Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 123 of 333
Found at i:39733153 original size:9 final size:9
Alignment explanation
Indices: 39733135--39733171 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39733125 TATTGTTTGA
*
39733135 TATTCAAAT
1 TATTCGAAT
39733144 TATTCGAAT
1 TATTCGAAT
*
39733153 TATTCGAGT
1 TATTCGAAT
39733162 TATTCGAAT
1 TATTCGAAT
39733171 T
1 T
39733172 TAAAAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39733375 original size:14 final size:15
Alignment explanation
Indices: 39733357--39733391 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
39733347 AAAACAACAG
*
39733357 TAAAAATAATAGCAA
1 TAAAAAAAATAGCAA
39733372 -AAAAAAAATAGCAA
1 TAAAAAAAATAGCAA
39733386 TAAAAA
1 TAAAAA
39733392 CAACACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (15 bp):
TAAAAAAAATAGCAA
Found at i:39734732 original size:23 final size:23
Alignment explanation
Indices: 39734679--39734735 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
39734669 ATAGGGTCTG
*
39734679 TTTATGCATGTTATATTCAATGC
1 TTTATGCGTGTTATATTCAATGC
* * * *
39734702 TTTGTGCGTGTTATATTTAGTGT
1 TTTATGCGTGTTATATTCAATGC
39734725 TTTATGCGTGT
1 TTTATGCGTGT
39734736 GATACTTGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (23 bp):
TTTATGCGTGTTATATTCAATGC
Found at i:39739303 original size:47 final size:46
Alignment explanation
Indices: 39739127--39739304 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
39739117 CACATTATGA
*
39739127 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGA-
1 GAGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGAC-TCGAGAT-AT
* * * * **
39739175 GTGCTAGTGTAAGACATGTCTAGGATAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGACATGTCTAGGACATGGCATC-GACTCGAGATAT
* * * *
39739221 AAGCAAGGGTAAGACATGTCTAGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACTCGAGATAT
*
39739267 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGAC
39739305 ACCTTACCCC
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
46 53 0.50
47 42 0.39
48 12 0.11
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACTCGAGATAT
Found at i:39741922 original size:40 final size:40
Alignment explanation
Indices: 39741822--39741993 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
39741812 GCTCCTCGTT
* * *
39741822 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
39741862 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39741901 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39741941 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
39741981 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39741994 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39742006 original size:80 final size:79
Alignment explanation
Indices: 39741822--39742046 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 79
39741812 GCTCCTCGTT
* * *
39741822 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
39741887 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
39741901 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
39741966 AATTT-GTATCTCGCA
65 -ATTTAATAACTCGCA
* * * * * * * *
39741981 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTATCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACATAACCCG
39742045 GA
64 GA
39742047 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
79 39 0.33
80 73 0.61
81 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:39749112 original size:39 final size:40
Alignment explanation
Indices: 39749067--39749238 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
39749057 GCTCCTCGTT
* * *
39749067 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
39749107 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39749146 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39749186 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
39749226 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39749239 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39749167 original size:40 final size:39
Alignment explanation
Indices: 39749069--39749291 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
39749059 TCCTCGTTCA
* * * *
39749069 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
39749108 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
39749147 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
39749187 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
39749227 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
39749268 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39749292 CAGCATTCAG
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:39749251 original size:80 final size:79
Alignment explanation
Indices: 39749067--39749291 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
39749057 GCTCCTCGTT
* * * * *
39749067 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
39749131 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
39749146 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
39749211 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
39749226 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
39749290 GA
63 GA
39749292 CAGCATTCAG
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:39749300 original size:41 final size:41
Alignment explanation
Indices: 39749223--39749300 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39749213 TTTGTATCTC
* * *
39749223 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39749264 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39749301 GTTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39752483 original size:13 final size:13
Alignment explanation
Indices: 39752465--39752489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39752455 TTCCTAAGCA
39752465 TCACTTGGTAGCG
1 TCACTTGGTAGCG
39752478 TCACTTGGTAGC
1 TCACTTGGTAGC
39752490 CAGGTAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (13 bp):
TCACTTGGTAGCG
Found at i:39758150 original size:30 final size:30
Alignment explanation
Indices: 39758114--39758175 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
39758104 CTTAACAAGA
*
39758114 AAATGCCTTTAGAATAATAACAAAATTAAC
1 AAATGCCTTTAAAATAATAACAAAATTAAC
39758144 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTTTAAAATAATAACAAAATTAAC
39758174 AA
1 AA
39758176 TAAAATAAGT
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:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (30 bp):
AAATGCCTTTAAAATAATAACAAAATTAAC
Found at i:39761219 original size:17 final size:19
Alignment explanation
Indices: 39761186--39761223 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
39761176 ATTATTTGGA
39761186 TATTGTATAACTCTTGTTT
1 TATTGTATAACTCTTGTTT
39761205 TATTGT-TAA-TCTTGTTT
1 TATTGTATAACTCTTGTTT
39761222 TA
1 TA
39761224 GAGGTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 3 0.16
19 6 0.32
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
TATTGTATAACTCTTGTTT
Found at i:39767015 original size:49 final size:50
Alignment explanation
Indices: 39766946--39767191 Score: 264
Period size: 49 Copynumber: 4.9 Consensus size: 50
39766936 ATCTATTGTG
* * *
39766946 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
39766996 -GGT-AGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCA-CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * * ** * * * **
39767046 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
39767096 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
39767146 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
39767192 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 80 0.49
50 44 0.27
51 36 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:39767135 original size:101 final size:98
Alignment explanation
Indices: 39766949--39767178 Score: 273
Period size: 100 Copynumber: 2.3 Consensus size: 98
39766939 TATTGTGAGG
* ** * * *
39766949 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATTATTGGTAGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTACCAGATGATTGGTAGCATGTGTAGTACT
*
39767014 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGTGTACCCGATAA-TT-GA
* * *
39767049 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTATCAGATGGTTAGGTCA-CGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTACCAGATGATT-GGT-AGCATGTGTAGTA
* ** *
39767113 CTAAGTGTAGGCTACTACGTGTACTGGATAATTGG
64 CTAAGTGCAGGCTACTACGTGTACCCGATAATTGA
* *
39767148 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
39767179 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.27
100 41 0.37
101 40 0.36
102 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTACCAGATGATTGGTAGCATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCCGATAATTGA
Found at i:39774623 original size:50 final size:49
Alignment explanation
Indices: 39774456--39774700 Score: 294
Period size: 49 Copynumber: 4.9 Consensus size: 49
39774446 TCTATTGTGA
* * *
39774456 GGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
39774505 GGTCGCATGTGTAGTACAAAGTGCAGGCTACTATGCGTACCCA-ATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT
* * * **
39774555 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
39774605 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
39774655 GGTCGCGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39774701 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 78 0.48
50 52 0.32
51 34 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:39776091 original size:12 final size:12
Alignment explanation
Indices: 39776060--39776101 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
39776050 TCGGTGAGTT
39776060 ACACGGG-TGAGG
1 ACACGGGCTGA-G
*
39776072 ACATGGGCTGAG
1 ACACGGGCTGAG
*
39776084 ACACGGGCTAAG
1 ACACGGGCTGAG
39776096 ACACGG
1 ACACGG
39776102 TCGTGTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 23 0.88
13 3 0.12
ACGTcount: A:0.29, C:0.21, G:0.40, T:0.10
Consensus pattern (12 bp):
ACACGGGCTGAG
Found at i:39777155 original size:23 final size:26
Alignment explanation
Indices: 39777127--39777180 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
39777117 CACACGTTTA
39777127 TAATTTTGAAAAAA-A-A-AGATTTT
1 TAATTTTGAAAAAATAGATAGATTTT
*
39777150 TAATTTTTTAAAAAATAGATAGATTTT
1 TAA-TTTTGAAAAAATAGATAGATTTT
39777177 TAAT
1 TAAT
39777181 ATTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 10 0.38
25 1 0.04
26 2 0.08
27 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TAATTTTGAAAAAATAGATAGATTTT
Found at i:39782004 original size:16 final size:16
Alignment explanation
Indices: 39781983--39782028 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
39781973 AATTGGGTTG
39781983 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
39781999 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
39782015 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
39782029 AAATAATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:39785358 original size:48 final size:46
Alignment explanation
Indices: 39785209--39785391 Score: 162
Period size: 48 Copynumber: 4.0 Consensus size: 46
39785199 TAGGGTTATG
* *
39785209 TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGGATCGA
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
** * * *
39785255 TACGTAATATCATGTAAGACCATAG-CTAGG-C-T---ATCGGAATCGA
1 TACG--ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGA
**
39785298 TGTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
1 --TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* *
39785346 CCTACGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 --TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
39785392 CTACTATGTG
Statistics
Matches: 107, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 27 0.25
44 1 0.01
45 3 0.03
46 5 0.05
47 1 0.01
48 68 0.64
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (46 bp):
TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
Found at i:39786739 original size:18 final size:18
Alignment explanation
Indices: 39786716--39786766 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
39786706 GTGTCCCAAG
39786716 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
*
39786734 CCACACGGGCATGTGTGA
1 CCACACGGGCGTGTGTGA
39786752 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
39786767 ACCCTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.37, T:0.16
Consensus pattern (18 bp):
CCACACGGGCGTGTGTGA
Found at i:39787444 original size:29 final size:29
Alignment explanation
Indices: 39787402--39787563 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
39787392 AGTCATCACC
* * *
39787402 ATCCATTTTCATAATCGATAGTTGAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
* *
39787431 ATCCCTTTTCATAATCGACAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
* *
39787460 ATCCCCTTTCCATATTCGATAGCCGAAGCT
1 AT-CCCTTTTCATATTCGATAGTCGAAGCT
*
39787490 ATCCCCTTTTCATATTCGATACTCGAAGCT
1 AT-CCCTTTTCATATTCGATAGTCGAAGCT
* * *
39787520 ATCCCTTTTCATATTTGATAGCCTAAGCT
1 ATCCCTTTTCATATTCGATAGTCGAAGCT
39787549 ATCCCTTTTCATATT
1 ATCCCTTTTCATATT
39787564 ACATAGCTTG
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 66 0.56
30 52 0.44
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGTCGAAGCT
Found at i:39787526 original size:59 final size:58
Alignment explanation
Indices: 39787402--39787563 Score: 216
Period size: 59 Copynumber: 2.8 Consensus size: 58
39787392 AGTCATCACC
* * ** * *
39787402 ATCCATTTTCATAATCGATAGTTGAAGCTATCCCTTTTCATAATCGACAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGACACTCGAAGCT
* *
39787460 ATCCCCTTTCCATATTCGATAGCCGAAGCTATCCCCTTTTCATATTCGATACTCGAAGCT
1 AT-CCCTTTTCATATTCGATAGCCGAAGCTAT-CCCTTTTCATATTCGACACTCGAAGCT
* *
39787520 ATCCCTTTTCATATTTGATAGCCTAAGCTATCCCTTTTCATATT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATT
39787564 ACATAGCTTG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
58 15 0.16
59 50 0.55
60 26 0.29
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCGACACTCGAAGCT
Found at i:39787765 original size:23 final size:22
Alignment explanation
Indices: 39787733--39787776 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
39787723 AACCAATCCA
39787733 ATTCAACATATTT-TCAAGATAG
1 ATTCAACATATTTAT-AAGATAG
39787755 ATTCATACATATTTATAAGATA
1 ATTCA-ACATATTTATAAGATA
39787777 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTCAACATATTTATAAGATAG
Found at i:39794694 original size:40 final size:40
Alignment explanation
Indices: 39794599--39794816 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
39794589 TGGATGATAA
* * *
39794599 CCGGGATAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
39794640 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39794680 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39794720 CCGGGCTAAGTCCCGAAGGCAATGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39794760 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39794799 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39794817 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.10
39 14 0.09
40 102 0.65
41 22 0.14
42 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39802648 original size:40 final size:40
Alignment explanation
Indices: 39802548--39802765 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
39802538 TGGATGATAA
*
39802548 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
39802589 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39802629 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39802669 CCGGGCTAAGTCCCGAAGGCAATGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39802709 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39802748 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39802766 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 15 0.10
39 14 0.09
40 99 0.64
41 23 0.15
42 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39805551 original size:27 final size:28
Alignment explanation
Indices: 39805521--39805637 Score: 118
Period size: 27 Copynumber: 4.3 Consensus size: 28
39805511 TTTAGTTTAC
39805521 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39805548 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39805575 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
*
39805602 TAAAATTACC-AAAGTACCCTT-GATTTA
1 TAAAATTACCGAAA-TACCCTTAGATTTG
*
39805629 CAAAATTAC
1 TAAAATTAC
39805638 TATTTTACCC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
26 7 0.09
27 66 0.86
28 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:39805603 original size:54 final size:54
Alignment explanation
Indices: 39805516--39805638 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
39805506 AATACTTTAG
* * *
39805516 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAA-TACCCTCGA
1 TTTA-TAAAATTACTGAAATACCCTTAGCTTGTAAAAATAC-CAAAGTACCCTCGA
* * * *
39805571 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCTTGA
1 TTTATAAAATTACTGAAATACCCTTAG-CTTGTAAAAATACCAAAGTACCCTCGA
*
39805625 TTTACAAAATTACT
1 TTTATAAAATTACT
39805639 ATTTTACCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 8 0.14
54 46 0.81
55 3 0.05
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (54 bp):
TTTATAAAATTACTGAAATACCCTTAGCTTGTAAAAATACCAAAGTACCCTCGA
Found at i:39805646 original size:27 final size:27
Alignment explanation
Indices: 39805616--39805792 Score: 147
Period size: 27 Copynumber: 6.9 Consensus size: 27
39805606 ATTACCAAAG
* *
39805616 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
39805643 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
39805670 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
39805697 TACCCTCGATTT-----A-TA--GATT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39805716 TACCCTCGATTTATAGAATCACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
39805743 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
39805770 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
39805793 AAAATACCCT
Statistics
Matches: 123, Mismatches: 17, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.12
21 2 0.02
22 1 0.01
24 1 0.01
25 1 0.01
26 1 0.01
27 101 0.82
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:39805663 original size:54 final size:54
Alignment explanation
Indices: 39805605--39805709 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
39805595 CGACTTGTAA
* *
39805605 AATTACCAAAGTACCCTTGATTTACAAAATTACTATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCTCGACTTACAAAATTACTATTTTACCCCCGATTTACAT
* **** * * *
39805659 AATTATCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTA
1 AATTACCAAAGTACCCTCGACTTACAAAATTACTATTTTACCCCCGATTTA
39805710 TAGATTTACC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGACTTACAAAATTACTATTTTACCCCCGATTTACAT
Found at i:39805719 original size:19 final size:19
Alignment explanation
Indices: 39805695--39805732 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39805685 GAATTACTGT
39805695 TTTACCCTCGATTTATAGA
1 TTTACCCTCGATTTATAGA
39805714 TTTACCCTCGATTTATAGA
1 TTTACCCTCGATTTATAGA
39805733 ATCACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTACCCTCGATTTATAGA
Found at i:39805721 original size:46 final size:46
Alignment explanation
Indices: 39805668--39805764 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
39805658 TAATTATCGT
* *
39805668 TTTACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTATAGA
1 TTTACCCTCGACTTACAGAATCACTATTTTACCCTCGATTTATAGA
* * *
39805714 TTTACCCTCGATTTATAGAATCACTATTTTACCCTTGATTTATAGA
1 TTTACCCTCGACTTACAGAATCACTATTTTACCCTCGATTTATAGA
*
39805760 ATTAC
1 TTTAC
39805765 TATTTTACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (46 bp):
TTTACCCTCGACTTACAGAATCACTATTTTACCCTCGATTTATAGA
Found at i:39805800 original size:27 final size:27
Alignment explanation
Indices: 39805716--39805992 Score: 150
Period size: 27 Copynumber: 10.2 Consensus size: 27
39805706 TTTATAGATT
* * ***
39805716 TACCCTCGATTTATAGAATCACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * ***
39805743 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
39805770 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
39805797 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
39805824 TCCCCTAG-TTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * **
39805850 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
39805877 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
39805904 TACCC-CTAATTTATAAAGTTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* *
39805931 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAT-AAAATTACTA-AAA
* * *
39805960 TACCACT-GGTTTACAAAATTACTGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
39805987 TACCCT
1 TACCCT
39805993 TGGTTTGTAG
Statistics
Matches: 207, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.14
27 153 0.74
28 8 0.04
29 16 0.08
30 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:39805801 original size:100 final size:100
Alignment explanation
Indices: 39805616--39805802 Score: 223
Period size: 100 Copynumber: 1.9 Consensus size: 100
39805606 ATTACCAAAG
* * * *
39805616 TACCCTTGATTTACAAAATTACTATTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGACT
1 TACCCTCGATTTACAAAATCACTATTTTACCCCCGATTTACAGAATTATCATTTTACCCTCGACT
* ****
39805681 TACAGAATTACTGTTTTACCCTCGATTTATAGATT
66 TACAAAATTACTAAAATACCCTCGATTTATAGATT
* * ** * *
39805716 TACCCTCGATTTATAGAATCACTATTTTACCCTTGATTTATAGAATTA-CTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATCACTATTTTACCCCCGATTTACAGAATTATC-ATTTTACCCTCGAC
39805780 TTACAAAATTACTAAAATACCCT
65 TTACAAAATTACTAAAATACCCT
39805803 TGGTTTGTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 1 0.01
100 70 0.99
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (100 bp):
TACCCTCGATTTACAAAATCACTATTTTACCCCCGATTTACAGAATTATCATTTTACCCTCGACT
TACAAAATTACTAAAATACCCTCGATTTATAGATT
Found at i:39805851 original size:53 final size:54
Alignment explanation
Indices: 39805770--39805908 Score: 199
Period size: 53 Copynumber: 2.6 Consensus size: 54
39805760 ATTACTATTT
* ** *
39805770 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
39805824 TCCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
39805877 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
39805909 CTAATTTATA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 45 0.61
54 29 0.39
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:39805996 original size:27 final size:27
Alignment explanation
Indices: 39805784--39806021 Score: 196
Period size: 27 Copynumber: 8.8 Consensus size: 27
39805774 CTCGATTTAC
*
39805784 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
39805811 AAAATTACCAAAAT-CCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
39805837 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * ***
39805864 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* ** *
39805891 AAAATTACCAAAATACCCCTAATTTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
39805918 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
* **
39805946 AAAAATTA-TAGAAATACCAC-TGGTTTAC
1 -AAAATTACCA-AAATACC-CTTGGTTTGT
**
39805974 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
39806001 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
39806022 TAGGATGAAA
Statistics
Matches: 171, Mismatches: 33, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
26 27 0.16
27 118 0.69
28 8 0.05
29 17 0.10
30 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:39806082 original size:27 final size:27
Alignment explanation
Indices: 39806052--39806143 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
39806042 ACCCCTATTA
*
39806052 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
39806079 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
39806106 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
39806133 GGTAAAATGAC
1 GGTAAAATGAC
39806144 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:39806996 original size:37 final size:37
Alignment explanation
Indices: 39806946--39807016 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
39806936 GAGGAAGTGC
39806946 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCATA
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCATA
**
39806983 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGC
39807017 TTATGCCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (37 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCATA
Found at i:39807019 original size:26 final size:26
Alignment explanation
Indices: 39806983--39807106 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
39806973 AAAGGGCATA
*
39806983 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
39807009 AAAAGGGCTTATGCCCCAATTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
39807035 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
39807061 AAAAGGGCTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
39807087 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
39807107 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.10
26 79 0.90
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:39807310 original size:42 final size:42
Alignment explanation
Indices: 39807251--39807339 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
39807241 TAGTCTCCCC
* * ** * * *
39807251 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGAGCTTGCATACATCCATTGACATTACATATAATATTG
39807293 AAATGAGCTTGCATACATCCATTGACATTACATATAATATTG
1 AAATGAGCTTGCATACATCCATTGACATTACATATAATATTG
39807335 AAATG
1 AAATG
39807340 GGCCTATGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (42 bp):
AAATGAGCTTGCATACATCCATTGACATTACATATAATATTG
Found at i:39807404 original size:30 final size:31
Alignment explanation
Indices: 39807366--39807439 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
39807356 CGTTTACAGT
39807366 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
*
39807397 AAA-GCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
*
39807427 AAAGGCTTCGGCC
1 AAAGGCTTTGGCC
39807440 TAGTAATCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 29 0.73
31 11 0.28
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGAAATGATTTATGA
Found at i:39812985 original size:28 final size:28
Alignment explanation
Indices: 39812945--39813000 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39812935 AAACATTAAA
39812945 ATTTCCTAACAAAATTTTAATACCACAT
1 ATTTCCTAACAAAATTTTAATACCACAT
39812973 ATTTCCTAACAAAATTTTAATACCACAT
1 ATTTCCTAACAAAATTTTAATACCACAT
39813001 CACTAACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTTCCTAACAAAATTTTAATACCACAT
Found at i:39815585 original size:47 final size:47
Alignment explanation
Indices: 39815532--39816012 Score: 743
Period size: 47 Copynumber: 10.2 Consensus size: 47
39815522 AATTCTAAAT
39815532 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
39815579 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
39815626 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
39815674 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATA
*
39815723 TGTGATAAGGCTTAATGGCCGATGTGAT-AATGTGAAAGTG--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
39815767 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
39815814 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
39815863 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
39815910 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
39815957 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
39816004 TGTGATAAG
1 TGTGATAAG
39816013 TCCCGAAGGG
Statistics
Matches: 400, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
44 31 0.08
45 12 0.03
46 3 0.01
47 220 0.55
48 55 0.14
49 79 0.20
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:39815750 original size:22 final size:22
Alignment explanation
Indices: 39815722--39815794 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
39815712 GTGTGTATAT
39815722 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
39815744 ATGTGATAATG-TGAAAGTGTAT
1 ATGTGATAAGGCTTAATG-GCCG
*
39815766 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
39815788 ATGTGAT
1 ATGTGAT
39815795 GAATGTGAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
21 4 0.11
22 29 0.81
23 3 0.08
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:39815825 original size:140 final size:141
Alignment explanation
Indices: 39815532--39815997 Score: 749
Period size: 140 Copynumber: 3.3 Consensus size: 141
39815522 AATTCTAAAT
*
39815532 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCTTAAT
*
39815595 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATG
66 GGCCGATGTGATGAATGTGAAAGTG--TATATGTG-ATAAGGCCTAATGGCCGATGTGATGAATG
39815660 TGAAAGTGTATATA
128 TGAAAGTGTATATA
39815674 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCTTAAT
39815739 GGCCGATGTGAT-AATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
66 GGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
39815803 AAGTGTATATG
131 AAGTGTATATA
* * *
39815814 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCTTAAT
*
39815879 GGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATAT--GTGATAAGGCCTAATGGCCGATGTGATGAATGT
39815944 GAAAGTGTATATA
129 GAAAGTGTATATA
* * * * * *
39815957 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39815998 CATAAATGTG
Statistics
Matches: 303, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
140 115 0.38
141 25 0.08
142 38 0.13
143 89 0.29
144 36 0.12
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (141 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCTTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATA
Found at i:39815901 original size:96 final size:94
Alignment explanation
Indices: 39815532--39816012 Score: 743
Period size: 96 Copynumber: 5.1 Consensus size: 94
39815522 AATTCTAAAT
39815532 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
39815597 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
*
39815626 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
39815691 GCCGATGTGATGAATGTGAAAGTGTGTATATA
65 GCCGATGTGATGAATGTGAAA--GTGTATATA
*
39815723 TGTGATAAGGCTTAATGGCCGATGTGAT-AATGTGAAAGTG--TATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
39815785 CCGATGTGATGAATGTGAAAGTGTATATG
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * *
39815814 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
39815879 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
39815910 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
39815975 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
39816004 TGTGATAAG
1 TGTGATAAG
39816013 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
91 33 0.09
92 12 0.03
93 42 0.12
94 55 0.15
95 92 0.26
96 109 0.31
97 13 0.04
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:39816186 original size:37 final size:37
Alignment explanation
Indices: 39816130--39816208 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39816120 TCGAGCTCTA
* * *
39816130 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39816167 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39816204 AAGAC
1 AAGAC
39816209 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39817976 original size:13 final size:13
Alignment explanation
Indices: 39817960--39817985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39817950 GGAATGATTT
39817960 TTTGAAAATTTTG
1 TTTGAAAATTTTG
39817973 TTTGAAAATTTTG
1 TTTGAAAATTTTG
39817986 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:39819206 original size:45 final size:44
Alignment explanation
Indices: 39819143--39819230 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 44
39819133 AAATATGTGA
39819143 CTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACAT
1 CTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACAT
*
39819187 CTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACA
1 CTGAACTCA-TGAGTTGTGGTCTGAGTTCATGATATATGTGACA
39819231 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 9 0.21
45 33 0.79
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (44 bp):
CTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACAT
Found at i:39831173 original size:22 final size:23
Alignment explanation
Indices: 39831144--39831220 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
39831134 CTGAGCTGAT
39831144 AAACGGTAAGCCCCGAAGAGCTG
1 AAACGGTAAGCCCCGAAGAGCTG
* * **
39831167 -AACGGTAAGCTCCGTAGATTTG
1 AAACGGTAAGCCCCGAAGAGCTG
* * *
39831189 AAACGATAAGCCCCGAAGACCTA
1 AAACGGTAAGCCCCGAAGAGCTG
39831212 AAACGGTAA
1 AAACGGTAA
39831221 ACTCATATGA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 18 0.43
23 24 0.57
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (23 bp):
AAACGGTAAGCCCCGAAGAGCTG
Found at i:39832592 original size:31 final size:31
Alignment explanation
Indices: 39832550--39832613 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
39832540 CCTTTTCATA
*
39832550 TTTCATTTTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
39832581 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
39832612 TT
1 TT
39832614 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:39832859 original size:24 final size:24
Alignment explanation
Indices: 39832807--39832972 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
39832797 ACTTTATCAT
*
39832807 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39832832 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
39832856 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
39832879 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
39832903 ATAACTGGGGCATAAGCCTTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39832927 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39832950 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39832973 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 43 0.34
24 72 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39832883 original size:47 final size:48
Alignment explanation
Indices: 39832806--39832971 Score: 223
Period size: 47 Copynumber: 3.5 Consensus size: 48
39832796 TACTTTATCA
* *
39832806 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCCTC-TTTAATAACTGGGGCATAAGCCCTTTT
*
39832855 TATAACTGGGGCATAAGCC-CTTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCTCTTTAATAACTGGGGCATAAGCCCTTTT
* * *
39832902 GATAACTGGGGCATAAGCCTTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCTCTTTAATAACTGGGGCATAAGCCCTTTT
*
39832949 AATAACTGGGGCATAAGCC-CTTT
1 TATAACTGGGGCATAAGCCTCTTT
39832972 TTCACTTCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 3 0.03
47 64 0.60
48 26 0.25
49 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCTCTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:39832907 original size:71 final size:71
Alignment explanation
Indices: 39832807--39832972 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
39832797 ACTTTATCAT
*
39832807 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTT-ATAACTGGGGCATA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAG-CCTTTTTGATAACTGGGGCATA
39832870 AGCCCTTTA
63 AGCCCTTTA
* * *
39832879 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCTTTTTGATAACTGGGGCATAAGC
39832944 CCTTTA
66 CCTTTA
39832950 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39832973 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
70 7 0.08
71 69 0.78
72 12 0.14
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCTTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:39833048 original size:20 final size:20
Alignment explanation
Indices: 39833023--39833061 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
39833013 TATGATTACA
39833023 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
39833043 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
39833062 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:39833067 original size:20 final size:20
Alignment explanation
Indices: 39833024--39833068 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
39833014 ATGATTACAT
**
39833024 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
39833044 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
39833064 CATGT
1 CATGT
39833069 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:39834343 original size:27 final size:27
Alignment explanation
Indices: 39834309--39834411 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 27
39834299 GGGCATATTC
* *
39834309 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACA
*
39834336 GTCATTTTACCCTACAAGGGCT-TTACA
1 GTCATTTTACCCTAC-AGGGGTATTACA
* * **
39834363 GTCACTTTACCCTAATAGGGGTATTTTA
1 GTCATTTTACCCT-ACAGGGGTATTACA
* * *
39834391 GTCATTTCATCCTACAAGGGT
1 GTCATTTTACCCTACAGGGGT
39834412 GTTTTGGTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 41 0.68
28 19 0.32
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:39834458 original size:27 final size:27
Alignment explanation
Indices: 39834428--39834657 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
39834418 GTAAATCAAC
* *
39834428 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
39834455 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
39834483 AAAGTCAAGGGTATTTCTA-TAACTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * ** *
39834511 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
39834538 AAATTGAGGGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
**
39834565 AAACCAAGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
39834592 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
39834619 AAACCAAAGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
39834646 AAATCAAGGGTA
1 AAACCAAGGGTA
39834658 AAATAGTAAT
Statistics
Matches: 161, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
27 131 0.81
28 14 0.09
29 16 0.10
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:39834654 original size:81 final size:80
Alignment explanation
Indices: 39834436--39834657 Score: 207
Period size: 81 Copynumber: 2.7 Consensus size: 80
39834426 ACAAACCAAA
** ** *
39834436 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTC
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTT-TAGTAATTTTT--AAA-TCAAGGGTATTTC
*
39834500 TATAACTTTGTAAATCAGG
62 TATAACTTTATAAATCAGG
*** * * ** * *
39834519 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTT-TGG
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTTAGTAATTT-TTAAATCAAGGGTATTTCT-A
*
39834583 TAATTTTATAAA-CTAGG
64 TAACTTTATAAATC-AGG
39834600 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTTAGTAATTTTGTAAATCAAGGGTA
1 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTTAGTAATTTT-TAAATCAAGGGTA
39834658 AAATAGTAAT
Statistics
Matches: 111, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
80 2 0.02
81 73 0.66
82 4 0.04
83 32 0.29
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAACCAAAGGTATTTTAGTAATTTTTAAATCAAGGGTATTTCTATA
ACTTTATAAATCAGG
Found at i:39834702 original size:46 final size:46
Alignment explanation
Indices: 39834645--39834734 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
39834635 AGTAATTTTG
* *
39834645 TAAATCAAGGGTAAAATAGTAATTCTGTAAGTTGAGGGTAAATCTA
1 TAAATCAAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAATCTA
* *
39834691 TAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAATC
1 TAAATCAAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAATC
39834735 AAGGGTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (46 bp):
TAAATCAAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAATCTA
Found at i:39834711 original size:27 final size:27
Alignment explanation
Indices: 39834681--39834732 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
39834671 GTAAGTTGAG
39834681 GGTAAATCTATAAATCGAGGGTAAAAC
1 GGTAAATCTATAAATCGAGGGTAAAAC
* * *
39834708 GGTAATTCTGTAAGTCGAGGGTAAA
1 GGTAAATCTATAAATCGAGGGTAAA
39834733 TCAAGGGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (27 bp):
GGTAAATCTATAAATCGAGGGTAAAAC
Found at i:39834758 original size:27 final size:27
Alignment explanation
Indices: 39834728--39834795 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
39834718 TAAGTCGAGG
*
39834728 GTAAATCAAGGGTAAAATGGTAATTAT
1 GTAAATCAGGGGTAAAATGGTAATTAT
* *
39834755 GTAAATCCGGGGTAAAATGGTAATTCT
1 GTAAATCAGGGGTAAAATGGTAATTAT
*
39834782 ATAAATCAGGGGTA
1 GTAAATCAGGGGTA
39834796 CTTTGGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (27 bp):
GTAAATCAGGGGTAAAATGGTAATTAT
Found at i:39834768 original size:38 final size:38
Alignment explanation
Indices: 39834691--39834770 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
39834681 GGTAAATCTA
* * *
39834691 TAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGG
1 TAAATCAAGGGTAAAACGGTAATTATGTAAATCGAGGG
*
39834729 TAAATCAAGGGTAAAATGGTAATTATGTAAATCCG-GGG
1 TAAATCAAGGGTAAAACGGTAATTATGTAAAT-CGAGGG
39834767 TAAA
1 TAAA
39834771 ATGGTAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.25
Consensus pattern (38 bp):
TAAATCAAGGGTAAAACGGTAATTATGTAAATCGAGGG
Found at i:39834863 original size:26 final size:27
Alignment explanation
Indices: 39834801--39834889 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
39834791 GGGTACTTTG
*
39834801 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
39834828 GTAATTTTACAAATCGAGGGT-TTTTA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
39834854 GTATTTTTACAAA-CTAAGCGTATTTCA
1 GTAATTTTACAAATCGAAG-GTATTTCA
39834881 GTAATTTTA
1 GTAATTTTA
39834890 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
25 3 0.06
26 18 0.35
27 31 0.60
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:39842669 original size:18 final size:18
Alignment explanation
Indices: 39842645--39842685 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
39842635 TATCTCATGT
*
39842645 ATCATATTATCCATGTAA
1 ATCATATAATCCATGTAA
* *
39842663 CTCATATAATTCATGTAA
1 ATCATATAATCCATGTAA
39842681 ATCAT
1 ATCAT
39842686 GTAACTCATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (18 bp):
ATCATATAATCCATGTAA
Found at i:39842694 original size:18 final size:18
Alignment explanation
Indices: 39842656--39842694 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
39842646 TCATATTATC
* *
39842656 CATGTAACTCATATAATT
1 CATGTAAATCATATAACT
*
39842674 CATGTAAATCATGTAACT
1 CATGTAAATCATATAACT
39842692 CAT
1 CAT
39842695 AATTCATGTA
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:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (18 bp):
CATGTAAATCATATAACT
Found at i:39842702 original size:25 final size:26
Alignment explanation
Indices: 39842656--39842706 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
39842646 TCATATTATC
39842656 CATGTAACTCATATAATTCATGTAAAT
1 CATGTAACTCA-ATAATTCATGTAAAT
39842683 CATGTAACTC-ATAATTCATGTAAA
1 CATGTAACTCAATAATTCATGTAAA
39842707 ACATATAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.58
27 10 0.42
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (26 bp):
CATGTAACTCAATAATTCATGTAAAT
Found at i:39842940 original size:23 final size:23
Alignment explanation
Indices: 39842887--39842967 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
39842877 CTGAGCTGAT
**
39842887 AAACGGTAAGCTCTAAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
*
39842910 -AACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
*
39842932 AAACGGTAAG-TCCTGAAGAGCTA
1 AAACGGTAAGCTCC-GAAGAGCTG
*
39842955 AAATGGTAAGCTC
1 AAACGGTAAGCTC
39842968 ATATGAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 22 0.45
23 25 0.51
24 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGCTG
Found at i:39842951 original size:45 final size:48
Alignment explanation
Indices: 39842864--39842967 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 48
39842854 GAGTCATGAT
* * *
39842864 CGGTAAGCTCCTTCTGAGCTGATAAACGGTAAGCTCTAAAGAGCT-GAA
1 CGGTAAGCTCCGTCAGAGCTGA-AAACGGTAAGCTCTAAAGAGCTAAAA
*
39842912 CGGTAAGCTCCGT-AGAGCTG-AAACGGTAAG-TCCTGAAGAGCTAAAA
1 CGGTAAGCTCCGTCAGAGCTGAAAACGGTAAGCT-CTAAAGAGCTAAAA
*
39842958 TGGTAAGCTC
1 CGGTAAGCTC
39842968 ATATGAACTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.02
45 19 0.39
46 11 0.22
47 6 0.12
48 12 0.24
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (48 bp):
CGGTAAGCTCCGTCAGAGCTGAAAACGGTAAGCTCTAAAGAGCTAAAA
Found at i:39845326 original size:33 final size:33
Alignment explanation
Indices: 39845289--39845354 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
39845279 AAATCGAGGA
39845289 AAAGCTAAGTGAAGGATTAGTTGTCAGTTTCGT
1 AAAGCTAAGTGAAGGATTAGTTGTCAGTTTCGT
39845322 AAAGCTAAGTGAAGGATTAGTTGTCAGTTTCGT
1 AAAGCTAAGTGAAGGATTAGTTGTCAGTTTCGT
39845355 TTTAAAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.33
Consensus pattern (33 bp):
AAAGCTAAGTGAAGGATTAGTTGTCAGTTTCGT
Found at i:39850145 original size:48 final size:49
Alignment explanation
Indices: 39850081--39850209 Score: 165
Period size: 48 Copynumber: 2.7 Consensus size: 49
39850071 TTGGCTTCAG
*
39850081 GCCATGATATTGGCACTTCGGGTGCGAGCTTCACA-GATTTAGCTTCGA
1 GCCATGATATTGGCACTTCGGGTGCGAGCTTCACATGAGTTAGCTTCGA
* * *
39850129 GCCATGATATTAGCACTTCGGGTGCGAG-TT-ATATTGAGTTGGCTTCGA
1 GCCATGATATTGGCACTTCGGGTGCGAGCTTCACA-TGAGTTAGCTTCGA
* *
39850177 GCCATGATATTGGCACTTAGTGTGCGAGACTTC
1 GCCATGATATTGGCACTTCGGGTGCGAG-CTTC
39850210 TGAGTATCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
46 2 0.03
47 2 0.03
48 63 0.91
50 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (49 bp):
GCCATGATATTGGCACTTCGGGTGCGAGCTTCACATGAGTTAGCTTCGA
Found at i:39856985 original size:13 final size:13
Alignment explanation
Indices: 39856967--39856991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39856957 TTAAACGATA
39856967 AAATTTTCACACG
1 AAATTTTCACACG
39856980 AAATTTTCACAC
1 AAATTTTCACAC
39856992 ATATCTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:39864444 original size:22 final size:22
Alignment explanation
Indices: 39864416--39864464 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
39864406 GTAACCGTCG
*
39864416 CCGGAATAAGAAAGGGGAGTCA
1 CCGGAATAAGAAAGAGGAGTCA
39864438 CCGGAATAAGAAAGAGGAGTCA
1 CCGGAATAAGAAAGAGGAGTCA
39864460 CCGGA
1 CCGGA
39864465 CAGACAGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.35, T:0.08
Consensus pattern (22 bp):
CCGGAATAAGAAAGAGGAGTCA
Found at i:39865415 original size:43 final size:42
Alignment explanation
Indices: 39865367--39865472 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
39865357 CAATGCTGAC
* ** **
39865367 GTCCCAGACGTGGTCTTACATGTAATTCAG-TATCGATGCCTCT
1 GTCCCAGACGTGGTCTTACACG-AAAACAGATA-CGATGCCGAT
* *
39865410 GTCCCATACAG-GGTCTTATACGAAAACAGATACGATGCCGAT
1 GTCCCAGAC-GTGGTCTTACACGAAAACAGATACGATGCCGAT
*
39865452 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACGTGGTCTTACAC
39865473 TTAAATTTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
42 30 0.60
43 19 0.38
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGAAAACAGATACGATGCCGAT
Found at i:39866720 original size:32 final size:32
Alignment explanation
Indices: 39866678--39866781 Score: 190
Period size: 32 Copynumber: 3.2 Consensus size: 32
39866668 CTTTCTATAT
* *
39866678 CATGGATTCATATAACATGTGCAAAACATTTC
1 CATGTATTCATATAACATGTACAAAACATTTC
39866710 CATGTATTCATATAACATGTACAAAACATTTC
1 CATGTATTCATATAACATGTACAAAACATTTC
39866742 CATGTATTCATATAACATGTACAAAACATTTC
1 CATGTATTCATATAACATGTACAAAACATTTC
39866774 CATGTATT
1 CATGTATT
39866782 TCAAAAATAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (32 bp):
CATGTATTCATATAACATGTACAAAACATTTC
Found at i:39867179 original size:25 final size:24
Alignment explanation
Indices: 39867081--39867219 Score: 95
Period size: 25 Copynumber: 5.6 Consensus size: 24
39867071 AACGGGTAGT
39867081 TCTGAAGAGCCAGTAATCAGGAAGC
1 TCTGAAGAGCCA-TAATCAGGAAGC
* *
39867106 TCCGAATAGCCATATATCAGGAAG-
1 TCTGAAGAGCCATA-ATCAGGAAGC
* *
39867130 T-TTAAGCGAGCCAT-ATCGGGAAGC
1 TCTGAA--GAGCCATAATCAGGAAGC
*
39867154 TCTGGAGAGCCATTAATCAGGAAGC
1 TCTGAAGAGCCA-TAATCAGGAAGC
** * *
39867179 TCACAAAGAGCCTTTAATCGGGAAGC
1 TC-TGAAGAGCC-ATAATCAGGAAGC
*
39867205 TCACGAAGAGCCATA
1 TC-TGAAGAGCCATA
39867220 TAGCAGGATG
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
23 16 0.18
24 5 0.06
25 40 0.45
26 28 0.31
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (24 bp):
TCTGAAGAGCCATAATCAGGAAGC
Found at i:39867195 original size:26 final size:26
Alignment explanation
Indices: 39867159--39867218 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
39867149 GAAGCTCTGG
39867159 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
39867185 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
39867211 AGAGCCAT
1 AGAGCCAT
39867219 ATAGCAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:39874359 original size:25 final size:24
Alignment explanation
Indices: 39874330--39874431 Score: 82
Period size: 25 Copynumber: 4.2 Consensus size: 24
39874320 AATAACGGGT
*
39874330 AGCTTTGAAGAGCCATTAATCAAGA
1 AGCTTTGAAGAGCCA-TAATCAGGA
* * *
39874355 AGCTTAGGATAGCCATATATCAGGA
1 AGCTTTGAAGAGCCATA-ATCAGGA
* *
39874380 AG-TTTAAAAGAGCCAT-ATCGGGA
1 AGCTTT-GAAGAGCCATAATCAGGA
* *
39874403 AGCTCTGGAGAGCCATTAATCAGGA
1 AGCTTTGAAGAGCCA-TAATCAGGA
39874428 AGCT
1 AGCT
39874432 CACAAAGAGC
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
23 15 0.25
24 7 0.12
25 37 0.63
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (24 bp):
AGCTTTGAAGAGCCATAATCAGGA
Found at i:39874432 original size:25 final size:25
Alignment explanation
Indices: 39874338--39874484 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 25
39874328 GTAGCTTTGA
*
39874338 AGAGCCATTAATCAAGAAGCT-TAGG
1 AGAGCCA-TAATCAGGAAGCTCTAGG
* * **
39874363 ATAGCCATATATCAGGAAG-TTTAAA
1 AGAGCCATA-ATCAGGAAGCTCTAGG
*
39874388 AGAGCCAT-ATCGGGAAGCTCT-GG
1 AGAGCCATAATCAGGAAGCTCTAGG
**
39874411 AGAGCCATTAATCAGGAAGCTC-ACAA
1 AGAGCCA-TAATCAGGAAGCTCTA-GG
* * *
39874437 AGAGCCTTTAATCAGAAAGCTC-ACGA
1 AGAGCC-ATAATCAGGAAGCTCTA-GG
*
39874463 AGAGCCATATATCAGGATGCTC
1 AGAGCCATA-ATCAGGAAGCTC
39874485 ATAAGAGCTG
Statistics
Matches: 95, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
23 15 0.16
24 6 0.06
25 36 0.38
26 38 0.40
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
AGAGCCATAATCAGGAAGCTCTAGG
Found at i:39874447 original size:26 final size:25
Alignment explanation
Indices: 39874411--39874485 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
39874401 GAAGCTCTGG
39874411 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCC-TTAATCAGGAAGCTCACAA
* *
39874437 AGAGCCTTTAATCAGAAAGCTCACGA
1 AGAGCC-TTAATCAGGAAGCTCACAA
* *
39874463 AGAGCCATATATCAGGATGCTCA
1 AGAGCCTTA-ATCAGGAAGCTCA
39874486 TAAGAGCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAGCCTTAATCAGGAAGCTCACAA
Found at i:39874477 original size:52 final size:48
Alignment explanation
Indices: 39874365--39874492 Score: 123
Period size: 52 Copynumber: 2.6 Consensus size: 48
39874355 AGCTTAGGAT
* * * * * *
39874365 AGCCATATATCAGGAAGTTTAAAAGAGCCATATCGGGAAGCTCTGGAG
1 AGCCATATATCAGGAAGCTCAAAAGAGCCATATCAGAAAGCTCCGAAG
*
39874413 AGCCAT-TAATCAGGAAGCTCACAAAGAGCCTTTAATCAGAAAGCTCACGAAG
1 AGCCATAT-ATCAGGAAGCTCA-AAAGAGCC-AT-ATCAGAAAGCTC-CGAAG
* *
39874465 AGCCATATATCAGGATGCTCATAAGAGC
1 AGCCATATATCAGGAAGCTCAAAAGAGC
39874493 TGTGGTGTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
47 1 0.02
48 17 0.26
49 8 0.12
50 1 0.02
51 16 0.25
52 21 0.32
53 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (48 bp):
AGCCATATATCAGGAAGCTCAAAAGAGCCATATCAGAAAGCTCCGAAG
Found at i:39881957 original size:24 final size:25
Alignment explanation
Indices: 39881926--39882012 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 25
39881916 TCCAAGCTAT
*
39881926 ATAA-CAGGAATCTCATAG-GAGCC-
1 ATAATCAGGAAGCTCAT-GCGAGCCA
39881949 ATAATCAGGAAGCTCATGCGAGCCA
1 ATAATCAGGAAGCTCATGCGAGCCA
* * *
39881974 ATAAT-GGGTAGCTC-TGAAGAGCCA
1 ATAATCAGGAAGCTCATG-CGAGCCA
* *
39881998 TTAATTAGGAAGCTC
1 ATAATCAGGAAGCTC
39882013 CGGAAACGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 7 0.13
24 33 0.63
25 12 0.23
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
ATAATCAGGAAGCTCATGCGAGCCA
Found at i:39882094 original size:26 final size:26
Alignment explanation
Indices: 39882063--39882122 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
39882053 CAAGCTCTGG
39882063 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* * **
39882089 AGAGCCTTTATTCGGGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
39882115 AGAGCCAT
1 AGAGCCAT
39882123 ATATCGGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:39882129 original size:26 final size:26
Alignment explanation
Indices: 39882078--39882137 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
39882068 CATTAATCAA
*
39882078 GAAGCTCACAAAGAGCCTTTATTCGG
1 GAAGCTCACAAAGAGCCTATATTCGG
39882104 GAAGCTCACAAAGAGCC-ATATATCGG
1 GAAGCTCACAAAGAGCCTATAT-TCGG
*
39882130 GATGCTCA
1 GAAGCTCA
39882138 TAAGAGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTATATTCGG
Found at i:39882826 original size:19 final size:19
Alignment explanation
Indices: 39882786--39882828 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39882776 TGCCCATGTA
*
39882786 TTTCATAAAATTTAATTTT
1 TTTCATAAAATTTAATTCT
*
39882805 TTTCATAAATTTTACA-TCT
1 TTTCATAAAATTTA-ATTCT
39882824 TTTCA
1 TTTCA
39882829 ATTTTGTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTCATAAAATTTAATTCT
Found at i:39885485 original size:7 final size:7
Alignment explanation
Indices: 39885473--39885501 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
39885463 TCTTACACTG
39885473 TATACCT
1 TATACCT
39885480 TATACCT
1 TATACCT
39885487 TATACCT
1 TATACCT
39885494 TATACCT
1 TATACCT
39885501 T
1 T
39885502 GTGATCTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (7 bp):
TATACCT
Found at i:39899619 original size:25 final size:25
Alignment explanation
Indices: 39899533--39899619 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 25
39899523 GGAGGAAGTG
39899533 CAAAAGGGCTTATGCCCCAGTTTAT
1 CAAAAGGGCTTATGCCCCAGTTTAT
*
39899558 CAGAAAGGGCTTATGCCCTAGTTTAT
1 CA-AAAGGGCTTATGCCCCAGTTTAT
39899584 CGAAAAGGGCTTATGCCCCAG-TTAT
1 C-AAAAGGGCTTATGCCCCAGTTTAT
*
39899609 TAAAAGAGGCT
1 CAAAAG-GGCT
39899620 AGGCCTACAG
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
24 5 0.09
25 10 0.18
26 40 0.71
27 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAT
Found at i:39905855 original size:39 final size:39
Alignment explanation
Indices: 39905812--39905938 Score: 173
Period size: 39 Copynumber: 3.2 Consensus size: 39
39905802 TTCCAGCGGG
* * * *
39905812 TAGCCTGCAGACCTTAAGTCCGGTTATAATTCTAGCACA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
*
39905851 TAGCCTGCGGACCTTAAGTCCGGGTATAATTCCAGCATA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
* * *
39905890 TAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATA
1 TAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCATA
39905930 TAGCCTGCG
1 TAGCCTGCG
39905939 AGTCTTTAGG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 44 0.56
40 35 0.44
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
Found at i:39905919 original size:40 final size:40
Alignment explanation
Indices: 39905825--39905956 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
39905815 CCTGCAGACC
* * * * * *
39905825 TTAAGTCCGGTTATAATTCTAGCACATAGCCTGC-GGACC
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
* *
39905864 TTAAGTCCGGGTATAATTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
*
39905904 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGAGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
*
39905944 TTAGGCCCGGATA
1 TTAAGCCCGGATA
39905957 CACATCAACT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.37
40 52 0.63
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
Found at i:39913717 original size:93 final size:93
Alignment explanation
Indices: 39913604--39913775 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
39913594 GCCCATAAGT
* * * *
39913604 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGCGAACTCGGACTCAACTCAA
39913669 CGAGCTCGGATGCCTAGTTATATCTCTC
66 CGAGCTCGGATGCCTAGTTATATCTCTC
* *
39913697 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGCGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGCGAACTCGGACTCAACTCAA
*
39913762 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
39913776 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGCGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTATATCTCTC
Found at i:39913771 original size:46 final size:46
Alignment explanation
Indices: 39913596--39913771 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
39913586 TGTAACCCGC
* * * *
39913596 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * * *
39913642 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGTTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG-CAT
*** *
39913690 --ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCAT-AAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
39913735 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
39913772 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.66
47 32 0.30
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:39942021 original size:40 final size:40
Alignment explanation
Indices: 39941944--39942121 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
39941934 AACCCAAGTA
* *
39941944 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
39941983 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39942023 CCTTCGGGACTTAGCCCGGATATCGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39942063 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39942103 CCTTCTGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39942122 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.89
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39943450 original size:37 final size:37
Alignment explanation
Indices: 39943392--39943573 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
39943382 GCTCAGACGA
* * * *
39943392 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
39943429 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
39943466 AATCTCCACACGTAGTCACCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
39943503 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
39943540 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39943574 ATATATTTCC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:39943844 original size:47 final size:47
Alignment explanation
Indices: 39943782--39944415 Score: 827
Period size: 47 Copynumber: 13.1 Consensus size: 47
39943772 ACACGTTTCG
* * * **
39943782 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
39943829 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39943876 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
39943923 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
39943976 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39944023 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
39944070 CATTGGCCATTTGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
39944117 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
***
39944170 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
39944221 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39944268 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
39944315 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
39944366 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39944413 CAT
1 CAT
39944416 AAAATCCTAA
Statistics
Matches: 525, Mismatches: 42, Indels: 40
0.86 0.07 0.07
Matches are distributed among these distances:
47 351 0.67
49 2 0.00
51 89 0.17
53 83 0.16
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:39943972 original size:147 final size:142
Alignment explanation
Indices: 39943782--39944415 Score: 831
Period size: 147 Copynumber: 4.4 Consensus size: 142
39943772 ACACGTTTCG
* * * **
39943782 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
39943847 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT-GT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGGT
39943911 TCACATTCATCA
131 TCACATTCATCA
* * * *
39943923 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTCCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C----ACATACACATGTTCACATTCATCACATTGGCCATTC
*
39943988 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
60 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
*
39944053 CAT-GTTCACATCCATCA
125 CATGGTTCACATTCATCA
*
39944070 CATTGGCCATTTGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* ** * * *
39944135 ATCACGCATATATATATACAGGTTCACGTTCATCACATTGGCCATTCGGCCTTATCACACATATA
66 ATCA--C----ACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
*
39944200 TATACGGGTTCACATTCATCA
125 CAT---GGTTCACATTCATCA
* *
39944221 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
39944286 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT---
39944351 GGTTCACATTCATCA
128 GGTTCACATTCATCA
* *
39944366 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACAT
39944416 AAAATCCTAA
Statistics
Matches: 446, Mismatches: 31, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
141 62 0.14
143 2 0.00
145 121 0.27
147 181 0.41
149 1 0.00
151 79 0.18
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGGT
TCACATTCATCA
Found at i:39944116 original size:194 final size:194
Alignment explanation
Indices: 39943782--39944415 Score: 1047
Period size: 194 Copynumber: 3.3 Consensus size: 194
39943772 ACACGTTTCG
* * * **
39943782 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
39943847 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
39943912 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTCCACATTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
39943976 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
39944041 ATCACACATACGCATGTTCACATCCATCACATTGGCCATTTGGCCTTATCACACATACACATGTT
66 ATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
39944106 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACGTTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
***
39944170 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGG
39944235 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
62 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
* *
39944300 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA--CACATATATATACGGGTTCACATTCA
127 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCA
39944363 TCA
192 TCA
*
39944366 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
39944416 AAAATCCTAA
Statistics
Matches: 411, Mismatches: 25, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
192 16 0.04
194 211 0.51
196 56 0.14
198 128 0.31
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (194 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
Found at i:39951357 original size:40 final size:40
Alignment explanation
Indices: 39951257--39951428 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
39951247 GCTCCTCGTT
* * * *
39951257 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
39951297 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39951336 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39951376 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
39951416 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39951429 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.28
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39951441 original size:80 final size:80
Alignment explanation
Indices: 39951257--39951481 Score: 199
Period size: 80 Copynumber: 2.8 Consensus size: 80
39951247 GCTCCTCGTT
* * * * * * * * *
39951257 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
** *
39951321 -ATTTAACAACTCGCA
66 AATTT-GTATCTCGCA
* * * *
39951336 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCC
39951399 GGAATTTGTATCTCGCA
64 GGAATTTGTATCTCGCA
** * *
39951416 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
39951480 GA
65 GA
39951482 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 35 0.30
80 67 0.57
81 13 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:39951490 original size:41 final size:41
Alignment explanation
Indices: 39951413--39951490 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39951403 TTTGTATCTC
* * *
39951413 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39951454 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39951491 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39958520 original size:39 final size:40
Alignment explanation
Indices: 39958475--39958646 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
39958465 GCTCCTCGTT
* * *
39958475 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* **
39958515 C-AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39958554 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39958594 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
39958634 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39958647 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39958659 original size:80 final size:80
Alignment explanation
Indices: 39958475--39958699 Score: 199
Period size: 80 Copynumber: 2.8 Consensus size: 80
39958465 GCTCCTCGTT
* * * * * * * * *
39958475 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCAG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
** *
39958539 -ATTTAACAACTCGCA
66 AATTT-GTATCTCGCA
* * * *
39958554 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCC
39958617 GGAATTTGTATCTCGCA
64 GGAATTTGTATCTCGCA
** * *
39958634 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
39958698 GA
65 GA
39958700 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 36 0.31
80 66 0.56
81 13 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:39958708 original size:41 final size:41
Alignment explanation
Indices: 39958631--39958708 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39958621 TTTGTATCTC
* * *
39958631 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39958672 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39958709 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39965604 original size:25 final size:25
Alignment explanation
Indices: 39965575--39965622 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39965565 TTATAACATG
* * *
39965575 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39965600 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39965623 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39965689 original size:20 final size:20
Alignment explanation
Indices: 39965659--39965721 Score: 110
Period size: 20 Copynumber: 3.1 Consensus size: 20
39965649 ATTTTGATAG
39965659 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39965679 ACATG-TCATGTATGATATGC
1 ACATGAT-ATGTATGATATGC
39965699 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39965719 ACA
1 ACA
39965722 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39965801 original size:24 final size:24
Alignment explanation
Indices: 39965774--39965903 Score: 199
Period size: 24 Copynumber: 5.4 Consensus size: 24
39965764 GGAAGAAGTG
*
39965774 CAAAAGGGATTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
39965798 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
39965822 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
39965846 C-AAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
39965869 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
39965893 TAAAAGAGGCT
1 CAAAAG-GGCT
39965904 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
23 21 0.21
24 74 0.75
25 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:39965874 original size:47 final size:48
Alignment explanation
Indices: 39965774--39965903 Score: 199
Period size: 47 Copynumber: 2.7 Consensus size: 48
39965764 GGAAGAAGTG
*
39965774 CAAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
39965822 CAAAAGGGCTTATGCCCCAGTTATC-AAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
39965869 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCT
39965904 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 43 0.57
48 28 0.37
49 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:39966146 original size:31 final size:31
Alignment explanation
Indices: 39966111--39966174 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39966101 CGATTACAGT
39966111 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
39966142 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39966173 AA
1 AA
39966175 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39969313 original size:29 final size:30
Alignment explanation
Indices: 39969256--39969313 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
39969246 TGGAAGGGGA
** * *
39969256 GTAAAAGTTTTGGGGGGAAAGTGAGAAGGG
1 GTAAAAGTTTTGGAAGGAAAGTAAAAAGGG
39969286 GTAAAAGTTTT-GAAGGAAAGTAAAAAGG
1 GTAAAAGTTTTGGAAGGAAAGTAAAAAGG
39969314 TTTGAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (30 bp):
GTAAAAGTTTTGGAAGGAAAGTAAAAAGGG
Found at i:39969461 original size:9 final size:9
Alignment explanation
Indices: 39969442--39969474 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
39969432 ATTTGAGTTG
39969442 ACTCGAATA
1 ACTCGAATA
39969451 ACTC-AATTA
1 ACTCGAA-TA
39969460 ACTCGAATA
1 ACTCGAATA
39969469 ACTCGA
1 ACTCGA
39969475 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:39969865 original size:23 final size:22
Alignment explanation
Indices: 39969825--39969869 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
39969815 GAATTTTGTA
*
39969825 TATTGATGATGATTTTGGATACC
1 TATTGATGATGATATTGG-TACC
39969848 TATTGTATGATGA-ATTGGTACC
1 TATTG-ATGATGATATTGGTACC
39969870 ATTTTGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (22 bp):
TATTGATGATGATATTGGTACC
Found at i:39970184 original size:66 final size:63
Alignment explanation
Indices: 39970046--39970185 Score: 181
Period size: 66 Copynumber: 2.1 Consensus size: 63
39970036 GTATACTCTA
* *
39970046 CACGGCCTCACACACGGGCGTGTGACTGGCCGTGTGGCACAAATCAGTATACCCTCTGAATGG
1 CACGGCCTAACACACGGGCGTGTGACTGGCCGTGTGGCACAAATCAGTATACCCTATGAATGG
* * * *
39970109 CACATGGCCTAACACACGGGCGTGTGACTTGGCCGTGTTGCATAACTCAGTATACCCTATAGGAT
1 CAC--GGCCTAACACACGGGCGTGTGAC-TGGCCGTGTGGCACAAATCAGTATACCCTAT--GAA
39970174 TGG
61 TGG
39970177 CACGGCCTA
1 CACGGCCTA
39970186 GTACACGGCC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
63 3 0.05
65 22 0.33
66 33 0.50
68 8 0.12
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (63 bp):
CACGGCCTAACACACGGGCGTGTGACTGGCCGTGTGGCACAAATCAGTATACCCTATGAATGG
Found at i:39975854 original size:42 final size:43
Alignment explanation
Indices: 39975795--39975887 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
39975785 CGCATCCATT
*
39975795 ATGAACTCGAACCACTTAACAAGCTCAGATGC-CACAGATATC
1 ATGAACTCGAACCACTTAAAAAGCTCAGATGCTCACAGATATC
* * * * *
39975837 ATGAACTTGGACCACTTAAAAAGTTCAGATTCTCACATATATC
1 ATGAACTCGAACCACTTAAAAAGCTCAGATGCTCACAGATATC
39975880 ATGAACTC
1 ATGAACTC
39975888 AGACTGCTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (43 bp):
ATGAACTCGAACCACTTAAAAAGCTCAGATGCTCACAGATATC
Found at i:39983280 original size:75 final size:75
Alignment explanation
Indices: 39983195--39983344 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
39983185 ACTCATCACA
39983195 ACATGGCCGAATACAAATTTCTCCTACTTCCATTCTAAATAAAATTTTATCAAGCTTCCATCTTC
1 ACATGGCCGAATACAAATTTCTCCTACTTCCATTCTAAATAAAATTTTATCAAGCTTCCATCTTC
39983260 ATTTAACTAT
66 ATTTAACTAT
*
39983270 ACATGGCCGAATACACATTTCTCCTACTTCCATTCTAAATAAAATTTTATCAAGCTTCCATCTTC
1 ACATGGCCGAATACAAATTTCTCCTACTTCCATTCTAAATAAAATTTTATCAAGCTTCCATCTTC
39983335 ATTTAACTAT
66 ATTTAACTAT
39983345 GTACCATTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (75 bp):
ACATGGCCGAATACAAATTTCTCCTACTTCCATTCTAAATAAAATTTTATCAAGCTTCCATCTTC
ATTTAACTAT
Found at i:39985066 original size:14 final size:16
Alignment explanation
Indices: 39985034--39985066 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39985024 AAGTTGTTAA
39985034 CTTGAGAAGTTATATG
1 CTTGAGAAGTTATATG
39985050 CTTGAGAA-TTA-ATG
1 CTTGAGAAGTTATATG
39985064 CTT
1 CTT
39985067 AATGATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 3 0.18
16 8 0.47
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (16 bp):
CTTGAGAAGTTATATG
Found at i:39991400 original size:20 final size:21
Alignment explanation
Indices: 39991377--39991422 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
39991367 AGCTCCAATC
39991377 AGCTCACTTGAGCTTG-ATTT
1 AGCTCACTTGAGCTTGAATTT
**
39991397 AGCTCGTTTGAGCTTGAATTT
1 AGCTCACTTGAGCTTGAATTT
39991418 AGCTC
1 AGCTC
39991423 GTTTCAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (21 bp):
AGCTCACTTGAGCTTGAATTT
Found at i:39991419 original size:21 final size:20
Alignment explanation
Indices: 39991384--39991431 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
39991374 ATCAGCTCAC
39991384 TTGAGCTTGATTTAGCTCGT
1 TTGAGCTTGATTTAGCTCGT
39991404 TTGAGCTTGAATTTAGCTCGT
1 TTGAGCTTG-ATTTAGCTCGT
*
39991425 TTCAGCT
1 TTGAGCT
39991432 CATTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGAGCTTGATTTAGCTCGT
Found at i:39992820 original size:12 final size:12
Alignment explanation
Indices: 39992789--39992820 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39992779 GAGTAAAGTA
*
39992789 TTGAGCTCAAAC
1 TTGAGCTTAAAC
39992801 TTGAGCTTAAAC
1 TTGAGCTTAAAC
39992813 TTGAGCTT
1 TTGAGCTT
39992821 CCCACTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (12 bp):
TTGAGCTTAAAC
Found at i:40010358 original size:30 final size:30
Alignment explanation
Indices: 40010324--40010384 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40010314 TCCTTAACTC
40010324 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
40010354 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
40010384 A
1 A
40010385 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:40011711 original size:19 final size:19
Alignment explanation
Indices: 40011687--40011724 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
40011677 AAATTACAGC
*
40011687 ATTATTGTTGTATTTTTAT
1 ATTATTGTTGTATTATTAT
40011706 ATTATTGTTGTATTATTAT
1 ATTATTGTTGTATTATTAT
40011725 CATACCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (19 bp):
ATTATTGTTGTATTATTAT
Found at i:40015762 original size:39 final size:40
Alignment explanation
Indices: 40015648--40015832 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
40015638 GCTACTCGTT
* * *
40015648 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
40015688 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40015728 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40015767 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40015808 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40015833 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Done.