Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 138 of 284
Found at i:46113820 original size:15 final size:15
Alignment explanation
Indices: 46113800--46113830 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46113790 GTACATAAAC
*
46113800 CCTATCCTGGAACAT
1 CCTATCCTAGAACAT
46113815 CCTATCCTAGAACAT
1 CCTATCCTAGAACAT
46113830 C
1 C
46113831 AAACAACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (15 bp):
CCTATCCTAGAACAT
Found at i:46127288 original size:48 final size:48
Alignment explanation
Indices: 46127103--46127321 Score: 157
Period size: 48 Copynumber: 4.6 Consensus size: 48
46127093 CATAGTAGGG
* * * * * * *
46127103 TGCCAATGCCATA-TCCTGGATATGGTCTTATATGGGACCACTTATCAA
1 TGCCAATGCCATAGTCC-AGATATGGTCTTACATGAGATCGCATAACAA
** * *
46127151 TGCCAATGCCAT-GTCCCAGGCATGGTCTTACATGGGAT--CA-CACATA
1 TGCCAATGCCATAGT-CCAGATATGGTCTTACATGAGATCGCATAACA-A
* * * * *
46127197 T--CAAAGCCGATAGCCCAGACATGGTCTTTCATGGGATCGCATAACAA
1 TGCCAATGCC-ATAGTCCAGATATGGTCTTACATGAGATCGCATAACAA
* *
46127244 TGCCAATGTCAT-GTCCTAGATATGGTCTTACATGAGATTGCATAACAA
1 TGCCAATGCCATAGTCC-AGATATGGTCTTACATGAGATCGCATAACAA
* *
46127292 TGCCGATGCCATATTCCAGATATGGTCTTA
1 TGCCAATGCCATAGTCCAGATATGGTCTTA
46127322 TACGGCATCT
Statistics
Matches: 136, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 6 0.04
45 25 0.18
46 4 0.03
47 7 0.05
48 84 0.62
49 10 0.07
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATAGTCCAGATATGGTCTTACATGAGATCGCATAACAA
Found at i:46134175 original size:40 final size:39
Alignment explanation
Indices: 46134130--46134242 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
46134120 ATGTACTGAA
* *
46134130 TATGTTACCATAAGCATGATAAGCTTGCCATTGAATTGAT
1 TATGTTACCGTAAGCATG-TAAGCATGCCATTGAATTGAT
* *
46134170 TATGTTACCGTAAGCATGTTAACCATGCTATTGAATTGAT
1 TATGTTACCGTAAGCATG-TAAGCATGCCATTGAATTGAT
*
46134210 TATGCTACCGTAAGCATGTAAGACATGCCATTG
1 TATGTTACCGTAAGCATGTAAG-CATGCCATTG
46134243 TACCGAAACC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.05
40 61 0.95
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (39 bp):
TATGTTACCGTAAGCATGTAAGCATGCCATTGAATTGAT
Found at i:46151134 original size:210 final size:210
Alignment explanation
Indices: 46150772--46151191 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
46150762 CTTTCACGGT
46150772 TTTCAAATCAATCGAATAAAACTCAATTACATTAAATCATTTATATATATCACATAATGCTAACA
1 TTTCAAATCAATCGAATAAAACTCAATTACATTAAATCATTTATATATATCACATAATGCTAACA
46150837 TAATAATAGATTATAAAGTTTGAATCATCATAGTAAAACATTCTATGTTCAAAATAAACCATGTT
66 TAATAATAGATTATAAAGTTTGAATCATCATAGTAAAACATTCTATGTTCAAAATAAACCATGTT
46150902 TAATTGCTTAAGGACTTACCTCAGATATTGATGGACGTTACGAATCGACTATTCGACTATTTTTG
131 TAATTGCTTAAGGACTTACCTCAGATATTGATGGACGTTACGAATCGACTATTCGACTATTTTTG
46150967 TTTTTCCCCGATCCG
196 TTTTTCCCCGATCCG
46150982 TTTCAAATCAATCGAATAAAACTCAATTACATTAAATCATTTATATATATCACATAATGCTAACA
1 TTTCAAATCAATCGAATAAAACTCAATTACATTAAATCATTTATATATATCACATAATGCTAACA
46151047 TAATAATAGATTATAAAGTTTGAATCATCATAGTAAAACATTCTATGTTCAAAATAAACCATGTT
66 TAATAATAGATTATAAAGTTTGAATCATCATAGTAAAACATTCTATGTTCAAAATAAACCATGTT
46151112 TAATTGCTTAAGGACTTACCTCAGATATTGATGGACGTTACGAATCGACTATTCGACTATTTTTG
131 TAATTGCTTAAGGACTTACCTCAGATATTGATGGACGTTACGAATCGACTATTCGACTATTTTTG
46151177 TTTTTCCCCGATCCG
196 TTTTTCCCCGATCCG
46151192 AGTCTGATTT
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (210 bp):
TTTCAAATCAATCGAATAAAACTCAATTACATTAAATCATTTATATATATCACATAATGCTAACA
TAATAATAGATTATAAAGTTTGAATCATCATAGTAAAACATTCTATGTTCAAAATAAACCATGTT
TAATTGCTTAAGGACTTACCTCAGATATTGATGGACGTTACGAATCGACTATTCGACTATTTTTG
TTTTTCCCCGATCCG
Found at i:46152633 original size:114 final size:114
Alignment explanation
Indices: 46152433--46152660 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
46152423 ACGTCTAATA
46152433 AATCTCATACGGTCTAATAAATCTCAGACTCAATTTGCCTTTACAACTGAATCTGAGTATTTTCT
1 AATCTCATACGGTCTAATAAATCTCAGACTCAATTTGCCTTTACAACTGAATCTGAGTATTTTCT
46152498 TCCATGGTGAAACTTTCAAAAACGCTCTTTCTCCGATCTGAAACTCTAT
66 TCCATGGTGAAACTTTCAAAAACGCTCTTTCTCCGATCTGAAACTCTAT
*
46152547 AATCTCATACGGTCTAATAAATCTCAGACTCAATTTGCCTTTACGACTGAATCTGAGTATTTTCT
1 AATCTCATACGGTCTAATAAATCTCAGACTCAATTTGCCTTTACAACTGAATCTGAGTATTTTCT
46152612 TCCATGGTGAAACTTTCAAAAACGCTCTTTCTCCGATCTGAAACTCTAT
66 TCCATGGTGAAACTTTCAAAAACGCTCTTTCTCCGATCTGAAACTCTAT
46152661 GTCTTTACGT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (114 bp):
AATCTCATACGGTCTAATAAATCTCAGACTCAATTTGCCTTTACAACTGAATCTGAGTATTTTCT
TCCATGGTGAAACTTTCAAAAACGCTCTTTCTCCGATCTGAAACTCTAT
Found at i:46155121 original size:44 final size:44
Alignment explanation
Indices: 46155058--46155145 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
46155048 GAAACACATC
* *
46155058 CGAATACTCGCACACAACTGGTACGGATTCAATCTTCTTTTCAG
1 CGAATACTCACACACAACTGGTACAGATTCAATCTTCTTTTCAG
*
46155102 CGAATACTCACACACAACTGGTACAGATTCAGTCTTCTTTTCAG
1 CGAATACTCACACACAACTGGTACAGATTCAATCTTCTTTTCAG
46155146 TAACTTTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
CGAATACTCACACACAACTGGTACAGATTCAATCTTCTTTTCAG
Found at i:46156112 original size:47 final size:47
Alignment explanation
Indices: 46156038--46156134 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
46156028 TCTCTGAACT
46156038 TCTTCGATGCTGAGTGAAAAGTATTGCTTGATGATCTTTTACAGGAA
1 TCTTCGATGCTGAGTGAAAAGTATTGCTTGATGATCTTTTACAGGAA
* *
46156085 TCTTCGATGCTGAGTGAAAAGTCTTGCTTGATGATCTTTTACGGGAA
1 TCTTCGATGCTGAGTGAAAAGTATTGCTTGATGATCTTTTACAGGAA
46156132 TCT
1 TCT
46156135 CTAGCTTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (47 bp):
TCTTCGATGCTGAGTGAAAAGTATTGCTTGATGATCTTTTACAGGAA
Found at i:46175259 original size:30 final size:30
Alignment explanation
Indices: 46175225--46175286 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46175215 GTATGTTTTG
46175225 GACCTCGTAGGCCCATAATAGGGACAATAT
1 GACCTCGTAGGCCCATAATAGGGACAATAT
*
46175255 GACCTCGTAGGCCCATAATAGGGATAATAT
1 GACCTCGTAGGCCCATAATAGGGACAATAT
46175285 GA
1 GA
46175287 ATACCATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (30 bp):
GACCTCGTAGGCCCATAATAGGGACAATAT
Found at i:46183913 original size:48 final size:47
Alignment explanation
Indices: 46183842--46184035 Score: 148
Period size: 48 Copynumber: 4.1 Consensus size: 47
46183832 ATTTGGGATA
* *
46183842 TGGCATTGATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
1 TGGCATCGATATGAGA-CCCATGTAAGACCATGTCTAGGACATGGCAT
*
46183890 TGGCATCGATATGAGACATCATGTAAGACCATAG-CTAGG-CTATCGGC-T
1 TGGCATCGATATGAGAC-CCATGTAAGACCAT-GTCTAGGAC-AT-GGCAT
* * * * * *
46183938 TCG-ATACG-TGTCA-TCCCATGTAACACCATGTCTAGAACATGGCAT
1 TGGCAT-CGATATGAGACCCATGTAAGACCATGTCTAGGACATGGCAT
* * * * * *
46183983 TGGCATCGATATGTGGTCCCATGTAAGACCATATCTGGGATATGGCAA
1 TGGCATCGATATG-AGACCCATGTAAGACCATGTCTAGGACATGGCAT
46184031 TGGCA
1 TGGCA
46184036 CCCTACCATG
Statistics
Matches: 114, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
44 4 0.04
45 23 0.20
46 6 0.05
47 7 0.06
48 70 0.61
49 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (47 bp):
TGGCATCGATATGAGACCCATGTAAGACCATGTCTAGGACATGGCAT
Found at i:46186700 original size:46 final size:44
Alignment explanation
Indices: 46186650--46186823 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 44
46186640 ATCATTTAGC
*
46186650 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCTAGGT
* * *
46186696 CGATGCATATCCCAGACATGTCTTACACTAGCAGTCGTCTCTATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC--TCGTCTCTAGGT
*
46186742 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATATGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTC-T-CTA-GGT
* * *
46186790 CGATTCATGTTCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
46186824 ACACAAGTGA
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.02
46 61 0.55
47 29 0.26
48 18 0.16
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCTAGGT
Found at i:46186791 original size:94 final size:91
Alignment explanation
Indices: 46186552--46186821 Score: 253
Period size: 94 Copynumber: 2.9 Consensus size: 91
46186542 ATGGGGTAAC
* * * * * *
46186552 TGTCGATGCCATGTCCCCGACATGGTCGTACACTGGATATCATCATCGAGGCCGATGCCGTGTCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AT--AGGTCGATG-CATGTCC
* * *
46186617 CAGACGTGGTCTTACACTAACACATCATTTA
62 CAGACAT-GTCTTACACTAGCACATCATCTA
* ** *
46186648 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TCGAGGTCGATGCATATCCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-C-TCATATAGGTCGATGCATGTCCC
*
46186709 AGACATGTCTTACACTAGCAGTCGTC-TCTA
63 AGACATGTCTTACACTAGCA--CATCATCTA
* *
46186739 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGTCGATTCATGTTCCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATA-GGTCGATGCATGTCCCA
46186804 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
46186822 TCACACAAGT
Statistics
Matches: 143, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
90 13 0.09
91 16 0.11
92 19 0.13
93 27 0.19
94 59 0.41
95 7 0.05
96 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (91 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCATCTA
Found at i:46193578 original size:20 final size:20
Alignment explanation
Indices: 46193555--46193594 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
46193545 TGAAATTCTA
46193555 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
46193575 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
46193595 CCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:46194232 original size:8 final size:8
Alignment explanation
Indices: 46194219--46194250 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
46194209 CCTAATTCTT
46194219 TTTTTTTC
1 TTTTTTTC
46194227 TTTTTTTC
1 TTTTTTTC
46194235 TTTTTTCTC
1 TTTTTT-TC
46194244 TTTTTTT
1 TTTTTTT
46194251 TAATTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:46194232 original size:9 final size:9
Alignment explanation
Indices: 46194218--46194251 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
46194208 ACCTAATTCT
46194218 TTTTTTTTC
1 TTTTTTTTC
46194227 -TTTTTTTC
1 TTTTTTTTC
*
46194235 TTTTTTCTC
1 TTTTTTTTC
46194244 TTTTTTTT
1 TTTTTTTT
46194252 AATTCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:46194240 original size:17 final size:17
Alignment explanation
Indices: 46194218--46194250 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46194208 ACCTAATTCT
*
46194218 TTTTTTTTCTTTTTTTC
1 TTTTTTCTCTTTTTTTC
46194235 TTTTTTCTCTTTTTTT
1 TTTTTTCTCTTTTTTT
46194251 TAATTCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTCTCTTTTTTTC
Found at i:46194429 original size:96 final size:97
Alignment explanation
Indices: 46194265--46194449 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 97
46194255 TCTATTTATA
* * * *
46194265 TATTTTTACTTAGGAATATATTGAACCTTTTGACGCAATGAGAGATAACAGCCAAGCACCCCACC
1 TATTTTTACTTAAGAACATATCGAACCTTTTGACACAATGAGAGATAACAGCCAAGCACCCCACC
46194330 CCAGTTACTCAGCACAACACATTCCTAATTTT
66 CCAGTTACTCAGCACAACACATTCCTAATTTT
* *
46194362 TATTTTT-CTTAAGAACATATCGAACCTTTTGACACGAA-GAGAGATGACAGCCAAGCACCTCAC
1 TATTTTTACTTAAGAACATATCGAACCTTTTGACAC-AATGAGAGATAACAGCCAAGCACCCCAC
* *
46194425 CCCAGTTACTCAGCCCGACACATTC
65 CCCAGTTACTCAGCACAACACATTC
46194450 TTAAAAATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
96 70 0.89
97 9 0.11
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (97 bp):
TATTTTTACTTAAGAACATATCGAACCTTTTGACACAATGAGAGATAACAGCCAAGCACCCCACC
CCAGTTACTCAGCACAACACATTCCTAATTTT
Found at i:46195200 original size:13 final size:11
Alignment explanation
Indices: 46195183--46195221 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
46195173 ATCTAAAAAT
46195183 AATAAAATAATA
1 AATAAAATAA-A
46195195 AGATAAAATAAA
1 A-ATAAAATAAA
46195207 AATAAAAATAAA
1 AAT-AAAATAAA
46195219 AAT
1 AAT
46195222 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 14 0.56
13 9 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:46201644 original size:20 final size:20
Alignment explanation
Indices: 46201621--46201659 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46201611 GAAATTCTAC
46201621 AAGATAAAT-ACAAATAAATA
1 AAGATAAATGA-AAATAAATA
46201641 AAGATAAATGAAAATAAAT
1 AAGATAAATGAAAATAAAT
46201660 CCTAGAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (20 bp):
AAGATAAATGAAAATAAATA
Found at i:46215833 original size:129 final size:129
Alignment explanation
Indices: 46215603--46215861 Score: 484
Period size: 129 Copynumber: 2.0 Consensus size: 129
46215593 ATACCAAATT
46215603 ATAATTCTTAATATGCTACATTTCCAACTCAAATATTTAATCTAACATTTTATTCTTTCATTACC
1 ATAATTCTTAATATGCTACATTTCCAACTCAAATATTTAATCTAACATTTTATTCTTTCATTACC
*
46215668 GAACCTCAAACAAGACATATCCACCAAAGTTATCATATAACATATTCATTATTTGCTTTCACCA
66 GAACCTCAAACAAAACATATCCACCAAAGTTATCATATAACATATTCATTATTTGCTTTCACCA
46215732 ATAATT-TGTAATATGCTACATTTCCAACTCAAATATTTAATCTAACATTTTATTCTTTCATTAC
1 ATAATTCT-TAATATGCTACATTTCCAACTCAAATATTTAATCTAACATTTTATTCTTTCATTAC
*
46215796 CGAACCTCAAACAAAACATATCCACCAATGTTATCATATAACATATTCATTATTTGCTTTCACCA
65 CGAACCTCAAACAAAACATATCCACCAAAGTTATCATATAACATATTCATTATTTGCTTTCACCA
46215861 A
1 A
46215862 CCATTCAAGC
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
128 1 0.01
129 126 0.99
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (129 bp):
ATAATTCTTAATATGCTACATTTCCAACTCAAATATTTAATCTAACATTTTATTCTTTCATTACC
GAACCTCAAACAAAACATATCCACCAAAGTTATCATATAACATATTCATTATTTGCTTTCACCA
Found at i:46218204 original size:14 final size:15
Alignment explanation
Indices: 46218187--46218215 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46218177 TCACGAAAAT
46218187 TTCACACAT-ATAAA
1 TTCACACATAATAAA
46218201 TTCACACATAATAAA
1 TTCACACATAATAAA
46218216 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:46221383 original size:12 final size:12
Alignment explanation
Indices: 46221366--46221391 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46221356 CCTTTAATTA
46221366 GACTGAAAAGAT
1 GACTGAAAAGAT
46221378 GACTGAAAAGAT
1 GACTGAAAAGAT
46221390 GA
1 GA
46221392 AGTTGAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.27, T:0.15
Consensus pattern (12 bp):
GACTGAAAAGAT
Found at i:46222339 original size:8 final size:8
Alignment explanation
Indices: 46222326--46222380 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
46222316 AAAATAGTTC
46222326 TTTTTTTA
1 TTTTTTTA
46222334 TTTTTTTA
1 TTTTTTTA
*
46222342 TTTTTTCA
1 TTTTTTTA
*
46222350 -TTTTATA
1 TTTTTTTA
*
46222357 TTATTTT-
1 TTTTTTTA
*
46222364 TTTCTTTA
1 TTTTTTTA
46222372 TTTTTTTA
1 TTTTTTTA
46222380 T
1 T
46222381 AATTTTCTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 10 0.27
8 27 0.73
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:46222407 original size:38 final size:38
Alignment explanation
Indices: 46222330--46222412 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
46222320 TAGTTCTTTT
* *
46222330 TTTATTTTTTTATTTTTTCATTTTATATTATTTTTTTC
1 TTTATTTTTTTATTTTTTCATTTTATATTACTTTCTTC
46222368 TTTATTTTTTTATAATTTTCTCATTTT-T-TT-CTTTCTTC
1 TTTATTTTTTTAT--TTTT-TCATTTTATATTACTTTCTTC
*
46222406 TTCATTT
1 TTTATTT
46222413 ATAATGTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
38 25 0.64
39 2 0.05
40 5 0.13
41 7 0.18
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (38 bp):
TTTATTTTTTTATTTTTTCATTTTATATTACTTTCTTC
Found at i:46233562 original size:20 final size:20
Alignment explanation
Indices: 46233526--46233563 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46233516 TCACAAACCA
46233526 CATAACTCATTTACATTTCC
1 CATAACTCATTTACATTTCC
46233546 CATATACTCATTT-CATTT
1 CATA-ACTCATTTACATTT
46233564 GTACAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
CATAACTCATTTACATTTCC
Found at i:46233883 original size:43 final size:43
Alignment explanation
Indices: 46233763--46233921 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
46233753 ATCTCGTACA
* *
46233763 ATGCCAACGTCCCAGACGTGGTATTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATAT-G
* **
46233806 ATGTCATTGTCCCAGACAG-GGTCTTACACG-AAATCAAATATG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAAATCAAATATG
* * *
46233848 ATGCCAACATCCCAGACGTGGTCTTATACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TATG
*
46233892 ATGCCAACGTCTCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
46233922 ATAACACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 39 0.41
44 31 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATG
Found at i:46233920 original size:86 final size:85
Alignment explanation
Indices: 46233763--46233922 Score: 198
Period size: 86 Copynumber: 1.9 Consensus size: 85
46233753 ATCTCGTACA
* * * **
46233763 ATGCCAACGTCCCAGACGTGGTATTACATGTAATCAAATATCGATGTCATTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTATTACACGTAATCAAATATCGATGCCAACGTCCCAGACAGGGT
46233828 CTTACACGAAATCAAATATG
66 CTTACACGAAATCAAATATG
* * * *
46233848 ATGCCAACATCCCAGACGTGGTCTTATACGTAAATCATAA-GTCGATGCCAACGTCTCAGAC-GT
1 ATGCCAACATCCCAGACGTGGTATTACACGT-AATCA-AATATCGATGCCAACGTCCCAGACAG-
46233911 GGTCTTACACGA
63 GGTCTTACACGA
46233923 TAACACATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 28 0.44
86 33 0.52
87 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTATTACACGTAATCAAATATCGATGCCAACGTCCCAGACAGGGT
CTTACACGAAATCAAATATG
Found at i:46238347 original size:39 final size:41
Alignment explanation
Indices: 46238252--46238435 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 41
46238242 TTGAATGATG
*
46238252 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
46238291 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
46238331 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
46238370 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
46238410 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46238436 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:46238457 original size:79 final size:79
Alignment explanation
Indices: 46238304--46238468 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
46238294 GGACTAAGAT
* **
46238304 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
46238369 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
46238383 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-GC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATAC
* *
46238446 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46238462 CCGAAGG
1 CCGAAGG
46238469 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.62
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:46245143 original size:40 final size:40
Alignment explanation
Indices: 46245054--46245317 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
46245044 TTGAATGATG
* *
46245054 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
46245093 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46245133 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46245172 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46245212 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46245252 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46245293 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46245318 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46245335 original size:120 final size:118
Alignment explanation
Indices: 46245054--46245350 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
46245044 TTGAATGATG
* *
46245054 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
46245114 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
46245172 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
46245237 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
46245293 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
46245351 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:46249195 original size:19 final size:21
Alignment explanation
Indices: 46249137--46249201 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
46249127 TTGACGCCTC
46249137 AAAAA-AT-TATAAAAAAACT
1 AAAAATATATATAAAAAAACT
*
46249156 AAAGAATATATATAAAGAAACT
1 AAA-AATATATATAAAAAAACT
*
46249178 TAAAATATA-A-AAAAAAACT
1 AAAAATATATATAAAAAAACT
*
46249197 CAAAA
1 AAAAA
46249202 CCCTACACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 15 0.38
20 3 0.08
21 8 0.21
22 13 0.33
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAATATATATAAAAAAACT
Found at i:46252722 original size:24 final size:25
Alignment explanation
Indices: 46252672--46252808 Score: 106
Period size: 24 Copynumber: 5.6 Consensus size: 25
46252662 TCCAGGCTGT
*
46252672 ATAA-CAGGAAGCT-CATAAGATCC-
1 ATAATCAGGAAGCTCCA-AAGAGCCA
*
46252695 ATAATCAGGAAGCTCCAAATAG-CA
1 ATAATCAGGAAGCTCCAAAGAGCCA
* * *
46252719 ATAAATCGGGAAG-TTCAAGGAGCCA
1 AT-AATCAGGAAGCTCCAAAGAGCCA
46252744 AT-ATCAGGAAGCTCCAAAGAGCCA
1 ATAATCAGGAAGCTCCAAAGAGCCA
* ** * *
46252768 TTAATCAAAAAGTTCACAAAGAGCCT
1 ATAATCAGGAAGCTC-CAAAGAGCCA
*
46252794 TTAATCAGGAAGCTC
1 ATAATCAGGAAGCTC
46252809 GTGAATAGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
23 13 0.15
24 31 0.35
25 24 0.27
26 21 0.24
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (25 bp):
ATAATCAGGAAGCTCCAAAGAGCCA
Found at i:46253329 original size:21 final size:21
Alignment explanation
Indices: 46253305--46253344 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46253295 ATTTCATATC
* *
46253305 AATTTAATACAATTTACATTT
1 AATTCAATACAATTCACATTT
*
46253326 AATTCAATCCAATTCACAT
1 AATTCAATACAATTCACAT
46253345 CTTTGGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTCAATACAATTCACATTT
Found at i:46268807 original size:24 final size:24
Alignment explanation
Indices: 46268752--46268823 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
46268742 GAGTCATAGT
*
46268752 CGGTAAGCTCTTACTGAGCTGATAAA
1 CGGTAAGCTC-TATTGAGCTGA-AAA
*
46268778 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTGAAAA
* *
46268802 CGGTAAGTTCTATTGAGTTGAA
1 CGGTAAGCTCTATTGAGCTGAA
46268824 CAATAAGCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 22 0.54
25 10 0.24
26 9 0.22
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (24 bp):
CGGTAAGCTCTATTGAGCTGAAAA
Found at i:46273274 original size:20 final size:19
Alignment explanation
Indices: 46273231--46273279 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
46273221 TTATTTACAA
46273231 ATATTTTTATAATTTATAT
1 ATATTTTTATAATTTATAT
* * *
46273250 GTATTATTATAAATTTTTAT
1 ATATTTTTAT-AATTTATAT
46273270 ATATTTTTAT
1 ATATTTTTAT
46273280 TGAAAGATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATATTTTTATAATTTATAT
Found at i:46273275 original size:10 final size:10
Alignment explanation
Indices: 46273231--46273279 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
46273221 TTATTTACAA
46273231 ATATTTTTAT
1 ATATTTTTAT
*
46273241 A-ATTTATAT
1 ATATTTTTAT
* *
46273250 GTATTATTAT
1 ATATTTTTAT
*
46273260 AAATTTTTAT
1 ATATTTTTAT
46273270 ATATTTTTAT
1 ATATTTTTAT
46273280 TGAAAGATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:46283924 original size:55 final size:55
Alignment explanation
Indices: 46283865--46283974 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
46283855 TTACGTGAGA
46283865 CCTAAACTTTGATGCTAAATTTCATTCCAATTGTTGTTATTTTCAGGCAGTGGAT
1 CCTAAACTTTGATGCTAAATTTCATTCCAATTGTTGTTATTTTCAGGCAGTGGAT
*
46283920 CCTAAACTTTGATGCTAAATTTCATTCCAATTGTTTTTATTTTCAGGCAGTGGAT
1 CCTAAACTTTGATGCTAAATTTCATTCCAATTGTTGTTATTTTCAGGCAGTGGAT
46283975 TCGGGGAAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (55 bp):
CCTAAACTTTGATGCTAAATTTCATTCCAATTGTTGTTATTTTCAGGCAGTGGAT
Found at i:46285783 original size:43 final size:43
Alignment explanation
Indices: 46285722--46285809 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
46285712 CTAAGGAAGG
46285722 GATTGTTATATCTCAACGGAAATACATCTTGGATCTGTTAAGT
1 GATTGTTATATCTCAACGGAAATACATCTTGGATCTGTTAAGT
46285765 GATTGTTATATCTCAACGGAAATACATCTTGGATCTGTTAAGT
1 GATTGTTATATCTCAACGGAAATACATCTTGGATCTGTTAAGT
46285808 GA
1 GA
46285810 AACATGGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (43 bp):
GATTGTTATATCTCAACGGAAATACATCTTGGATCTGTTAAGT
Found at i:46286799 original size:22 final size:22
Alignment explanation
Indices: 46286768--46286811 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46286758 TAAAGATAAG
* *
46286768 AAAAATTTCAGATTTATCTTCA
1 AAAAAATTCAGATTTAACTTCA
46286790 AAAAAATTCAGATTTAACTTCA
1 AAAAAATTCAGATTTAACTTCA
46286812 TCTTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAAAATTCAGATTTAACTTCA
Found at i:46290678 original size:27 final size:27
Alignment explanation
Indices: 46290612--46290680 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
46290602 CACGATAGCT
* * *
46290612 AAGAACTGCCTTTATGGCATACTCTAA
1 AAGAACTACCTTTGTAGCATACTCTAA
* * * *
46290639 AAGAATTATCTTTGTAGCATACTTTGA
1 AAGAACTACCTTTGTAGCATACTCTAA
46290666 AAGAACTACCTTTGT
1 AAGAACTACCTTTGT
46290681 GGTAAAATCT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (27 bp):
AAGAACTACCTTTGTAGCATACTCTAA
Found at i:46298771 original size:12 final size:12
Alignment explanation
Indices: 46298754--46298779 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46298744 TCACACATGC
46298754 CCATGTGCTAGG
1 CCATGTGCTAGG
46298766 CCATGTGCTAGG
1 CCATGTGCTAGG
46298778 CC
1 CC
46298780 GTGTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:46305743 original size:30 final size:30
Alignment explanation
Indices: 46305686--46305743 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46305676 TTTTCAAGCT
* **
46305686 TAGGGGTAAAATGGTAATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTAATTTTACCAAAGTC
*
46305716 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTAATTTTACCAAAG
46305744 ATATGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTTTACCAAAGTC
Found at i:46306178 original size:46 final size:45
Alignment explanation
Indices: 46306083--46306205 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 45
46306073 ATTGTGGGCT
* * **
46306083 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCACAAGATGAAAGCC
* *
46306129 AGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGATAA-TC
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCACAAGATGA-AAGCC
46306175 AGTGTAAGACCATGTCTGGAACATGGCATCG
1 AGTGTAAGA-CATGTCTGG-ACAT-GCATCG
46306206 ACATGAGATA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
46 47 0.71
47 13 0.20
48 6 0.09
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCACAAGATGAAAGCC
Found at i:46315610 original size:25 final size:26
Alignment explanation
Indices: 46315557--46315611 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
46315547 TTTTTAATTA
*
46315557 ATATAAATTATTTGTAAAATTAATGAT
1 ATATAAAATATTTGTAAAATTAA-GAT
46315584 ATATAAAATATTT-TAAAAATTAA-AT
1 ATATAAAATATTTGT-AAAATTAAGAT
46315609 ATA
1 ATA
46315612 ATAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
26 1 0.04
27 20 0.77
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATAAAATATTTGTAAAATTAAGAT
Found at i:46315641 original size:31 final size:31
Alignment explanation
Indices: 46315590--46315677 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
46315580 TGATATATAA
*
46315590 AATATTTTAAA-AATTAAATATAATAATAAAT
1 AATA-TTTAAATAATTTAATATAATAATAAAT
* *
46315621 AATATTTAAATGATTTAATATAATGATAAAT
1 AATATTTAAATAATTTAATATAATAATAAAT
*
46315652 GATATTTAAATAATTTAATATAATAA
1 AATATTTAAATAATTTAATATAATAA
46315678 AATATAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.12
31 44 0.88
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
AATATTTAAATAATTTAATATAATAATAAAT
Found at i:46327759 original size:18 final size:18
Alignment explanation
Indices: 46327736--46327807 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
46327726 GCCACAACCA
46327736 CCACAGCAGCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
* * * *
46327754 CCACAGCCGCA-TCTTATT
1 CCACAGCAGCAGCCTCA-G
*
46327772 CAACAGCAGCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
* **
46327790 CCTCAGCCTCAGCCTCAG
1 CCACAGCAGCAGCCTCAG
46327808 TCTCTGTCTC
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
17 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.25, C:0.43, G:0.18, T:0.14
Consensus pattern (18 bp):
CCACAGCAGCAGCCTCAG
Found at i:46327790 original size:6 final size:6
Alignment explanation
Indices: 46327785--46327869 Score: 125
Period size: 6 Copynumber: 14.2 Consensus size: 6
46327775 CAGCAGCAGC
* * * * *
46327785 CTCAGC CTCAGC CTCAGC CTCAGT CTCTGT CTCTGT CTCAGT CTCAGT
1 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT
46327833 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT C
1 CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT CTCAGT C
46327870 ACATTCGCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.14, C:0.38, G:0.16, T:0.32
Consensus pattern (6 bp):
CTCAGT
Found at i:46327886 original size:6 final size:6
Alignment explanation
Indices: 46327877--46327903 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46327867 GTCACATTCG
46327877 CAGCCA CAGCCA CAGCCA CAGCCA CAG
1 CAGCCA CAGCCA CAGCCA CAGCCA CAG
46327904 GCACCTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.19, T:0.00
Consensus pattern (6 bp):
CAGCCA
Found at i:46335042 original size:20 final size:21
Alignment explanation
Indices: 46335007--46335111 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
46334997 GTATCATAAA
* *
46335007 TGCATAACAGGAGCACCGAAG
1 TGCAGAACAGGGGCACCGAAG
*
46335028 TGCAG-ACAGGGGCACCGTAG
1 TGCAGAACAGGGGCACCGAAG
* **
46335048 TG-TGAACAGGAACA-CGAAAG
1 TGCAGAACAGGGGCACCG-AAG
* * *
46335068 TGTA-TACAGGGGCACCGTAG
1 TGCAGAACAGGGGCACCGAAG
* *
46335088 TGC-GAACAGGGGCGCGGAAG
1 TGCAGAACAGGGGCACCGAAG
46335108 TGCA
1 TGCA
46335112 AATCCCTTAC
Statistics
Matches: 61, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
19 3 0.05
20 52 0.85
21 6 0.10
ACGTcount: A:0.31, C:0.21, G:0.36, T:0.11
Consensus pattern (21 bp):
TGCAGAACAGGGGCACCGAAG
Found at i:46335069 original size:40 final size:40
Alignment explanation
Indices: 46335012--46335097 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
46335002 ATAAATGCAT
* *
46335012 AACAGGAGCACCGAAGTGCAGACAGGGGCACCGTAGTGTG
1 AACAGGAACACCGAAGTGCAGACAGGGGCACCGTAGTGCG
* *
46335052 AACAGGAACA-CGAAAGTGTATACAGGGGCACCGTAGTGCG
1 AACAGGAACACCG-AAGTGCAGACAGGGGCACCGTAGTGCG
46335092 AACAGG
1 AACAGG
46335098 GGCGCGGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.05
40 39 0.95
ACGTcount: A:0.34, C:0.21, G:0.35, T:0.10
Consensus pattern (40 bp):
AACAGGAACACCGAAGTGCAGACAGGGGCACCGTAGTGCG
Found at i:46335109 original size:40 final size:40
Alignment explanation
Indices: 46335012--46335111 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
46335002 ATAAATGCAT
* * *
46335012 AACAGGAGCACCGAAGTGCAGACAGGGGCACCGTAGTGTG
1 AACAGGAACACGGAAGTGCAGACAGGGGCACCGTAGTGCG
* * *
46335052 AACAGGAACACGAAAGTGTATACAGGGGCACCGTAGTGCG
1 AACAGGAACACGGAAGTGCAGACAGGGGCACCGTAGTGCG
** *
46335092 AACAGGGGCGCGGAAGTGCA
1 AACAGGAACACGGAAGTGCA
46335112 AATCCCTTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.37, T:0.10
Consensus pattern (40 bp):
AACAGGAACACGGAAGTGCAGACAGGGGCACCGTAGTGCG
Found at i:46335743 original size:84 final size:83
Alignment explanation
Indices: 46335644--46335899 Score: 408
Period size: 84 Copynumber: 3.1 Consensus size: 83
46335634 TTCTTGATCT
*
46335644 AAATTAATAATTTCATTCAATTCATTAATTTATATAGTAAAACTGATTCATTTTATTCAATTTAG
1 AAATTAATAATTTCATTCAATTCATTAATTTAGATAGTAAAACTGATTCATTTTATT-AATTTAG
46335709 TATTTTTGACATTTTTACA
65 TATTTTTGACATTTTTACA
46335728 AAATTAATAATTTCATTCAATTCATTAATTTAGATAGTAAAACTGATTCATTTTATGTAATTTAG
1 AAATTAATAATTTCATTCAATTCATTAATTTAGATAGTAAAACTGATTCATTTTAT-TAATTTAG
*
46335793 TATTTTTGACATTTTTAAA
65 TATTTTTGACATTTTTACA
* * * * *
46335812 AAATTAATAATTTTATTCAATTTATTAATTTAGATAGTAAAACTAATTC-GTTTATGGAATTTAG
1 AAATTAATAATTTCATTCAATTCATTAATTTAGATAGTAAAACTGATTCATTTTAT-TAATTTAG
46335876 TA-TTTTGACATTTTTACA
65 TATTTTTGACATTTTTACA
46335894 AAATTA
1 AAATTA
46335900 CCCTCAACTT
Statistics
Matches: 163, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
82 21 0.13
83 15 0.09
84 126 0.77
85 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (83 bp):
AAATTAATAATTTCATTCAATTCATTAATTTAGATAGTAAAACTGATTCATTTTATTAATTTAGT
ATTTTTGACATTTTTACA
Found at i:46335920 original size:84 final size:82
Alignment explanation
Indices: 46335667--46335929 Score: 309
Period size: 84 Copynumber: 3.1 Consensus size: 82
46335657 CATTCAATTC
* *
46335667 ATTAATTTATATAGTAAAACTGATTCATTTTATTCAATTTAGTATTTTTGACATTTTTACAAAAT
1 ATTAATTTAGATAGTAAAACTGATTCATTTTATGCAATTTAGTATTTTTGACATTTTTACAAAAT
* *
46335732 TAATAATTTCATTCA-ATTC
66 TAATAATTT--TT-ATTTTT
* *
46335751 ATTAATTTAGATAGTAAAACTGATTCATTTTATGTAATTTAGTATTTTTGACATTTTTAAAAAAT
1 ATTAATTTAGATAGTAAAACTGATTCATTTTATGCAATTTAGTATTTTTGACATTTTTACAAAAT
46335816 TAATAA-TTTTATTCAATTT
66 TAATAATTTTTATT---TTT
* * *
46335835 ATTAATTTAGATAGTAAAACTAATTC-GTTTATGGAATTTAGTA-TTTTGACATTTTTACAAAAT
1 ATTAATTTAGATAGTAAAACTGATTCATTTTATGCAATTTAGTATTTTTGACATTTTTACAAAAT
*
46335898 TACCCTCAACTTTTTATTTTT
66 TA--AT-AA-TTTTTATTTTT
46335919 ATTCAATTTAG
1 ATT-AATTTAG
46335930 TCCCTATGTC
Statistics
Matches: 158, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
80 1 0.01
81 2 0.01
82 21 0.13
83 17 0.11
84 101 0.64
85 9 0.06
87 7 0.04
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (82 bp):
ATTAATTTAGATAGTAAAACTGATTCATTTTATGCAATTTAGTATTTTTGACATTTTTACAAAAT
TAATAATTTTTATTTTT
Found at i:46339277 original size:20 final size:21
Alignment explanation
Indices: 46339229--46339267 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46339219 GCATGTATTT
46339229 TGAA-GTTTCTTGATAGATTA
1 TGAATGTTTCTTGATAGATTA
*
46339249 TGAATGTTTGTTGATAGAT
1 TGAATGTTTCTTGATAGAT
46339268 ATACATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (21 bp):
TGAATGTTTCTTGATAGATTA
Found at i:46346270 original size:19 final size:19
Alignment explanation
Indices: 46346246--46346288 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
46346236 GAATCCCTGT
46346246 ACACATGTCAAATGCCTAA
1 ACACATGTCAAATGCCTAA
*
46346265 ACACATGTCAAATGCCTAT
1 ACACATGTCAAATGCCTAA
46346284 ACACA
1 ACACA
46346289 AACATTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (19 bp):
ACACATGTCAAATGCCTAA
Found at i:46348031 original size:20 final size:20
Alignment explanation
Indices: 46348004--46348053 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46347994 TGTATAAACT
*
46348004 GTAATTCATTCATATAACCA
1 GTAATTCATCCATATAACCA
* * *
46348024 GTAGTTCATCCGTATAACTA
1 GTAATTCATCCATATAACCA
46348044 GTAATTCATC
1 GTAATTCATC
46348054 AGTAATAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATAACCA
Found at i:46348272 original size:24 final size:22
Alignment explanation
Indices: 46348240--46348329 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 22
46348230 CTGATAAACA
46348240 GTAAGCTCTATTGAGCTGAAAAT
1 GTAAGCTCTATTGAGCT-AAAAT
*
46348263 GATAAGCTCTATTGAGCTGAACA-
1 G-TAAGCTCTATTGAGCT-AAAAT
* *
46348286 GTAAGCTCTATCGAGCTAAATT
1 GTAAGCTCTATTGAGCTAAAAT
* *
46348308 GGTAAGCTCCAATGAGCTAAAA
1 -GTAAGCTCTATTGAGCTAAAA
46348330 CAATAAGATC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.04
22 15 0.27
23 19 0.34
24 20 0.36
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTAAAAT
Found at i:46348293 original size:22 final size:22
Alignment explanation
Indices: 46348236--46348302 Score: 98
Period size: 24 Copynumber: 3.0 Consensus size: 22
46348226 CGAGCTGATA
46348236 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
46348258 AAAATGATAAGCTCTATTGAGCTG
1 AACA-G-TAAGCTCTATTGAGCTG
*
46348282 AACAGTAAGCTCTATCGAGCT
1 AACAGTAAGCTCTATTGAGCT
46348303 AAATTGGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.45
23 2 0.05
24 20 0.50
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:46348293 original size:46 final size:45
Alignment explanation
Indices: 46348236--46348325 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
46348226 CGAGCTGATA
* * *
46348236 AACAGTAAGCTCTATTGAGCTGAAAATGATAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATCGAGCT-AAAATGATAAGCTCCAATGAGCTG
* *
46348282 AACAGTAAGCTCTATCGAGCTAAATTGGTAAGCTCCAATGAGCT
1 AACAGTAAGCTCTATCGAGCTAAAATGATAAGCTCCAATGAGCT
46348326 AAAACAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 19 0.49
46 20 0.51
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
AACAGTAAGCTCTATCGAGCTAAAATGATAAGCTCCAATGAGCTG
Found at i:46350473 original size:74 final size:74
Alignment explanation
Indices: 46350384--46350530 Score: 249
Period size: 74 Copynumber: 2.0 Consensus size: 74
46350374 TTCACATTTT
*
46350384 CACATTTTGACACTTTAATCCTTAATTCACAAAATCACAAAATACACCAAATTTCCATAAAAATT
1 CACATTTTGACACTTTAATCCTTAATTCACAAAATCACAAAATACACCAAATTTCCATAAAAACT
46350449 TGATTAGAA
66 TGATTAGAA
* * *
46350458 CACATTTTGGCACTTTAATCCTTAATTCACAAAATCACAAAATACACCGAATTTCCATACAAACT
1 CACATTTTGACACTTTAATCCTTAATTCACAAAATCACAAAATACACCAAATTTCCATAAAAACT
*
46350523 TGCTTAGA
66 TGATTAGA
46350531 CAAATATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.31
Consensus pattern (74 bp):
CACATTTTGACACTTTAATCCTTAATTCACAAAATCACAAAATACACCAAATTTCCATAAAAACT
TGATTAGAA
Found at i:46374358 original size:328 final size:329
Alignment explanation
Indices: 46373759--46374416 Score: 978
Period size: 328 Copynumber: 2.0 Consensus size: 329
46373749 CTGAATCTAG
* * * *
46373759 ACTCATATATCTATTTACTAATTTTTTTCTAGAATTTTTTTATTGGGCCAATTAGTACAGTTTAT
1 ACTCATATATATATTTACTAAGTTTTTTCTAGAATTTTTTGACTGGGCCAATTAGTACAGTTTAT
* * * *
46373824 TAAATAATGTATCCCCTGTTTCAGGGTTCGACTGCTTTGTCCTCTGTGTATTACGAATCAGATAT
66 TAAATAAAGTATCCCCGGTTTCAGGGTTCGACTGCTCTGACCTCTGTGTATTACGAATCAGATAT
* * * * *
46373889 ATCTCTATACAAAATTTCAATGACAATGAGGTTTGTTTCTATTAAAACTAGACTCAATAAGGAAT
131 ATCCCTATACAAAATTTCAATGACAACGAGGTTTGTTTATATCAAAACTAGACTCAACAAGGAAT
*
46373954 TTGTACATATAAATAACAACTTCTAATTATTTTAGTAAAATTTATTATGAATTTTTAAAGTCAGA
196 TTGTACATATAAATAACAACTTATAATTATTTTAGTAAAATTTATTATGAATTTTTAAAGTCAGA
* * *
46374019 ACAGGGGATCCAGAAATCACTCTGGCCCTGTTTCGCAAAAGTTT-AAATATCTCATAAAGTATAA
261 ACAGAGGATCCAGAAACCACTCTGGCCCTGTTTCAC-AAAGTTTCAAATATCTCATAAAGTATAA
46374083 TTTAT
325 TTTAT
*
46374088 ACTCATATATATATTTACTAAGTTTTTTCTAGAA-TTTTTGGCTGGGCCAATTAGTACAGTTTAT
1 ACTCATATATATATTTACTAAGTTTTTTCTAGAATTTTTTGACTGGGCCAATTAGTACAGTTTAT
** * * * * *
46374152 TAGTTAAAGTCTCTCCGGTTTTAGGGTTCGACTGCTCTGACCTTTGTGTATTACGAATTAGATAT
66 TAAATAAAGTATCCCCGGTTTCAGGGTTCGACTGCTCTGACCTCTGTGTATTACGAATCAGATAT
* ** * * *
46374217 CTCCCTATACGGAATTTCCATGACTACGAGGTTTGTTTATATCAAAACTAGACTGAACAAGGAAT
131 ATCCCTATACAAAATTTCAATGACAACGAGGTTTGTTTATATCAAAACTAGACTCAACAAGGAAT
** *
46374282 TTGTACATATAAATAATTACTTATAATTATTTTTGTAAAATTTATTATGAATTTTTAAAGTCAGA
196 TTGTACATATAAATAACAACTTATAATTATTTTAGTAAAATTTATTATGAATTTTTAAAGTCAGA
*
46374347 ACAGAGGATCCAGAAACCACTCTGGCCCTGTTTCACAAGGTTTCAAATATCTCATAAAGTATAAT
261 ACAGAGGATCCAGAAACCACTCTGGCCCTGTTTCACAAAGTTTCAAATATCTCATAAAGTATAAT
46374412 TTAT
326 TTAT
46374416 A
1 A
46374417 TGCCTATTTT
Statistics
Matches: 293, Mismatches: 35, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
327 6 0.02
328 255 0.87
329 32 0.11
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (329 bp):
ACTCATATATATATTTACTAAGTTTTTTCTAGAATTTTTTGACTGGGCCAATTAGTACAGTTTAT
TAAATAAAGTATCCCCGGTTTCAGGGTTCGACTGCTCTGACCTCTGTGTATTACGAATCAGATAT
ATCCCTATACAAAATTTCAATGACAACGAGGTTTGTTTATATCAAAACTAGACTCAACAAGGAAT
TTGTACATATAAATAACAACTTATAATTATTTTAGTAAAATTTATTATGAATTTTTAAAGTCAGA
ACAGAGGATCCAGAAACCACTCTGGCCCTGTTTCACAAAGTTTCAAATATCTCATAAAGTATAAT
TTAT
Found at i:46375317 original size:93 final size:93
Alignment explanation
Indices: 46375209--46375379 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
46375199 GCCCCTAAGT
* * * *
46375209 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
*
46375274 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAATTCGGATGCCTAGTTACATCTCAC
*
46375302 GAACTCGGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
1 GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
46375367 CGAATTCGGATGC
66 CGAATTCGGATGC
46375380 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
CGAATTCGGATGCCTAGTTACATCTCAC
Found at i:46375376 original size:46 final size:46
Alignment explanation
Indices: 46375204--46375376 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
46375194 AACCCGCCCC
* * *
46375204 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
46375250 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
46375298 TCA-CGAACTCGGACTCAACTAAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
46375343 TAAGTGAACTCGGACTCAACGCAACGAATTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46375377 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 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 57 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:46376020 original size:23 final size:22
Alignment explanation
Indices: 46375979--46376021 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46375969 CTTTAGCCAT
*
46375979 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
46376001 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
46376022 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Found at i:46379760 original size:122 final size:120
Alignment explanation
Indices: 46379544--46379767 Score: 358
Period size: 122 Copynumber: 1.9 Consensus size: 120
46379534 CCAAAATAAC
* * * *
46379544 CATGAGAATGAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACATGGAATG
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAATCTCGATTTAACACGAAATG
46379609 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAG
66 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAG
* * *
46379664 CATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTTTCCCTAATAACTCGATTTAATACGAAA
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAAT--CTCGATTTAACACGAAA
*
46379729 TGTATGATAACTAACCTAAGAATGCATATTAAATGATAG
64 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATAG
46379768 AATAATGAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 42 0.45
122 52 0.55
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (120 bp):
CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAATCTCGATTTAACACGAAATG
TATGATAACTAACCTAAGAATGCAAATTAAATGATAGGCATTGGCATGGTAATAG
Found at i:46388868 original size:28 final size:28
Alignment explanation
Indices: 46388835--46388919 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
46388825 CTATATATGT
*
46388835 ATATGGCACTTAGTGTGCAACATATT-A
1 ATATGGCACTTAGTGTGCAACACATTGA
* * *
46388862 ATAATGGAACTTGGTGTGCAAGACATTGA
1 AT-ATGGCACTTAGTGTGCAACACATTGA
* * *
46388891 GTATGGCACTTAGTGTGCGAGACATTGA
1 ATATGGCACTTAGTGTGCAACACATTGA
46388919 A
1 A
46388920 GATGCAACGG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 2 0.04
28 43 0.91
29 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (28 bp):
ATATGGCACTTAGTGTGCAACACATTGA
Found at i:46406783 original size:27 final size:27
Alignment explanation
Indices: 46406753--46407156 Score: 186
Period size: 27 Copynumber: 14.9 Consensus size: 27
46406743 TTTCATCCTA
* * *
46406753 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
46406780 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
46406807 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
46406834 TGAGGGTATTTCGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
46406860 CCAGCGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * * **
46406887 CTAGGGGTGTTTTGGTAATTCTACCCTAT
1 C-AAGGGTATTTTGGTAATTTTA-CAAAT
* * *
46406916 -AGGGGTATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
46406941 CGAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
***** * **
46406968 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ***** * *
46406995 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * **
46407022 TGAGGGTACTTTGGTAATTTTTACAGGT
1 CAAGGGTATTTTGGTAA-TTTTACAAAT
* **
46407050 CGAGGGTATTTTAATAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
46407077 CAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * **
46407105 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
46407132 CGATGGTACTTTGGTAATTTTACAA
1 CAAGGGTATTTTGGTAATTTTACAA
46407157 TTTGAGGGAA
Statistics
Matches: 292, Mismatches: 77, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
25 2 0.01
26 16 0.05
27 228 0.78
28 46 0.16
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:46407067 original size:28 final size:29
Alignment explanation
Indices: 46407036--46407125 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 29
46407026 GGTACTTTGG
**
46407036 TAATTTTTACAGGTC-GAGGGTATTTTAA
1 TAATTTTTACAAATCAGAGGGTATTTTAA
* *
46407064 TAA-TTTTACAAATCAGGGGGTATTTTAG
1 TAATTTTTACAAATCAGAGGGTATTTTAA
* *
46407092 TAA-TTTTACAAACCAG-GGGTATTTTAG
1 TAATTTTTACAAATCAGAGGGTATTTTAA
46407119 TAATTTT
1 TAATTTT
46407126 GTAAATCGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.42
28 32 0.58
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (29 bp):
TAATTTTTACAAATCAGAGGGTATTTTAA
Found at i:46407112 original size:55 final size:54
Alignment explanation
Indices: 46407009--46407156 Score: 136
Period size: 55 Copynumber: 2.7 Consensus size: 54
46406999 GGTAAAACAG
* * * * ***
46407009 TAATTCTATAAATTGAGGGTACTTTGGTAATTTTTACAGGTC-GAGGGTATTTTAA
1 TAATTTTACAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTTAA
* * *
46407064 TAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTTAA
** * *
46407119 TAATTTTGTAAATCGATGGTACTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAA
46407157 TTTGAGGGAA
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 20 0.27
55 41 0.55
56 14 0.19
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTTAA
Found at i:46410122 original size:27 final size:27
Alignment explanation
Indices: 46410061--46410124 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
46410051 NNNNNNNNNN
46410061 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
46410088 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
46410115 TCTTTTTACC
1 TCATTTTACC
46410125 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:46410215 original size:27 final size:27
Alignment explanation
Indices: 46410184--46410350 Score: 82
Period size: 27 Copynumber: 6.2 Consensus size: 27
46410174 CTACAAGTCA
**
46410184 AGGGTATTTCTGTAATTTTGTAAATCAG
1 AGGGTATTTCTGTAATTTTACAAAT-AG
*
46410212 -GGGTATTT-TGGTAATTTTACAAATTG
1 AGGGTATTTCT-GTAATTTTACAAATAG
* * *
46410238 AGGGTATTTCGGTAA-TTT-CAAAAACC
1 AGGGTATTTCTGTAATTTTACAAATA-G
46410264 AGTGGTATTT-TGGTAATTTTACAAACTAG
1 AG-GGTATTTCT-GTAATTTTACAAA-TAG
* * **
46410293 -GGGTGTTT-TGGTAATTCTACCCTATAG
1 AGGGTATTTCT-GTAATTTTA-CAAATAG
* * *
46410320 -GGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCTGTAATTTTACAAATAG
46410345 AGGGTA
1 AGGGTA
46410351 AAATGGTAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
25 7 0.07
26 13 0.12
27 76 0.71
28 6 0.06
29 4 0.04
30 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCTGTAATTTTACAAATAG
Found at i:46410224 original size:54 final size:54
Alignment explanation
Indices: 46410158--46410288 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
46410148 CATCCTACAA
* * * *** *
46410158 GGGTGTTTTGGTAAATCTACAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCAAAAACCAG
* * **
46410212 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACCAG
1 GGGTATTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCAAAAACCAG
* * *
46410266 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAAATCTACAAA
46410289 CTAGGGGTGT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCAAAAACCAG
Found at i:46410370 original size:27 final size:27
Alignment explanation
Indices: 46410340--46410431 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
46410330 GTAATTTCAC
* *
46410340 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* * *
46410367 AATCAAGGGTAAAACATTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
*
46410394 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTGTA
*
46410421 AATTGAGGGTA
1 AATCGAGGGTA
46410432 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTGTA
Found at i:46410486 original size:28 final size:28
Alignment explanation
Indices: 46410455--46410511 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
46410445 TACAGGTCGA
*
46410455 GGGTATTTCAATAATTTTACAAATCAGG
1 GGGTATTTCAATAATTTTACAAACCAGG
* *
46410483 GGGTATTTTAGTAATTTTACAAACCAGG
1 GGGTATTTCAATAATTTTACAAACCAGG
46410511 G
1 G
46410512 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (28 bp):
GGGTATTTCAATAATTTTACAAACCAGG
Found at i:46410524 original size:27 final size:26
Alignment explanation
Indices: 46410454--46410558 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
46410444 TTACAGGTCG
* * *
46410454 AGGGTATTTCAATAATTTTACAAATC
1 AGGGTATTTTAGTAATTTTACAAACC
46410480 AGGGGGTATTTTAGTAATTTTACAAACC
1 A--GGGTATTTTAGTAATTTTACAAACC
** *
46410508 AGGGATATTTTAGTAATTTTGTAAATCT
1 AGGG-TATTTTAGTAATTTTACAAA-CC
* *
46410536 AGGGTACTTTGGTAATTTTACAA
1 AGGGTATTTTAGTAATTTTACAA
46410559 TTTGAGGGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.06
27 33 0.51
28 28 0.43
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTAGTAATTTTACAAACC
Found at i:46410566 original size:27 final size:27
Alignment explanation
Indices: 46410408--46410580 Score: 100
Period size: 27 Copynumber: 6.3 Consensus size: 27
46410398 GAGGGTAAAA
* * * *
46410408 TAGTAATTCTATAAATTGAGGGTACTT
1 TAGTAATTTTACAATTTGAGGGTATTT
* ** *
46410435 TGGTAATTTTTACAGGTCGAGGGTATTT
1 TAGTAA-TTTTACAATTTGAGGGTATTT
* * ** *
46410463 CAATAATTTTACAAATCAGGGGGTATTT
1 TAGTAATTTTAC-AATTTGAGGGTATTT
***
46410491 TAGTAATTTTACAA-ACCAGGGATATTT
1 TAGTAATTTTACAATTTGAGGG-TATTT
* *
46410518 TAGTAATTTTGTA-AATCT-AGGGTACTT
1 TAGTAA-TTT-TACAATTTGAGGGTATTT
* *
46410545 TGGTAATTTTACAATTTGAGGGCATTT
1 TAGTAATTTTACAATTTGAGGGTATTT
46410572 TAGTAATTT
1 TAGTAATTT
46410581 GGTGAACTAA
Statistics
Matches: 109, Mismatches: 29, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
25 2 0.02
26 10 0.09
27 48 0.44
28 47 0.43
29 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGTAATTTTACAATTTGAGGGTATTT
Found at i:46421455 original size:40 final size:40
Alignment explanation
Indices: 46421352--46421571 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
46421342 TATTCGAATG
* * * *
46421352 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
46421393 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
46421433 ATATCCGGGCCAAAACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
46421473 ATA-CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
46421512 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
46421551 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
46421572 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 47 0.32
40 59 0.40
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:46421519 original size:79 final size:81
Alignment explanation
Indices: 46421352--46421535 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
46421342 TATTCGAATG
* * * *
46421352 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGGCTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
* * *
46421417 ATTTGTGCGAGTTACT
66 ATTTATGCGAGTGACC
* * * *
46421433 ATATCCGGGCCAAAACCTGAAGGCATTTGTGCT-AGCGACTATA-CCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAGG
*
46421495 CATTTATGCTAGTGACC
65 CATTTATGCGAGTGACC
46421512 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46421536 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.01
79 50 0.57
80 8 0.09
81 28 0.32
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGACC
Found at i:46424944 original size:29 final size:29
Alignment explanation
Indices: 46424860--46424936 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
46424850 TGAGCATGAC
*
46424860 TATAAATGTGAATTGGGCTTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
*
46424889 TATAAATGTGAATTAGGCCTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
46424918 TATAAATGTG-ATTGGGCCT
1 TATAAATGTGAATTGGGCCT
46424937 AGTGGGACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 8 0.18
29 37 0.82
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTGATGGACCA
Found at i:46432039 original size:28 final size:28
Alignment explanation
Indices: 46432006--46432104 Score: 100
Period size: 28 Copynumber: 3.7 Consensus size: 28
46431996 TATCTAAGAT
* *
46432006 ATGGCATTGTGCTTAGTGAAATAAGACC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
46432034 ATGGCA---T-CTAAGTGAAATAAGTCC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
* * * *
46432058 ATGGTAATGTGCTAACTAAAATAAGTCC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
46432086 ATGGCA-TGATGCTAAGTGA
1 ATGGCATTG-TGCTAAGTGA
46432105 GAAATTTCCT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 20 0.34
25 1 0.02
27 3 0.05
28 34 0.59
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (28 bp):
ATGGCATTGTGCTAAGTGAAATAAGTCC
Found at i:46432183 original size:51 final size:51
Alignment explanation
Indices: 46432128--46432322 Score: 252
Period size: 51 Copynumber: 3.8 Consensus size: 51
46432118 TGAACCTTAG
*
46432128 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAGGGCCACTTTGT
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
46432179 GAATATAATAGCTTT--ATACAGAAGTGTGGTA-TAATGTGAAGGTCACTTTTT
1 GAATAAAATAGCTTTGGATAC--AAGTGTGGTACT-ATGTGAAGGCCACTTTGT
* * *
46432230 GAATAAAATGGATTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
46432281 GAATAAAATAACTTTGGCTACAAGGGTGGTACTATGTGAAGG
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGG
46432323 TCACAGTGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 4 0.03
50 1 0.01
51 113 0.93
52 1 0.01
53 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:46436979 original size:52 final size:52
Alignment explanation
Indices: 46436901--46437005 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
46436891 ATCCATCTCA
*
46436901 AATGTTGGATTTATCATCAAGACTGAAGATCTCTCCTCAATTTTCCTTCAGG
1 AATGTTGGATTTATCATCAAGACTGAAGATCTCTCCTCAATTTCCCTTCAGG
46436953 AATGTTGGATTTATCATCAAGACTGAAGATCTCTCCTCAATTTCCCTTCAGG
1 AATGTTGGATTTATCATCAAGACTGAAGATCTCTCCTCAATTTCCCTTCAGG
46437005 A
1 A
46437006 GTTTTGGGTT
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:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
AATGTTGGATTTATCATCAAGACTGAAGATCTCTCCTCAATTTCCCTTCAGG
Found at i:46437520 original size:60 final size:60
Alignment explanation
Indices: 46437427--46437549 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
46437417 ACGTTATTAG
*
46437427 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAA
1 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTGAATGAATAAA
46437487 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTGAATGAATAAA
1 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTGAATGAATAAA
46437547 TCT
1 TCT
46437550 CCGATTCGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (60 bp):
TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTGAATGAATAAA
Found at i:46439485 original size:25 final size:25
Alignment explanation
Indices: 46439451--46439506 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
46439441 CTTGGGTGTC
46439451 GTCTTTATCAATTGCTTTTCTTCAA
1 GTCTTTATCAATTGCTTTTCTTCAA
46439476 GTCTTTATCAATTGCTTTTCTTCAA
1 GTCTTTATCAATTGCTTTTCTTCAA
46439501 GTCTTT
1 GTCTTT
46439507 TTCCAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.54
Consensus pattern (25 bp):
GTCTTTATCAATTGCTTTTCTTCAA
Found at i:46439552 original size:13 final size:13
Alignment explanation
Indices: 46439536--46439568 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46439526 TTTAATTAAA
*
46439536 TTAGTTAATTAGT
1 TTAGATAATTAGT
46439549 TTAGATAATTAGT
1 TTAGATAATTAGT
46439562 TTA-ATAA
1 TTAGATAA
46439569 ACAAACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:46450904 original size:73 final size:73
Alignment explanation
Indices: 46450783--46450927 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 73
46450773 ACGTTATTAG
*
46450783 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCCACGGAATAAGTTAAATGAATAAATCGTC
1 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCCACGGAACAAGTTAAATGAATAAATCGTC
46450848 CAATTCGA
66 CAATTCGA
* * *
46450856 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAATTGTC
1 TCTTGAATAGGGATAATAACATAACTTAGGGATCTCCACGGAACAAGTTAAATGAATAAATCGTC
*
46450921 CGATTCG
66 CAATTCG
46450928 GAGCTAGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (73 bp):
TCTTGAATAGGGATAATAACATAACTTAGGGATCTCCACGGAACAAGTTAAATGAATAAATCGTC
CAATTCGA
Found at i:46457559 original size:51 final size:51
Alignment explanation
Indices: 46457478--46457625 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
46457468 TGAACATTAA
*
46457478 GAATAAAATAGCTTTGGACACAAGTATGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
46457529 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
46457580 GAATAAAATAGCTTTGG-CTACAAGGGCGATACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
46457626 CGTGTATCCG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:46457827 original size:53 final size:53
Alignment explanation
Indices: 46457759--46457875 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 53
46457749 ATCGAACTTT
*
46457759 GGTAAGATTGATATGGAGTAAGTGTTACAATGAAAGTTACTACAAAGAAAACA
1 GGTAAGAGTGATATGGAGTAAGTGTTACAATGAAAGTTACTACAAAGAAAACA
*
46457812 GGTAAGAGTGCTATGGAGTAAGTGTTACAATGAAAGTTACTACAAAGAAAACA
1 GGTAAGAGTGATATGGAGTAAGTGTTACAATGAAAGTTACTACAAAGAAAACA
* *
46457865 TGAAAGAGTGA
1 GGTAAGAGTGA
46457876 AATTTAGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (53 bp):
GGTAAGAGTGATATGGAGTAAGTGTTACAATGAAAGTTACTACAAAGAAAACA
Found at i:46465399 original size:43 final size:44
Alignment explanation
Indices: 46465333--46465434 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 44
46465323 TTTTCTCAAA
* *
46465333 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGTTAGGCTCGAAGGCCC-AAAT-AGATC
*
46465375 TCACCGGCATTATAGCCTGTTAGGCTTGAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGTTAGGCTCGAAGGCCCAAATAG-ATC
46465420 TCACCGGCATTATAG
1 TCACCGGCATTATAG
46465435 TTTGCTAAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 13 0.25
43 17 0.33
44 7 0.13
45 15 0.29
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGTTAGGCTCGAAGGCCCAAATAGATC
Found at i:46465837 original size:43 final size:43
Alignment explanation
Indices: 46465789--46465921 Score: 216
Period size: 43 Copynumber: 3.1 Consensus size: 43
46465779 CCGGCATTAC
*
46465789 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
46465832 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
* * *
46465875 GCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
46465916 GCCTGC
1 GCCTGC
46465922 GGGATTTATC
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
41 15 0.17
42 2 0.02
43 69 0.80
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
Found at i:46465943 original size:38 final size:38
Alignment explanation
Indices: 46465893--46466094 Score: 287
Period size: 38 Copynumber: 5.3 Consensus size: 38
46465883 GGCACGAAGG
* * *
46465893 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
46465931 CCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
46465969 CCCGGATATTTTACCAGCAAGAAGCCTGCGGGTTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
46466008 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
46466047 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
46466085 CCCGGATATA
1 CCCGGATATA
46466095 CATCGAATAT
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 105 0.73
39 10 0.07
40 29 0.20
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:46466031 original size:78 final size:76
Alignment explanation
Indices: 46465893--46466094 Score: 296
Period size: 78 Copynumber: 2.6 Consensus size: 76
46465883 GGCACGAAGG
* * *
46465893 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTATCCCAGATATAATACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
46465958 GCAGGATTTAA
66 GCAGGATTTAA
* ** * *
46465969 CCCGGATATTTTACCAGCAAGAAGCCTGCGGGTTTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGAATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
46466034 CTGCGGGATTTAA
64 CTGCAGGATTTAA
*
46466047 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
46466095 CATCGAATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 37 0.34
77 9 0.08
78 63 0.58
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (76 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCAGGATTTAA
Found at i:46474283 original size:40 final size:40
Alignment explanation
Indices: 46474239--46474370 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
46474229 GGACTAAGAT
* *
46474239 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTATGTC
* *
46474279 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTATGTC
* * * * *
46474319 CTGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTATGTC
46474358 CCGAAGGCATTTG
1 CCGAAGGCATTTG
46474371 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.41
40 47 0.59
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTATGTC
Found at i:46474388 original size:79 final size:80
Alignment explanation
Indices: 46474241--46474389 Score: 174
Period size: 79 Copynumber: 1.9 Consensus size: 80
46474231 ACTAAGATCC
* ** * ** ** *
46474241 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 GAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
46474306 TCCGGGTTATGTCCT
66 TCCGGGTTATGTCCT
* * * *
46474321 GAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 GAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
46474385 TCCGG
66 TCCGG
46474390 TTAAATTCCG
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
79 49 0.88
80 7 0.12
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (80 bp):
GAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
TCCGGGTTATGTCCT
Found at i:46485651 original size:40 final size:40
Alignment explanation
Indices: 46485541--46485734 Score: 171
Period size: 40 Copynumber: 5.1 Consensus size: 40
46485531 TGCATGATAA
* * *
46485541 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
46485581 CCGGGCTAAG-CCCGAAGGCAATT-GTACGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
46485620 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAC--TA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
46485657 ------TAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
46485691 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
46485731 CCGG
1 CCGG
46485735 TTGAATTCCG
Statistics
Matches: 126, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
31 28 0.22
33 1 0.01
38 2 0.02
39 34 0.27
40 61 0.48
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:46485664 original size:31 final size:31
Alignment explanation
Indices: 46485626--46485687 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
46485616 ATATCCGGGC
46485626 TAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 TAAGTCCCGAAGGCATTCGTGCGAGTTACTA
*
46485657 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TAAGTCCCGAAGGCATTCGTGCGAGTTACTA
46485688 GAACTGGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (31 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTACTA
Found at i:46485729 original size:71 final size:70
Alignment explanation
Indices: 46485587--46485722 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 70
46485577 AATTCCGGGC
* * * *
46485587 TAAGCCCGAAGGCAATTGTACGAGTTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
1 TAAGCCCGAAGGCAATTGTACGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTCGAGCGAGT
46485652 TACTA
66 TACTA
* * * *
46485657 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAACTGGGCTATGTCCCGAAGGCATTCGAGCGAG
1 TAAG-CCCGAAGGCAATTGTACGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTCGAGCGAG
46485722 T
65 T
46485723 AGCTATATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
70 4 0.07
71 53 0.93
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (70 bp):
TAAGCCCGAAGGCAATTGTACGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTCGAGCGAGT
TACTA
Found at i:46504607 original size:40 final size:40
Alignment explanation
Indices: 46504559--46505484 Score: 1748
Period size: 40 Copynumber: 23.2 Consensus size: 40
46504549 GGACTAAGAT
* * *
46504559 CCGAAGGCATTTGTGTTAGTTATTATATCCGGCCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
46504599 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
*
46504639 CCGAAGGCATTTGTGCTAGATACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504679 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504719 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504759 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504799 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504839 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504879 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504919 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504959 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46504999 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505039 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505079 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505119 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505159 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505199 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505239 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505279 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505319 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505359 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505399 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
46505439 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
46505478 CCGAAGG
1 CCGAAGG
46505485 TACTTAGGTT
Statistics
Matches: 873, Mismatches: 11, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 16 0.02
40 856 0.98
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:46517171 original size:90 final size:90
Alignment explanation
Indices: 46517062--46517227 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 90
46517052 TCAGCATCGT
* *
46517062 TATGTGATTTTGTATAAGACCAT-GTCTGGGACATGGCAGCGATATGAGG-TCCAGTGTAAGACC
1 TATGAGATTTTGTATAAGACCATAGTCT-GGACATGGCAGCGATATGAGGATCCA-TGAAAGACC
46517125 ATGTCTGGGACATTGCATCGGTACCAA
64 ATGTCTGGGACATTGCATCGGTACCAA
* * * ** * *
46517152 TATGAGATTTTGTGTAAGACCATATTCTTGTTATGGCATCGATATGTGGATCCATGAAAGACCAT
1 TATGAGATTTTGTATAAGACCATAGTCTGGACATGGCAGCGATATGAGGATCCATGAAAGACCAT
46517217 GTCTGGGACAT
66 GTCTGGGACAT
46517228 GGCTTTGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 58 0.89
91 7 0.11
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (90 bp):
TATGAGATTTTGTATAAGACCATAGTCTGGACATGGCAGCGATATGAGGATCCATGAAAGACCAT
GTCTGGGACATTGCATCGGTACCAA
Found at i:46517230 original size:42 final size:42
Alignment explanation
Indices: 46517076--46517230 Score: 107
Period size: 42 Copynumber: 3.5 Consensus size: 42
46517066 TGATTTTGTA
* *
46517076 TAAGACCATGTCTGGGACATGGCAGCGATATGAGG-TCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGATATGTGGATCCA-TG
* * * ***
46517118 TAAGACCATGTCTGGGACATTGCATCGGTACCAATATGAGATTTTGTG
1 TAAGACCATGTCTGGGACATGGCATC-G-A--TATGTG-GA-TCCATG
* * **
46517166 TAAGACCATATTCT-TGTTATGGCATCGATATGTGGATCCATG
1 TAAGACCAT-GTCTGGGACATGGCATCGATATGTGGATCCATG
*
46517208 AAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
46517231 TTTGGTACTT
Statistics
Matches: 81, Mismatches: 23, Indels: 18
0.66 0.19 0.15
Matches are distributed among these distances:
41 3 0.04
42 41 0.51
43 3 0.04
44 5 0.06
46 4 0.05
47 2 0.02
48 19 0.23
49 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATGGCATCGATATGTGGATCCATG
Found at i:46520665 original size:40 final size:40
Alignment explanation
Indices: 46520571--46520793 Score: 245
Period size: 40 Copynumber: 5.5 Consensus size: 40
46520561 TATTCGAATG
*
46520571 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
** * * *
46520612 ATAAACGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
46520652 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
46520692 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
46520732 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
46520772 ACATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGATCCGAAG
46520794 TCCTTGTGCA
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:46520751 original size:80 final size:80
Alignment explanation
Indices: 46520571--46520831 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
46520561 TATTCGAATG
* ** * *
46520571 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAAACGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
46520636 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
46520652 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
46520717 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
46520732 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGTCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
46520797 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
46520811 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46520832 ATTTCTTGAG
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 93 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:46520785 original size:120 final size:120
Alignment explanation
Indices: 46520571--46520831 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
46520561 TATTCGAATG
* * *
46520571 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAAACGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAAACGGACTAAGATCCGAAGGC
* * * * *
46520636 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* ** *
46520692 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAAACGGACTAAGAT-CCGAAGG
* * * *
46520755 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGTCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
46520811 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
46520832 ATTTCTTGAG
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 55 0.46
121 31 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAAACGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:46525441 original size:48 final size:46
Alignment explanation
Indices: 46525296--46525464 Score: 151
Period size: 48 Copynumber: 3.6 Consensus size: 46
46525286 TGATATGTGT
*
46525296 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATA-ATTAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AGATTAAA
* ** * * ** ** *
46525342 GCCAGTGTAATTTCATGTCTAGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCAAGATTAAA
*
46525390 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGAT-TA-AA
* * *
46525438 GCTAGTGTAAGGCCTGTCTGGAACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46525465 GCATTAGCTT
Statistics
Matches: 92, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
46 21 0.23
47 27 0.29
48 44 0.48
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATTAAA
Found at i:46525653 original size:48 final size:47
Alignment explanation
Indices: 46525441--46525704 Score: 234
Period size: 49 Copynumber: 5.6 Consensus size: 47
46525431 TATACAAGCT
* * * * *
46525441 AGTGTAAGGCCTGTCTGGAACATGGCAT-TAGCTTGATGTG-T-GTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAACTTGATGTGATAGCC
*
46525485 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-TGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-ACTTGAT-G-TGATAGCC
* * * * * * *
46525534 AGTGTAAGACCTATTTGGGACACGGCATC-AACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAA-CTTG--ATGTGATAGCC
* * *
46525583 AGTGTAAAACCTGTCTGGGACATGGCATCGAATTTGATGTGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAACTTGATGTGATAGCC
*
46525630 AGTGTAAGACCATGTCTGGGACATGGCATCG-ACTTTGATGTGCTAGCC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGAAC-TTGATGTGATAGCC
* *
46525678 AGTGTAAAATCATGTCTGGGACATGGC
1 AGTGTAAGA-CCTGTCTGGGACATGGC
46525705 GTCGGCATCT
Statistics
Matches: 179, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
44 26 0.15
45 5 0.03
46 2 0.01
47 21 0.12
48 58 0.32
49 63 0.35
50 2 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGAACTTGATGTGATAGCC
Found at i:46534903 original size:49 final size:48
Alignment explanation
Indices: 46534828--46534954 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 48
46534818 ATGAGATCCC
** * *
46534828 GTATAAGACCATGTCAAGTATATGGCATCGGCA-TCCAAGATAAGAGCCA
1 GTATAAGACCATGTCTGGGACATGGCATCGGCATTCC-AG-TAAGAGCCA
* * * * * * *
46534877 GTGTAAGACCATGTCTGGGACATGGCATAGGCATTGCTGTGAGTGCTA
1 GTATAAGACCATGTCTGGGACATGGCATCGGCATTCCAGTAAGAGCCA
46534925 GTATAAGACCATGTCTGGGACATGGCATCG
1 GTATAAGACCATGTCTGGGACATGGCATCG
46534955 ACACTGGTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 34 0.53
49 28 0.44
50 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GTATAAGACCATGTCTGGGACATGGCATCGGCATTCCAGTAAGAGCCA
Found at i:46534980 original size:48 final size:46
Alignment explanation
Indices: 46534876--46535220 Score: 209
Period size: 48 Copynumber: 7.6 Consensus size: 46
46534866 GATAAGAGCC
* * * *
46534876 AGTGTAAGACCATGTCTGGGACATGGCATAGGCATTGCTGTGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATGTGA-T-CT
* *
46534924 AGTATAAGACCATGTCTGGGACATGGCATCGACACTGGTATGTGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACA-TGG-ATGTGATCT
* * * * * * ** * *
46534972 CGTGTAAGACCATATCAGGGATATGGCTTCTG-CACCGCTTTTTGATTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACA-TG-GATGTGATCT
* * * *
46535020 TGTGTAAGACCATGTTTGGGACATGGCATCGATAT-GA-G-G-TCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATGTGATCT
*
46535062 AGTGTAAGACCATGTCTGGGACATGGCATCGATAT-GA-G-G-TCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATGTGATCT
* *
46535104 AGTGTAAGACCATGTCTGGGACATGGCATCGGTAC-T-GATATGAAATTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATGGATGTG--ATCT
* * * *
46535152 TGTGTAAGACCATATCTGGGATATGGCATCG--AT--ATGTAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATGT-GATCT
* *
46535195 A-TGTAAGACCATGTCTAGGATATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
46535221 TTTGGCACTC
Statistics
Matches: 237, Mismatches: 46, Indels: 34
0.75 0.15 0.11
Matches are distributed among these distances:
42 93 0.39
43 7 0.03
44 4 0.02
45 3 0.01
47 2 0.01
48 119 0.50
49 4 0.02
50 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATGTGATCT
Found at i:46535082 original size:42 final size:42
Alignment explanation
Indices: 46535021--46535220 Score: 222
Period size: 42 Copynumber: 4.6 Consensus size: 42
46535011 TTTTGATTTT
* *
46535021 GTGTAAGACCATGTTTGGGACATGGCATCGATATGAGGTCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCA
* *
46535063 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCA
* ***
46535105 GTGTAAGACCATGTCTGGGACATGGCATCGGTACTGATATGAAATTTT
1 GTGTAAGACCATGTCTGGGACATGGCA----T-C-GATATGAGATCCA
* *
46535153 GTGTAAGACCATATCTGGGATATGGCATCGATATGTAGATCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGATATG-AGATCCA
* *
46535196 -TGTAAGACCATGTCTAGGATATGGC
1 GTGTAAGACCATGTCTGGGACATGGC
46535221 TTTGGCACTC
Statistics
Matches: 137, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
42 96 0.70
43 4 0.03
44 1 0.01
46 1 0.01
47 1 0.01
48 34 0.25
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCA
Found at i:46546548 original size:12 final size:12
Alignment explanation
Indices: 46546533--46546578 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
46546523 CACACGGCCT
46546533 ACCACACAGGTG
1 ACCACACAGGTG
46546545 ACCACACACGGCCT-
1 ACCACACA-GG--TG
46546559 ACCACACAGGTG
1 ACCACACAGGTG
46546571 ACCACACA
1 ACCACACA
46546579 CCCGTGTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 16 0.53
13 4 0.13
14 8 0.27
15 1 0.03
ACGTcount: A:0.35, C:0.41, G:0.17, T:0.07
Consensus pattern (12 bp):
ACCACACAGGTG
Found at i:46546555 original size:26 final size:26
Alignment explanation
Indices: 46546518--46546579 Score: 115
Period size: 26 Copynumber: 2.3 Consensus size: 26
46546508 CTCGATTGCC
46546518 ACCATCACACGGCCTACCACACAGGTG
1 ACCA-CACACGGCCTACCACACAGGTG
46546545 ACCACACACGGCCTACCACACAGGTG
1 ACCACACACGGCCTACCACACAGGTG
46546571 ACCACACAC
1 ACCACACAC
46546580 CCGTGTGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (26 bp):
ACCACACACGGCCTACCACACAGGTG
Found at i:46548968 original size:46 final size:47
Alignment explanation
Indices: 46548820--46549090 Score: 236
Period size: 47 Copynumber: 5.8 Consensus size: 47
46548810 ATTTGTTTGT
* *
46548820 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAT--ATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACC-TCGA-GATGA
* * * * * *
46548866 GAGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGACCTCGAGATGA
* *
46548914 GAGCTAGTGTAAGA-CATGTTTGGGACATGCATCGACCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATG-A
* **
46548961 -AGCTAGTGTAAGA-CATGTCTAGGACATATATCGA-CTACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGA
* * * * *
46549006 TAGTTAGTGTAAGACCATGTTTGGGACATGGCATC-AACTTGAGAT-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGA
*
46549052 TAAGCTAGTGTAAGACCATGTCTGGGACATGACATCGAC
1 -GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGAC
46549091 ACCTTATCCA
Statistics
Matches: 186, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 75 0.40
47 79 0.42
48 28 0.15
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGA
Found at i:46549031 original size:93 final size:94
Alignment explanation
Indices: 46548871--46549090 Score: 268
Period size: 93 Copynumber: 2.4 Consensus size: 94
46548861 TATGAGAGCC
* * * * * * *
46548871 AGTGTAAGACCATGTCTGGGACATGACATTGGC-ATTGAGACGAGAGCTAGTGTAAGACATGTTT
1 AGTGTAAGACCATGTCTAGGACATGACATCGACTA-CGAGATGATAGTTAGTGTAAGACATGTTT
* *
46548935 GGGACAT-GCATCGACCTCGAGACGTAAGCT
65 GGGACATGGCATC-AACTCGAGACATAAGCT
*
46548965 AGTGTAAGA-CATGTCTAGGACAT-ATATCGACTACGAGATGATAGTTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGACATCGACTACGAGATGATAGTTAGTGTAAGA-CATGTTT
* *
46549028 GGGACATGGCATCAACTTGAGATATAAGCT
65 GGGACATGGCATCAACTCGAGACATAAGCT
*
46549058 AGTGTAAGACCATGTCTGGGACATGACATCGAC
1 AGTGTAAGACCATGTCTAGGACATGACATCGAC
46549091 ACCTTATCCA
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
92 23 0.21
93 50 0.47
94 27 0.25
95 7 0.07
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTAGGACATGACATCGACTACGAGATGATAGTTAGTGTAAGACATGTTTG
GGACATGGCATCAACTCGAGACATAAGCT
Found at i:46556041 original size:29 final size:29
Alignment explanation
Indices: 46556008--46556086 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
46555998 AAACACGTCA
* * * *
46556008 GAAAAGGAAAACCTTTTTGGTAAACTTAT
1 GAAAAGGAAAGCCTTTGTGGCAAACCTAT
46556037 GAAAAGGAAAGCCTTTGTGGCAAACCTAT
1 GAAAAGGAAAGCCTTTGTGGCAAACCTAT
*
46556066 AAAAAGGAAAGCCTTTGTGGC
1 GAAAAGGAAAGCCTTTGTGGC
46556087 GAGTATTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
GAAAAGGAAAGCCTTTGTGGCAAACCTAT
Found at i:46556139 original size:51 final size:51
Alignment explanation
Indices: 46556078--46556174 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
46556068 AAAGGAAAGC
* * * * *
46556078 CTTTGTGGCGAGTATTGAAAGAAAAGGATTCCTTTGTAGAAAATCTTTGAA
1 CTTTGCGGCGAGCACTGAAAGAAAAGGATGCCTTTATAGAAAATCTTTGAA
* *
46556129 CTTTGCGGCGAGCACTGAATGAAAAGGATGCCTTTATGGAAAATCT
1 CTTTGCGGCGAGCACTGAAAGAAAAGGATGCCTTTATAGAAAATCT
46556175 CTTAAAGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
CTTTGCGGCGAGCACTGAAAGAAAAGGATGCCTTTATAGAAAATCTTTGAA
Found at i:46556245 original size:59 final size:58
Alignment explanation
Indices: 46556142--46556494 Score: 397
Period size: 59 Copynumber: 6.0 Consensus size: 58
46556132 TGCGGCGAGC
* * *
46556142 ACTGAATGAAAAGGATGCCTTTATGGAAAATCTCTTAAAGGAAAGCCTTTATGGCTAGA
1 ACTGAATGAAAATGATGCCTTTGTGGAAAATCT-TTAAAGGAAAGCCTTTATGGCTAGT
*
46556201 ACTGAATGAAAATGATGCCTTTGTGAAAAATCTTTGAATA-GAAAGCCTTTATGG-TGAGT
1 ACTGAATGAAAATGATGCCTTTGTGGAAAATCTTT-AA-AGGAAAGCCTTTATGGCT-AGT
* * * * * *
46556260 TCTGAATGAAAAGGATGGCTTTGTGGCAAATCTCTTAAAGGAAAGCCTTTATGACAAGT
1 ACTGAATGAAAATGATGCCTTTGTGGAAAATCT-TTAAAGGAAAGCCTTTATGGCTAGT
* * * * *
46556319 ACTAAATGAAAATGATGCCTTTTGTGGAAAATCATTTAAAAGAAAACCTTTGTGGCGAGT
1 ACTGAATGAAAATGATGCC-TTTGTGGAAAATC-TTTAAAGGAAAGCCTTTATGGCTAGT
* * *
46556379 ATTGAATGAAAATGATTCCTTTGTGGAAAATCTTTAAAAGGAAAGCCTTTTTGG-TGAGT
1 ACTGAATGAAAATGATGCCTTTGTGGAAAATCTTT-AAAGGAAAGCCTTTATGGCT-AGT
** * *
46556438 ACTGAATGAAAATGATGCCTTTGTGGCTAATCTTTGAAAGGAAAGCTTTTGTGGCTA
1 ACTGAATGAAAATGATGCCTTTGTGGAAAATCTTT-AAAGGAAAGCCTTTATGGCTA
46556495 CCTCTGTTAA
Statistics
Matches: 248, Mismatches: 35, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
58 7 0.03
59 188 0.76
60 52 0.21
61 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (58 bp):
ACTGAATGAAAATGATGCCTTTGTGGAAAATCTTTAAAGGAAAGCCTTTATGGCTAGT
Found at i:46556390 original size:178 final size:177
Alignment explanation
Indices: 46556146--46556483 Score: 475
Period size: 178 Copynumber: 1.9 Consensus size: 177
46556136 GCGAGCACTG
* * *
46556146 AATGAAAAGGATGCCTTTATGGAAAATCTCTTAAAGGAAAGCCTTTATGGCTAGAACTGAATGAA
1 AATGAAAAGGATGCCTTTATGGAAAATCTCTTAAAAGAAAACCTTTATGGCGAGAACTGAATGAA
* *
46556211 AATGATGCCTTTGTGAAAAATCTTTGAATA-GAAAGCCTTTATGGTGAGTTCTGAATGAAAAGGA
66 AATGATGCCTTTGTGAAAAATCTTT-AAAAGGAAAGCCTTTATGGTGAGTACTGAATGAAAAGGA
*
46556275 TGGCTTTGTGGCAAATCTCTT-AAAGGAAAGCCTTTATGACAAGTACTA
130 TGCCTTTGTGGCAAATCT-TTGAAAGGAAAGCCTTTATGACAAGTACTA
* * * * *
46556323 AATGAAAATGATGCCTTTTGTGGAAAATCAT-TTAAAAGAAAACCTTTGTGGCGAGTATTGAATG
1 AATGAAAAGGATGCC-TTTATGGAAAATC-TCTTAAAAGAAAACCTTTATGGCGAGAACTGAATG
* * * *
46556387 AAAATGATTCCTTTGTGGAAAATCTTTAAAAGGAAAGCCTTTTTGGTGAGTACTGAATGAAAATG
64 AAAATGATGCCTTTGTGAAAAATCTTTAAAAGGAAAGCCTTTATGGTGAGTACTGAATGAAAAGG
*
46556452 ATGCCTTTGTGGCTAATCTTTGAAAGGAAAGC
129 ATGCCTTTGTGGCAAATCTTTGAAAGGAAAGC
46556484 TTTTGTGGCT
Statistics
Matches: 141, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
177 19 0.13
178 121 0.86
179 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (177 bp):
AATGAAAAGGATGCCTTTATGGAAAATCTCTTAAAAGAAAACCTTTATGGCGAGAACTGAATGAA
AATGATGCCTTTGTGAAAAATCTTTAAAAGGAAAGCCTTTATGGTGAGTACTGAATGAAAAGGAT
GCCTTTGTGGCAAATCTTTGAAAGGAAAGCCTTTATGACAAGTACTA
Found at i:46556410 original size:119 final size:118
Alignment explanation
Indices: 46556129--46556492 Score: 446
Period size: 118 Copynumber: 3.1 Consensus size: 118
46556119 AATCTTTGAA
* * * *
46556129 CTTTGCGGCGAGCACTGAATGAAAAGGATGCCTTTATGGAAAATCTCTTAAAGGAAAGCCTTTAT
1 CTTTGTGGCGAGTATTGAATGAAAAGGATGCCTTTGTGGAAAATCTCTTAAAGGAAAGCCTTTAT
* * * * *
46556194 GGCTAGAACTGAATGAAAATGATGCCTTTGTGAAAAATCTTTGAATAGAAAGC
66 GGCAAGTACTGAATGAAAATGATGCCTTTGTGGAAAATCTTTGAAAAGAAAAC
* * * *
46556247 CTTTATGGTGAGT-TCTGAATGAAAAGGATGGCTTTGTGGCAAATCTCTTAAAGGAAAGCCTTTA
1 CTTTGTGGCGAGTAT-TGAATGAAAAGGATGCCTTTGTGGAAAATCTCTTAAAGGAAAGCCTTTA
* *
46556311 TGACAAGTACTAAATGAAAATGATGCCTTTTGTGGAAAATCATTT-AAAAGAAAAC
65 TGGCAAGTACTGAATGAAAATGATGCC-TTTGTGGAAAATC-TTTGAAAAGAAAAC
* * *
46556366 CTTTGTGGCGAGTATTGAATGAAAATGATTCCTTTGTGGAAAATCT-TTAAAAGGAAAGCCTTTT
1 CTTTGTGGCGAGTATTGAATGAAAAGGATGCCTTTGTGGAAAATCTCTT-AAAGGAAAGCCTTTA
** ** * *
46556430 TGGTGAGTACTGAATGAAAATGATGCCTTTGTGGCTAATCTTTGAAAGGAAAGC
65 TGGCAAGTACTGAATGAAAATGATGCCTTTGTGGAAAATCTTTGAAAAGAAAAC
*
46556484 TTTTGTGGC
1 CTTTGTGGC
46556493 TACCTCTGTT
Statistics
Matches: 209, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
117 3 0.01
118 107 0.51
119 95 0.45
120 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (118 bp):
CTTTGTGGCGAGTATTGAATGAAAAGGATGCCTTTGTGGAAAATCTCTTAAAGGAAAGCCTTTAT
GGCAAGTACTGAATGAAAATGATGCCTTTGTGGAAAATCTTTGAAAAGAAAAC
Found at i:46556488 original size:28 final size:29
Alignment explanation
Indices: 46556454--46556520 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46556444 TGAAAATGAT
46556454 GCCTTTGTGGCTA-ATCT-TTGAAAGGAAA
1 GCCTTTGTGGCTACATCTGTT-AAAGGAAA
* * *
46556482 GCTTTTGTGGCTACCTCTGTTAAAGGAAC
1 GCCTTTGTGGCTACATCTGTTAAAGGAAA
46556511 GCCTTTGTGG
1 GCCTTTGTGG
46556521 TGCAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.36
29 19 0.58
30 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (29 bp):
GCCTTTGTGGCTACATCTGTTAAAGGAAA
Found at i:46570365 original size:3 final size:3
Alignment explanation
Indices: 46570357--46570407 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
46570347 ATTTAAGGAG
* *
46570357 ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46570405 ATA
1 ATA
46570408 TAGGAGTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46576826 original size:40 final size:41
Alignment explanation
Indices: 46576730--46576834 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
46576720 CGAATGATGT
*
46576730 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
46576770 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
46576810 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46576835 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Done.