.34, G:0.34, T:0.31
Consensus pattern (12 bp):
GCCCGTGTTCGT
Found at i:48538867 original size:40 final size:40
Alignment explanation
Indices: 48538812--48539350 Score: 593
Period size: 40 Copynumber: 13.5 Consensus size: 40
48538802 GTTAGATCTA
* * * * *
48538812 CCGAA-CACACTAGACAGAATCTCATAAGAGTTGATGCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * * *
48538851 CCGAAGCACACCAGACAGAAGCTCATAAGAACTAATCCAA
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48538891 CCGTAA-CATACCAAACAGAAGCTCATAAGAGGTAATCCAC
1 CCG-AAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
*
48538931 CCGAAGCACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48538971 CTGAAGCACACCAAATAGAAGCTTATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48539011 CTGAAGGACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48539051 CTGAAGCACACCAAATAGAAGCTTATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48539091 CTGAAGGACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48539131 CTGAAGCACACCAAATAGAAGCTTATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
48539171 CTGAAGGACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * * * *
48539211 CTGAAGCACACTAGGAA-A-AAGCTCACAAGAGTTGATCCAA
1 CCGAAGCACACCA--AACAGAAGCTCATAAGAGCTGATCCAC
* *
48539251 TCGTAA-CACACCAAACAGAAGCTCATAAGAGCTGATCCAA
1 CCG-AAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * ** * *
48539291 TCGAAACATGCCAAACAGAAGCTCATAAGAGTTGATCCAA
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* *
48539331 TCGAAGCACGCCAAACAGAA
1 CCGAAGCACACCAAACAGAA
48539351 AGTATAACAC
Statistics
Matches: 435, Mismatches: 56, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
38 2 0.00
39 10 0.02
40 417 0.96
41 5 0.01
42 1 0.00
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (40 bp):
CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
Found at i:48543106 original size:51 final size:51
Alignment explanation
Indices: 48543022--48543160 Score: 142
Period size: 51 Copynumber: 2.7 Consensus size: 51
48543012 GGATGCCCGA
* *
48543022 TGGCCTACACATAGTACCACCCTTGT-AGTCAAAGCTAACTTCTTCACA-A-AG
1 TGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTAACTT-TT-ACATATAG
* *
48543073 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACATATAG
1 TGGCCTTCACATAGTACCACACTTGTGATCAAAGCTAACTTTTACATATAG
* * * *
48543124 TGG-CTTGCACTTAGTGCCACACATGTGATCGAAGCTA
1 TGGCCTT-CACATAGTACCACACTTGTGATCAAAGCTA
48543161 TCGGGTATGC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
49 3 0.04
50 6 0.08
51 65 0.87
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGATCAAAGCTAACTTTTACATATAG
Found at i:48545989 original size:15 final size:15
Alignment explanation
Indices: 48545936--48546008 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
48545926 AGAATTCAAG
* *
48545936 ATAAGGAAATCCATA
1 ATAAAGAAATCCAAA
** *
48545951 ATGGAGAAATCC-AG
1 ATAAAGAAATCCAAA
* *
48545965 ATATAGAAATCCAAC
1 ATAAAGAAATCCAAA
48545980 ATAAAGAAATCCAAA
1 ATAAAGAAATCCAAA
* *
48545995 ACAAAAAAATCCAA
1 ATAAAGAAATCCAA
48546009 TCAGACTGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
14 10 0.22
15 35 0.78
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAA
Found at i:48549617 original size:50 final size:50
Alignment explanation
Indices: 48549490--48549678 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
48549480 AGCTATATTT
* * * * * *
48549490 TACACATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAA-CCATCTGG
** * *
48549541 TATGCATAATAGCTTGCACTTAGTACTACACATGCGACCTAACCATCTGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAACCATCTGG
* * * **
48549591 TACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCT--AACCATCTGG
* * *
48549643 AACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTG
48549679 TTCTCACAAC
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 40 0.36
51 34 0.30
52 38 0.34
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAACCATCTGG
Found at i:48549661 original size:52 final size:50
Alignment explanation
Indices: 48549545--48549674 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 50
48549535 ATCGGGTATG
* * **
48549545 CATAATAGCTTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACA
1 CATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
* * * *
48549595 CGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCTTGCACTTAGTACTACACACGCGACCT--AACCATCTGAAACA
* *
48549647 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCTTGCACTTAGTACTACACA
48549675 TGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (50 bp):
CATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
Found at i:48550046 original size:25 final size:26
Alignment explanation
Indices: 48550017--48550073 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
48550007 GTTACTAGTC
*
48550017 ATATATCATTGTTCTCA-CAAATTTT-
1 ATATATCATTCTT-TCATCAAATTTTA
* *
48550042 ATATACCATTCTTTCATCACATTTTA
1 ATATATCATTCTTTCATCAAATTTTA
48550068 ATATAT
1 ATATAT
48550074 TAAATCATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 18 0.69
26 5 0.19
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATATCATTCTTTCATCAAATTTTA
Found at i:48557289 original size:15 final size:17
Alignment explanation
Indices: 48557258--48557289 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48557248 ACTCGTATTC
48557258 ATATTGTCACTAAATTG
1 ATATTGTCACTAAATTG
48557275 ATATTGT-AC-AAATTG
1 ATATTGTCACTAAATTG
48557290 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
ATATTGTCACTAAATTG
Found at i:48565388 original size:34 final size:34
Alignment explanation
Indices: 48565345--48565414 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
48565335 TCCCTTGAAG
* *
48565345 TCAGAGATATCGATCACATTATCATCTATTATAC
1 TCAGAGATATCGATCACACTATCATCCATTATAC
48565379 TCAGAGATATCGATCACACTATCATCCATTATAC
1 TCAGAGATATCGATCACACTATCATCCATTATAC
48565413 TC
1 TC
48565415 GGTATAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (34 bp):
TCAGAGATATCGATCACACTATCATCCATTATAC
Found at i:48574020 original size:43 final size:43
Alignment explanation
Indices: 48573857--48574020 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
48573847 AGCTCGTACA
*** *
48573857 ATGCCAACGTCCCAGACGAT-GTCTTACATTTAATC-AAATATAG
1 ATGCCAACGTCCCAGAC-ATGGTCTTACACGAAATCTAAA-ATCG
* * * *
48573900 ATGCC-ACTGTCCCAAACAGGGTCTTACACGAAATCTTATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTAAAATCG
* * * *
48573942 AGGCCAATGTCCTAGACATGGTCTTACAATC-AAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTAC-A-CGAAATCTAAAATCG
48573986 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
48574021 ACGTACCGAA
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.26
43 42 0.44
44 28 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCTAAAATCG
Found at i:48577022 original size:46 final size:46
Alignment explanation
Indices: 48576967--48577089 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
48576957 GATGAGTGCT
48576967 GGTGTAAGACATGTCTGGGACATACATCGGCCT-CGAGACACAAGT-A
1 GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAG--ACAAGTCA
* ***
48577013 GGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGTCA
1 GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGACAAGTCA
48577058 -GTGTAAGACCATGTCTGGGACATAGCATCGGC
1 GGTGTAAGA-CATGTCTGGGACATA-CATCGGC
48577090 ACCTTACGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 11 0.16
45 17 0.25
46 39 0.58
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGACAAGTCA
Found at i:48590918 original size:12 final size:11
Alignment explanation
Indices: 48590899--48590929 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
48590889 TCTATAAAAC
48590899 TTATTTTATTA
1 TTATTTTATTA
48590910 TTAATTTTATTA
1 TT-ATTTTATTA
48590922 TTATTTTA
1 TTATTTTA
48590930 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:48591123 original size:12 final size:12
Alignment explanation
Indices: 48591093--48591125 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
48591083 TATATATTTT
48591093 AAAATT-ATATA
1 AAAATTAATATA
48591104 AAAA-TAATATA
1 AAAATTAATATA
48591115 AAAATTAATAT
1 AAAATTAATAT
48591126 GGGCAGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Done.