Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 53 of 325
Found at i:13741929 original size:97 final size:98
Alignment explanation
Indices: 13741763--13742048 Score: 485
Period size: 97 Copynumber: 3.0 Consensus size: 98
13741753 GAAGTTGAGA
*
13741763 GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTC-GAATTGAATCTACCATAGC
1 GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCAGAACTGAATCTACCATAGC
13741827 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG
66 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG
13741860 GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCAGAA-TGAATCTACCATAGC
1 GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCAGAACTGAATCTACCATAGC
* * *
13741924 AAATCTTATCTTCCTGAAGTTTCAGTGGAGTAG
66 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG
13741957 G---ATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCA-AACTGAATCTACCATAGC
1 GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCAGAACTGAATCTACCATAGC
*
13742018 GAATCTTATCTCCCTGAAGTTGTAGTGGAGT
66 GAATCTTATCTCCCTGAAGTTGCAGTGGAGT
13742049 TGCAGTGGGT
Statistics
Matches: 180, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
93 2 0.01
94 84 0.47
97 91 0.51
98 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (98 bp):
GCATATTGAAGCTACAAATCCTATACCCTGAAGTTGCAGTGGGTCAGAACTGAATCTACCATAGC
GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG
Found at i:13742150 original size:42 final size:43
Alignment explanation
Indices: 13742064--13742209 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 43
13742054 TGGGTCAAAC
*
13742064 TGAAGCCACAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
1 TGAAGCCACAATCTTATCTCCCTGAAGTTGTAATGGAGCAGAT
*
13742107 TGAAGCCACAA-CTTATAC-CCCTGAAGTTGTAATGG-GTCCGAT
1 TGAAGCCACAATCTTAT-CTCCCTGAAGTTGTAATGGAG-CAGAT
* * * *
13742149 TGAATCTACCATAGCTAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
1 TGAA---GCC--A-C-AATCTTATCTCCCTGAAGTTGTAATGGAGCAGAT
*
13742199 TGAAGCTACAA
1 TGAAGCCACAA
13742210 ATCCTATAGC
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
41 1 0.01
42 29 0.35
43 14 0.17
44 1 0.01
45 3 0.04
47 2 0.02
48 1 0.01
49 3 0.04
50 27 0.33
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
TGAAGCCACAATCTTATCTCCCTGAAGTTGTAATGGAGCAGAT
Found at i:13742157 original size:146 final size:148
Alignment explanation
Indices: 13741925--13742194 Score: 395
Period size: 146 Copynumber: 1.8 Consensus size: 148
13741915 TACCATAGCA
* * *
13741925 AATCTTATCTTCCTGAAGTTTCAGTGGAGTAGGATTGAAGCTACAAATCCTATACCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTTCAGTGGAGCAGGATTGAAGCCACAAATCCTATACCCTGAAGTTG
* *
13741990 CAGTGGGTCAAACTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGTTGCAGT
66 CAATGGGTCAAACTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTTGCAGT
13742055 GGGTCAAACTGAAGCCAC
131 GGGTCAAACTGAAGCCAC
*
13742073 AATCTTATCTCCCTGAAGTTGT-AGTGGAGCA-GATTGAAGCCAC-AA-CTTATACCCCTGAAGT
1 AATCTTATCTCCCTGAAGTT-TCAGTGGAGCAGGATTGAAGCCACAAATCCTATA-CCCTGAAGT
* ** * *
13742134 TGTAATGGGTCCGATTGAATCTACCATAGCTAATCTTATCTCCCTGAAGTTGCAGTGGAGT
64 TGCAATGGGTCAAACTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGT
13742195 AGATTGAAGC
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
145 5 0.05
146 65 0.60
147 11 0.10
148 27 0.25
149 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (148 bp):
AATCTTATCTCCCTGAAGTTTCAGTGGAGCAGGATTGAAGCCACAAATCCTATACCCTGAAGTTG
CAATGGGTCAAACTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTTGCAGT
GGGTCAAACTGAAGCCAC
Found at i:13742234 original size:44 final size:44
Alignment explanation
Indices: 13742175--13742390 Score: 168
Period size: 44 Copynumber: 4.8 Consensus size: 44
13742165 AATCTTATCT
* * *
13742175 CCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATAG
1 CCCTAAAGTTACAGTGGAGTAGATTGAAGCTACAAATCCTATAC
*
13742219 CCCTAAAGTTACAGTGGAGTAGATTGAAGCTTCAAATCCTATAC
1 CCCTAAAGTTACAGTGGAGTAGATTGAAGCTACAAATCCTATAC
* * * * * * *
13742263 CCCTGAAGTTATATTGG-GTCGGATTAAAGTTACCGTAGTGAATCTTAT-C
1 CCCTAAAGTTACAGTGGAGT-AGATTGAAGCTA-C--A---AATCCTATAC
* ** * *
13742312 TCTCTAAAGTTACAGTGGACAAAATTGAAACTACAAATCCTATAC
1 -CCCTAAAGTTACAGTGGAGTAGATTGAAGCTACAAATCCTATAC
* *
13742357 CCCTAAAGTTGCAGTGG-GTCAGATTGAATCTACA
1 CCCTAAAGTTACAGTGGAGT-AGATTGAAGCTACA
13742391 GTGGCGAATC
Statistics
Matches: 131, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.02
44 96 0.73
45 2 0.02
47 2 0.02
49 2 0.02
50 27 0.21
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CCCTAAAGTTACAGTGGAGTAGATTGAAGCTACAAATCCTATAC
Found at i:13742310 original size:138 final size:136
Alignment explanation
Indices: 13742095--13742384 Score: 354
Period size: 138 Copynumber: 2.1 Consensus size: 136
13742085 CTGAAGTTGT
* * * *
13742095 AGTGGAGCAGATTGAAGCCACAACTTATACCCCTGAAGTTGTAATGGGTCCGATTGAATCTACCA
1 AGTGGAGTAGATTGAAGCCACAACCTATACCCCTGAAGTTATAATGGGTCCGATTAAATCTACCA
* * ** * * *
13742160 TAGCTAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATAGCCCTAA
66 TAGCTAATCTTATCTCCCTAAAGTTACAGTGGACAAAATTGAAACTACAAATCCTATACCCCTAA
13742225 AGTTAC
131 AGTTAC
* *
13742231 AGTGGAGTAGATTGAAGCTTCA-AATCCTATACCCCTGAAGTTATATTGGGTCGGATTAAAGT-T
1 AGTGGAGTAGATTGAAGC--CACAA-CCTATACCCCTGAAGTTATAATGGGTCCGATTAAA-TCT
* *
13742294 ACCGTAG-TGAATCTTATCTCTCTAAAGTTACAGTGGACAAAATTGAAACTACAAATCCTATACC
62 ACCATAGCT-AATCTTATCTCCCTAAAGTTACAGTGGACAAAATTGAAACTACAAATCCTATACC
*
13742358 CCTAAAGTTGC
126 CCTAAAGTTAC
13742369 AGTGG-GTCAGATTGAA
1 AGTGGAGT-AGATTGAA
13742385 TCTACAGTGG
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
136 17 0.13
137 5 0.04
138 109 0.83
139 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (136 bp):
AGTGGAGTAGATTGAAGCCACAACCTATACCCCTGAAGTTATAATGGGTCCGATTAAATCTACCA
TAGCTAATCTTATCTCCCTAAAGTTACAGTGGACAAAATTGAAACTACAAATCCTATACCCCTAA
AGTTAC
Found at i:13742739 original size:93 final size:93
Alignment explanation
Indices: 13742596--13742985 Score: 408
Period size: 93 Copynumber: 4.2 Consensus size: 93
13742586 ATCTTATCTA
* * * *
13742596 CCTGAAATTGCAGTGGATGAGATTAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGTA
1 CCTGAAGTTGCAGTGGAT-CGATCAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGTG
*
13742661 GAGCAAGATGAAGCGATAAATCCTATATC
65 GAGCAAGATGAAGCTATAAATCCTATATC
* * * * * *
13742690 CCTGAAGTTGCAGTGGATCGATCAAAGTTATAATATCTAATTTTCTCTCCTTGGAGATGTAGTGG
1 CCTGAAGTTGCAGTGGATCGATCAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGTGG
13742755 AGCAAGATGAAGCTATAAATCCTATATC
66 AGCAAGATGAAGCTATAAATCCTATATC
* * * *
13742783 CCTG-AGTTGTAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTCCCTAAAAATGCAATG
1 CCTGAAGTTGCAGTGGATC-GATCAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGTG
* *
13742847 GAACAAGATGAAGCTATAAATCCTATACC
65 GAGCAAGATGAAGCTATAAATCCTATATC
* * ** * ** * * * * *
13742876 CCTTAAGTTACAGT-GAGTCGGATTGAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGTAGT
1 CCTGAAGTTGCAGTGGA-TC-GATCAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGT
* * *
13742940 GGAGTAAGATGAAACTACAAATCCTATA-C
64 GGAGCAAGATGAAGCTATAAATCCTATATC
* *
13742969 TCCTAAAGTTGTAGTGG
1 -CCTGAAGTTGCAGTGG
13742986 GTTGGAAAGA
Statistics
Matches: 246, Mismatches: 45, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
92 13 0.05
93 138 0.56
94 94 0.38
95 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (93 bp):
CCTGAAGTTGCAGTGGATCGATCAAAGTTATAATATCAAATCTTATCTCCCTGAAGATGCAGTGG
AGCAAGATGAAGCTATAAATCCTATATC
Found at i:13756070 original size:16 final size:15
Alignment explanation
Indices: 13756051--13756085 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13756041 TTAATAAATA
13756051 AAATAATTATAATATG
1 AAATAATT-TAATATG
*
13756067 AAATACTTTAATATG
1 AAATAATTTAATATG
13756082 AAAT
1 AAAT
13756086 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
AAATAATTTAATATG
Found at i:13762149 original size:27 final size:27
Alignment explanation
Indices: 13762108--13762170 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
13762098 ATACATACAT
*
13762108 GTTGTGCCTACCTGACAGGCTCAACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
* * *
13762135 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
13762162 GTTGTGCCT
1 GTTGTGCCT
13762171 TCTTGGTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACAACTA
Found at i:13765201 original size:26 final size:25
Alignment explanation
Indices: 13765110--13765217 Score: 135
Period size: 26 Copynumber: 4.2 Consensus size: 25
13765100 TGATACAAAT
13765110 TGATAATGAGTTAGGTAAATATTCCA
1 TGATAATG-GTTAGGTAAATATTCCA
**
13765136 TGATAATGGATTACATAAATATTCCA
1 TGATAATGG-TTAGGTAAATATTCCA
*
13765162 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATATTCCA
**
13765188 TGATAATGGTTTAGGTAAACGTTCCA
1 TGATAATGG-TTAGGTAAATATTCCA
13765214 TGAT
1 TGAT
13765218 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.04
26 68 0.93
27 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATATTCCA
Found at i:13765213 original size:52 final size:52
Alignment explanation
Indices: 13765110--13765217 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
13765100 TGATACAAAT
*
13765110 TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTACATAAATATTCCA
1 TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTACATAAACATTCCA
* * * ** *
13765162 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAACGTTCCA
1 TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTACATAAACATTCCA
13765214 TGAT
1 TGAT
13765218 GGGAATTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTACATAAACATTCCA
Found at i:13771041 original size:15 final size:16
Alignment explanation
Indices: 13771021--13771052 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13771011 TAAATATATA
13771021 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
13771036 ATATAAAAATTACATT
1 ATATAAAAATTACATT
13771052 A
1 A
13771053 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:13771317 original size:115 final size:115
Alignment explanation
Indices: 13771110--13771552 Score: 641
Period size: 115 Copynumber: 3.9 Consensus size: 115
13771100 ATACTAACAC
* * * * *
13771110 AAAATAACTATAAAATTATTGTTTT-AAATACATTACTAAAAAAAAATCACAATACATTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAAATCACAATACACTAAT--A
13771174 CACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
63 CACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
13771225 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATGCAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
* *
13771290 TGAACCACTAAACACTAATAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
13771340 AAAATAGCTATAAAAATATTTTTTTAAAATATATTA-TTAAAAAAATTACAATACGCTAAT--AC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
13771402 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
13771452 AAAATAGCTATAAAATTATTTTTTAAAAAATTTATTACT--AAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTT-TAAAATATATTACTAAAAAAAATCACAATACACTAATACA
* * *
13771515 CTAAACTATTAAACACTAACAATTTATATAACCAAATC
65 CTAAACCACTAAACACTAACAATTTATATAACCTAATC
13771553 AACTATAATT
Statistics
Matches: 300, Mismatches: 21, Indels: 15
0.89 0.06 0.04
Matches are distributed among these distances:
112 92 0.31
113 32 0.11
114 58 0.19
115 107 0.36
116 11 0.04
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.32
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:13771830 original size:3 final size:3
Alignment explanation
Indices: 13771814--13771856 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
13771804 AATACATTAC
*
13771814 CTT CTT -TT -TT CTT CTT CTT CCTT CTT CTT CTT CTT CTC CTT CT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CT
13771857 CCTTTCTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:13771832 original size:13 final size:13
Alignment explanation
Indices: 13771822--13771860 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
13771812 ACCTTCTTTT
13771822 TTCTTCTTCTTCC
1 TTCTTCTTCTTCC
13771835 TTCTTCTTCTT-C
1 TTCTTCTTCTTCC
*
13771847 TTCTCCTTC-TCC
1 TTCTTCTTCTTCC
13771859 TT
1 TT
13771861 TCTCTCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 1 0.04
12 12 0.50
13 11 0.46
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTTCTTCC
Found at i:13774185 original size:27 final size:27
Alignment explanation
Indices: 13774146--13774199 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
13774136 ATAGGGGTGA
*
13774146 AGGGTACCTCACAGGCGGCACCAGTGG
1 AGGGTACCCCACAGGCGGCACCAGTGG
13774173 AGGGTACCCCACAGGCGGCACCAGTGG
1 AGGGTACCCCACAGGCGGCACCAGTGG
13774200 TGCCTTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.37, T:0.09
Consensus pattern (27 bp):
AGGGTACCCCACAGGCGGCACCAGTGG
Found at i:13774212 original size:27 final size:27
Alignment explanation
Indices: 13774150--13774213 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
13774140 GGGTGAAGGG
**
13774150 TACCTCACAGGCGGCACCAGTGGAGGG
1 TACCTCACAGGCGGCACCAGTGGAGCC
* *
13774177 TACCCCACAGGCGGCACCAGTGGTGCC
1 TACCTCACAGGCGGCACCAGTGGAGCC
**
13774204 TTTCTCACAG
1 TACCTCACAG
13774214 CCTTGACCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (27 bp):
TACCTCACAGGCGGCACCAGTGGAGCC
Found at i:13774667 original size:33 final size:33
Alignment explanation
Indices: 13774630--13774708 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 33
13774620 GAGGAGTGGA
** *
13774630 GTACTGCGGTGGATATGGGCCGAG-GCTAGTGCT
1 GTACTGCGGTGGATACAGGCCGAGAG-AAGTGCT
* *
13774663 GTACTGAGGGGGATACAGGCCGAGAGAAGTGCT
1 GTACTGCGGTGGATACAGGCCGAGAGAAGTGCT
* *
13774696 GTGCTGCGATGGA
1 GTACTGCGGTGGA
13774709 GACGACCCAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (33 bp):
GTACTGCGGTGGATACAGGCCGAGAGAAGTGCT
Found at i:13775212 original size:21 final size:21
Alignment explanation
Indices: 13775166--13775206 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13775156 TAAATTACCT
*
13775166 TTTCTTTTTTTCTTCTTCTCC
1 TTTCTTTCTTTCTTCTTCTCC
13775187 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCT-TCTTCT
13775207 TCTTCTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTCTTTCTTTCTTCTTCTCC
Found at i:13787268 original size:12 final size:12
Alignment explanation
Indices: 13787251--13787281 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
13787241 GAAGCAGGGG
13787251 AGAAAAAGAGAA
1 AGAAAAAGAGAA
13787263 AGAAAAAGAGAA
1 AGAAAAAGAGAA
13787275 AGAAAAA
1 AGAAAAA
13787282 TAAAAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:13787270 original size:6 final size:6
Alignment explanation
Indices: 13787251--13787293 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
13787241 GAAGCAGGGG
* * *
13787251 AGAAAA AGAGAA AGAAAA AGAGAA AGAAAA ATAAAA GAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA
13787294 CTAAGATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:13788228 original size:41 final size:41
Alignment explanation
Indices: 13788182--13788282 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 41
13788172 TCGACCTCGA
13788182 GTCGATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACTAAATTTACTTCGGATAG
* ** * * *
13788222 ATTCGATGAGGTAAT-GG-GT-ACTAACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACTAAATTTACTTCGGATAG
*
13788261 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
13788283 ACTATTACTT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
38 17 0.38
39 13 0.29
40 4 0.09
41 11 0.24
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACTAAATTTACTTCGGATAG
Found at i:13788444 original size:18 final size:18
Alignment explanation
Indices: 13788421--13788459 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13788411 AAATAAAAAA
13788421 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
13788439 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
13788457 AAA
1 AAA
13788460 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:13788577 original size:12 final size:12
Alignment explanation
Indices: 13788560--13788585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13788550 TTATGAAATG
13788560 ATGAAAATAAAA
1 ATGAAAATAAAA
13788572 ATGAAAATAAAA
1 ATGAAAATAAAA
13788584 AT
1 AT
13788586 AAAGTATGAA
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:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
ATGAAAATAAAA
Found at i:13788975 original size:20 final size:20
Alignment explanation
Indices: 13788952--13788989 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13788942 GTTATTAAGT
13788952 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
13788972 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
13788990 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:13802984 original size:30 final size:31
Alignment explanation
Indices: 13802959--13803017 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13802949 ATAAATACTC
* *
13802959 AAAATTTGAAGGGCTAA-AGTGTAAATATAA
1 AAAAGTTGAAGGACTAATAGTGTAAATATAA
*
13802989 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
13803018 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATAA
Found at i:13803289 original size:29 final size:30
Alignment explanation
Indices: 13803217--13803290 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 30
13803207 ATGTTGATGA
* *
13803217 TATTTTATAATTATTAATTAGATAAATATTAT
1 TATTTTATTATT-TTAATAAGAT-AATATTAT
* *
13803249 T-TTATTAATATTTTAATAAGAT-ATTTTAT
1 TATT-TTATTATTTTAATAAGATAATATTAT
13803278 TATTTTATTATTT
1 TATTTTATTATTT
13803291 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
29 15 0.43
30 2 0.06
31 11 0.31
32 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTTTAATAAGATAATATTAT
Found at i:13804563 original size:51 final size:52
Alignment explanation
Indices: 13804485--13804606 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 52
13804475 AGAACTAAGT
*
13804485 TATCCGGATAAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAAT--
1 TATCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAG
* *
13804535 TATTCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAG
1 TA-TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAG
*
13804588 TAT-CGGATGAAGTATGAAG
1 TATCCGGATGAAATATGAAG
13804607 TAAGTTTGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
50 2 0.03
51 60 0.92
52 1 0.02
53 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (52 bp):
TATCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAG
Found at i:13822808 original size:15 final size:17
Alignment explanation
Indices: 13822778--13822810 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
13822768 TTTGTTTTAA
13822778 ATTATAATTAATATTAT
1 ATTATAATTAATATTAT
13822795 ATTAT-ATT-ATATTAT
1 ATTATAATTAATATTAT
13822810 A
1 A
13822811 ATGTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATAATTAATATTAT
Found at i:13822935 original size:20 final size:21
Alignment explanation
Indices: 13822905--13822961 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
13822895 AAAATAGTTA
*
13822905 AATTAAA-ATATATAAAAATTT
1 AATTAAATATA-ATAAAAATTG
*
13822926 AATTAAATATAATGAAAATTG
1 AATTAAATATAATAAAAATTG
*
13822947 AA-TAAATAAAATAAA
1 AATTAAATATAATAAA
13822962 TTATTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 11 0.35
21 17 0.55
22 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AATTAAATATAATAAAAATTG
Found at i:13824326 original size:26 final size:25
Alignment explanation
Indices: 13824297--13824385 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 25
13824287 AAATATAAAT
13824297 TTAAAATATTTTGAGTTTTACTTGAA
1 TTAAAATATTTTGA-TTTTACTTGAA
* * * *
13824323 TTAAAATATAATTT-AATTAAATATAAA
1 TTAAAATAT--TTTGATTTTACT-TGAA
13824350 TTTAAAATATTTTGATTTTTACTTGAA
1 -TTAAAATATTTTGA-TTTTACTTGAA
13824377 TTAAAATAT
1 TTAAAATAT
13824386 AATTTAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
26 25 0.51
27 8 0.16
28 16 0.33
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
TTAAAATATTTTGATTTTACTTGAA
Found at i:13824342 original size:16 final size:16
Alignment explanation
Indices: 13824321--13824354 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13824311 GTTTTACTTG
13824321 AATTAAA-ATATAATTT
1 AATTAAATATA-AATTT
13824337 AATTAAATATAAATTT
1 AATTAAATATAAATTT
13824353 AA
1 AA
13824355 AATATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAATATAAATTT
Found at i:13824342 original size:54 final size:54
Alignment explanation
Indices: 13824274--13824412 Score: 215
Period size: 54 Copynumber: 2.6 Consensus size: 54
13824264 AAGATATAAT
* *
13824274 ATATAAATAAATTAAATATAAATTTAAAATATTTTGAGTTTTACTTGAATTAAA
1 ATATAATTTAATTAAATATAAATTTAAAATATTTTGAGTTTTACTTGAATTAAA
*
13824328 ATATAATTTAATTAAATATAAATTTAAAATATTTTGATTTTTACTTGAATTAAA
1 ATATAATTTAATTAAATATAAATTTAAAATATTTTGAGTTTTACTTGAATTAAA
** * *
13824382 ATATAATTTAATTTTATATAAACTAAAAATA
1 ATATAATTTAATTAAATATAAATTTAAAATA
13824413 AATCTTCAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (54 bp):
ATATAATTTAATTAAATATAAATTTAAAATATTTTGAGTTTTACTTGAATTAAA
Found at i:13824661 original size:19 final size:19
Alignment explanation
Indices: 13824619--13824661 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
13824609 AAACATTAAT
*
13824619 AAAAATAAATAAATAAATT
1 AAAAATAAATAAATAAATA
* * *
13824638 TAAAATATATAAATATATA
1 AAAAATAAATAAATAAATA
13824657 AAAAA
1 AAAAA
13824662 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATAAATAAATAAATA
Found at i:13831257 original size:26 final size:24
Alignment explanation
Indices: 13831228--13831276 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
13831218 TTTTCTCTTT
*
13831228 AATGCAAGTTTTTAATGATAAAAAAG
1 AATG-AAGTTTTTAAT-AGAAAAAAG
*
13831254 AATGAATTTTTTAATAGAAAAAA
1 AATGAAGTTTTTAATAGAAAAAA
13831277 TCAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (24 bp):
AATGAAGTTTTTAATAGAAAAAAG
Found at i:13838821 original size:8 final size:9
Alignment explanation
Indices: 13838795--13838825 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13838785 AAATTAAGTG
13838795 TTTATTTTAT
1 TTTATTTT-T
13838805 TTTATTTTT
1 TTTATTTTT
13838814 TTTATTTTT
1 TTTATTTTT
13838823 TTT
1 TTT
13838826 TCTTTGCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:13862203 original size:2 final size:2
Alignment explanation
Indices: 13862196--13862228 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13862186 TTCATTAACA
13862196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13862229 ATGTTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13868964 original size:18 final size:18
Alignment explanation
Indices: 13868902--13868964 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
13868892 GAAAGGATAT
* *
13868902 TTTATATAATTGATGAATA
1 TTTATAT-ATTTATAAATA
* *
13868921 TTT-TATATTTAGAATTTA
1 TTTATATATTTATAA-ATA
13868939 TTTA-ATATTTATAAATA
1 TTTATATATTTATAAATA
13868956 TTTATATAT
1 TTTATATAT
13868965 ACATATATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
17 11 0.31
18 21 0.60
19 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTATATATTTATAAATA
Found at i:13872208 original size:8 final size:8
Alignment explanation
Indices: 13872195--13872223 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13872185 TTATGTTTAG
13872195 TATATTAT
1 TATATTAT
13872203 TATATTAT
1 TATATTAT
13872211 TATATTAT
1 TATATTAT
13872219 TATAT
1 TATAT
13872224 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:13872256 original size:5 final size:5
Alignment explanation
Indices: 13872246--13872291 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
13872236 TTATGTTTTA
13872246 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
13872292 AAACTAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:13872634 original size:15 final size:15
Alignment explanation
Indices: 13872614--13872670 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
13872604 CAATGAATTT
13872614 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
13872629 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
13872644 ATTGAATTTATATTG
1 ATTGAATTTATATTG
13872659 ATTGAA-TTATAT
1 ATTGAATTTATAT
13872671 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:13873072 original size:23 final size:23
Alignment explanation
Indices: 13873042--13873128 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
13873032 GCTTTACTGA
* *
13873042 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
13873065 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
13873086 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
13873108 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
13873129 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:13876432 original size:38 final size:39
Alignment explanation
Indices: 13876390--13876603 Score: 238
Period size: 39 Copynumber: 5.5 Consensus size: 39
13876380 GGATTTTCAA
* *
13876390 CGGGCTAAGACCCACAGGCCTT-GTG-TGAGAT-TTATATC
1 CGGGCTAAGACCCAAAGGCATTCGTGCTG-G-TGTTATATC
*
13876428 CGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGACCCAAAGGCATTCGTGCTGGTGTTATATC
* * * * *
13876467 CGGGCTAAGTCTCGAAGGCATTTGTGCTGGTGTTATTTC
1 CGGGCTAAGACCCAAAGGCATTCGTGCTGGTGTTATATC
* * * *
13876506 CGGGCTATGTCCCGAAGGCATTTGTGCTGGTGTTATATC
1 CGGGCTAAGACCCAAAGGCATTCGTGCTGGTGTTATATC
*
13876545 CGGGCTAA-ATCCCGAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGA-CCCAAAGGCATTCGTGCTGGTGTTATATC
* *
13876584 CGGGCTAAGTCCCGAAGGCA
1 CGGGCTAAGACCCAAAGGCA
13876604 ATTATGTTGG
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 20 0.13
39 135 0.86
40 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
CGGGCTAAGACCCAAAGGCATTCGTGCTGGTGTTATATC
Found at i:13876468 original size:39 final size:39
Alignment explanation
Indices: 13876421--13876603 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
13876411 TGTGTGAGAT
*
13876421 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
13876460 TTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
13876499 TTATTTCCGGGCTATGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
13876538 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13876577 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
13876604 ATTATGTTGG
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:13879734 original size:29 final size:29
Alignment explanation
Indices: 13879701--13879861 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
13879691 GTGACGAGAT
*
13879701 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
13879730 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
13879759 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
13879788 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
13879817 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
13879846 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
13879862 GGCTTAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:13887958 original size:4 final size:4
Alignment explanation
Indices: 13887951--13888013 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
13887941 AAAAAAAAAA
13887951 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
13887999 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
13888014 TTAGTAGTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:13889753 original size:12 final size:12
Alignment explanation
Indices: 13889736--13889802 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
13889726 ATCATCTAAC
13889736 AAAAAA-AAAAGT
1 AAAAAATAAAA-T
13889748 AAAAAATAAAAT
1 AAAAAATAAAAT
13889760 --AAAATAGAAAT
1 AAAAAATA-AAAT
*
13889771 AATGAAATAAATAT
1 AA-AAAATAAA-AT
* *
13889785 ATAAGATAAAAT
1 AAAAAATAAAAT
13889797 AAAAAA
1 AAAAAA
13889803 ATGAGTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
10 6 0.14
11 4 0.09
12 13 0.30
13 12 0.28
14 8 0.19
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:13889763 original size:18 final size:17
Alignment explanation
Indices: 13889737--13889800 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
13889727 TCATCTAACA
*
13889737 AAAAAAAAAGTAAAAAAT
1 AAAATAAAA-TAAAAAAT
13889755 AAAATAAAATAGAAATAAT
1 AAAATAAAATA-AAA-AAT
* * *
13889774 GAAATAAATATATAAGAT
1 AAAATAAA-ATAAAAAAT
13889792 AAAATAAAA
1 AAAATAAAA
13889801 AAATGAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.08
18 20 0.53
19 12 0.32
20 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:13900004 original size:22 final size:21
Alignment explanation
Indices: 13899961--13900000 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13899951 ATACCTCGAG
* **
13899961 AATTTTTTACAAAACTTAGAA
1 AATTTTTCACAAAACAGAGAA
13899982 AATTTTTCACAAAACAGAG
1 AATTTTTCACAAAACAGAG
13900001 GAAACAAGCC
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:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (21 bp):
AATTTTTCACAAAACAGAGAA
Found at i:13907014 original size:7 final size:7
Alignment explanation
Indices: 13907002--13907036 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
13906992 CCAGCCGTAG
13907002 CTCCAGC
1 CTCCAGC
13907009 CTCCAGC
1 CTCCAGC
13907016 CTCCAGC
1 CTCCAGC
13907023 CTCCAGC
1 CTCCAGC
13907030 CTCCAGC
1 CTCCAGC
13907037 AGCTATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.57, G:0.14, T:0.14
Consensus pattern (7 bp):
CTCCAGC
Found at i:13907235 original size:12 final size:13
Alignment explanation
Indices: 13907200--13907239 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
13907190 TTTAGTTTTA
13907200 TTAGATTTTTACTT
1 TTAGATTTTTA-TT
13907214 TTAGATTTTTATT
1 TTAGATTTTTATT
*
13907227 TT-TATTTTTATT
1 TTAGATTTTTATT
13907239 T
1 T
13907240 ATTAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.40
13 4 0.16
14 11 0.44
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (13 bp):
TTAGATTTTTATT
Found at i:13910351 original size:9 final size:10
Alignment explanation
Indices: 13910326--13910354 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13910316 TATCCTCTAT
13910326 TTTTAGTTTG
1 TTTTAGTTTG
13910336 TTTTAGTTTG
1 TTTTAGTTTG
13910346 -TTTAGTTTG
1 TTTTAGTTTG
13910355 CTTGAGGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (10 bp):
TTTTAGTTTG
Found at i:13911139 original size:22 final size:22
Alignment explanation
Indices: 13911114--13911158 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13911104 TGACATAAAA
* *
13911114 TCCAGGATTGTTCTAATCTCTT
1 TCCAGGATTATTCTAATATCTT
13911136 TCCAGGATTATTCTAATATCTT
1 TCCAGGATTATTCTAATATCTT
13911158 T
1 T
13911159 TCTCTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (22 bp):
TCCAGGATTATTCTAATATCTT
Found at i:13913902 original size:2 final size:2
Alignment explanation
Indices: 13913891--13913923 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13913881 TATAACGCTA
13913891 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13913924 TGATATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13918850 original size:88 final size:89
Alignment explanation
Indices: 13918700--13918876 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 89
13918690 TTGTTTTAAT
**
13918700 GTCTTAATTGATCATCAAACTTTTTTTTGTCTTGTTTCATTTTAATTTTGTAAATTCAATTAAGT
1 GTCTTAATTGATCATCAAACTTTTTTTTGTCTTGTTTCATTCCAATTTTGTAAATTCAATTAAGT
*
13918765 CTAAAATGACGTTTTTCAATTTAC
66 CTAAAATAACGTTTTTCAATTTAC
13918789 GTCTTAATTGATCATCAAAC-TTTTTTTGTCTTGTTTCATTCCAATTTTGTAAATTCAATTAAGT
1 GTCTTAATTGATCATCAAACTTTTTTTTGTCTTGTTTCATTCCAATTTTGTAAATTCAATTAAGT
13918853 CTAAAATAACGTTTTTCAATTTAC
66 CTAAAATAACGTTTTTCAATTTAC
13918877 AGGGATTAAG
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 65 0.76
89 20 0.24
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (89 bp):
GTCTTAATTGATCATCAAACTTTTTTTTGTCTTGTTTCATTCCAATTTTGTAAATTCAATTAAGT
CTAAAATAACGTTTTTCAATTTAC
Found at i:13922451 original size:46 final size:46
Alignment explanation
Indices: 13922314--13922514 Score: 192
Period size: 46 Copynumber: 4.3 Consensus size: 46
13922304 ATTCTTGTGT
* * * * * *
13922314 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * *
13922360 GAGCCAGTGTAAGACCATGTCTGGGACAGGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCGAGACGA
* *
13922408 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
13922455 -AGCCAGTGTAAGACATGTTTGGGACATACATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* *
13922500 TAGTCAGTGTAAGAC
1 GAGCCAGTGTAAGAC
13922515 CATGCATCGA
Statistics
Matches: 129, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 77 0.60
47 26 0.20
48 22 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:13924732 original size:12 final size:12
Alignment explanation
Indices: 13924715--13924740 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13924705 AAATACAATA
13924715 TATAAAAAATGT
1 TATAAAAAATGT
13924727 TATAAAAAATGT
1 TATAAAAAATGT
13924739 TA
1 TA
13924741 CCAAATACAA
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:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TATAAAAAATGT
Found at i:13925178 original size:19 final size:20
Alignment explanation
Indices: 13925140--13925179 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13925130 TACACAAAAC
13925140 AAAATATACGCATAATATAT
1 AAAATATACGCATAATATAT
*
13925160 AAAATATACGTAT-ATATAT
1 AAAATATACGCATAATATAT
13925179 A
1 A
13925180 TTTACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATATACGCATAATATAT
Found at i:13925341 original size:10 final size:10
Alignment explanation
Indices: 13925328--13925357 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13925318 ATACTACATA
13925328 ACATATATAT
1 ACATATATAT
13925338 ACATATATAT
1 ACATATATAT
*
13925348 ATATATATAT
1 ACATATATAT
13925358 TAAGCAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ACATATATAT
Found at i:13926945 original size:42 final size:43
Alignment explanation
Indices: 13926834--13926954 Score: 194
Period size: 41 Copynumber: 2.9 Consensus size: 43
13926824 AGACACGTGA
*
13926834 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGC-CGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTCGTAG
* *
13926876 CTTCGCTTAA-TCCACTGAAACTTCAAGGAGATCTGCTC-TAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTCGTAG
13926917 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCT
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCT
13926955 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
41 37 0.51
42 35 0.49
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTCGTAG
Found at i:13927366 original size:43 final size:44
Alignment explanation
Indices: 13927299--13927385 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
13927289 GGAGGTGAGA
* * **
13927299 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACCACTTAGGGGGTTAAGG
* *
13927343 TCTGTAAATTT-AACCTGTTACCCTACCACTTAGGGGTTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACCACTTAGGGGGTTAAGG
13927386 CTTGGTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 27 0.73
44 10 0.27
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACCACTTAGGGGGTTAAGG
Found at i:13938952 original size:36 final size:38
Alignment explanation
Indices: 13938877--13938954 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
13938867 ATTATCTTGA
* *
13938877 GTTACCAAATACAATATATATAAAATGTTATAAAAAAT
1 GTTACCAAATACAATAGATATAAAATGATATAAAAAAT
**
13938915 GTTACCAAATACAATAGATA-ATTAT-ATATAAAAAAT
1 GTTACCAAATACAATAGATATAAAATGATATAAAAAAT
13938951 GTTA
1 GTTA
13938955 TAAAAGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 14 0.39
37 3 0.08
38 19 0.53
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (38 bp):
GTTACCAAATACAATAGATATAAAATGATATAAAAAAT
Found at i:13939355 original size:19 final size:20
Alignment explanation
Indices: 13939317--13939355 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13939307 ATACACAAAC
13939317 AAAATATACGCATAATATAT
1 AAAATATACGCATAATATAT
*
13939337 AAAATATACGTAT-ATATAT
1 AAAATATACGCATAATATAT
13939356 TTACATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATATACGCATAATATAT
Found at i:13939521 original size:12 final size:12
Alignment explanation
Indices: 13939504--13939528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13939494 ATACTACATA
13939504 ACATATATATAT
1 ACATATATATAT
13939516 ACATATATATAT
1 ACATATATATAT
13939528 A
1 A
13939529 TTAAGCAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:13946874 original size:46 final size:46
Alignment explanation
Indices: 13946807--13947028 Score: 261
Period size: 46 Copynumber: 4.8 Consensus size: 46
13946797 TGTAACCCGC
* * *
13946807 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
13946853 CCATAAGTGAAATCGGACTCAACTCAACAAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** *
13946899 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
13946946 CTATAAGTAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13946992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13947029 TGCTCAATCA
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
46 110 0.74
47 30 0.20
49 4 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13951589 original size:46 final size:47
Alignment explanation
Indices: 13951437--13951705 Score: 241
Period size: 47 Copynumber: 5.7 Consensus size: 47
13951427 ATTTGTGTGT
* * *
13951437 GAGCTAGTGTAAGA-CATGTCTGGGACATACATCGGC-T-AGATTATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGA-TGT-A
* ** *
13951483 GAGCCAGTGTAAGACCATGTCTAGGACATGACATTAGCATTGAGACG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGC-TTGAGATGTA
* * *
13951531 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGG-CTTGAGATGTA
*
13951578 -AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTAAGAGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGTA
* * * * * *
13951623 TAGTCAGTGTAAGACCATATCTGGGACATGGCATTGACTTGAGATAT-
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGAGATGTA
*
13951670 GAGCCAGTGTAAGACCAGGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCG
13951706 ACACCTTATC
Statistics
Matches: 185, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 74 0.40
47 78 0.42
48 26 0.14
50 1 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGTA
Found at i:13951694 original size:140 final size:141
Alignment explanation
Indices: 13951442--13951705 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
13951432 TGTGTGAGCT
* *
13951442 AGTGTAAGACATGTCTGGGACATACATCGGCTAGATTATAAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATACATCGGCTAGATGATAAGAGCCAGTGTAAGACCATATCTAG
* *
13951507 GACATGACATTAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGACATTAGCATTGAGACGAGAGCCAGTGTAAGACAGGTCTGGGACATGGCATCGGCCTCG
13951571 AGACGTAAGCC
131 AGACGTAAGCC
* * * * *
13951582 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGA-GATGATAGTCAGTGTAAGACCATATCTG
1 AGTGTAAGACATGTCTGGGACATACATCGGCT-AGATGATAAGAGCCAGTGTAAGACCATATCTA
* *
13951646 GGACATGGCATT-G-ACTTGAGA-TATGAGCCAGTGTAAGACCAGGTCTGGGACATGGCATCG
65 GGACATGACATTAGCA-TTGAGACGA-GAGCCAGTGTAAGA-CAGGTCTGGGACATGGCATCG
13951706 ACACCTTATC
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.02
139 20 0.19
140 77 0.71
141 9 0.08
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCTAGATGATAAGAGCCAGTGTAAGACCATATCTAG
GACATGACATTAGCATTGAGACGAGAGCCAGTGTAAGACAGGTCTGGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:13953684 original size:46 final size:48
Alignment explanation
Indices: 13953634--13953765 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
13953624 TCCTTTCGTA
* *
13953634 GCCGACGCATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACTCGTCTCAAG
* * *
13953680 GCCGATGCATATCCCAAACATGTCTTACACTAGC--ACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACTCGTCTCAAG
* *
13953726 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTAC
13953766 AGAAGTGACC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 44 0.62
47 11 0.15
48 12 0.17
50 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACTCGTCTCAAG
Found at i:13957663 original size:17 final size:17
Alignment explanation
Indices: 13957643--13957696 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
13957633 TTGAAAAGGT
13957643 TGAATGATTGAGGGTGA
1 TGAATGATTGAGGGTGA
* * *
13957660 TGAATAAATGTA-TGTG-
1 TGAATGATTG-AGGGTGA
13957676 T-AATGATTGAGGGTGA
1 TGAATGATTGAGGGTGA
13957692 TGAAT
1 TGAAT
13957697 AAATATATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
14 1 0.04
15 9 0.33
16 2 0.07
17 14 0.52
18 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (17 bp):
TGAATGATTGAGGGTGA
Found at i:13957686 original size:32 final size:32
Alignment explanation
Indices: 13957645--13957709 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
13957635 GAAAAGGTTG
*
13957645 AATGATTGAGGGTGATGAATAAATGTATGTGT
1 AATGATTGAGGGTGATGAATAAATATATGTGT
13957677 AATGATTGAGGGTGATGAATAAATATATGTGT
1 AATGATTGAGGGTGATGAATAAATATATGTGT
13957709 A
1 A
13957710 TGTATACTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (32 bp):
AATGATTGAGGGTGATGAATAAATATATGTGT
Found at i:13958035 original size:19 final size:20
Alignment explanation
Indices: 13957986--13958036 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
13957976 ACCAGACTTA
*
13957986 AGTATCGATACTTTATATTAT
1 AGTATCGATACTTTATA-TAG
*
13958007 AGTATTGATACTTTATA-AG
1 AGTATCGATACTTTATATAG
13958026 AGTATCGATAC
1 AGTATCGATAC
13958037 GATTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (20 bp):
AGTATCGATACTTTATATAG
Found at i:13959182 original size:17 final size:19
Alignment explanation
Indices: 13959160--13959194 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13959150 CATTTCATAC
13959160 TATCATTT-TCAA-TTCAA
1 TATCATTTATCAAGTTCAA
13959177 TATCATTTATCAAGTTCA
1 TATCATTTATCAAGTTCA
13959195 TATTCTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (19 bp):
TATCATTTATCAAGTTCAA
Found at i:13990293 original size:132 final size:132
Alignment explanation
Indices: 13990056--13990425 Score: 607
Period size: 132 Copynumber: 2.8 Consensus size: 132
13990046 AATCCTGCAA
*
13990056 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTT-TGTATTGG
1 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCAT-TTCTGTATTGG
* * *
13990120 CGGAGAGCAGATCGAAGATAGCAGATTTGACATCTCTGTATTAGCGGAGAACAGATCGAAGATAG
65 CGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGCGGAGAACAGATCGAAAATAG
13990185 CAG
130 CAG
* *
13990188 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGGTCGCAGATTTGGCATTTCTGTATTGGC
1 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATTGGC
* * *
13990253 GGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTCGCGGAGAACAGGTCGAAAATAGT
66 GGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGCGGAGAACAGATCGAAAATAGC
13990318 AG
131 AG
* * *
13990320 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGTAGATTTGGCATCTCTGTATTGGC
1 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATTGGC
*
13990385 GGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
66 GGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATT
13990426 TACAAAGAGC
Statistics
Matches: 222, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 220 0.99
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (132 bp):
ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATTGGC
GGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGCGGAGAACAGATCGAAAATAGC
AG
Found at i:13990436 original size:44 final size:44
Alignment explanation
Indices: 13990056--13990425 Score: 551
Period size: 44 Copynumber: 8.4 Consensus size: 44
13990046 AATCCTGCAA
* *
13990056 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
*
13990100 ATTTGGCATCTTTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * *
13990144 ATTTGACATCTCTGTATTAGCGGAGAACAGATCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * *
13990188 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGGTCGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* *
13990232 ATTTGGCATTTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * * * *
13990276 ATTTGGCATCTCTGTATTCGCGGAGAACAGGTCGAAAATAGTAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * *
13990320 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGTAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
*
13990364 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
*
13990408 ATTTGGCGTCTCTGTATT
1 ATTTGGCATCTCTGTATT
13990426 TACAAAGAGC
Statistics
Matches: 290, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 290 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (44 bp):
ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
Found at i:13996555 original size:28 final size:28
Alignment explanation
Indices: 13996497--13996559 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
13996487 ACAGAGGTTT
13996497 TCACACGGCCTGACACATGCCCGTGTCCC
1 TCACACGGCCTGACACA-GCCCGTGTCCC
*
13996526 TCACACGGCCATGACAC-GCTCGTGTCCC
1 TCACACGGCC-TGACACAGCCCGTGTCCC
13996554 TCACAC
1 TCACAC
13996560 CATGACATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 16 0.50
29 10 0.31
30 6 0.19
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.17
Consensus pattern (28 bp):
TCACACGGCCTGACACAGCCCGTGTCCC
Found at i:13996574 original size:25 final size:26
Alignment explanation
Indices: 13996511--13996576 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
13996501 ACGGCCTGAC
13996511 ACATGCCCGTGTCCCTCACACGGCCATG
1 ACATGCCCGTGTCCCTCACA--GCCATG
* *
13996539 ACACGCTCGTGTCCCTCACA-CCATG
1 ACATGCCCGTGTCCCTCACAGCCATG
13996564 ACATGCCCGTGTC
1 ACATGCCCGTGTC
13996577 TAAAAATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.47
28 18 0.53
ACGTcount: A:0.18, C:0.42, G:0.20, T:0.20
Consensus pattern (26 bp):
ACATGCCCGTGTCCCTCACAGCCATG
Found at i:14000303 original size:13 final size:13
Alignment explanation
Indices: 14000268--14000312 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
14000258 AATCACCTGA
* *
14000268 ATAAATGTTAAAT
1 ATAAATATTATAT
*
14000281 ATATAATATTATTT
1 ATA-AATATTATAT
14000295 ATAAATATTATAT
1 ATAAATATTATAT
14000308 ATAAA
1 ATAAA
14000313 ATAAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATAAATATTATAT
Found at i:14001274 original size:7 final size:7
Alignment explanation
Indices: 14001262--14001287 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14001252 TATATAAATA
14001262 TTATATT
1 TTATATT
14001269 TTATATT
1 TTATATT
14001276 TTATATT
1 TTATATT
14001283 TTATA
1 TTATA
14001288 AAACGCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATATT
Found at i:14005224 original size:100 final size:99
Alignment explanation
Indices: 14005044--14005226 Score: 213
Period size: 100 Copynumber: 1.8 Consensus size: 99
14005034 CTCAAGTGCG
* * *
14005044 ATTGTTCATGATCTTAAATCGAATGAACATAGTTGCAATCTTGAATCAATGAACCTTAATAATAT
1 ATTGTTCATGATCTTAAATCAAATAAACATAGTTGCAATCTTAAATCAATGAACCTTAATAATAT
** *
14005109 CATTTGCAATCTTAAATCAACTAGCTCAAATAAA
66 CAGCTGCAATATTAAATCAACTAGCTCAAATAAA
* * * * * * * *
14005143 ATTGTTCATGATGTTAAATTAAATAAACTTAGGTTGCAATCTTAAATTAGTTAGCCTTAATGATA
1 ATTGTTCATGATCTTAAATCAAATAAACATA-GTTGCAATCTTAAATCAATGAACCTTAATAATA
**
14005208 TCAGCTGTGATATTAAATC
65 TCAGCTGCAATATTAAATC
14005227 GCGAGCTTTG
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
99 26 0.39
100 41 0.61
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (99 bp):
ATTGTTCATGATCTTAAATCAAATAAACATAGTTGCAATCTTAAATCAATGAACCTTAATAATAT
CAGCTGCAATATTAAATCAACTAGCTCAAATAAA
Found at i:14005447 original size:225 final size:226
Alignment explanation
Indices: 14005112--14005529 Score: 581
Period size: 225 Copynumber: 1.9 Consensus size: 226
14005102 ATAATATCAT
* * *
14005112 TTGCAATCTTAAATCAACTAGCTCAAATAAAATTGTTCATGATGTTAAATTAAATAAACTTAGGT
1 TTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAATAAACTTAGGT
* * ** * **
14005177 TGCAATCTTAAATTAGTTAGCCTTAATGATATCAGCTGTGATATTAAATC-GCGAGCTT-TGCGG
66 TGAAATATTAAATTAACTAACCTTAATGATATCAGCTACGATATTAAATCAGCGAG-TTGTGCGG
* * * * *
14005240 AACTACGATCTTAAATTAGCTAATTCAAATAAAATTGTTCATGATCTTAAATCAAATGAACTTAT
130 AACTACAATATTAAATCAGCCAACTCAAATAAAATTGTTCATGATCTTAAATCAAATGAACTTAT
14005305 GTTACGATATTAAATCAGTGATTTGTTCGGAG
195 GTTACGATATTAAATCAGTGATTTGTTCGGAG
* * * *
14005337 TTGCGATCTTAAATCAGCTAACTCAAATAAACTTGTTCATGATCTTAAATCAAATGAACTTAGGT
1 TTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAATAAACTTAGGT
* *
14005402 T-AAGATATTAAATTAACTAACCTTAATGATATCAGCTACGATATTAAATCAGTGAGTTGTTCGG
66 TGAA-ATATTAAATTAACTAACCTTAATGATATCAGCTACGATATTAAATCAGCGAGTTGTGCGG
** *
14005466 AGTTACAATATTAAATCAGCCAACTCAAATAAAATTGTTCATTATCTTAAATCAAATGAACTTA
130 AACTACAATATTAAATCAGCCAACTCAAATAAAATTGTTCATGATCTTAAATCAAATGAACTTA
14005530 CTCAAATAAA
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
224 1 0.01
225 101 0.61
226 64 0.39
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (226 bp):
TTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAATAAACTTAGGT
TGAAATATTAAATTAACTAACCTTAATGATATCAGCTACGATATTAAATCAGCGAGTTGTGCGGA
ACTACAATATTAAATCAGCCAACTCAAATAAAATTGTTCATGATCTTAAATCAAATGAACTTATG
TTACGATATTAAATCAGTGATTTGTTCGGAG
Found at i:14005517 original size:22 final size:22
Alignment explanation
Indices: 14005492--14005563 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
14005482 CAGCCAACTC
14005492 AAATAAAATTGTTCATTATCTT
1 AAATAAAATTGTTCATTATCTT
* ** *
14005514 AAATCAAA-TGAAC-TTA-CTC
1 AAATAAAATTGTTCATTATCTT
14005533 AAATAAAATTGTTCATTATCTT
1 AAATAAAATTGTTCATTATCTT
*
14005555 AAATGAAAT
1 AAATAAAAT
14005564 GAACTTAGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.24
20 6 0.16
21 6 0.16
22 17 0.45
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.38
Consensus pattern (22 bp):
AAATAAAATTGTTCATTATCTT
Found at i:14005534 original size:41 final size:41
Alignment explanation
Indices: 14005488--14005570 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
14005478 AAATCAGCCA
14005488 ACTCAAATAAAATTGTTCATTATCTTAAATCAAATGAACTT
1 ACTCAAATAAAATTGTTCATTATCTTAAATCAAATGAACTT
*
14005529 ACTCAAATAAAATTGTTCATTATCTTAAATGAAATGAACTT
1 ACTCAAATAAAATTGTTCATTATCTTAAATCAAATGAACTT
14005570 A
1 A
14005571 GGTTGTGATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (41 bp):
ACTCAAATAAAATTGTTCATTATCTTAAATCAAATGAACTT
Found at i:14009794 original size:62 final size:64
Alignment explanation
Indices: 14009692--14009819 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 64
14009682 ATTGAGCTTG
*
14009692 TTCTTCCACCATTAACAAAAAGATGATTAGAAGACC-AAAAAA-AGTCAAAAGATGAATGAAGA
1 TTCTTCCACCATTAACAAAAAGATGATTAAAAGACCAAAAAAAGAGTCAAAAGATGAATGAAGA
* **
14009754 TTCTTCCATCA-TAGACAAAAAGATGATTAAAAGATTAAAAAAAAAGAGTCAAAAGATGAATGAA
1 TTCTTCCACCATTA-ACAAAAAGATGATTAAAAGA--CCAAAAAAAGAGTCAAAAGATGAATGAA
14009818 GA
63 GA
14009820 AAAAATGGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
61 2 0.04
62 29 0.51
65 6 0.11
66 20 0.35
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (64 bp):
TTCTTCCACCATTAACAAAAAGATGATTAAAAGACCAAAAAAAGAGTCAAAAGATGAATGAAGA
Found at i:14011557 original size:45 final size:45
Alignment explanation
Indices: 14011478--14011581 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
14011468 ATGAGTCCGT
* * * * ***
14011478 CATATCTATAAATATTCTTCTATGAATTCACATGTATAAGTTTGC
1 CATATCTATGAATCTTCTTCAATGAATTCACATGTACAAGTCCAC
** *
14011523 CATATCTATGAATCTTCTTCAATGAATTTGCATGTACGAGTCCAC
1 CATATCTATGAATCTTCTTCAATGAATTCACATGTACAAGTCCAC
14011568 CATATCTATGAATC
1 CATATCTATGAATC
14011582 CACATATGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (45 bp):
CATATCTATGAATCTTCTTCAATGAATTCACATGTACAAGTCCAC
Found at i:14012377 original size:2 final size:2
Alignment explanation
Indices: 14012372--14012418 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14012362 TTATATTTGT
14012372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14012414 TA TA T
1 TA TA T
14012419 TTGTTTATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14018658 original size:10 final size:10
Alignment explanation
Indices: 14018645--14018729 Score: 72
Period size: 10 Copynumber: 8.8 Consensus size: 10
14018635 ATAAAAAAAT
*
14018645 AAAATATTTA
1 AAAATATATA
*
14018655 AAAATAT-TT
1 AAAATATATA
14018664 AAAATATATA
1 AAAATATATA
*
14018674 AAAA-GTAT-
1 AAAATATATA
* *
14018682 AGAATATTATT
1 AAAATA-TATA
14018693 AAAA-ATATA
1 AAAATATATA
14018702 AAAATATATA
1 AAAATATATA
14018712 AAAATATA-A
1 AAAATATATA
14018721 AAGAATATA
1 AA-AATATA
14018730 GAAAGTTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
8 3 0.05
9 21 0.34
10 35 0.56
11 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAATATATA
Found at i:14018668 original size:19 final size:18
Alignment explanation
Indices: 14018635--14018722 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
14018625 GAAGAAAATG
*
14018635 ATAAAAA-AATAAAATAT
1 ATAAAAATATTAAAATAT
*
14018652 TTAAAAATATTTAAAATAT
1 ATAAAAATA-TTAAAATAT
*
14018671 ATAAAAAGTA-TAGAATATT
1 ATAAAAA-TATTAAAATA-T
*
14018690 ATTAAAAATATAAAAATAT
1 A-TAAAAATATTAAAATAT
14018709 ATAAAAATA-TAAAA
1 ATAAAAATATTAAAA
14018723 GAATATAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.17
18 15 0.26
19 20 0.34
20 13 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAAAATATTAAAATAT
Found at i:14018705 original size:8 final size:8
Alignment explanation
Indices: 14018629--14018722 Score: 62
Period size: 9 Copynumber: 10.4 Consensus size: 8
14018619 CATGTGGAAG
14018629 AAAATGATA
1 AAAAT-ATA
*
14018638 AAAAAATA
1 AAAATATA
*
14018646 AAATATTTA
1 AAA-ATATA
14018655 AAAATATTTA
1 AAAATA--TA
14018665 AAATATATA
1 AAA-ATATA
14018674 AAAAGTATA
1 AAAA-TATA
*
14018683 GAATATTATTA
1 -AA-AATA-TA
14018694 AAAATATAA
1 AAAATAT-A
14018703 AAATATATA
1 AAA-ATATA
14018712 AAAATATA
1 AAAATATA
14018720 AAA
1 AAA
14018723 GAATATAGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
8 18 0.26
9 30 0.43
10 15 0.22
11 6 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:14018743 original size:47 final size:47
Alignment explanation
Indices: 14018643--14018732 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
14018633 TGATAAAAAA
* * *
14018643 ATAAAATATTTAAAAATATTTAAAATATATAAAAAGTATAGAATATT
1 ATAAAATATATAAAAATATATAAAATATATAAAAAATATAGAATATT
14018690 ATTAAAA-ATATAAAAATATATAAAA-ATATAAAAGAATATAGAA
1 A-TAAAATATATAAAAATATATAAAATATATAAAA-AATATAGAA
14018733 AGTTTATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 8 0.21
47 25 0.66
48 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (47 bp):
ATAAAATATATAAAAATATATAAAATATATAAAAAATATAGAATATT
Found at i:14018744 original size:10 final size:10
Alignment explanation
Indices: 14018696--14018750 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
14018686 TATTATTAAA
14018696 AATAT-AAA-
1 AATATAAAAG
14018704 AATATATAAA-
1 AATATA-AAAG
14018714 AATATAAAAG
1 AATATAAAAG
14018724 AATATAGAAAG
1 AATATA-AAAG
**
14018735 TTTATAAAAG
1 AATATAAAAG
14018745 AATATA
1 AATATA
14018751 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 23 0.59
11 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (10 bp):
AATATAAAAG
Found at i:14027649 original size:92 final size:91
Alignment explanation
Indices: 14027544--14027767 Score: 254
Period size: 92 Copynumber: 2.4 Consensus size: 91
14027534 TATTTGGGTA
* * * *
14027544 TCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGACGCGA-ACATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGACACGAGACATCCGAACTCGTTGAGTTA
*
14027608 AGTCCGAGTTCACTTATAGATGCGAACG
65 AATCCGAG-TCACTTATAGATGCGAACG
* * * * * * *
14027636 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTA-ACTAGGCATCCGAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCT--TATGGACACGAGACATCCGAACTCGTTGAGTT
*
14027700 AAATCCGAGTCACTTATGGATGCGAACG
64 AAATCCGAGTCACTTATAGATGCGAACG
* *
14027728 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGACA
14027768 GGTTACATGG
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
91 5 0.05
92 73 0.68
93 30 0.28
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (91 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGACACGAGACATCCGAACTCGTTGAGTTAA
ATCCGAGTCACTTATAGATGCGAACG
Found at i:14027663 original size:46 final size:46
Alignment explanation
Indices: 14027544--14027762 Score: 214
Period size: 46 Copynumber: 4.8 Consensus size: 46
14027534 TATTTGGGTA
* * * * *
14027544 TCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGACGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
14027590 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
* * * *
14027636 TCCGAACTCGTTGAGTTGAGTCTGAGTT--CGT-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAC---G
* * * *
14027681 CATCCGAGCTCGTTGAGTTAAATCCGAG-TCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
* * *
14027728 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
14027763 GGACAGGTTA
Statistics
Matches: 142, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
42 3 0.02
43 5 0.04
44 2 0.01
45 24 0.17
46 76 0.54
47 23 0.16
48 2 0.01
49 4 0.03
50 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
Found at i:14030538 original size:18 final size:18
Alignment explanation
Indices: 14030515--14030553 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14030505 GGTAAAATTA
* *
14030515 TTTTATTAAAACGATGGT
1 TTTTATGAAAACAATGGT
*
14030533 TTTTATGCAAACAATGGT
1 TTTTATGAAAACAATGGT
14030551 TTT
1 TTT
14030554 CCTAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (18 bp):
TTTTATGAAAACAATGGT
Found at i:14031358 original size:19 final size:19
Alignment explanation
Indices: 14031336--14031407 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 19
14031326 TTTTTTTGTT
*
14031336 TTTTTATAAGTTTTTTATA
1 TTTTTATAAGTTTTATATA
* *
14031355 TTTTATAATAAATTATATATA
1 TTTT-T-ATAAGTTTTATATA
*
14031376 TTTTAATAA-TTTTATA-A
1 TTTTTATAAGTTTTATATA
14031393 TTTTTTATAAAGTTT
1 -TTTTTAT-AAGTTT
14031408 AAATAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 10 0.24
20 4 0.10
21 15 0.36
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAAGTTTTATATA
Found at i:14033379 original size:21 final size:22
Alignment explanation
Indices: 14033339--14033379 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14033329 TTTATTCCAT
14033339 TTTTCAGCTTAATCTAATTTCA
1 TTTTCAGCTTAATCTAATTTCA
*
14033361 TTTTCAGTTTAAT-TAATTT
1 TTTTCAGCTTAATCTAATTT
14033380 ATTCGATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTCAGCTTAATCTAATTTCA
Found at i:14033545 original size:18 final size:18
Alignment explanation
Indices: 14033522--14033558 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14033512 ATAGCTCAAA
*
14033522 CCCATTCAAATTTAAAAC
1 CCCATTAAAATTTAAAAC
14033540 CCCATTAAAATTTAAAAC
1 CCCATTAAAATTTAAAAC
14033558 C
1 C
14033559 TCATCCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (18 bp):
CCCATTAAAATTTAAAAC
Found at i:14037246 original size:25 final size:26
Alignment explanation
Indices: 14037212--14037319 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
14037202 ACATGAATTC
14037212 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
14037237 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14037263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
14037289 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
14037314 TTATCA
1 TTATCA
14037320 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 31 0.38
26 50 0.62
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14037272 original size:51 final size:51
Alignment explanation
Indices: 14037212--14037319 Score: 191
Period size: 51 Copynumber: 2.1 Consensus size: 51
14037202 ACATGAATTC
14037212 TTATCATGAAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAA-CCA
*
14037263 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCA
14037314 TTATCA
1 TTATCA
14037320 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 31 0.56
52 24 0.44
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCA
Found at i:14037727 original size:22 final size:22
Alignment explanation
Indices: 14037684--14037727 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14037674 ATTCACTACT
* **
14037684 TTTGTGAATGTGTGACCTTGAA
1 TTTGTGAATATGTGACAGTGAA
*
14037706 TTTGTGAATATGTGAGAGTGAA
1 TTTGTGAATATGTGACAGTGAA
14037728 GAGCAATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.39
Consensus pattern (22 bp):
TTTGTGAATATGTGACAGTGAA
Found at i:14041654 original size:21 final size:20
Alignment explanation
Indices: 14041617--14041659 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
14041607 AAATTAAAAA
* *
14041617 TATAGTTATAAATAATATAT
1 TATAATTATAAAAAATATAT
*
14041637 TATAATTATTAAAAA-ATAT
1 TATAATTATAAAAAATATAT
14041656 TATA
1 TATA
14041660 TGATTGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATAATTATAAAAAATATAT
Found at i:14048857 original size:28 final size:28
Alignment explanation
Indices: 14048825--14048881 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
14048815 CATTCAAGAG
* *
14048825 AAAATTTCTACAAGAAGCTTAAGATGGA
1 AAAATTTCTACAAGAAGCTCAAAATGGA
*
14048853 AAAATTTCTTCAAGAAGCTCAAAATGGA
1 AAAATTTCTACAAGAAGCTCAAAATGGA
14048881 A
1 A
14048882 GTAAAATATC
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:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (28 bp):
AAAATTTCTACAAGAAGCTCAAAATGGA
Found at i:14050379 original size:22 final size:22
Alignment explanation
Indices: 14050326--14050394 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
14050316 AATATAAATC
*
14050326 TAAAAACTAACTAAGAATAATTAA
1 TAAAAA-TAAATAA-AATAATTAA
*
14050350 TAAGAATAAA-AGAAATAATTAA
1 TAAAAATAAATA-AAATAATTAA
*
14050372 -AGAAAATAAATAAAATAACTAA
1 TA-AAAATAAATAAAATAATTAA
14050394 T
1 T
14050395 TTAATAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.03
22 26 0.70
23 5 0.14
24 5 0.14
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
TAAAAATAAATAAAATAATTAA
Found at i:14051485 original size:3 final size:3
Alignment explanation
Indices: 14051477--14051650 Score: 230
Period size: 3 Copynumber: 58.3 Consensus size: 3
14051467 ATAAATAAGA
* * * * *
14051477 AAT AAT AAT -AT AAT AAA AAT AAC AAC AAT TAT ACT AAT AACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
14051521 CAT AAT -AT AA- ACAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
14051566 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14051614 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14051651 GTAGTAGTAG
Statistics
Matches: 153, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
2 6 0.04
3 143 0.93
4 3 0.02
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14056154 original size:2 final size:2
Alignment explanation
Indices: 14056147--14056186 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14056137 GTCAAAATGA
14056147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14056187 GTATTGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14058885 original size:19 final size:19
Alignment explanation
Indices: 14058861--14058916 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 19
14058851 ATTCAATTCA
14058861 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
14058880 ATTC-AAT-AT-ATATATAT
1 ATTCAAATAATCA-ATATAT
*
14058897 ATATCAATTCAATCAATATA
1 AT-TCAAAT-AATCAATATA
14058917 AATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
16 1 0.03
17 10 0.33
18 5 0.17
19 6 0.20
21 7 0.23
22 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:14060076 original size:4 final size:4
Alignment explanation
Indices: 14060069--14060098 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
14060059 AATTAATAGT
14060069 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
14060099 AGCATGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:14060166 original size:30 final size:30
Alignment explanation
Indices: 14060130--14060186 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
14060120 ACATGTATGT
14060130 ATTATGTAATACTATATCATATACTATTAC
1 ATTATGTAATACTATATCATATACTATTAC
14060160 ATTATGTAATACTATATCATATACTAT
1 ATTATGTAATACTATATCATATACTAT
14060187 GATAGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (30 bp):
ATTATGTAATACTATATCATATACTATTAC
Found at i:14061274 original size:2 final size:2
Alignment explanation
Indices: 14061269--14061305 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14061259 ATTAATGGTT
14061269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14061306 GCATTAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14063513 original size:46 final size:46
Alignment explanation
Indices: 14063284--14063513 Score: 388
Period size: 46 Copynumber: 5.0 Consensus size: 46
14063274 TTTCTGTCAT
** * * *
14063284 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** *
14063330 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14063376 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14063422 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14063468 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14063514 AGAGCACACT
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:14065556 original size:16 final size:16
Alignment explanation
Indices: 14065537--14065575 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14065527 AATTTTTCCC
*
14065537 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
14065553 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
14065569 TCTTTCC
1 TTTTTCC
14065576 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:14065646 original size:2 final size:2
Alignment explanation
Indices: 14065641--14065677 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14065631 TCTTTTACTT
14065641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14065678 ATAACTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14071748 original size:90 final size:92
Alignment explanation
Indices: 14071616--14071866 Score: 256
Period size: 94 Copynumber: 2.7 Consensus size: 92
14071606 CCCCAAATTA
* * * * * *
14071616 TCTGGTAGCTCTTATTTGCAATTATGTTATGCATTCACAACCATCTGA-GACTGTATTAACTTGC
1 TCTGGTAGCTCTTATCTGCAAATACGTTATGCATTCACAACCATCTGACAACT-TATTAACCTAC
*
14071680 AACATTGGTGG-C-TCATCCACCCATTT
65 AACATTGGTGGTCATCATCCACCCATAT
* *
14071706 TCTGGTAGCTCTTATCTGCAAATACGTTGTGTATTCACAACCATCTGACAACTTATTAACCTACA
1 TCTGGTAGCTCTTATCTGCAAATACGTTATGCATTCACAACCATCTGACAACTTATTAACCTACA
*
14071771 ACATTGGTGGTTCATTCATCCATCCATAT
66 ACATTGGTGG-TCA-TCATCCACCCATAT
* * * ** * * * * * * *
14071800 TCTGGCAGCTCTCATCTGTAAATATTTTGTACACTCACAACTATCTGACAGCATATTAACCTGCA
1 TCTGGTAGCTCTTATCTGCAAATACGTTATGCATTCACAACCATCTGACAACTTATTAACCTACA
14071865 AC
66 AC
14071867 TTTTGTAGTT
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
90 63 0.47
91 3 0.02
92 1 0.01
94 67 0.50
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (92 bp):
TCTGGTAGCTCTTATCTGCAAATACGTTATGCATTCACAACCATCTGACAACTTATTAACCTACA
ACATTGGTGGTCATCATCCACCCATAT
Found at i:14073172 original size:33 final size:33
Alignment explanation
Indices: 14073124--14073219 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 33
14073114 ATTAATAACT
*
14073124 GTCTGGTCCTAAGCCCTATTCAGTATCAGTACA
1 GTCTGGGCCTAAGCCCTATTCAGTATCAGTACA
* *
14073157 GTCTGGGCCTTAGCCCTATACA--AT-AG--CA
1 GTCTGGGCCTAAGCCCTATTCAGTATCAGTACA
* *
14073185 GTGTGGGCCTAAGCCCAATGT-AGTATCAGTACA
1 GTCTGGGCCTAAGCCCTAT-TCAGTATCAGTACA
14073218 GT
1 GT
14073220 GTAATGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
28 19 0.38
30 4 0.08
31 4 0.08
33 23 0.46
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (33 bp):
GTCTGGGCCTAAGCCCTATTCAGTATCAGTACA
Found at i:14073423 original size:27 final size:27
Alignment explanation
Indices: 14073364--14073428 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
14073354 ATCATAGCTG
* *
14073364 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * *
14073391 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
*
14073418 CTAGT-ACAGTA
1 CCAGTAACAGTA
14073429 CTTCTTTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:14073683 original size:27 final size:27
Alignment explanation
Indices: 14073618--14073683 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
14073608 GGGCATAATC
* * *
14073618 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCTTACAGGGATATTACG
14073645 GTCATTTTACCTTACAGGGATATTACG
1 GTCATTTTACCTTACAGGGATATTACG
14073672 GTCATTTTACCT
1 GTCATTTTACCT
14073684 ATTTTGGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGATATTACG
Found at i:14079953 original size:126 final size:126
Alignment explanation
Indices: 14079745--14080308 Score: 957
Period size: 126 Copynumber: 4.5 Consensus size: 126
14079735 CCCTGGGGGA
* ** *
14079745 GCACTATCAGCAAAATTACTGAAAAAAGCTTCTACGTGGATGCTCTTTTGCTATAGTAGTATCTA
1 GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGTATCTA
*
14079810 AAAAAATTATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
66 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
* * * *
14079871 GCACTATTAGTAAAATTACTGAAAAAAGCTCCCACGTGGACCCTCTTTTGCTACAGTAGTATCTG
1 GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGTATCTA
14079936 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
66 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
* *
14079997 GCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTATAGTAGTATCTA
1 GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGTATCTA
*
14080062 AAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
66 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
* * * * *
14080123 GCACTATTAGTAAAACTACTGAAAAAAGCTCCCACGTGGACCCTCTTTTGCTACAGTAGTATCTG
1 GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGTATCTA
14080188 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
66 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
* *
14080249 GCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACACTCTTTTGCTACAGTAGT
1 GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGT
14080309 TACTGTTTGG
Statistics
Matches: 408, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 408 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (126 bp):
GCACTATCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACCCTCTTTTGCTACAGTAGTATCTA
AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCAGGAT
Found at i:14083306 original size:9 final size:9
Alignment explanation
Indices: 14083283--14083312 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14083273 ATTTATATTT
14083283 TATTAAAAA
1 TATTAAAAA
14083292 TA-TAAAAA
1 TATTAAAAA
14083300 TATTAAAAA
1 TATTAAAAA
14083309 TATT
1 TATT
14083313 GCCTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:14083955 original size:30 final size:30
Alignment explanation
Indices: 14083919--14083984 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
14083909 GTTGGAGTGT
*
14083919 TGGGCCCGGTGATTATGTGAGCGTTGTTGA
1 TGGGCCCGGTGATTATGTGAGCGCTGTTGA
* * *
14083949 TGGGCCCGGTGATTGTGTGGGTGCTGTTGA
1 TGGGCCCGGTGATTATGTGAGCGCTGTTGA
14083979 TGGGCC
1 TGGGCC
14083985 TGTATCGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.09, C:0.15, G:0.44, T:0.32
Consensus pattern (30 bp):
TGGGCCCGGTGATTATGTGAGCGCTGTTGA
Found at i:14084493 original size:7 final size:7
Alignment explanation
Indices: 14084483--14084518 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
14084473 TTATATACAT
14084483 AATACTA
1 AATACTA
14084490 AATACTA
1 AATACTA
14084497 AATACTA
1 AATACTA
*
14084504 AATACGA
1 AATACTA
14084511 AATGACTA
1 AAT-ACTA
14084519 TTTTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:14085858 original size:20 final size:20
Alignment explanation
Indices: 14085833--14085872 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14085823 TAATTTTAGG
14085833 ATTTATTTTCATTTATCTTT
1 ATTTATTTTCATTTATCTTT
*
14085853 ATTTATTTTTATTTATCTTT
1 ATTTATTTTCATTTATCTTT
14085873 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTATTTTCATTTATCTTT
Found at i:14089367 original size:17 final size:17
Alignment explanation
Indices: 14089345--14089418 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
14089335 GGCAACCCAA
*
14089345 TTTTTATTTCTCTTTAT
1 TTTTTATTTCTATTTAT
*
14089362 TTTTTATTTTTATTTA-
1 TTTTTATTTCTATTTAT
*
14089378 -TTTTATTTTTA-TTAT
1 TTTTTATTTCTATTTAT
*
14089393 TTTATT-TTTAATATTTAT
1 TTT-TTATTT-CTATTTAT
14089411 TATTTTAT
1 T-TTTTAT
14089419 CTTAATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.06
15 11 0.23
16 5 0.11
17 18 0.38
18 7 0.15
19 3 0.06
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTTCTATTTAT
Done.