Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 43 of 50
Found at i:18199922 original size:72 final size:71
Alignment explanation
Indices: 18199806--18199944 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 71
18199796 TGTAGTGAAC
* *
18199806 CCTAACAAGTCAAAGGAAGAAAAAGTCAAGATTGCATAACCATAGTAAACTATA-AGGGAAGCAT
1 CCTAACAAGTCAAAGGAAGAAAAAGTCAAGATTACATAACCATAGTAAACCATACA-GGAAGCAT
18199870 AGTCAAG
65 AGTCAAG
* *
18199877 CCTAACAAGTCAAAGGTAAGAAAAAGTCAAGATTACATAGCCATAGTCAACCATACAGGAAGCAT
1 CCTAACAAGTCAAAGG-AAGAAAAAGTCAAGATTACATAACCATAGTAAACCATACAGGAAGCAT
18199942 AGT
65 AGT
18199945 TGACTATAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 16 0.26
72 45 0.73
73 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (71 bp):
CCTAACAAGTCAAAGGAAGAAAAAGTCAAGATTACATAACCATAGTAAACCATACAGGAAGCATA
GTCAAG
Found at i:18200470 original size:50 final size:50
Alignment explanation
Indices: 18200410--18200530 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
18200400 CTATCTTATA
*
18200410 AGGGTTATCGCTTCCCAT-T-TAAAAAACACGAATCGCTTTTATGGATTGT-G
1 AGGGTTATCGCTT--CATCTCTAAAAAACAAGAATC-CTTTTATGGATTGTAG
* *
18200460 TGGGTTATCGCTTCATCTCGTAAAAAACAAGAATCTTTTTATGGATTGTGAG
1 AGGGTTATCGCTTCATCTC-TAAAAAACAAGAATCCTTTTATGGATTGT-AG
*
18200512 AGGGTTATCGCTTGATCTC
1 AGGGTTATCGCTTCATCTC
18200531 GTGAAAAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
48 3 0.05
49 1 0.02
50 25 0.41
51 14 0.23
52 18 0.30
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (50 bp):
AGGGTTATCGCTTCATCTCTAAAAAACAAGAATCCTTTTATGGATTGTAG
Found at i:18200523 original size:52 final size:51
Alignment explanation
Indices: 18200429--18200538 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 51
18200419 GCTTCCCATT
* *
18200429 TAAAAAACACGAATCGCTTTTATGGATTGTGTGGGTTATCGCTTCATCTCG
1 TAAAAAACAAGAATCGCTTTTATGGATTGTGAGGGTTATCGCTTCATCTCG
* *
18200480 TAAAAAACAAGAATC-TTTTTATGGATTGTGAGAGGGTTATCGCTTGATCTCG
1 TAAAAAACAAGAATCGCTTTTATGGATTGT--GAGGGTTATCGCTTCATCTCG
*
18200532 TGAAAAA
1 TAAAAAA
18200539 GCCGTGGCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 13 0.25
51 14 0.27
52 25 0.48
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (51 bp):
TAAAAAACAAGAATCGCTTTTATGGATTGTGAGGGTTATCGCTTCATCTCG
Found at i:18201615 original size:80 final size:80
Alignment explanation
Indices: 18201500--18201728 Score: 271
Period size: 80 Copynumber: 2.9 Consensus size: 80
18201490 TGAATAATTT
* * * *
18201500 ATGAGGTTATGAAATGCATACCATAAGATGCATGTGTTGAGATAGTCATATATACTATGGGCTAA
1 ATGAGGTTATGAAATGTATACCATGAGATGTATGTGTTGAGATAGTCATATAAACTATGGGCTAA
18201565 GCATGTCAATGATTG
66 GCATGTCAATGATTG
* * * * *
18201580 ATGAGGTTATGAAATGTATACCATGAGATGTATGTGTCGAGATAGTCGTATACATTATAGGACT-
1 ATGAGGTTATGAAATGTATACCATGAGATGTATGTGTTGAGATAGTCATATAAACTAT-GGGCTA
* * * *
18201644 AGTATGTGAGTGATTT
65 AGCATGTCAATGATTG
* * * * * *
18201660 ATGAAGTTATGAGATGTATGCCATGAGATGTATGTATTGATATAGTCATAAAAACTATGGGCTAA
1 ATGAGGTTATGAAATGTATACCATGAGATGTATGTGTTGAGATAGTCATATAAACTATGGGCTAA
18201725 GCAT
66 GCAT
18201729 CATGATGATT
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 4 0.03
80 115 0.93
81 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (80 bp):
ATGAGGTTATGAAATGTATACCATGAGATGTATGTGTTGAGATAGTCATATAAACTATGGGCTAA
GCATGTCAATGATTG
Found at i:18203149 original size:28 final size:29
Alignment explanation
Indices: 18203108--18203167 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
18203098 GTCTATGGGC
* *
18203108 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
18203136 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
18203166 AA
1 AA
18203168 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:18209064 original size:13 final size:13
Alignment explanation
Indices: 18209046--18209070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18209036 GGAAAATGGG
18209046 ATTTTATAAAATA
1 ATTTTATAAAATA
18209059 ATTTTATAAAAT
1 ATTTTATAAAAT
18209071 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:18216804 original size:15 final size:15
Alignment explanation
Indices: 18216784--18216827 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
18216774 TTTACAATGC
18216784 AATGTGATTAC-AGAT
1 AATGTGATTACAAG-T
*
18216799 AATGTGATTGCAAGT
1 AATGTGATTACAAGT
*
18216814 AATGTGATTGCAAG
1 AATGTGATTACAAG
18216828 GAAAATAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 25 0.93
16 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (15 bp):
AATGTGATTACAAGT
Found at i:18217070 original size:33 final size:33
Alignment explanation
Indices: 18217033--18217104 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
18217023 TTTTAATGTC
* *
18217033 ATATATTTTATTTTTATTT-TTTATTATAATATT
1 ATATATTTTATTTTCATTTCTTTAATATAAT-TT
18217066 ATATATTTTATTTTCATTTCTTTAATATAATTT
1 ATATATTTTATTTTCATTTCTTTAATATAATTT
*
18217099 TTATAT
1 ATATAT
18217105 GATATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 25 0.71
34 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTCTTTAATATAATTT
Found at i:18217216 original size:15 final size:15
Alignment explanation
Indices: 18217193--18217224 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18217183 TTCTTATATT
18217193 ATATATTTTATTTTA
1 ATATATTTTATTTTA
*
18217208 ATATTTTTTATTTTA
1 ATATATTTTATTTTA
18217223 AT
1 AT
18217225 TAAAACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATATTTTATTTTA
Found at i:18221554 original size:19 final size:19
Alignment explanation
Indices: 18221530--18221574 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
18221520 CCTGGCAATT
18221530 CGTGTTAATGTGTCGTAAA
1 CGTGTTAATGTGTCGTAAA
18221549 CGTGTTAATGTGTCGTAAA
1 CGTGTTAATGTGTCGTAAA
18221568 CGTGTTA
1 CGTGTTA
18221575 GTCACAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (19 bp):
CGTGTTAATGTGTCGTAAA
Found at i:18222053 original size:18 final size:18
Alignment explanation
Indices: 18222032--18222071 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
18222022 GTATACACGT
*
18222032 TTAAACACGATAACATGA
1 TTAAACAAGATAACATGA
18222050 TTAAACAAGATAACATGA
1 TTAAACAAGATAACATGA
18222068 TTAA
1 TTAA
18222072 GTAAATGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (18 bp):
TTAAACAAGATAACATGA
Found at i:18241343 original size:28 final size:28
Alignment explanation
Indices: 18241291--18241345 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18241281 CATTAAAATT
*
18241291 TTATTTATATTTGATGTAGTGTATTTGC
1 TTATTTATATTTGATGTAATGTATTTGC
*
18241319 TTATTTATGTTTGATGTAAAT-TATTTG
1 TTATTTATATTTGATGT-AATGTATTTG
18241346 TTTCTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.58
Consensus pattern (28 bp):
TTATTTATATTTGATGTAATGTATTTGC
Found at i:18244917 original size:19 final size:19
Alignment explanation
Indices: 18244895--18244932 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18244885 CTGTCAAACC
*
18244895 CTCAAATTATACTCAAATA
1 CTCAAATAATACTCAAATA
*
18244914 CTCAAATAATACTCCAATA
1 CTCAAATAATACTCAAATA
18244933 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATAATACTCAAATA
Found at i:18253700 original size:2 final size:2
Alignment explanation
Indices: 18253693--18253725 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18253683 TTGCATAAAT
*
18253693 AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18253726 TAACCACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18253978 original size:2 final size:2
Alignment explanation
Indices: 18253966--18254008 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
18253956 CTATCAATAC
* * *
18253966 AT AT A- AT AT AT AT TT AG AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18254007 AT
1 AT
18254009 GAGCATACAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18263957 original size:70 final size:70
Alignment explanation
Indices: 18263864--18264057 Score: 300
Period size: 70 Copynumber: 2.8 Consensus size: 70
18263854 CTTTTTCCCA
* * *
18263864 TTCACAAGATCGACTATGAAGGGTCTATAGTCAATTCTGGACTAGAATGTTTGCTTTTATTCGCT
1 TTCACAAGATCGACTATGGAGGGTCTATAGTCGATTCTGGACTAGAATGTTTGCTTTTATTCACT
*
18263929 TTTGC
66 ATTGC
* * *
18263934 TTTACAAGATCGACTATGGAGGGTCTATAGTTGATTCTGGACTAGAATGTTTGTTTTTATTCACT
1 TTCACAAGATCGACTATGGAGGGTCTATAGTCGATTCTGGACTAGAATGTTTGCTTTTATTCACT
18263999 ATTGC
66 ATTGC
*
18264004 TTCACAAGATCGACTATGGAGGGTCTATAGTCGA-TCTTGGACCAGAATGTTTGC
1 TTCACAAGATCGACTATGGAGGGTCTATAGTCGATTC-TGGACTAGAATGTTTGC
18264058 ATTTCTTCCA
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
69 2 0.02
70 110 0.98
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (70 bp):
TTCACAAGATCGACTATGGAGGGTCTATAGTCGATTCTGGACTAGAATGTTTGCTTTTATTCACT
ATTGC
Found at i:18264158 original size:71 final size:70
Alignment explanation
Indices: 18264003--18264159 Score: 158
Period size: 71 Copynumber: 2.2 Consensus size: 70
18263993 TTCACTATTG
** * * * **
18264003 CTTCACAAGATCGACTATGGAGGGTCTATAGTCGATCTTGGACCAGAATGTTTGCATTTCTTCCA
1 CTTCACAAGATCGACTATAAAGAGCCTATAGTCAATCTTGGACCAGAATGCATGCATTTC-TCCA
*
18264068 TTTTTC
65 TTTTTA
*
18264074 CTTC-CTAGTATCGACTATAAAGAGCCTATAGTCAATCTTGGACCAGAATGCATG-ACTTTC-CC
1 CTTCACAAG-ATCGACTATAAAGAGCCTATAGTCAATCTTGGACCAGAATGCATGCA-TTTCTCC
18264136 ATCATTTTA
64 AT--TTTTA
*
18264145 TTTCACAAGATCGAC
1 CTTCACAAGATCGAC
18264160 CCTCTATGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
69 4 0.06
70 4 0.06
71 59 0.84
72 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (70 bp):
CTTCACAAGATCGACTATAAAGAGCCTATAGTCAATCTTGGACCAGAATGCATGCATTTCTCCAT
TTTTA
Found at i:18266448 original size:13 final size:13
Alignment explanation
Indices: 18266430--18266454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18266420 TTTCAGAAAA
18266430 TTTATAAAATCAT
1 TTTATAAAATCAT
18266443 TTTATAAAATCA
1 TTTATAAAATCA
18266455 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:18267657 original size:28 final size:30
Alignment explanation
Indices: 18267599--18267658 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
18267589 TTTTTGAAAT
*
18267599 TTATACTTTTGCCCCCATAAAAGTCAAAAA
1 TTATACTTTTGCCCCCATAAAACTCAAAAA
* *
18267629 TTATATTTTTG-CCCCA-AAAACTGAAAAA
1 TTATACTTTTGCCCCCATAAAACTCAAAAA
18267657 TT
1 TT
18267659 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 5 0.19
30 10 0.37
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (30 bp):
TTATACTTTTGCCCCCATAAAACTCAAAAA
Found at i:18270252 original size:21 final size:21
Alignment explanation
Indices: 18270204--18270253 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
18270194 AAAACCAACA
18270204 AGAAATATAAAAATAAAAAAT
1 AGAAATATAAAAATAAAAAAT
*
18270225 A-ATAATA-AATAAATAAACAAT
1 AGA-AATATAA-AAATAAAAAAT
18270246 AGAAATAT
1 AGAAATAT
18270254 TTAGTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AGAAATATAAAAATAAAAAAT
Found at i:18271730 original size:103 final size:105
Alignment explanation
Indices: 18271544--18271754 Score: 329
Period size: 103 Copynumber: 2.0 Consensus size: 105
18271534 CACATATTCG
*
18271544 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTTCAATGATTTACTATGTT
1 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTTCAATGATATACTATGTT
* * *
18271609 TAGGACGTAATTAATTATTTAGA-TGTGATTTGTTAGATGT
66 TAGGACATAATTAATTATTTA-ATTGTGATTTATTAGATAT
* *
18271649 ATACATTATGTGC-TTGTAGTATTGTAATAATTGGCCAA-TTCAATTTCAATGATATACTGTGTT
1 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTTCAATGATATACTATGTT
*
18271712 TAGGACATAATTATTTATTTAATTGTGATTTATTAGATAT
66 TAGGACATAATTAATTATTTAATTGTGATTTATTAGATAT
18271752 ATA
1 ATA
18271755 GTTAAAGTTC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
102 1 0.01
103 60 0.61
104 24 0.24
105 13 0.13
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (105 bp):
ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTTCAATGATATACTATGTT
TAGGACATAATTAATTATTTAATTGTGATTTATTAGATAT
Found at i:18276788 original size:21 final size:21
Alignment explanation
Indices: 18276762--18276815 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
18276752 AGTTTTTAGG
*
18276762 CATTGCGTGACTGACTTTGGA
1 CATTGCGTGACTGACTTTGAA
*
18276783 TATTGCGTGACTGACTTTGAA
1 CATTGCGTGACTGACTTTGAA
*
18276804 CATTGTGTGACT
1 CATTGCGTGACT
18276816 AGTTTTTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (21 bp):
CATTGCGTGACTGACTTTGAA
Found at i:18276872 original size:26 final size:26
Alignment explanation
Indices: 18276804--18276971 Score: 137
Period size: 26 Copynumber: 6.6 Consensus size: 26
18276794 TGACTTTGAA
*
18276804 CATTGTGTGACTAGTTTTTGATAAGG
1 CATTGTGTGACTAGTTTCTGATAAGG
* * * * *
18276830 CGTTGCGTGATTTGTTTCTAATAAGG
1 CATTGTGTGACTAGTTTCTGATAAGG
*
18276856 CATTGTATGACTAGTTTCTGATAAGG
1 CATTGTGTGACTAGTTTCTGATAAGG
** * *
18276882 CATTCCGTGACTAG--T-TAAT-AGA
1 CATTGTGTGACTAGTTTCTGATAAGG
* * *
18276904 CATTGCGTGACTAGTTTTTGATAAGA
1 CATTGTGTGACTAGTTTCTGATAAGG
** * * *
18276930 CATTACGTGATTAGTTTATGATAAAG
1 CATTGTGTGACTAGTTTCTGATAAGG
18276956 CATTGTGTGACTAGTT
1 CATTGTGTGACTAGTT
18276972 GATAAGTATT
Statistics
Matches: 111, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
22 15 0.14
23 3 0.03
24 2 0.02
25 3 0.03
26 88 0.79
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.39
Consensus pattern (26 bp):
CATTGTGTGACTAGTTTCTGATAAGG
Found at i:18276926 original size:48 final size:49
Alignment explanation
Indices: 18276803--18276971 Score: 171
Period size: 52 Copynumber: 3.3 Consensus size: 49
18276793 CTGACTTTGA
* * *
18276803 ACATTGTGTGACTAGTTTTTGATAAGGCGTTGCGTGATTTGTTTCTAATAAG
1 ACATTGTGTGACTAGTTTTTGATAAGGCATTACGTGATTAG--T-TAATAAG
* * * * *
18276855 GCATTGTATGACTAGTTTCTGATAAGGCATTCCGTGACTAGTTAAT-AG
1 ACATTGTGTGACTAGTTTTTGATAAGGCATTACGTGATTAGTTAATAAG
* *
18276903 ACATTGCGTGACTAGTTTTTGATAAGACATTACGTGATTAGTTTATGATAA-
1 ACATTGTGTGACTAGTTTTTGATAAGGCATTACGTGATTAG-TTA--ATAAG
18276954 AGCATTGTGTGACTAGTT
1 A-CATTGTGTGACTAGTT
18276972 GATAAGTATT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
48 36 0.37
49 7 0.07
50 1 0.01
51 3 0.03
52 50 0.52
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (49 bp):
ACATTGTGTGACTAGTTTTTGATAAGGCATTACGTGATTAGTTAATAAG
Found at i:18276928 original size:74 final size:74
Alignment explanation
Indices: 18276832--18276993 Score: 164
Period size: 74 Copynumber: 2.2 Consensus size: 74
18276822 TGATAAGGCG
* * * ** * *
18276832 TTGCGTGATTTGTTTCTAATAAGGCATTGTATGACTAGTTTCTGATAAGGCATTCCGTGACTAGT
1 TTGCGTGACTAGTTTCTAATAAGACATTACATGACTAGTTTATGATAAAGCATTCCGTGACTAGT
18276897 TAAT-AGACA
66 TAATAAG-CA
* * * * **
18276906 TTGCGTGACTAGTTTTTGATAAGACATTACGTGATTAGTTTATGATAAAGCATTGTGTGACTAGT
1 TTGCGTGACTAGTTTCTAATAAGACATTACATGACTAGTTTATGATAAAGCATTCCGTGACTAGT
* *
18276971 TGATAAGTA
66 TAATAAGCA
*
18276980 TTGCATGACTAGTT
1 TTGCGTGACTAGTT
18276994 AGTAAAGTAT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
74 69 0.97
75 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (74 bp):
TTGCGTGACTAGTTTCTAATAAGACATTACATGACTAGTTTATGATAAAGCATTCCGTGACTAGT
TAATAAGCA
Found at i:18277011 original size:23 final size:22
Alignment explanation
Indices: 18276951--18277012 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
18276941 TAGTTTATGA
*
18276951 TAAAGCATTGTGTGACTAGTTG
1 TAAAGTATTGTGTGACTAGTTG
**
18276973 -ATAAGTATTGCATGACTAGTTAG
1 TA-AAGTATTGTGTGACTAGTT-G
18276996 TAAAGTATTGTGTGACT
1 TAAAGTATTGTGTGACT
18277013 TAGGCATTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 16 0.50
23 14 0.44
24 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (22 bp):
TAAAGTATTGTGTGACTAGTTG
Found at i:18277091 original size:43 final size:44
Alignment explanation
Indices: 18277024--18277108 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 44
18277014 AGGCATTACT
* *
18277024 TAAAACTCAATCACACAATGCCTAAAAACTAGTCACGCAATGCC
1 TAAAACTCAATCACACAATACCTAAAAACTAATCACGCAATGCC
** *
18277068 TAAAAC-CAATCACGTAATACCTAAAAACTAATCACGTAATG
1 TAAAACTCAATCACACAATACCTAAAAACTAATCACGCAATG
18277109 ATTAAATCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.83
44 6 0.17
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.20
Consensus pattern (44 bp):
TAAAACTCAATCACACAATACCTAAAAACTAATCACGCAATGCC
Found at i:18277103 original size:22 final size:22
Alignment explanation
Indices: 18277025--18277108 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
18277015 GGCATTACTT
*
18277025 AAAACTCAATCACACAATGCCTA
1 AAAACT-AATCACGCAATGCCTA
*
18277048 AAAACTAGTCACGCAATGCCT-
1 AAAACTAATCACGCAATGCCTA
* * *
18277069 AAAACCAATCACGTAATACCTA
1 AAAACTAATCACGCAATGCCTA
*
18277091 AAAACTAATCACGTAATG
1 AAAACTAATCACGCAATG
18277109 ATTAAATCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
21 17 0.33
22 29 0.56
23 6 0.12
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.19
Consensus pattern (22 bp):
AAAACTAATCACGCAATGCCTA
Found at i:18287665 original size:12 final size:12
Alignment explanation
Indices: 18287648--18287672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18287638 CATCATCATA
18287648 TCAACTTAAATT
1 TCAACTTAAATT
18287660 TCAACTTAAATT
1 TCAACTTAAATT
18287672 T
1 T
18287673 TTAATTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAACTTAAATT
Found at i:18290887 original size:55 final size:54
Alignment explanation
Indices: 18290736--18290868 Score: 185
Period size: 54 Copynumber: 2.4 Consensus size: 54
18290726 AGAAGATTTC
* * * * * *
18290736 TGAAGATGAATTTCTCAAGTCTAGTTTGTGTTCAAGATTAAGTCACTTAGACCCT
1 TGAA-ATGAAGTTCTCAAGTCTAGTTTGTGATCAAGATCAAGTCACTCAAACACT
*
18290791 TGAAACGAAGTTCTCAAGTCTAGTTTGTGATCAAGATCAAGTCACTCAAACACT
1 TGAAATGAAGTTCTCAAGTCTAGTTTGTGATCAAGATCAAGTCACTCAAACACT
18290845 TGAAAGTGAAGTTCTCAAGTCTAG
1 TGAAA-TGAAGTTCTCAAGTCTAG
18290869 ATCATGCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 48 0.70
55 21 0.30
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (54 bp):
TGAAATGAAGTTCTCAAGTCTAGTTTGTGATCAAGATCAAGTCACTCAAACACT
Found at i:18292730 original size:22 final size:22
Alignment explanation
Indices: 18292704--18292753 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18292694 TGCGTGACCA
*
18292704 ATTTTTAGACATTACGTGATTG
1 ATTTTTAGACATTACGTGACTG
* * *
18292726 -GTTTTAGGCATTGCGTGACTG
1 ATTTTTAGACATTACGTGACTG
18292747 ATTTTTA
1 ATTTTTA
18292754 AGTAATGCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (22 bp):
ATTTTTAGACATTACGTGACTG
Found at i:18292822 original size:23 final size:23
Alignment explanation
Indices: 18292765--18292920 Score: 102
Period size: 23 Copynumber: 6.6 Consensus size: 23
18292755 GTAATGCCTA
* *
18292765 AGTCACACAATACTTTACTAACT
1 AGTCACGCAATGCTTTACTAACT
*
18292788 AGTCACGCAATGCTTTATTAACT
1 AGTCACGCAATGCTTTACTAACT
*
18292811 AGTCACGCAATGCCTTT-CTAACA
1 AGTCACGCAATG-CTTTACTAACT
* * *
18292834 AGTTACGTAATGC-CTA-TCAACT
1 AGTCACGCAATGCTTTACT-AACT
* **
18292856 AGTCATGCAATGCCTTATCAGAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
* **
18292882 AGTCACGTAATGCCTTATCAAAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
18292908 AGTCACGCAATGC
1 AGTCACGCAATGC
18292921 CCAAAGTCAG
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.02
22 13 0.12
23 47 0.44
24 4 0.04
25 2 0.02
26 39 0.36
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (23 bp):
AGTCACGCAATGCTTTACTAACT
Found at i:18292882 original size:26 final size:26
Alignment explanation
Indices: 18292784--18292921 Score: 125
Period size: 26 Copynumber: 5.7 Consensus size: 26
18292774 ATACTTTACT
**
18292784 AACTAGTCACGCAATG-CTT-T-ATT
1 AACTAGTCACGCAATGCCTTATCAAA
*
18292807 AACTAGTCACGCAATGCCTT-TC--T
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
18292830 AACAAGTTACGTAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* *
18292852 AACTAGTCATGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
*
18292878 AACTAGTCACGTAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
18292904 AACTAGTCACGCAATGCC
1 AACTAGTCACGCAATGCC
18292922 CAAAGTCAGT
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.15
23 38 0.39
24 4 0.04
26 40 0.41
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAAA
Found at i:18292959 original size:21 final size:21
Alignment explanation
Indices: 18292908--18292960 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18292898 ATCAAAAACT
*
18292908 AGTCACGCAATGCCCAAAGTC
1 AGTCACGCAATGCCCAAAGCC
* * *
18292929 AGTTATGCAATGTCCAAAGCC
1 AGTCACGCAATGCCCAAAGCC
18292950 AGTCACGCAAT
1 AGTCACGCAAT
18292961 ATTTAAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
AGTCACGCAATGCCCAAAGCC
Found at i:18292976 original size:22 final size:22
Alignment explanation
Indices: 18292950--18292991 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18292940 GTCCAAAGCC
18292950 AGTCACGCAATATTTAAAAACT
1 AGTCACGCAATATTTAAAAACT
* *
18292972 AGTCACGTAATTTTTAAAAA
1 AGTCACGCAATATTTAAAAA
18292992 TCACCAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
AGTCACGCAATATTTAAAAACT
Found at i:18294384 original size:22 final size:22
Alignment explanation
Indices: 18294358--18294410 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
18294348 TTTATAAATC
18294358 ATTGCATGATTTAATCTTAGTA
1 ATTGCATGATTTAATCTTAGTA
18294380 ATTGCATGATTTAATCTTAGTA
1 ATTGCATGATTTAATCTTAGTA
18294402 ATTGCATGA
1 ATTGCATGA
18294411 CTAATTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (22 bp):
ATTGCATGATTTAATCTTAGTA
Found at i:18297262 original size:23 final size:26
Alignment explanation
Indices: 18297222--18297269 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18297212 ATTTAACTCT
18297222 CATATTATTCTTTGTTGTA-TCATTTA
1 CATATTATTC-TTGTTGTATTCATTTA
18297248 CATATTATTC-T-TTGTATTCATT
1 CATATTATTCTTGTTGTATTCATT
18297270 CATGTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 6 0.29
26 10 0.48
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (26 bp):
CATATTATTCTTGTTGTATTCATTTA
Found at i:18297534 original size:23 final size:23
Alignment explanation
Indices: 18297508--18297552 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18297498 GCGTTACCAG
* * *
18297508 TTGATATTAATTCACAGGAGTAT
1 TTGATATGAAATCACACGAGTAT
18297531 TTGATATGAAATCACACGAGTA
1 TTGATATGAAATCACACGAGTA
18297553 CTAAATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (23 bp):
TTGATATGAAATCACACGAGTAT
Found at i:18297623 original size:23 final size:23
Alignment explanation
Indices: 18297579--18297640 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
18297569 GTCAATAGTT
**
18297579 AATATGGAATCGATTGACTAATCA
1 AATATGGAATCGCGTGACTAAT-A
* *
18297603 ACT-TGGAATCGCGTGAGTAATA
1 AATATGGAATCGCGTGACTAATA
18297625 AATATGG-ATCGCGTGA
1 AATATGGAATCGCGTGA
18297641 ACCGTTAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 12 0.38
23 18 0.56
24 2 0.06
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (23 bp):
AATATGGAATCGCGTGACTAATA
Found at i:18297881 original size:23 final size:23
Alignment explanation
Indices: 18297855--18297940 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
18297845 GACTTGTTAT
* *
18297855 TATGGAATTGCGTTACTA-ATTGA
1 TATGGAATCGCGTGACTAGA-TGA
*
18297878 TATGGAGTCGCGTGACTAGATGA
1 TATGGAATCGCGTGACTAGATGA
* * *
18297901 TATGGGATCGTGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGATGA
* *
18297924 TCTTGAATCGCGTGACT
1 TATGGAATCGCGTGACT
18297941 CACTTATTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 50 0.98
24 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (23 bp):
TATGGAATCGCGTGACTAGATGA
Found at i:18299819 original size:61 final size:61
Alignment explanation
Indices: 18299744--18299984 Score: 252
Period size: 61 Copynumber: 3.8 Consensus size: 61
18299734 GTTAGAAGAT
*
18299744 GATGAAACGGTAGCTATCGATATATTTATAATGTATCGATAGATATTTTGATTGCTTGGAA
1 GATGAAACGGTAGCTATCGATATATTTATAATGTATCGATAGATATTTCGATTGCTTGGAA
* *
18299805 GATGAAACGGTAGCTAGCGATATATTTATAATGTATCAATAGATATTTCGATTGCTTGGAA
1 GATGAAACGGTAGCTATCGATATATTTATAATGTATCGATAGATATTTCGATTGCTTGGAA
* * * * *
18299866 GATGAAAGTGGATCAACAACTATTGATATATTTATAA-GCTATTGATAGATATTACGA-TGCTTG
1 GATGAAA-CGG-T----AGCTATCGATATATTTATAATG-TATCGATAGATATTTCGATTGCTTG
*
18299929 AAA
59 GAA
* * * *
18299932 GATGAAAGAAATGGTATCTATCGATATATTTATAATCTATCGATAAATATTTC
1 GAT----GAAACGGTAGCTATCGATATATTTATAATGTATCGATAGATATTTC
18299985 ATTCATAGAC
Statistics
Matches: 151, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
61 65 0.43
62 2 0.01
63 1 0.01
64 31 0.21
66 12 0.08
67 32 0.21
68 1 0.01
69 3 0.02
70 4 0.03
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (61 bp):
GATGAAACGGTAGCTATCGATATATTTATAATGTATCGATAGATATTTCGATTGCTTGGAA
Found at i:18305657 original size:119 final size:119
Alignment explanation
Indices: 18305534--18305786 Score: 364
Period size: 119 Copynumber: 2.1 Consensus size: 119
18305524 AACAATAGGC
* * * *
18305534 GAATTGTACAAGTCACGCACCACCACTCTCGTAATACATAACAACAGGTCACACTATATATAAAA
1 GAATTGCACAAGTCACGCACCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
* * * *
18305599 ACCAGTCATGCAATGCCTAAAAAACTACTGAA-TAAAAGCCTCAAAATAACACAT
66 A-CAGTCACGCAATGCCTAAAAAAATACTGAACAAAAAGCCTCAAAACAACACAT
** * *
18305653 GAATTGCACAAGTCACGTGCCACCACTCTTGCAATACATAACAACAGGTAACGCAATATATAAAA
1 GAATTGCACAAGTCACGCACCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
* *
18305718 ATAGTCACGCAATGCCTAAAAAAATACTGAACAAAAAGCCTTAAAACAACACAT
66 ACAGTCACGCAATGCCTAAAAAAATACTGAACAAAAAGCCTCAAAACAACACAT
18305772 GAATTGCACAAGTCA
1 GAATTGCACAAGTCA
18305787 ATCATGCATC
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
118 27 0.23
119 92 0.77
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.19
Consensus pattern (119 bp):
GAATTGCACAAGTCACGCACCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
ACAGTCACGCAATGCCTAAAAAAATACTGAACAAAAAGCCTCAAAACAACACAT
Found at i:18307226 original size:22 final size:22
Alignment explanation
Indices: 18307171--18307218 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
18307161 GGTAGATAAA
18307171 GTCACGCAATGCCTACAAACAG
1 GTCACGCAATGCCTACAAACAG
18307193 GTCACGCAATGCCTACAAACAG
1 GTCACGCAATGCCTACAAACAG
18307215 GTCA
1 GTCA
18307219 TGTAATGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (22 bp):
GTCACGCAATGCCTACAAACAG
Found at i:18307260 original size:15 final size:15
Alignment explanation
Indices: 18307237--18307266 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18307227 TCAACAAATA
*
18307237 TTCAGTCACGTAATG
1 TTCAATCACGTAATG
18307252 TTCAATCACGTAATG
1 TTCAATCACGTAATG
18307267 CCTATAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (15 bp):
TTCAATCACGTAATG
Found at i:18307293 original size:63 final size:63
Alignment explanation
Indices: 18307194--18307343 Score: 201
Period size: 63 Copynumber: 2.4 Consensus size: 63
18307184 TACAAACAGG
* * * * *
18307194 TCACGCAATGCCTACAAACAGGTCATGTAATGCTCAACAAATATTCAGTCACGTAATGTTCAA
1 TCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGTTCAA
* *
18307257 TCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTCAGTCGCGTAATTTTCAA
1 TCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGTTCAA
* * *
18307320 GCACCTAATGCCAAATAAACAAGT
1 TCACGTAATGCC-TATAAACAAGT
18307344 TACGATTCGT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
63 66 0.87
64 10 0.13
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (63 bp):
TCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGTTCAA
Found at i:18308043 original size:18 final size:19
Alignment explanation
Indices: 18308008--18308043 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18307998 TCAAAGCTCT
18308008 AAATTTTAGATTTGAAGTC
1 AAATTTTAGATTTGAAGTC
*
18308027 AAATTTT-GATTTTAAGT
1 AAATTTTAGATTTGAAGT
18308044 TCATATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (19 bp):
AAATTTTAGATTTGAAGTC
Found at i:18311338 original size:15 final size:15
Alignment explanation
Indices: 18311314--18311343 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18311304 GTAAGGAGAT
18311314 CCTTTCTTGTTTCAC
1 CCTTTCTTGTTTCAC
*
18311329 CCTTTTTTGTTTCAC
1 CCTTTCTTGTTTCAC
18311344 ATGTGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.57
Consensus pattern (15 bp):
CCTTTCTTGTTTCAC
Found at i:18315891 original size:14 final size:13
Alignment explanation
Indices: 18315854--18315894 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
18315844 CAATAAAACC
18315854 AATAAAAATATAAA
1 AATAAAAA-ATAAA
*
18315868 AATAAAAAATAAT
1 AATAAAAAATAAA
18315881 AATAAATAAATAAA
1 AATAAA-AAATAAA
18315895 CATTGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:18315894 original size:21 final size:22
Alignment explanation
Indices: 18315845--18315894 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
18315835 TTATGGTAAC
18315845 AATAAAACCAATAAAAATATAAA
1 AATAAAA-CAATAAAAATATAAA
*
18315868 AATAAAA-AATAATAATA-AATA
1 AATAAAACAATAAAAATATAA-A
18315889 AATAAA
1 AATAAA
18315895 CATTGGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
23 7 0.28
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAAAACAATAAAAATATAAA
Found at i:18317409 original size:103 final size:105
Alignment explanation
Indices: 18317223--18317433 Score: 329
Period size: 103 Copynumber: 2.0 Consensus size: 105
18317213 CACATATTCG
*
18317223 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTCCAATGATTTACTGTGTT
1 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTCCAATGATATACTGTGTT
* *
18317288 TAGGACGTAATTAATTATTTAGA-TGTGATTTATTAGATGT
66 TAGGACATAATTAATTATTTA-ATTGTGATTTATTAGATAT
* * *
18317328 ATACATTATGTGC-TTGTAGTATTGTAATAATTGGGCAA-TTCAATTTCAATGATATACTGTGTT
1 ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTCCAATGATATACTGTGTT
*
18317391 TAGGACATAATTATTTATTTAATTGTGATTTATTAGATAT
66 TAGGACATAATTAATTATTTAATTGTGATTTATTAGATAT
18317431 ATA
1 ATA
18317434 GTTAAAATTC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
102 1 0.01
103 61 0.62
104 23 0.23
105 13 0.13
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (105 bp):
ATACATTATGTGCTTTGTAGTATTGTAATAATTAGCCAATTTCAATTCCAATGATATACTGTGTT
TAGGACATAATTAATTATTTAATTGTGATTTATTAGATAT
Found at i:18320481 original size:16 final size:16
Alignment explanation
Indices: 18320428--18320481 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
18320418 AAGTTTCTTC
18320428 TTGGAAGTCTAAGTTA
1 TTGGAAGTCTAAGTTA
*
18320444 TT-GACTGGGTCTAAGCTTA
1 TTGGA---AGTCTAAG-TTA
18320463 TTGGAAGTCTAAGTTA
1 TTGGAAGTCTAAGTTA
18320479 TTG
1 TTG
18320482 AAAATTCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 7 0.23
18 7 0.23
19 5 0.16
20 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (16 bp):
TTGGAAGTCTAAGTTA
Found at i:18321435 original size:4 final size:4
Alignment explanation
Indices: 18321414--18321471 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
18321404 ATAACATACG
18321414 AATA AATA GAAT- AA-A AATA AATA AATA AATA AATA AATA AA-A TAAT-
1 AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA
18321460 AATA ATATA AAT
1 AATA A-ATA AAT
18321472 TAAAAAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
3 8 0.17
4 32 0.68
5 7 0.15
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:18321452 original size:31 final size:32
Alignment explanation
Indices: 18321414--18321479 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
18321404 ATAACATACG
*
18321414 AATAAATAGAATAAAAATAA-ATAAA-TAAATA
1 AATAAATAAAATAAAAATAATATAAATTAAA-A
*
18321445 AATAAATAAAATAATAATAATATAAATTAAAA
1 AATAAATAAAATAAAAATAATATAAATTAAAA
18321477 AAT
1 AAT
18321480 TTAAAGTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 18 0.58
32 9 0.29
33 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (32 bp):
AATAAATAAAATAAAAATAATATAAATTAAAA
Found at i:18338179 original size:33 final size:33
Alignment explanation
Indices: 18338137--18338202 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
18338127 AAAAATCTTT
*
18338137 CAATATTGTTGCTAAACATTAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
*
18338170 CAATCTTGTTGCTAAACATGAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
18338203 TCAACTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (33 bp):
CAATATTGTTGCTAAACATGAAGAAAATGGTAG
Found at i:18338863 original size:10 final size:10
Alignment explanation
Indices: 18338843--18338890 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
18338833 AATATAATAA
18338843 AAATGAAAATT
1 AAAT-AAAATT
18338854 AAATAAAATT
1 AAATAAAATT
*
18338864 -AATGAAAAAT
1 AAAT-AAAATT
18338874 -AATAAAATT
1 AAATAAAATT
18338883 AAATAAAA
1 AAATAAAA
18338891 AACTAAGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 21 0.64
11 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAATAAAATT
Found at i:18338891 original size:19 final size:19
Alignment explanation
Indices: 18338793--18338884 Score: 66
Period size: 19 Copynumber: 4.7 Consensus size: 19
18338783 ACAAATATAT
*
18338793 ATAATAAAAATTAATCAAGAA
1 ATAAT-AAAATTAATGAA-AA
18338814 ATAAATAAAA-TAAT-ATAATA
1 AT-AATAAAATTAATGA-AA-A
*
18338834 AT-ATAATAA-AAATGAAAA
1 ATAATAA-AATTAATGAAAA
*
18338852 TTAAATAAAATTAATGAAAA
1 AT-AATAAAATTAATGAAAA
18338872 ATAATAAAATTAA
1 ATAATAAAATTAA
18338885 ATAAAAAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
18 6 0.10
19 22 0.37
20 22 0.37
21 6 0.10
22 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (19 bp):
ATAATAAAATTAATGAAAA
Found at i:18339394 original size:174 final size:173
Alignment explanation
Indices: 18339028--18339374 Score: 403
Period size: 174 Copynumber: 2.0 Consensus size: 173
18339018 GTCGGTGGAG
** * * ** *
18339028 GGAAGAGATATTTAGCGTTTTGGGTGACCAAGCTTCAAGCCACCGGTGGCGGGGAAGGTGAGAGA
1 GGAAGAGATACCTAGGGTTTTGGGTGACCAAGCTTCAAGCCACCAGTGGAAGGGAAGGTGAGAAA
* * * * * * *
18339093 GAAGGAGAAAGCGACTAGCGAAGGAAAAGTTTAGAGTGAAGTGAGAGGGTGGCCGTGGCTAGAGA
66 AAAGGAGAAAGCAACGAGCGAAGGAAAAGTTTAAAGAGAAGTGAGAGGGTGGCCGCGACTAGAGA
* ** *
18339158 GAGAAAGGGAAAGAAGAAAATGAAAGGAGGGATTGTCTACAGAA
131 GAGAAAAGGAAAGAAGAAAATGAAAGGAGGGA-TGTAGAAAGAA
** * *
18339202 GGAAGAGATATTTAGGGTTTTGGGTGACCGAGCTTCAAGCCACTAGTGGAAGGGAAGGTGAGAAA
1 GGAAGAGATACCTAGGGTTTTGGGTGACCAAGCTTCAAGCCACCAGTGGAAGGGAAGGTGAGAAA
* **
18339267 AAAGGAGAAAGCAACCGA-CAGAGGGAAAAGTTTAAAGAGAAGTGAGAGGGTGGTTGCGACTAGA
66 AAAGGAGAAAGCAA-CGAGC-GAAGGAAAAGTTTAAAGAGAAGTGAGAGGGTGGCCGCGACTAGA
*
18339331 GAGAGAAAAGGAAAGAAGAAAATGAAGGGAGAGGA-G-AGAAAGAA
129 GAGAGAAAAGGAAAGAAGAAAATGAAAGGAG-GGATGTAGAAAGAA
18339375 AGGTTTTTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
173 5 0.03
174 72 0.49
175 68 0.46
176 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.38, T:0.14
Consensus pattern (173 bp):
GGAAGAGATACCTAGGGTTTTGGGTGACCAAGCTTCAAGCCACCAGTGGAAGGGAAGGTGAGAAA
AAAGGAGAAAGCAACGAGCGAAGGAAAAGTTTAAAGAGAAGTGAGAGGGTGGCCGCGACTAGAGA
GAGAAAAGGAAAGAAGAAAATGAAAGGAGGGATGTAGAAAGAA
Found at i:18340671 original size:32 final size:33
Alignment explanation
Indices: 18340611--18340677 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
18340601 TATATAAAGT
*
18340611 TGTATGTAAACATATATGTATTAACTCATATACA
1 TGTATGTAAACATATA-GAATTAACTCATATACA
18340645 TGTATGTAAACATATA-AATTAACTCATATACA
1 TGTATGTAAACATATAGAATTAACTCATATACA
18340677 T
1 T
18340678 AAAGTTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.50
34 16 0.50
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (33 bp):
TGTATGTAAACATATAGAATTAACTCATATACA
Found at i:18340704 original size:16 final size:16
Alignment explanation
Indices: 18340683--18340715 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18340673 TACATAAAGT
*
18340683 TGTATGTATACATATA
1 TGTATGTAAACATATA
18340699 TGTATGTAAACATATA
1 TGTATGTAAACATATA
18340715 T
1 T
18340716 ATACATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (16 bp):
TGTATGTAAACATATA
Found at i:18340715 original size:18 final size:18
Alignment explanation
Indices: 18340611--18340717 Score: 57
Period size: 18 Copynumber: 6.1 Consensus size: 18
18340601 TATATAAAGT
18340611 TGTATGTAAAC--ATATA
1 TGTATGTAAACATATATA
* *
18340627 TGTAT-TAACTCATATACA
1 TGTATGTAA-ACATATATA
*
18340645 TGTATGTAAACATATAAA
1 TGTATGTAAACATATATA
* * *
18340663 T-TAACTCATATACATAAAGT-
1 TGT-A-T-GTAAACATATA-TA
*
18340683 TGTATGTATAC--ATATA
1 TGTATGTAAACATATATA
18340699 TGTATGTAAACATATATA
1 TGTATGTAAACATATATA
18340717 T
1 T
18340718 ACATATATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
15 4 0.06
16 18 0.26
17 1 0.01
18 29 0.43
19 5 0.07
20 10 0.15
21 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (18 bp):
TGTATGTAAACATATATA
Found at i:18340740 original size:26 final size:26
Alignment explanation
Indices: 18340689--18340740 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18340679 AAGTTGTATG
* *
18340689 TATACATATATGTATGTAAACATATA
1 TATACATATATATATATAAACATATA
* *
18340715 TATACATATATATATATTAACTTATA
1 TATACATATATATATATAAACATATA
18340741 AAGTTATATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
TATACATATATATATATAAACATATA
Found at i:18341260 original size:21 final size:20
Alignment explanation
Indices: 18341233--18341284 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18341223 AAAGATTAAC
18341233 AAAATTTTATTTAAAAAATTA
1 AAAATTTTATTTAAAAAA-TA
* *
18341254 AATATTTTA-ATAAAAAATA
1 AAAATTTTATTTAAAAAATA
18341273 AAAATTATTATT
1 AAAATT-TTATT
18341285 ACCAATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTTTATTTAAAAAATA
Found at i:18341450 original size:28 final size:28
Alignment explanation
Indices: 18341413--18341482 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
18341403 TTTCTGACGG
**
18341413 ATTTTCAACAGAAAATTTTCTGTTGGAA
1 ATTTTCAACAGAAAATTTTCCATTGGAA
*
18341441 ATTTTGAACAGAAAATTTTCCATTGGAA
1 ATTTTCAACAGAAAATTTTCCATTGGAA
* *
18341469 ATTTCCAACGGAAA
1 ATTTTCAACAGAAA
18341483 TTCCGTCGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (28 bp):
ATTTTCAACAGAAAATTTTCCATTGGAA
Found at i:18342474 original size:54 final size:55
Alignment explanation
Indices: 18342407--18342551 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 55
18342397 TTCTGAAGAC
* * *
18342407 GAAGTTCTCAAGTCTAGTTCGTGTTCAAGATTAAGTC-ACCTAGACCCTTGAAA-T
1 GAAGTTCTCAAGTCTAGTTCGTGATCAAGATCAAGTCGACC-AAACCCTTGAAAGT
* * * *
18342461 GAAGTTCTTAAGTCTAGTTTGTGATCAAGATCAAGTCGTCCAAACTCTTGAAAGT
1 GAAGTTCTCAAGTCTAGTTCGTGATCAAGATCAAGTCGACCAAACCCTTGAAAGT
* * * *
18342516 GAAGTTCTGAAGTCTAGATCGTGCTCAAGAACAAGT
1 GAAGTTCTCAAGTCTAGTTCGTGATCAAGATCAAGT
18342552 TCGAGTTCAT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 43 0.56
55 34 0.44
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (55 bp):
GAAGTTCTCAAGTCTAGTTCGTGATCAAGATCAAGTCGACCAAACCCTTGAAAGT
Found at i:18346915 original size:15 final size:15
Alignment explanation
Indices: 18346891--18346920 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18346881 GTAAAGAGAT
18346891 CCTTTCTTGTTTCAC
1 CCTTTCTTGTTTCAC
*
18346906 CCTTTTTTGTTTCAC
1 CCTTTCTTGTTTCAC
18346921 ATGTGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.57
Consensus pattern (15 bp):
CCTTTCTTGTTTCAC
Found at i:18350826 original size:72 final size:71
Alignment explanation
Indices: 18350696--18350881 Score: 183
Period size: 72 Copynumber: 2.6 Consensus size: 71
18350686 GGCAGCTTAA
* * * * * **
18350696 GATCGACTATGGAGGATCTGTAGTTGATCTTGGACCAGAAAGCTTGTGTTTCACCCTTTTTCCCC
1 GATCGACTATGGAGGGTCTATAGTCGATCTTGGACTAGAATGCTTGCATTTCACCCTTTTT-CCC
18350761 TTCATAG
65 TTCATAG
* ** *
18350768 GATCGACTATGGAGGGTCTATAGTCGATCTTGGACTAGAATGTTTGCATTTCTTCCTTTTTTCCT
1 GATCGACTATGGAGGGTCTATAGTCGATCTTGGACTAGAATGCTTGCATTTCACCCTTTTTCCCT
*
18350833 TCCTAG
66 TCATAG
* ** * * * * *
18350839 TATCGACTATAAATGGCCTACAGTCAATCCTGGACTAGAATGC
1 GATCGACTATGGAGGGTCTATAGTCGATCTTGGACTAGAATGC
18350882 ATGACTTCCC
Statistics
Matches: 93, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
71 42 0.45
72 51 0.55
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (71 bp):
GATCGACTATGGAGGGTCTATAGTCGATCTTGGACTAGAATGCTTGCATTTCACCCTTTTTCCCT
TCATAG
Found at i:18355652 original size:18 final size:18
Alignment explanation
Indices: 18355611--18355645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18355601 ACCTGTAAAG
18355611 ATTAATTTGCAAGATAAT
1 ATTAATTTGCAAGATAAT
18355629 ATTAATTTGCAAG-TAAT
1 ATTAATTTGCAAGATAAT
18355646 TCATAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTAATTTGCAAGATAAT
Found at i:18355717 original size:5 final size:5
Alignment explanation
Indices: 18355707--18355731 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18355697 ATTTGTGCTC
18355707 TTTGA TTTGA TTTGA TTTGA TTTGA
1 TTTGA TTTGA TTTGA TTTGA TTTGA
18355732 AAACAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TTTGA
Found at i:18357127 original size:20 final size:20
Alignment explanation
Indices: 18357083--18357127 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18357073 AGGAAATGAA
18357083 GGAAAAAAGAAAAACCAAAG
1 GGAAAAAAGAAAAACCAAAG
* * **
18357103 AGAAACAAGAAAATTCAAAG
1 GGAAAAAAGAAAAACCAAAG
18357123 GGAAA
1 GGAAA
18357128 TTCACGTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.09, G:0.20, T:0.04
Consensus pattern (20 bp):
GGAAAAAAGAAAAACCAAAG
Found at i:18374328 original size:28 final size:27
Alignment explanation
Indices: 18374285--18374337 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
18374275 ACAGCTTTGA
18374285 AAAATATAGTTTTACACGCCATATTCT
1 AAAATATAGTTTTACACGCCATATTCT
* *
18374312 AAAATTTAGTTATTACATGCCATATT
1 AAAATATAGTT-TTACACGCCATATT
18374338 GAAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (27 bp):
AAAATATAGTTTTACACGCCATATTCT
Found at i:18374342 original size:27 final size:27
Alignment explanation
Indices: 18374285--18374717 Score: 280
Period size: 27 Copynumber: 15.9 Consensus size: 27
18374275 ACAGCTTTGA
* * * *
18374285 AAAATATAGTT-TTACACGCCATATTCT
1 AAAATTTAGTTGTTACATGCCATGTT-G
* *
18374312 AAAATTTAGTTATTACATGCCATATTG
1 AAAATTTAGTTGTTACATGCCATGTTG
* * *
18374339 AAAA--TAATTGTTACATGTCATGTTA
1 AAAATTTAGTTGTTACATGCCATGTTG
* * *
18374364 AAAATGTAATTGTTACATGTCATGTTG
1 AAAATTTAGTTGTTACATGCCATGTTG
**
18374391 AAAATTTAGTTGTTACATATCATGTTG
1 AAAATTTAGTTGTTACATGCCATGTTG
* * * *
18374418 AAATATGTAATTGTTGCACGCCATGTTG
1 AAA-ATTTAGTTGTTACATGCCATGTTG
18374446 AAAATTTAGTTGTTACATGCCATGTTG
1 AAAATTTAGTTGTTACATGCCATGTTG
* * *
18374473 AAAAATTTAATTGTTACACGTCATGTTG
1 -AAAATTTAGTTGTTACATGCCATGTTG
* * **
18374501 AAGATTTAGTTGTTAAACACCATGTTG
1 AAAATTTAGTTGTTACATGCCATGTTG
* * ***
18374528 AAATTTTAGTTATTACACATCATGTTG
1 AAAATTTAGTTGTTACATGCCATGTTG
* ** *
18374555 AAAAATGTAGTTGTTACACACTATGTTG
1 -AAAATTTAGTTGTTACATGCCATGTTG
* ** * *
18374583 AAAATGTAGTTGTTACACACTATGTTAA
1 AAAATTTAGTTGTTACATGCCATGTT-G
* ** * *
18374611 AAAATGTAGTTGTTACACACTATGTTAA
1 AAAATTTAGTTGTTACATGCCATGTT-G
* * * *
18374639 AAAATGTAATTATTACAAGCCATGTT-
1 AAAATTTAGTTGTTACATGCCATGTTG
* * *
18374665 AAAAGTTTAGTTATTACAAGTCATGTTG
1 AAAA-TTTAGTTGTTACATGCCATGTTG
* * *
18374693 AAAAATATAGTTCTTACACGCCATG
1 -AAAATTTAGTTGTTACATGCCATG
18374718 AAGGAAAAGT
Statistics
Matches: 343, Mismatches: 53, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
25 20 0.06
26 4 0.01
27 170 0.50
28 145 0.42
29 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
AAAATTTAGTTGTTACATGCCATGTTG
Found at i:18374443 original size:55 final size:55
Alignment explanation
Indices: 18374324--18374717 Score: 338
Period size: 55 Copynumber: 7.2 Consensus size: 55
18374314 AATTTAGTTA
* * * **
18374324 TTACATGCCATATTGAAAA--TAATTGTTACATGTCATGTT-AAAAATGTAATTG
1 TTACACGCCATGTTGAAAATTTAGTTGTTACACATCATGTTGAAAAATGTAATTG
* * * *
18374376 TTACATGTCATGTTGAAAATTTAGTTGTTACATATCATGTTGAAATATGTAATTG
1 TTACACGCCATGTTGAAAATTTAGTTGTTACACATCATGTTGAAAAATGTAATTG
* *** *
18374431 TTGCACGCCATGTTGAAAATTTAGTTGTTACATGCCATGTTGAAAAATTTAATTG
1 TTACACGCCATGTTGAAAATTTAGTTGTTACACATCATGTTGAAAAATGTAATTG
* * * * * * * *
18374486 TTACACGTCATGTTGAAGATTTAGTTGTTAAACACCATGTTG-AAATTTTAGTTA
1 TTACACGCCATGTTGAAAATTTAGTTGTTACACATCATGTTGAAAAATGTAATTG
** * *
18374540 TTACACATCATGTTGAAAAATGTAGTTGTTACACA-CTATGTTG-AAAATGTAGTTG
1 TTACACGCCATGTTG-AAAATTTAGTTGTTACACATC-ATGTTGAAAAATGTAATTG
* * * * * *
18374595 TTACACACTATGTTAAAAAATGTAGTTGTTACACA-CTATGTTAAAAAATGTAATTA
1 TTACACGCCATGTT-GAAAATTTAGTTGTTACACATC-ATGTTGAAAAATGTAATTG
* * * * *
18374651 TTACAAGCCATGTT-AAAAGTTTAGTTATTACA-AGTCATGTTGAAAAATATAGTTC
1 TTACACGCCATGTTGAAAA-TTTAGTTGTTACACA-TCATGTTGAAAAATGTAATTG
18374706 TTACACGCCATG
1 TTACACGCCATG
18374718 AAGGAAAAGT
Statistics
Matches: 288, Mismatches: 44, Indels: 17
0.83 0.13 0.05
Matches are distributed among these distances:
52 17 0.06
54 47 0.16
55 202 0.70
56 22 0.08
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (55 bp):
TTACACGCCATGTTGAAAATTTAGTTGTTACACATCATGTTGAAAAATGTAATTG
Found at i:18374459 original size:82 final size:81
Alignment explanation
Indices: 18374312--18374627 Score: 296
Period size: 82 Copynumber: 3.9 Consensus size: 81
18374302 GCCATATTCT
* *** * *** *
18374312 AAAATTTAGTTATTACATGCCATATTGAAAA-TAATTGTTACATGTCATGTTAAAAATGTAATTG
1 AAAATTTAGTTGTTACACATCATGTTGAAAATTAATTGTTACACACCATGTTAAAAATGTAGTTG
18374376 TTACATGTCATGTTG-
66 TTACATGTCATGTTGA
* * * * *
18374391 AAAATTTAGTTGTTACATATCATGTTGAAATATGTAATTGTTGCACGCCATGTTGAAAATTTAGT
1 AAAATTTAGTTGTTACACATCATGTTGAAA-AT-TAATTGTTACACACCATGTTAAAAATGTAGT
*
18374456 TGTTACATGCCATGTTGA
64 TGTTACATGTCATGTTGA
* * * * * * * *
18374474 AAAATTTAATTGTTACACGTCATGTTGAAGATTTAGTTGTTAAACACCATGTTGAAATTTTAGTT
1 AAAATTTAGTTGTTACACATCATGTTGAA-AATTAATTGTTACACACCATGTTAAAAATGTAGTT
* **
18374539 ATTACACATCATGTTGA
65 GTTACATGTCATGTTGA
* * *
18374556 AAAATGTAGTTGTTACACA-CTATGTTGAAAATGTAGTTGTTACACACTATGTTAAAAAATGTAG
1 AAAATTTAGTTGTTACACATC-ATGTTGAAAAT-TAATTGTTACACACCATGTT-AAAAATGTAG
18374620 TTGTTACA
63 TTGTTACA
18374628 CACTATGTTA
Statistics
Matches: 195, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
79 26 0.13
80 1 0.01
81 3 0.02
82 123 0.63
83 41 0.21
84 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (81 bp):
AAAATTTAGTTGTTACACATCATGTTGAAAATTAATTGTTACACACCATGTTAAAAATGTAGTTG
TTACATGTCATGTTGA
Found at i:18377241 original size:13 final size:12
Alignment explanation
Indices: 18377225--18377288 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 12
18377215 TATAAAAAAT
18377225 AATAATAATAAGA
1 AATAATAATAA-A
*
18377238 AATAAGAATAGAA
1 AATAATAATA-AA
18377251 AATATGATAAT-AA
1 AATA--ATAATAAA
18377264 AATAATTAATAAA
1 AATAA-TAATAAA
18377277 AATAATTAATAA
1 AATAA-TAATAA
18377289 TAACAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
11 1 0.02
12 4 0.09
13 34 0.77
14 1 0.02
15 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:18379891 original size:18 final size:19
Alignment explanation
Indices: 18379850--18379893 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
18379840 ACATTTTCCT
*
18379850 TTTTTTATTTGATTTTTTA
1 TTTTTTATTTGATTTTTAA
18379869 TTTTTTA-TT-ATTTTTAA
1 TTTTTTATTTGATTTTTAA
18379886 TATTTTTA
1 T-TTTTTA
18379894 AAAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTGATTTTTAA
Found at i:18386398 original size:17 final size:19
Alignment explanation
Indices: 18386376--18386413 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
18386366 AAATATTTAT
18386376 ATGCAATA-ATATGC-ATG
1 ATGCAATATATATGCTATG
18386393 ATGCAATATATATGCTATG
1 ATGCAATATATATGCTATG
18386412 AT
1 AT
18386414 AATACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
ATGCAATATATATGCTATG
Found at i:18386445 original size:21 final size:20
Alignment explanation
Indices: 18386421--18386475 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
18386411 GATAATACAA
*
18386421 TTATCTATTTTATTGTTATTT
1 TTAT-TATTTTATTGTCATTT
*
18386442 TTATTATTTTTTTTGTCATTT
1 TTATTA-TTTTATTGTCATTT
18386463 TTATTATTTTATT
1 TTATTATTTTATT
18386476 CTTTATTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TTATTATTTTATTGTCATTT
Found at i:18386670 original size:26 final size:25
Alignment explanation
Indices: 18386641--18386707 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
18386631 TTTATTGTCG
* *
18386641 TATTTTTATATTATTTGTTATTTTTA
1 TATTTTTATATTATTT-TGATTATTA
18386667 TATTTTT-TA-TATTTTGATTATTA
1 TATTTTTATATTATTTTGATTATTA
*
18386690 TATTATTATTATTATTTT
1 TATTTTTA-TATTATTTT
18386708 TGTAAGCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 13 0.37
24 5 0.14
25 4 0.11
26 13 0.37
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (25 bp):
TATTTTTATATTATTTTGATTATTA
Found at i:18386692 original size:14 final size:14
Alignment explanation
Indices: 18386673--18386709 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
18386663 TTTATATTTT
18386673 TTATATTTTGATTA
1 TTATATTTTGATTA
18386687 TTATATTATT-ATTA
1 TTATATT-TTGATTA
18386701 TTAT-TTTTG
1 TTATATTTTG
18386710 TAAGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.10
13 2 0.10
14 15 0.71
15 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTATATTTTGATTA
Found at i:18387008 original size:21 final size:21
Alignment explanation
Indices: 18386965--18387008 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18386955 ATTTGAATCA
* *
18386965 TTATTATTATTTTTATTTTAT
1 TTATTATTATTTTTATATGAT
18386986 TTATTA-TATTTTTAATATGAT
1 TTATTATTATTTTT-ATATGAT
18387007 TT
1 TT
18387009 TTGTAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTATTATTTTTATATGAT
Found at i:18391420 original size:11 final size:11
Alignment explanation
Indices: 18391385--18391414 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18391375 AAATATTTTG
*
18391385 AAAAAAAATTA
1 AAAAAAAATAA
18391396 AAAAAAAATAA
1 AAAAAAAATAA
18391407 AAAAAAAA
1 AAAAAAAA
18391415 CGAAAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:18391711 original size:20 final size:21
Alignment explanation
Indices: 18391665--18391712 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
18391655 TTTTAAAAAA
*
18391665 TAAAAATTATTTTTGAATTTT
1 TAAAAATTATTTTTGAATTTC
*
18391686 TTAAAATT-TTTTTGAATTTC
1 TAAAAATTATTTTTGAATTTC
18391706 TAAAAAT
1 TAAAAAT
18391713 ATTATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TAAAAATTATTTTTGAATTTC
Found at i:18392484 original size:11 final size:11
Alignment explanation
Indices: 18392464--18392493 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18392454 AAAAATCAGG
*
18392464 TTAAATAAAAT
1 TTAAAAAAAAT
18392475 TTAAAAAAAAT
1 TTAAAAAAAAT
18392486 TTAAAAAA
1 TTAAAAAA
18392494 GTAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TTAAAAAAAAT
Found at i:18403260 original size:30 final size:29
Alignment explanation
Indices: 18403196--18403270 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
18403186 TTGACTAATA
* * * *
18403196 ATTAG-TCAAAATATAATTATAAAGGTTT
1 ATTAGATCAAAATAAAAATATAAAGCTTG
18403224 ATTTAGATCAAAATAAAAATATAAGAGCTTG
1 A-TTAGATCAAAATAAAAATATAA-AGCTTG
*
18403255 ATTAGAT-ATAATAAAA
1 ATTAGATCAAAATAAAA
18403271 GAATAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 12 0.31
30 21 0.54
31 5 0.13
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (29 bp):
ATTAGATCAAAATAAAAATATAAAGCTTG
Found at i:18405568 original size:17 final size:17
Alignment explanation
Indices: 18405546--18405593 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
18405536 TAAAAGTCGT
*
18405546 AAAGAATCAAATTTATA
1 AAAGAATCAAAATTATA
*
18405563 AAAGAATTAAAATTATA
1 AAAGAATCAAAATTATA
*
18405580 AAAGAATTAAAATT
1 AAAGAATCAAAATT
18405594 TTAACATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAGAATCAAAATTATA
Found at i:18408614 original size:175 final size:178
Alignment explanation
Indices: 18408319--18408673 Score: 590
Period size: 175 Copynumber: 2.0 Consensus size: 178
18408309 ACCGCGTTGC
* * *
18408319 ATAAATCAAAAGCAATGGAAACCAATGACCCTTTAAGCCACATATATATATATATATACACACAC
1 ATAAATCAAAAGCAATGGAAACCAATGACCCTTTAAGCCACATATATATAAATACACACACACAC
*
18408384 TATTACCAATAGAAAAAAAAAGTTGGGATAAGGACAGAATATTTAAACCATGTATCCTAGTTGAA
66 TATTACCAATA-AAAAAAAAAGTTGGGATAAGGAAAGAATATTTAAACCATGTATCCTAGTTGAA
18408449 AATTTTTATTTAGGTGCTGTATGGGTTATGAGTAGTAACCCAAAATTTG
130 AATTTTTATTTAGGTGCTGTATGGGTTATGAGTAGTAACCCAAAATTTG
* * *
18408498 ATAAATCAAAAGCAATGGAAATCAATGACTCTTT-AGGC-CATATATATAAATACACACACACAC
1 ATAAATCAAAAGCAATGGAAACCAATGACCCTTTAAGCCACATATATATAAATACACACACACAC
* *
18408561 TATTACCAAT-AAAAAAAGAGTTGGGATAAGGAAAGAATATTTAAATCATGTATCCTAGTTGAAA
66 TATTACCAATAAAAAAAAAAGTTGGGATAAGGAAAGAATATTTAAACCATGTATCCTAGTTGAAA
*
18408625 ATTTTTATTTAGGTGCTGTATGGGTTATGAGTTGTAACCCAAAATTTG
131 ATTTTTATTTAGGTGCTGTATGGGTTATGAGTAGTAACCCAAAATTTG
18408673 A
1 A
18408674 AGTCATTTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
175 99 0.60
177 32 0.19
178 3 0.02
179 32 0.19
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (178 bp):
ATAAATCAAAAGCAATGGAAACCAATGACCCTTTAAGCCACATATATATAAATACACACACACAC
TATTACCAATAAAAAAAAAAGTTGGGATAAGGAAAGAATATTTAAACCATGTATCCTAGTTGAAA
ATTTTTATTTAGGTGCTGTATGGGTTATGAGTAGTAACCCAAAATTTG
Found at i:18408994 original size:30 final size:29
Alignment explanation
Indices: 18408937--18408995 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
18408927 AAAAAATTCT
* *
18408937 CTTTTATTGTATTTAATTAAATCTTTATA
1 CTTTTATTGTATTCAAATAAATCTTTATA
* *
18408966 CTTTTATTTTAATTCAAATAAATTTTTATA
1 CTTTTATTGT-ATTCAAATAAATCTTTATA
18408996 ATTAACGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (29 bp):
CTTTTATTGTATTCAAATAAATCTTTATA
Found at i:18409294 original size:18 final size:18
Alignment explanation
Indices: 18409238--18409294 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
18409228 TTATTAAATT
* * *
18409238 TTTTTAATAATTTTTTAA
1 TTTTTAAAAATATTTGAA
* *
18409256 TTTTT-CAAATATTATGTA
1 TTTTTAAAAATATT-TGAA
18409274 TTTTTAAAAATATTTGAA
1 TTTTTAAAAATATTTGAA
18409292 TTT
1 TTT
18409295 AAATATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 5 0.17
18 18 0.60
19 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTAAAAATATTTGAA
Found at i:18414884 original size:2 final size:2
Alignment explanation
Indices: 18414877--18414916 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
18414867 ATTCAAAAGA
18414877 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18414917 TAATATAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18414917 original size:16 final size:15
Alignment explanation
Indices: 18414877--18414923 Score: 71
Period size: 14 Copynumber: 3.2 Consensus size: 15
18414867 ATTCAAAAGA
18414877 ATATATATA-TATAT
1 ATATATATATTATAT
18414891 ATATATATATTATAAT
1 ATATATATATTAT-AT
18414907 ATATATATATTA-AT
1 ATATATATATTATAT
18414921 ATA
1 ATA
18414924 AACATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.45
15 3 0.10
16 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATATATTATAT
Found at i:18414920 original size:14 final size:14
Alignment explanation
Indices: 18414876--18414923 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 14
18414866 TATTCAAAAG
18414876 AATATATATATA-T
1 AATATATATATATT
18414889 -ATATATATATATTAT
1 AATATATATATA-T-T
18414904 AATATATATATATT
1 AATATATATATATT
18414918 AATATA
1 AATATA
18414924 AACATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.35
14 7 0.23
15 2 0.06
16 11 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATATATATATT
Found at i:18414989 original size:16 final size:17
Alignment explanation
Indices: 18414959--18414991 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18414949 AAAGCATACG
18414959 AAATTTTATTAAAAAAT
1 AAATTTTATTAAAAAAT
18414976 AAATTTTA-TAAAAAAT
1 AAATTTTATTAAAAAAT
18414992 TATAANATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTTATTAAAAAAT
Found at i:18415003 original size:2 final size:2
Alignment explanation
Indices: 18414998--18415039 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18414988 AAATTATAAN
18414998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18415040 TAATATAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18417879 original size:12 final size:13
Alignment explanation
Indices: 18417852--18417884 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18417842 AGCGGGAGGC
*
18417852 ATAAATACTAAAT
1 ATAAATAATAAAT
18417865 ATAAATAAT-AAT
1 ATAAATAATAAAT
18417877 ATAAATAA
1 ATAAATAA
18417885 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATAATAAAT
Found at i:18421365 original size:3 final size:3
Alignment explanation
Indices: 18421357--18421393 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
18421347 CCATAAAGTC
* *
18421357 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA GAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18421394 CTTTGGCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18421671 original size:20 final size:19
Alignment explanation
Indices: 18421646--18421693 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
18421636 TTTTATTTGC
18421646 ATAAAAAAATAAAGTAAAAA
1 ATAAAAAAATAAA-TAAAAA
*
18421666 AT--AAAAATAAATAATAA
1 ATAAAAAAATAAATAAAAA
18421683 ATAATAAAAAT
1 ATAA-AAAAAT
18421694 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
20 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
ATAAAAAAATAAATAAAAA
Found at i:18421676 original size:13 final size:13
Alignment explanation
Indices: 18421649--18421700 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
18421639 TATTTGCATA
*
18421649 AAAAAAT-AAAGT
1 AAAAAATAAAAAT
18421661 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
18421674 AAATAATAAATAAT
1 AAAAAATAAA-AAT
*
18421688 AAAAATTAAAAAT
1 AAAAAATAAAAAT
18421701 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.21
13 16 0.47
14 11 0.32
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:18421684 original size:17 final size:18
Alignment explanation
Indices: 18421650--18421699 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
18421640 ATTTGCATAA
18421650 AAAAATAAAGTAAAAAAT
1 AAAAATAAAGTAAAAAAT
*
18421668 AAAAATAAA-TAATAAAT
1 AAAAATAAAGTAAAAAAT
* *
18421685 AATAA-AAATTAAAAA
1 AAAAATAAAGTAAAAA
18421700 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.11
17 16 0.57
18 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAATAAAGTAAAAAAT
Found at i:18421701 original size:7 final size:6
Alignment explanation
Indices: 18421662--18421700 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 6
18421652 AAATAAAGTA
18421662 AAAAAT AAAAAT AAATAAT AAATAAT AAAAATT AAAAAT
1 AAAAAT AAAAAT AAA-AAT AAA-AAT AAAAA-T AAAAAT
18421701 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:18424943 original size:24 final size:24
Alignment explanation
Indices: 18424916--18424961 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18424906 ATTTTTTTTC
* *
18424916 TTTTACATATGAATATTTATTGTT
1 TTTTACATATGAAAACTTATTGTT
*
18424940 TTTTTCATATGAAAACTTATTG
1 TTTTACATATGAAAACTTATTG
18424962 AGTCTTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (24 bp):
TTTTACATATGAAAACTTATTGTT
Found at i:18428177 original size:29 final size:29
Alignment explanation
Indices: 18428087--18428216 Score: 145
Period size: 29 Copynumber: 4.4 Consensus size: 29
18428077 TTTTGTCTGT
*
18428087 AATTAAAACAAAAAAATATTTTATCTTGTCTA
1 AATTAAGAC-AAAAAATA-TTT-TCTTGTCTA
* * * * *
18428119 AATTAAGGC-AAATATGTTTTGTTGACTA
1 AATTAAGACAAAAAATATTTTCTTGTCTA
18428147 AATTAAGACAAAAAATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTCTTGTCTA
* * *
18428176 AATTAAGACCAAACATATTTTATTGTCTA
1 AATTAAGACAAAAAATATTTTCTTGTCTA
18428205 AATTAAGACAAA
1 AATTAAGACAAA
18428217 CATGTCAAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 15 0.18
29 55 0.67
30 5 0.06
32 7 0.09
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (29 bp):
AATTAAGACAAAAAATATTTTCTTGTCTA
Found at i:18428212 original size:58 final size:59
Alignment explanation
Indices: 18428087--18428216 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 59
18428077 TTTTGTCTGT
* * * * *
18428087 AATTAAAACAAAAAAATATTTTATCTTGTCTAAATTAAGGCAAATATGTTTTGTTGACTA
1 AATTAAGAC-AAAAAATATTTTATCTTGTCTAAATTAAGCCAAACATATTTTATTGACTA
*
18428147 AATTAAGACAAAAAATA-TTT-TCTTGTCTAAATTAAGACCAAACATATTTTATTGTCTA
1 AATTAAGACAAAAAATATTTTATCTTGTCTAAATTAAG-CCAAACATATTTTATTGACTA
18428205 AATTAAGACAAA
1 AATTAAGACAAA
18428217 CATGTCAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
57 16 0.25
58 31 0.49
59 8 0.13
60 8 0.13
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (59 bp):
AATTAAGACAAAAAATATTTTATCTTGTCTAAATTAAGCCAAACATATTTTATTGACTA
Found at i:18429796 original size:13 final size:13
Alignment explanation
Indices: 18429778--18429803 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18429768 TTTTAGAAAA
18429778 TTTATAAAATCAT
1 TTTATAAAATCAT
18429791 TTTATAAAATCAT
1 TTTATAAAATCAT
18429804 AATTTCTCCT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:18431059 original size:19 final size:19
Alignment explanation
Indices: 18431035--18431071 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18431025 CTTCTAAACT
18431035 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
18431054 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
18431072 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:18440302 original size:16 final size:16
Alignment explanation
Indices: 18440281--18440320 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
18440271 AAATGAAAAT
*
18440281 TTTTTAAGAATATATA
1 TTTTTAAAAATATATA
18440297 TTTTTAAAAATATATA
1 TTTTTAAAAATATATA
18440313 -TTTTAAAA
1 TTTTTAAAA
18440321 TAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTTTAAAAATATATA
Found at i:18440311 original size:14 final size:15
Alignment explanation
Indices: 18440281--18440322 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
18440271 AAATGAAAAT
18440281 TTTTTAAGAATATATA
1 TTTTTAA-AATATATA
18440297 TTTTTAAAA-ATATA
1 TTTTTAAAATATATA
18440311 TATTTTAAAATA
1 T-TTTTAAAATA
18440323 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.25
15 10 0.42
16 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTTTAAAATATATA
Found at i:18440473 original size:20 final size:20
Alignment explanation
Indices: 18440431--18440475 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18440421 CACCTGGCAA
* * * *
18440431 CAGCTTGTGTTGCTGTTCGG
1 CAGCATGTGCTGCTGTCCAG
18440451 CAGCATGTGCTGCTGTCCAG
1 CAGCATGTGCTGCTGTCCAG
18440471 CAGCA
1 CAGCA
18440476 ACACACAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.27, G:0.31, T:0.29
Consensus pattern (20 bp):
CAGCATGTGCTGCTGTCCAG
Found at i:18440695 original size:34 final size:35
Alignment explanation
Indices: 18440627--18440695 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
18440617 ACAGAATTTT
* * *
18440627 AATATAAGAAAAACTCTTTTTCTTTAAAAAAAATA
1 AATACAAGAAAAACTCATTTTCTTCAAAAAAAATA
18440662 AATACAAGAAAAACTCATTTT-TTCAAAAAAAATA
1 AATACAAGAAAAACTCATTTTCTTCAAAAAAAATA
18440696 GTCATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 12 0.39
35 19 0.61
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (35 bp):
AATACAAGAAAAACTCATTTTCTTCAAAAAAAATA
Found at i:18440708 original size:34 final size:33
Alignment explanation
Indices: 18440630--18440695 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
18440620 GAATTTTAAT
* * *
18440630 ATAAGAAAAACTCTTTTTCTTTAAAAAAAATAA
1 ATAAAAAAAACTCATTTTCTTCAAAAAAAATAA
18440663 ATACAAGAAAAACTCATTTT-TTCAAAAAAAATA
1 ATA-AA-AAAAACTCATTTTCTTCAAAAAAAATA
18440696 GTCATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.11
34 13 0.46
35 12 0.43
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (33 bp):
ATAAAAAAAACTCATTTTCTTCAAAAAAAATAA
Found at i:18441927 original size:28 final size:28
Alignment explanation
Indices: 18441895--18442036 Score: 149
Period size: 29 Copynumber: 4.9 Consensus size: 28
18441885 AAAAATTTTA
**
18441895 TCTTGTCTAAATTAAGACAATTATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
18441923 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACAT-GTTT
* ** *
18441953 TCTTATCTTAAATTAAGGTAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
18441982 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
* *
18442011 TCTTGTCTAAATTAATAAAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
18442037 CAAAGCTGCC
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
28 34 0.36
29 38 0.40
30 13 0.14
31 9 0.10
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:18441965 original size:59 final size:58
Alignment explanation
Indices: 18441872--18442034 Score: 175
Period size: 59 Copynumber: 2.8 Consensus size: 58
18441862 TCTTGTCTGT
* ** *
18441872 AATTAAGACGAAAAAAAATTTTATCTTGTCTAAATTAAGACAATTATGTTTTCTTGACTA
1 AATTAAGAC-AAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATATTTTCTTGACTA
* ** *
18441932 AATTAAGACAAAAAATATTTTTCTTATCTTAAATTAAGGTAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATATTTTCTTGACTA
* * * * *
18441991 AATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAATAAAAACAT
1 AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACAT
18442035 GTCAAAGCTG
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 14 0.16
58 15 0.17
59 49 0.56
60 9 0.10
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATATTTTCTTGACTA
Found at i:18447294 original size:68 final size:66
Alignment explanation
Indices: 18447189--18447448 Score: 245
Period size: 68 Copynumber: 3.8 Consensus size: 66
18447179 GGTATGATGA
* *
18447189 ATGCCATAAGATTATGTATATGATGTA-AATTCTATATACTATATGAGATGATCAAGTATGCATG
1 ATGCCATAAGATTATGTATATGATGTAGATTTC-ATATACCATATGAGATGAT-AAGTATGCATG
18447253 ATGT
64 AT-T
* * * * * *
18447257 ATACTATAAGATTTTGTATATGATGTAGATTTCATATACCATACGAGGTGAGTAAGTGTGCATGA
1 ATGCCATAAGATTATGTATATGATGTAGATTTCATATACCATATGAGATGA-TAAGTATGCATGA
18447322 TT
65 TT
* * * * * * * * *
18447324 AATGCCATGAGATTATGTATATGATGTAAATTCCACATACTACATGAGATGATTGAGCAAGCATG
1 -ATGCCATAAGATTATGTATATGATGTAGATTTCATATACCATATGAGATGA-TAAGTATGCATG
*
18447389 ATAA
64 AT-T
* *
18447393 ATGCCATGAGATTATGTATATGATG-AGAATTTCATATACCGTATGAGATGAGTAAG
1 ATGCCATAAGATTATGTATATGATGTAG-ATTTCATATACCATATGAGATGA-TAAG
18447449 CATGTATGTG
Statistics
Matches: 154, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
67 2 0.01
68 147 0.95
69 5 0.03
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (66 bp):
ATGCCATAAGATTATGTATATGATGTAGATTTCATATACCATATGAGATGATAAGTATGCATGAT
T
Found at i:18447426 original size:136 final size:136
Alignment explanation
Indices: 18447182--18447448 Score: 356
Period size: 136 Copynumber: 2.0 Consensus size: 136
18447172 CATGTTTGGT
* * * *
18447182 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCTATATACTATATGAGATGATCAAGTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCACATACTACATGAGATGATCAAGCA
* ** * * *
18447247 TGCATGATGTATACTATAAGATTTTGTATATGATGTAGATTTCATATACCATACGAGGTGAGTAA
66 AGCATGATAAATACCATAAGATTATGTATATGATGTAGATTTCATATACCATACGAGATGAGTAA
18447312 GTGTGC
131 GTGTGC
* * **
18447318 ATGATTAATGCCATGAGATTATGTATATGATGTAAATTCCACATACTACATGAGATGATTGAGCA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCACATACTACATGAGATGATCAAGCA
* * * *
18447383 AGCATGATAAATGCCATGAGATTATGTATATGATG-AGAATTTCATATACCGTATGAGATGAGTA
66 AGCATGATAAATACCATAAGATTATGTATATGATGTAG-ATTTCATATACCATACGAGATGAGTA
18447447 AG
130 AG
18447449 CATGTATGTG
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
135 2 0.02
136 110 0.98
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (136 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCACATACTACATGAGATGATCAAGCA
AGCATGATAAATACCATAAGATTATGTATATGATGTAGATTTCATATACCATACGAGATGAGTAA
GTGTGC
Found at i:18456561 original size:32 final size:32
Alignment explanation
Indices: 18456520--18456592 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
18456510 ACCCCCATCA
*
18456520 ACCTTGGGCTGGTAATACACGAA-CCACATTAC
1 ACCTTGGGCTGGCAATACAC-AATCCACATTAC
* * *
18456552 ACCTTGGGCTGGCAATGCACAATCCCCATTGC
1 ACCTTGGGCTGGCAATACACAATCCACATTAC
18456584 ACCTTGGGC
1 ACCTTGGGC
18456593 ATTTATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 34 0.94
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (32 bp):
ACCTTGGGCTGGCAATACACAATCCACATTAC
Found at i:18456815 original size:68 final size:68
Alignment explanation
Indices: 18456734--18456932 Score: 272
Period size: 68 Copynumber: 2.9 Consensus size: 68
18456724 ATCGTACATG
* ** * * ** * * *
18456734 CTTAATCGTCTCATATAATATATGGAATCTACATGATGCACACATTCTCATGGCATTCATCATGC
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACACAATCTTATGGCATTTATCATGC
18456799 ATA
66 ATA
* * *
18456802 CTTAATCACCTCATATGGTATATGAAATTTGCATCATATACACAATCTTATGGCATTTATCATGC
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACACAATCTTATGGCATTTATCATGC
18456867 ATA
66 ATA
*
18456870 CTTAATCATCTCATATGGTATACGGAATTTACATCATATACACAATCTTATGGCATTTATCAT
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACACAATCTTATGGCATTTATCAT
18456933 ACCAAATATG
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 114 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (68 bp):
CTTAATCATCTCATATGGTATATGGAATTTACATCATATACACAATCTTATGGCATTTATCATGC
ATA
Found at i:18459091 original size:27 final size:28
Alignment explanation
Indices: 18458996--18459173 Score: 213
Period size: 27 Copynumber: 6.5 Consensus size: 28
18458986 GGGTTTCACA
*
18458996 CCTTAGCAT-TTTCTAAAATATTTAGATG
1 CCTTAGCATCTTT-TAAAATACTTAGATG
* * * *
18459024 CTTTAACATCTTTTGAAATATTTAGATG
1 CCTTAGCATCTTTTAAAATACTTAGATG
*
18459052 CCTTAGCATCTTTTGAAATACTTAGATG
1 CCTTAGCATCTTTTAAAATACTTAGATG
*
18459080 -CTTAGCATCTTTTAAAATAC-TAAATG
1 CCTTAGCATCTTTTAAAATACTTAGATG
18459106 CCTTAGCATCTTTTAAAATAC-TAGATG
1 CCTTAGCATCTTTTAAAATACTTAGATG
** *
18459133 CCTTAGCATCTTCAAAAATATTTAGATG
1 CCTTAGCATCTTTTAAAATACTTAGATG
*
18459161 CCTTAACAT-TTTT
1 CCTTAGCATCTTTT
18459174 GGATTTGGTA
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
26 5 0.04
27 64 0.48
28 60 0.45
29 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (28 bp):
CCTTAGCATCTTTTAAAATACTTAGATG
Found at i:18460328 original size:19 final size:19
Alignment explanation
Indices: 18460304--18460371 Score: 136
Period size: 19 Copynumber: 3.6 Consensus size: 19
18460294 TTGGTATTAG
18460304 AGGCTTGCTTGGGTCAAGT
1 AGGCTTGCTTGGGTCAAGT
18460323 AGGCTTGCTTGGGTCAAGT
1 AGGCTTGCTTGGGTCAAGT
18460342 AGGCTTGCTTGGGTCAAGT
1 AGGCTTGCTTGGGTCAAGT
18460361 AGGCTTGCTTG
1 AGGCTTGCTTG
18460372 CTAAGCTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.15, C:0.16, G:0.37, T:0.32
Consensus pattern (19 bp):
AGGCTTGCTTGGGTCAAGT
Found at i:18464468 original size:2 final size:2
Alignment explanation
Indices: 18464461--18464502 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18464451 CTTTAAAAAT
18464461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18464503 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18464508 original size:2 final size:2
Alignment explanation
Indices: 18464503--18464536 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18464493 TATATATATA
18464503 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
18464537 NTAATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:18464545 original size:2 final size:2
Alignment explanation
Indices: 18464540--18464581 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18464530 TGTGTGTNTA
18464540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18464582 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.