Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 63 of 167
Found at i:19771056 original size:178 final size:178
Alignment explanation
Indices: 19770628--19771149 Score: 703
Period size: 178 Copynumber: 2.9 Consensus size: 178
19770618 CCCTCTTCGA
* * * *
19770628 TCTACTTCATTACT-GCTTAGGGAGATAAGATCTACAATCTTCAACCTGCTCTCTTGCTACCTTA
1 TCTACTTCCTTACTACCTTAGGAAGATAAGA-CTACAATCTTCAACCTGCTCTCTTGCTACCTCA
* * * * * *
19770692 GAGAGATAAAGCTGATGGCTAAAATCTACTCCCCTACTACCTCGGGAAGATACGATTCGCCCTCT
65 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCT
* *
19770757 TCAATCTGCTCCACTA--ATGCTTAGGGAGA-GAAGATCTACAATCCTCAG
130 TCGATCTGCTCCACTACTAT-CTCAGGGAGATG-AGATCTACAATCCTCAG
* *
19770805 TCTGCTTCCTTACTACCTCAGGAAGATAAGACTACAATCCTT-AACCTGCTCTCTTGCTACCTCA
1 TCTACTTCCTTACTACCTTAGGAAGATAAGACTACAAT-CTTCAACCTGCTCTCTTGCTACCTCA
* *
19770869 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCGTCC
65 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCT
** *
19770934 TCGATCTGCTCCACTACTATCTCAGGGAGATGAGATCTTTAATCTTCAG
130 TCGATCTGCTCCACTACTATCTCAGGGAGATGAGATCTACAATCCTCAG
* * *
19770983 TCTACTTCTTTGCTACCTTAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAG
1 TCTACTTCCTTACTACCTTAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAG
* * *
19771048 ATAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCATCTT
66 AGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTT
* * * * *
19771113 CGATTTGCTCCACTGCTACCTCATGGAGATAAGATCT
131 CGATCTGCTCCACTACTATCTCAGGGAGATGAGATCT
19771150 GTGAATCCAC
Statistics
Matches: 306, Mismatches: 33, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
177 116 0.38
178 187 0.61
179 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (178 bp):
TCTACTTCCTTACTACCTTAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAG
AGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTT
CGATCTGCTCCACTACTATCTCAGGGAGATGAGATCTACAATCCTCAG
Found at i:19771122 original size:89 final size:88
Alignment explanation
Indices: 19770850--19771122 Score: 237
Period size: 89 Copynumber: 3.1 Consensus size: 88
19770840 AATCCTTAAC
*
19770850 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGG
1 CTGCTCTCTTACTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC-GG
* * *
19770915 AAGATAAGATTCGCCGTCCTCGAT
65 AAGATAAGATTCACCATCTTCGAT
* * * * * * ** ** * * * **
19770939 CTGCTC-CACTACTATCTCAGGGAGATGAGATCT-TTAATCTTCAGTCTACTTCTTTGCTACCTT
1 CTGCTCTC-TTACTACCTCAGAGAGATAAG-GCTGGT-GGCTAAAATCTGCTCCCCTGCTACC-T
* * * * *
19771002 AGGAAGATAAGACT-ACAATCTTCAAC
62 CGGAAGATAAGATTCACCATCTTCGAT
*
19771028 CTGCTCTCTTACTACCTCAGATAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA
1 CTGCTCTCTTACTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGG-
19771093 AAGATAAGATTCACCATCTTCGAT
65 AAGATAAGATTCACCATCTTCGAT
*
19771117 TTGCTC
1 CTGCTC
19771123 CACTGCTACC
Statistics
Matches: 130, Mismatches: 46, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
87 3 0.02
88 29 0.22
89 66 0.51
90 31 0.24
91 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (88 bp):
CTGCTCTCTTACTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA
AGATAAGATTCACCATCTTCGAT
Found at i:19773594 original size:5 final size:5
Alignment explanation
Indices: 19773586--19773610 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19773576 ATGCAATCAT
19773586 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
19773611 CGTCAGTACA
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:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:19775885 original size:22 final size:24
Alignment explanation
Indices: 19775840--19775888 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
19775830 GTAAGGCCCC
*
19775840 TTCTCTTGCTGCTGTTCAATTTTCG
1 TTCTCTTGCTGCTGGT-AATTTTCG
19775865 TTCTCTTGCTGCTGGT-A-TTTCG
1 TTCTCTTGCTGCTGGTAATTTTCG
19775887 TT
1 TT
19775889 TCCTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 1 0.04
25 15 0.65
ACGTcount: A:0.06, C:0.22, G:0.18, T:0.53
Consensus pattern (24 bp):
TTCTCTTGCTGCTGGTAATTTTCG
Found at i:19780518 original size:26 final size:26
Alignment explanation
Indices: 19780488--19780540 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
19780478 TTACAGTTTT
19780488 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* *
19780514 TACCCCTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
19780540 T
1 T
19780541 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:19781976 original size:20 final size:20
Alignment explanation
Indices: 19781951--19781989 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19781941 CATTTCATAT
*
19781951 ATATATCCCGTATATTTTTA
1 ATATATCACGTATATTTTTA
*
19781971 ATATATCATGTATATTTTT
1 ATATATCACGTATATTTTT
19781990 TTTGTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATATATCACGTATATTTTTA
Found at i:19793985 original size:43 final size:44
Alignment explanation
Indices: 19793923--19794012 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 44
19793913 TTCACCAAGC
* * *
19793923 CTTAAACCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAGAT
1 CTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAAAATTACAGAT
* *
19793966 CTTAACCCCCTAAGAAGTAGGGTAATAGGCTAAAAATTACAGAT
1 CTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAAAATTACAGAT
19794010 CTT
1 CTT
19794013 GTCTCCCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 26 0.63
44 15 0.37
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (44 bp):
CTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAAAATTACAGAT
Found at i:19794209 original size:43 final size:42
Alignment explanation
Indices: 19794150--19794255 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
19794140 GGGCTTCAAC
* *
19794150 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACC-TAAA
* *** * *
19794193 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
*
19794235 CCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAGTAGGGTAACA
19794256 GGTCGAGCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
Found at i:19794557 original size:86 final size:87
Alignment explanation
Indices: 19794436--19794599 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 87
19794426 TAAATATCTA
* * * *
19794436 CAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAATGCAATAG-GTCTTAAACCCCTAAGC
1 CAGATCTTATCACCCTAAGCAGCAGGGAAACAGATCGAAGGCAAAAGAGCCTTAAACCCCTAAGC
*
19794500 AGTAGGGTAACAGACCGAACTG
66 AATAGGGTAACAGACCGAACTG
* * * * * *
19794522 CAGATCTTATCTCCCTCAGTAGCAGGGAAACAGATCGAAGGTAAAAGAGCCTTAAACCTCTAAGT
1 CAGATCTTATCACCCTAAGCAGCAGGGAAACAGATCGAAGGCAAAAGAGCCTTAAACCCCTAAGC
19794587 AATAGGGTAACAG
66 AATAGGGTAACAG
19794600 GATGAATTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 40 0.61
87 26 0.39
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (87 bp):
CAGATCTTATCACCCTAAGCAGCAGGGAAACAGATCGAAGGCAAAAGAGCCTTAAACCCCTAAGC
AATAGGGTAACAGACCGAACTG
Found at i:19796759 original size:20 final size:20
Alignment explanation
Indices: 19796734--19796772 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19796724 CATTTCATAT
*
19796734 ATATATCCCGTATATTTTTA
1 ATATATCACGTATATTTTTA
*
19796754 ATATATCATGTATATTTTT
1 ATATATCACGTATATTTTT
19796773 TTTGTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATATATCACGTATATTTTTA
Found at i:19796852 original size:25 final size:26
Alignment explanation
Indices: 19796787--19796852 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
19796777 TTTCTATTAT
19796787 TATTA-TATATATTTTAATACCATATG
1 TATTATTAT-TATTTTAATACCATATG
** *
19796813 TATTATTATCGTTTT-ATACTAT-TG
1 TATTATTATTATTTTAATACCATATG
19796837 CTATTATTATTATTTT
1 -TATTATTATTATTTT
19796853 CGTTATCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 2 0.06
25 19 0.58
26 9 0.27
27 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.58
Consensus pattern (26 bp):
TATTATTATTATTTTAATACCATATG
Found at i:19798075 original size:17 final size:17
Alignment explanation
Indices: 19798053--19798085 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19798043 AGCAAGCTAT
19798053 GTAATGTATGAGCTGTA
1 GTAATGTATGAGCTGTA
*
19798070 GTAATGTGTGAGCTGT
1 GTAATGTATGAGCTGT
19798086 GAAAATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.36
Consensus pattern (17 bp):
GTAATGTATGAGCTGTA
Found at i:19804509 original size:19 final size:20
Alignment explanation
Indices: 19804482--19804520 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19804472 GACCAGGTTT
19804482 AAGGATTTTTAGGGT-TTTA
1 AAGGATTTTTAGGGTATTTA
*
19804501 AAGGGTTTTTAGGGTATTTA
1 AAGGATTTTTAGGGTATTTA
19804521 TCTTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
AAGGATTTTTAGGGTATTTA
Found at i:19807560 original size:3 final size:3
Alignment explanation
Indices: 19807552--19807585 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19807542 ACTTAATATA
19807552 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19807586 GAAGGTGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19814179 original size:17 final size:16
Alignment explanation
Indices: 19814154--19814188 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19814144 ACAATATGAT
*
19814154 AAAATATATTTTATAAA
1 AAAAAATATTTTA-AAA
19814171 AAAAAATATTTTAAAA
1 AAAAAATATTTTAAAA
19814187 AA
1 AA
19814189 TAACAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAAATATTTTAAAA
Found at i:19814664 original size:18 final size:19
Alignment explanation
Indices: 19814641--19814682 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
19814631 ACTAATAACG
19814641 AAATAAATATTT-ATATGA
1 AAATAAATATTTAATATGA
*
19814659 AAATAAATATTTAATTTGA
1 AAATAAATATTTAATATGA
19814678 AAATA
1 AAATA
19814683 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAATAAATATTTAATATGA
Found at i:19815027 original size:18 final size:18
Alignment explanation
Indices: 19815006--19815051 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
19814996 AAAAAATATT
19815006 TTTAAATATAATAATAAA
1 TTTAAATATAATAATAAA
*
19815024 TTT-AATATTAATATTAAA
1 TTTAAATA-TAATAATAAA
19815042 --TAAATATAAT
1 TTTAAATATAAT
19815052 TATATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 8 0.32
18 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTAAATATAATAATAAA
Found at i:19815043 original size:25 final size:24
Alignment explanation
Indices: 19815015--19815074 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
19815005 TTTTAAATAT
19815015 AATAATA-AATTTAATATTAATATTA
1 AATAATATAA-TT-ATATTAATATTA
19815040 AATAAATATAATTATATTAATATTA
1 AAT-AATATAATTATATTAATATTA
*
19815065 AATAACATAA
1 AATAATATAA
19815075 AAATCCCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.19
25 18 0.56
26 6 0.19
27 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AATAATATAATTATATTAATATTA
Found at i:19815051 original size:31 final size:30
Alignment explanation
Indices: 19815007--19815065 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
19814997 AAAAATATTT
*
19815007 TTAAATATAATAATAA-ATTTAATATTAATA
1 TTAAATAAAATAATAATA-TTAATATTAATA
*
19815037 TTAAATAAATATAATTATATTAATATTAA
1 TTAAATAAA-ATAATAATATTAATATTAA
19815066 ATAACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 16 0.64
32 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAAATAAAATAATAATATTAATATTAATA
Found at i:19817254 original size:29 final size:29
Alignment explanation
Indices: 19817221--19817276 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
19817211 CTATATAACG
* *
19817221 TGAGTGCTTAAATTGTAATTTTTTTATTT
1 TGAGTGCTTAAAATGAAATTTTTTTATTT
19817250 TGAGTGCTTAAAATGAAATTTTTTTAT
1 TGAGTGCTTAAAATGAAATTTTTTTAT
19817277 AGTTGTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.54
Consensus pattern (29 bp):
TGAGTGCTTAAAATGAAATTTTTTTATTT
Found at i:19818105 original size:20 final size:20
Alignment explanation
Indices: 19818068--19818106 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19818058 GTCTGATATA
19818068 TTTTGAAAAGTATTTATTAAT
1 TTTTGAAAAG-ATTTATTAAT
19818089 TTTTGAAAA-ATTGTATTA
1 TTTTGAAAAGATT-TATTA
19818107 GCTTTGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 5 0.29
21 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTGAAAAGATTTATTAAT
Found at i:19820413 original size:78 final size:77
Alignment explanation
Indices: 19820319--19820468 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 77
19820309 AAAAAGTATG
* *
19820319 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAATTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGAAGTAATTTTAATTAACAATAAAACAAAATA
*
19820384 GTATGGGGAAATA
65 GCATGGGGAAATA
* * * * *
19820397 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTATTTTTTATTAATAATAAAACAAAGTAG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAATTTTAATTAACAATAAAACAAAATAG
19820462 CATGGGG
66 CATGGGG
19820469 GGAGTGGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 35 0.55
78 29 0.45
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (77 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAATTTTAATTAACAATAAAACAAAATAG
CATGGGGAAATA
Found at i:19820454 original size:38 final size:38
Alignment explanation
Indices: 19820320--19820468 Score: 190
Period size: 39 Copynumber: 3.9 Consensus size: 38
19820310 AAAAGTATGG
* * *
19820320 TTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAA
1 TTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTAA
* * *
19820359 TTTTAATTAACAATAAAACAAAATAGTATGGGGAAATAG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTAA
*
19820398 TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTAT
1 TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTAA
* * *
19820436 TTTTTATTAATAATAAAACAAAGTAGCATGGGG
1 TTTTAATTAACAATAAAACAAAATAGCATGGGG
19820469 GGAGTGGAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.35
39 64 0.65
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.30
Consensus pattern (38 bp):
TTTTAATTAACAATAAAACAAAATAGCATGGGGAGTAA
Found at i:19824967 original size:15 final size:15
Alignment explanation
Indices: 19824947--19824977 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19824937 TTTACTTTCC
19824947 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
19824962 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
19824977 A
1 A
19824978 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:19834309 original size:47 final size:47
Alignment explanation
Indices: 19834255--19834675 Score: 608
Period size: 47 Copynumber: 9.0 Consensus size: 47
19834245 TTAGGATTTT
** * *
19834255 ATGTGATGAATGTGAATGTGTATATATGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19834302 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19834349 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19834396 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19834443 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19834490 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19834537 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19834584 ATGTGGTGAATATGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
19834631 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGTCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
19834676 TAGTGTGAAA
Statistics
Matches: 335, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 335 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19834523 original size:25 final size:25
Alignment explanation
Indices: 19834489--19834568 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
19834479 CCGAATGGCC
19834489 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
19834514 TATGTGATG-AGGCCG-A-ATG-ACCA
1 TATGTGATGAATG-TGAACATGCA-TA
*
19834537 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
19834561 TATGTGAT
1 TATGTGAT
19834569 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 7 0.17
25 18 0.44
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:19834592 original size:25 final size:25
Alignment explanation
Indices: 19834564--19834639 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
19834554 ATGCATATAT
19834564 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* **
19834589 GTGAATATGAAC--AT-G-CATATGT-
1 GTG-ATAAGGCCGAATGGCCA-ATGTG
19834611 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
19834636 GTGA
1 GTGA
19834640 ATATGAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 5 0.13
22 5 0.13
23 7 0.18
24 7 0.18
25 9 0.24
26 5 0.13
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:19834944 original size:37 final size:37
Alignment explanation
Indices: 19834838--19834952 Score: 167
Period size: 37 Copynumber: 3.1 Consensus size: 37
19834828 GGAAATATAT
* * *
19834838 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
19834875 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
19834912 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
19834949 TCCG
1 TCCG
19834953 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:19837939 original size:211 final size:210
Alignment explanation
Indices: 19837076--19838598 Score: 2429
Period size: 210 Copynumber: 7.3 Consensus size: 210
19837066 TCATCGGGGT
* * * * *
19837076 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGTATATCGAAGATATAGTTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
19837141 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
* * *
19837206 ACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTTCA
131 ACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTTCA
*
19837269 GATGTTTATGCTGAAGC
194 GATGTTTACGCTGAAGC
* * ** * * * *
19837286 GGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAGCT
1 AGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCT
* * *
19837343 AATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGTCGTCTCCGTATTGTCAG
63 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * *
19837408 AGAACAAATCAAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCAAATCTTACCTTC
128 AGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTC
19837473 AGATGTTTACGCTGAAGC
193 AGATGTTTACGCTGAAGC
* * *
19837491 AGATCCAAGATGACAGATCTTATCTCTCTATATTCGGCAGGGAGTAGATCAAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
* *
19837556 TTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGATA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
*
19837621 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATTTTACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAGA
19837686 TGTTTACGCTGAAGC
196 TGTTTACGCTGAAGC
* *
19837701 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCGAAGATATAGCTAAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
*
19837766 TTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTTGTCAGAG
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTA-TTGTCAGAG
*
19837831 AACAAATGGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
*
19837896 ATGTTTATGCTGAAGC
195 ATGTTTACGCTGAAGC
* *
19837912 AGTTCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
* *
19837977 TTGGCTCTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTTGTCCGAG
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTA-TTGTCAGAG
*
19838042 AACAAATGGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
*
19838107 ATGTTTACACTGAAGC
195 ATGTTTACGCTGAAGC
* * *
19838123 AGATCCAAGATGACAGATCTTACCTCTCTGTATTCGGTAGGGAGCAGATTGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
19838188 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
19838253 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAGA
* *
19838318 TGTTTATGCTGAAGT
196 TGTTTACGCTGAAGC
19838333 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
* * * *
19838398 TTGGCTTTCACTTATTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAAA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
19838463 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTT-AG
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTA-CCTTCAG
*
19838527 ATGTTTACGCTGAAAC
195 ATGTTTACGCTGAAGC
* *
19838543 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCAAAGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGAT
19838599 GTGGCACCCC
Statistics
Matches: 1217, Mismatches: 81, Indels: 30
0.92 0.06 0.02
Matches are distributed among these distances:
204 2 0.00
205 163 0.13
206 8 0.01
207 6 0.00
208 6 0.00
209 5 0.00
210 619 0.51
211 408 0.34
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAGA
TGTTTACGCTGAAGC
Found at i:19838280 original size:632 final size:630
Alignment explanation
Indices: 19837076--19838597 Score: 2445
Period size: 632 Copynumber: 2.4 Consensus size: 630
19837066 TCATCGGGGT
* * * * *
19837076 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGTATATCGAAGATATAGTTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
19837141 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
* * *
19837206 ACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTTCA
131 ACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTTCA
* * ** *
19837269 GATGTTTATGCTGAAGCGGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAAC
194 GATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAAC
* * *
19837326 AAATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGT
256 AGATCGAAGACATAGCTAATTTGGCTCTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGT
19837391 CGTCTCCGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACA
321 CGTCTCCGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACA
* *
19837456 TAGCAAATCTTACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTA
386 TAGCAAATCTTACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTACCTCTCTA
*
19837521 TATTCGGCAGGGAGTAGATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAA
451 TATTCGGCAGGGAGCAGATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAA
*
19837586 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGATAACAAATCGAAGTCTGGCATTTCCACTTTGA
516 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGA
*
19837651 TGGAAGGCAGACACATAGCAGATTTTACCTTCAGATGTTTACGCTGAAGC
581 TGGAAGGCAGACACATAGCAGATCTTACCTTCAGATGTTTACGCTGAAGC
* *
19837701 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCGAAGATATAGCTAAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
*
19837766 TTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTTGTCAGAG
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTA-TTGTCAGAG
*
19837831 AACAAATGGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
* *
19837896 ATGTTTATGCTGAAGCAGTTCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGAT
195 ATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGAT
* * *
19837961 TGAAGATATAGCTGATTTGGCTCTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTC
260 CGAAGACATAGCTAATTTGGCTCTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTC
* * ** *
19838026 TCTGTATTTGTCCGAGAACAAATGGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAG
325 TCCGTA-TTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAG
* *
19838091 CAGATCTTACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTACCTCTCTGTAT
389 CAAATCTTACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTACCTCTCTATAT
* ** *
19838156 TCGGTAGGGAGCAGATTGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
454 TCGGCAGGGAGCAGATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCT
19838221 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGG
519 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGG
* *
19838286 AAGGCAGACACATAGCAGATCTTACCTTCAGATGTTTATGCTGAAGT
584 AAGGCAGACACATAGCAGATCTTACCTTCAGATGTTTACGCTGAAGC
19838333 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
* * * *
19838398 TTGGCTTTCACTTATTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAAA
66 TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
19838463 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTT-AG
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTA-CCTTCAG
* *
19838527 ATGTTTACGCTGAAACAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGAT
195 ATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGAT
*
19838592 CAAAGA
260 CGAAGA
19838598 TGTGGCACCC
Statistics
Matches: 827, Mismatches: 57, Indels: 20
0.91 0.06 0.02
Matches are distributed among these distances:
625 114 0.14
626 90 0.11
627 2 0.00
628 3 0.00
629 3 0.00
630 6 0.01
631 208 0.25
632 401 0.48
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (630 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGAT
TTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAGA
TGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATC
GAAGACATAGCTAATTTGGCTCTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCT
CCGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATAGAAGGCAGACACATAGCA
AATCTTACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTACCTCTCTATATTC
GGCAGGGAGCAGATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAA
GGCAGACACATAGCAGATCTTACCTTCAGATGTTTACGCTGAAGC
Found at i:19839255 original size:50 final size:50
Alignment explanation
Indices: 19839180--19839279 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
19839170 TTTAGGAGGA
19839180 GGAAATGTTGAAGAGATTCGGCCATGCTTGTAGCTAGGTTAAGGTAAGTT
1 GGAAATGTTGAAGAGATTCGGCCATGCTTGTAGCTAGGTTAAGGTAAGTT
19839230 GGAAATGTTGAAGAGATTCGGCCATGCTTGTAGCTAGGTTAAGGTAAGTT
1 GGAAATGTTGAAGAGATTCGGCCATGCTTGTAGCTAGGTTAAGGTAAGTT
19839280 TGATGTTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (50 bp):
GGAAATGTTGAAGAGATTCGGCCATGCTTGTAGCTAGGTTAAGGTAAGTT
Found at i:19841405 original size:24 final size:24
Alignment explanation
Indices: 19841377--19841452 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
19841367 CCGTATATAT
19841377 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
19841401 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
19841424 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
19841448 ATGTG
1 ATGTG
19841453 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:19841600 original size:147 final size:146
Alignment explanation
Indices: 19841231--19841668 Score: 736
Period size: 145 Copynumber: 3.0 Consensus size: 146
19841221 AGAACATGCG
*
19841231 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* *
19841296 ATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCCAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
19841361 GTGAACCCG-TATATA
131 GTGAACCTGATATATA
19841376 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
*
19841441 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
19841506 GTGAACCTGTATATATA
131 GTGAACCTG-ATATATA
* * *
19841523 TATGCGTGATAAGGCTGAATGGCTAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* * **
19841588 ATGGCCAATGTGATGAATGTGAACATGCATATATAAGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
19841653 GTGAACATGA-ATATA
131 GTGAACCTGATATATA
19841668 T
1 T
19841669 GTGGTAAGGC
Statistics
Matches: 277, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
145 140 0.51
146 1 0.00
147 136 0.49
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (146 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACCTGATATATA
Found at i:19841686 original size:47 final size:47
Alignment explanation
Indices: 19841209--19841661 Score: 645
Period size: 47 Copynumber: 9.4 Consensus size: 47
19841199 TTAGGATTTT
* *
19841209 ATGTGATGGATGAGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
19841256 ATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
19841303 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCCAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
19841350 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
19841401 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
19841448 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * * *
19841495 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
19841548 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * **
19841595 ATGTGATGAATGTGAACATGCATATATAAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
19841642 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGTGAACATG
19841662 AATATATGTG
Statistics
Matches: 364, Mismatches: 32, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
47 279 0.77
48 1 0.00
49 2 0.01
51 42 0.12
52 1 0.00
53 39 0.11
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:19841730 original size:46 final size:46
Alignment explanation
Indices: 19841665--19841755 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
19841655 GAACATGAAT
* * *
19841665 ATATGTGGTAAGGCTAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
19841711 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
19841756 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:19842007 original size:37 final size:37
Alignment explanation
Indices: 19841901--19842007 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
19841891 AAATATATTG
*
19841901 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
*
19841938 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTTTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
19841975 CGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
19842008 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:19843941 original size:24 final size:24
Alignment explanation
Indices: 19843909--19843956 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
19843899 TTCCTGAATT
19843909 AAGTCTTAGCTACTAGTTCAGCAG
1 AAGTCTTAGCTACTAGTTCAGCAG
*
19843933 AAGTCTTAGCTACTAGTTCGGCAG
1 AAGTCTTAGCTACTAGTTCAGCAG
19843957 GCTTATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AAGTCTTAGCTACTAGTTCAGCAG
Found at i:19854892 original size:39 final size:40
Alignment explanation
Indices: 19854797--19855058 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
19854787 TTGAATGATG
*
19854797 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19854835 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19854876 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19854915 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19854954 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19854993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
19855032 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19855059 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19861371 original size:28 final size:28
Alignment explanation
Indices: 19861319--19861471 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
19861309 TAAATTGTGC
*
19861319 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
19861346 AGCACTAACTGTACAAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
19861374 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
19861402 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
19861430 AGCACTAAGTGTGCGAG-TTGACTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
19861457 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19861472 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 36 0.31
28 80 0.69
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:19861460 original size:83 final size:83
Alignment explanation
Indices: 19861319--19861471 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
19861309 TAAATTGTGC
*
19861319 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAACTGTACAAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAACTGTACAAGTTTGACTATATAGCACTAAGT
19861384 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * * *
19861402 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAACTGTACAAGTTTGACTATATAGCACTAAG
19861466 TGTGCG
65 TGTGCG
19861472 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAACTGTACAAGTTTGACTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:19862952 original size:42 final size:42
Alignment explanation
Indices: 19862905--19863008 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
19862895 TATCGGGATG
* * *
19862905 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
19862947 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
19862989 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
19863009 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:19863022 original size:42 final size:42
Alignment explanation
Indices: 19862905--19863030 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
19862895 TATCGGGATG
* * ** *
19862905 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
19862947 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
19862989 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
19863030 T
1 T
19863031 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:19863943 original size:21 final size:21
Alignment explanation
Indices: 19863917--19863973 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
19863907 ATGGTATAAG
19863917 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
19863938 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
19863962 GTGGCATGAATT
1 GTTG-ATGAATT
19863974 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:19870263 original size:29 final size:28
Alignment explanation
Indices: 19870227--19870304 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
19870217 TCATGAGATT
19870227 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
19870257 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
19870284 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
19870305 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:19870522 original size:174 final size:174
Alignment explanation
Indices: 19870257--19870584 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
19870247 AAATTGTACA
*
19870257 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
19870322 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
19870387 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
19870431 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
19870496 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
19870561 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
19870585 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:19884136 original size:37 final size:37
Alignment explanation
Indices: 19884086--19884164 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19884076 TTATTACGAA
* * *
19884086 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19884123 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19884160 GTCTT
1 GTCTT
19884165 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19884361 original size:47 final size:47
Alignment explanation
Indices: 19884283--19884693 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
19884273 CCCTTCGGGA
* * * * * *
19884283 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19884330 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884377 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884471 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884565 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884612 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19884659 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
19884694 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19901061 original size:17 final size:17
Alignment explanation
Indices: 19901039--19901071 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19901029 ATACAAAATA
19901039 AATCAAATATCAATATT
1 AATCAAATATCAATATT
19901056 AATCAAATATCAATAT
1 AATCAAATATCAATAT
19901072 AAGCCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
AATCAAATATCAATATT
Found at i:19901934 original size:26 final size:26
Alignment explanation
Indices: 19901898--19901949 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
19901888 AAGTAAATAC
*
19901898 TTAAAATCTTTAAGTACATACTTGTA
1 TTAAAATCTTTAAGTACATACCTGTA
*
19901924 TTAAAATCTTTACGTACATACCTGTA
1 TTAAAATCTTTAAGTACATACCTGTA
19901950 CCATCTCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (26 bp):
TTAAAATCTTTAAGTACATACCTGTA
Found at i:19909648 original size:12 final size:12
Alignment explanation
Indices: 19909631--19909662 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19909621 ACTTAATAAG
19909631 AATATATATATA
1 AATATATATATA
19909643 AATATATATATA
1 AATATATATATA
*
19909655 GATATATA
1 AATATATA
19909663 GATGGTTGGA
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:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
AATATATATATA
Found at i:19910844 original size:18 final size:18
Alignment explanation
Indices: 19910821--19910857 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19910811 AAATACATAT
* *
19910821 AGGTCTAATATTCGGTCA
1 AGGTCTAACATTCAGTCA
19910839 AGGTCTAACATTCAGTCA
1 AGGTCTAACATTCAGTCA
19910857 A
1 A
19910858 TGAAGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (18 bp):
AGGTCTAACATTCAGTCA
Found at i:19914031 original size:55 final size:54
Alignment explanation
Indices: 19913936--19914085 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
19913926 CTACTTTGTT
* ** * *
19913936 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
19913990 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
19914045 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
19914086 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:19914048 original size:27 final size:27
Alignment explanation
Indices: 19913908--19914085 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
19913898 TAAATTGTAC
19913908 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
19913935 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
19913961 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
19913989 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
19914017 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
19914044 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
19914071 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19914086 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:19914049 original size:82 final size:81
Alignment explanation
Indices: 19913909--19914064 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
19913899 AAATTGTACA
* * * *
19913909 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
19913974 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
19913990 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
19914053 TGTGCGAGTTGA
63 TGTGCGAATTGA
19914065 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:19922898 original size:48 final size:48
Alignment explanation
Indices: 19922795--19923015 Score: 205
Period size: 48 Copynumber: 4.5 Consensus size: 48
19922785 TGACAGGTCT
* ** * * * *
19922795 CAGACATGGTCTTACACGAAATCATATAACGATGCCAAT---ATATCC
1 CAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTCC
* * * *
19922840 CAGATATGGTCTTAAATTGGATCACATATCAATGCTAATGCCATGTCC
1 CAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTCC
*
19922888 TAGACATGGTCTTACATGGGATCACATATCGATGCTGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGATCACATATC-A-----ATGCCAATGCCATGTCC
* * * * * *
19922942 CAGAAATTGTCTTATATGGGATTACATATCGATACCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTCC
19922990 CAGACATGGTCTTACATGGGATCACA
1 CAGACATGGTCTTACATGGGATCACA
19923016 ATGCCGTAGC
Statistics
Matches: 140, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
45 29 0.21
48 69 0.49
49 1 0.01
54 41 0.29
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (48 bp):
CAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTCC
Found at i:19922961 original size:54 final size:50
Alignment explanation
Indices: 19922837--19923015 Score: 213
Period size: 48 Copynumber: 3.6 Consensus size: 50
19922827 TGCCAATATA
* * * *
19922837 TCCCAGATATGGTCTTAAATTGGATCACATATC-A-ATGCTAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCACATATCGATATGCCAATGCCATG
*
19922885 TCCTAGACATGGTCTTACATGGGATCACATATCGATGCTGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCACATATCGA---T-ATGCCAATGCCATG
* * * *
19922939 TCCCAGAAATTGTCTTATATGGGATTACATATCGATA--CCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCACATATCGATATGCCAATGCCATG
19922987 TCCCAGACATGGTCTTACATGGGATCACA
1 TCCCAGACATGGTCTTACATGGGATCACA
19923016 ATGCCGTAGC
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
48 65 0.59
49 1 0.01
50 1 0.01
51 1 0.01
54 43 0.39
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGATCACATATCGATATGCCAATGCCATG
Found at i:19923036 original size:37 final size:37
Alignment explanation
Indices: 19922995--19923079 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
19922985 TGTCCCAGAC
* *
19922995 ATGGTCTTACATGGGATCACAATGCCGTAG-CCTAGCT
1 ATGGTCTTACATGGGATCACAATGCCATAGCCCCA-CT
* ** * *
19923032 ATGGTATTACATGTTATTACGATGCCATAGCCCCACT
1 ATGGTCTTACATGGGATCACAATGCCATAGCCCCACT
19923069 ATGGTCTTACA
1 ATGGTCTTACA
19923080 CGTACTCACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (37 bp):
ATGGTCTTACATGGGATCACAATGCCATAGCCCCACT
Found at i:19927851 original size:14 final size:15
Alignment explanation
Indices: 19927834--19927862 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19927824 TCATGAAAAT
19927834 TTCACAG-AAATAAA
1 TTCACAGAAAATAAA
19927848 TTCACAGAAAATAAA
1 TTCACAGAAAATAAA
19927863 CACAGTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (15 bp):
TTCACAGAAAATAAA
Found at i:19933750 original size:16 final size:16
Alignment explanation
Indices: 19933731--19933761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19933721 CTTCTTCACT
19933731 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19933747 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19933762 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19933767 original size:20 final size:20
Alignment explanation
Indices: 19933728--19933767 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19933718 AAACTTCTTC
* *
19933728 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19933748 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19933768 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19956890 original size:20 final size:20
Alignment explanation
Indices: 19956865--19956906 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19956855 AGGGTGATTG
19956865 CACGGGCGTGTCCCAAGTCA
1 CACGGGCGTGTCCCAAGTCA
*
19956885 CACGGGCGTGTCCCAATTCA
1 CACGGGCGTGTCCCAAGTCA
19956905 CA
1 CA
19956907 AGAGCGTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGTCA
Found at i:19956913 original size:20 final size:20
Alignment explanation
Indices: 19956870--19956915 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
19956860 GATTGCACGG
* *
19956870 GCGTGTCCCAAGTCACACGG
1 GCGTGTCCCAAGTCACAAGA
*
19956890 GCGTGTCCCAATTCACAAGA
1 GCGTGTCCCAAGTCACAAGA
19956910 GCGTGT
1 GCGTGT
19956916 GACACTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (20 bp):
GCGTGTCCCAAGTCACAAGA
Found at i:19957304 original size:55 final size:54
Alignment explanation
Indices: 19957164--19957368 Score: 229
Period size: 55 Copynumber: 3.8 Consensus size: 54
19957154 GGGTGTTACA
* * *
19957164 TTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTGT-G-AAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT-TAGAAAC
* * * *
19957217 TCACCAATGACATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTT-TAGAAAC
* * *
19957272 TTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-TTAGAAACC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA-C
* *
19957326 TTACCAATTGCCATGCCTTGGCATGGCCTTACATGGTATCCTT
1 TTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
19957369 AGACCTTAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 9 0.07
55 69 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAAC
Found at i:19964640 original size:16 final size:16
Alignment explanation
Indices: 19964621--19964651 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19964611 CTTCTTCACT
19964621 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19964637 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19964652 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19964657 original size:20 final size:20
Alignment explanation
Indices: 19964618--19964657 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19964608 AAACTTCTTC
* *
19964618 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19964638 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19964658 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19964971 original size:53 final size:55
Alignment explanation
Indices: 19964844--19965049 Score: 207
Period size: 53 Copynumber: 3.9 Consensus size: 55
19964834 ACACGGGTAC
* * *
19964844 CTTACCATTGCCATGAT-TTGTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * *
19964893 CTTACCATTGCCATGTCTCGACATGGTTTTACACGGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * *
19964946 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* *
19965001 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
19965050 GAAACCTTAG
Statistics
Matches: 128, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
48 1 0.01
49 34 0.27
50 1 0.01
52 2 0.02
53 43 0.34
54 3 0.02
55 42 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:19966852 original size:42 final size:42
Alignment explanation
Indices: 19966735--19966888 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
19966725 CACCACACCA
** ** *
19966735 ATGCCATATCCCAGGCATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
19966777 ATGTCAATAGCCCAGCTATAGTCTTACACGAAATCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
19966820 ATGCCATATCCCAAATATGGTCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCG
19966862 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
19966889 CGTAGTCTTG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 59 0.63
43 35 0.37
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:19973459 original size:38 final size:38
Alignment explanation
Indices: 19973408--19973485 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
19973398 TTGTATCGTC
*
19973408 AAAGCATTGATACGTGAAACACATTATGAATCTTTTCT
1 AAAGCATTGATACGTGAAACACATTATGAACCTTTTCT
*
19973446 AAAGCATTGATACGTGAAACATATTATGAACCTTTTCT
1 AAAGCATTGATACGTGAAACACATTATGAACCTTTTCT
19973484 AA
1 AA
19973486 CTCTAGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (38 bp):
AAAGCATTGATACGTGAAACACATTATGAACCTTTTCT
Found at i:19977869 original size:13 final size:14
Alignment explanation
Indices: 19977845--19977873 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19977835 CATTTACTAT
19977845 ATAAAAATAAATTC
1 ATAAAAATAAATTC
19977859 ATAAAAA-AAATTC
1 ATAAAAATAAATTC
19977872 AT
1 AT
19977874 TTTTATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAAATAAATTC
Found at i:19983092 original size:53 final size:54
Alignment explanation
Indices: 19983024--19983230 Score: 177
Period size: 53 Copynumber: 3.8 Consensus size: 54
19983014 TTCCTTTTTA
*
19983024 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTGAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTGATAG
* * * * ** * * *
19983077 AACTCACCATTGCCATG-CCTCAGCATGGTCTTACGTGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGTCTTGA-CATGGTCTTACGTGATATCCTTGCCTGATAG
** * * * * *
19983131 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTG-TAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCC-TGATAG
* * * *
19983186 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTT
19983231 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 32, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
52 3 0.03
53 41 0.35
54 37 0.32
55 32 0.27
56 4 0.03
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTGATAG
Found at i:19992923 original size:49 final size:49
Alignment explanation
Indices: 19992867--19993080 Score: 178
Period size: 49 Copynumber: 4.5 Consensus size: 49
19992857 CAAAGTCGAA
19992867 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* * * * *
19992916 GCCATGTCCCAAACAGGTCTTACACTGGCTCTCATTTATC--GGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGG-CT-GAT
* * *
19992965 GCCACGTCCCAGACAGGTCTTACACTGAC--ACA-CTA-CAA-GCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* * * * * * *
19993009 ACCTTGTCCCAAATAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCTAAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCAAGGCTGAT
*
19993058 G-CATGTCCCAGACATGTCTTACA
1 GCCATGTCCCAGACAGGTCTTACA
19993081 TTAGCTCTTA
Statistics
Matches: 128, Mismatches: 26, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
43 1 0.01
44 25 0.20
45 2 0.02
46 4 0.03
47 5 0.04
48 21 0.16
49 70 0.55
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
Found at i:19992987 original size:98 final size:93
Alignment explanation
Indices: 19992861--19993034 Score: 240
Period size: 98 Copynumber: 1.8 Consensus size: 93
19992851 ACACATCAAA
* * *
19992861 GTCGAAGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGATGCCATGTCCC
1 GTCGAAGCCACGTCCCAGACAGGTCTTACACTGAC--ACA-ATA-CAA-GCTGATACCATGTCCC
19992926 AAACAGGTCTTACACTGGCTCTCATTTATCGGT
61 AAACAGGTCTTACACTGGCTCTCATTTATCGGT
* * * *
19992959 GTCGATGCCACGTCCCAGACAGGTCTTACACTGACACACTACAAGCTGATACCTTGTCCCAAATA
1 GTCGAAGCCACGTCCCAGACAGGTCTTACACTGACACAATACAAGCTGATACCATGTCCCAAACA
19993024 GGTCTTACACT
66 GGTCTTACACT
19993035 AGCTTGTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 29 0.42
94 3 0.04
95 2 0.03
96 2 0.03
98 33 0.48
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (93 bp):
GTCGAAGCCACGTCCCAGACAGGTCTTACACTGACACAATACAAGCTGATACCATGTCCCAAACA
GGTCTTACACTGGCTCTCATTTATCGGT
Found at i:19993077 original size:48 final size:47
Alignment explanation
Indices: 19993025--19993132 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 47
19993015 TCCCAAATAG
* * *
19993025 GTCTTACACTAGCTTGTATATCTC-GAGGCTAATGCATGTCCCAGACAT
1 GTCTTACACTAGCTTCT-TATCTCAAAGTC-AATGCATGTCCCAGACAT
* * *
19993073 GTCTTACATTAGC-TCTTATCTCAAAGTCGATGCATGTCCCAGATAT
1 GTCTTACACTAGCTTCTTATCTCAAAGTCAATGCATGTCCCAGACAT
*
19993119 ATCTTACACTAGCT
1 GTCTTACACTAGCT
19993133 CTCATAATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
46 33 0.66
47 5 0.10
48 12 0.24
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (47 bp):
GTCTTACACTAGCTTCTTATCTCAAAGTCAATGCATGTCCCAGACAT
Found at i:20004644 original size:40 final size:40
Alignment explanation
Indices: 20004600--20004862 Score: 342
Period size: 39 Copynumber: 6.7 Consensus size: 40
20004590 GCTCCTCGTT
* *
20004600 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
20004640 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
20004680 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
20004719 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
20004758 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
20004797 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
20004838 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20004863 CATCATTCAA
Statistics
Matches: 205, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 113 0.55
40 77 0.38
41 13 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:20008536 original size:22 final size:22
Alignment explanation
Indices: 20008508--20008551 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20008498 TAGATGTATG
*
20008508 AATAGATGTTGAATATCTATCT
1 AATAGATATTGAATATCTATCT
20008530 AATAGATATTGAATATCTATCT
1 AATAGATATTGAATATCTATCT
20008552 CTTAACTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
AATAGATATTGAATATCTATCT
Found at i:20009033 original size:27 final size:26
Alignment explanation
Indices: 20009003--20009054 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20008993 CTTTTGAGTT
20009003 AATAAATTCTCTTTGAATTTTCTTTTC
1 AATAAATTCTC-TTGAATTTTCTTTTC
* * *
20009030 AATAATTTTTCTTGAGTTTTCTTTT
1 AATAAATTCTCTTGAATTTTCTTTT
20009055 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.60
Consensus pattern (26 bp):
AATAAATTCTCTTGAATTTTCTTTTC
Found at i:20017835 original size:23 final size:22
Alignment explanation
Indices: 20017808--20017852 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
20017798 TTTTTATATG
20017808 AAATTATTAAATAAAATAATTAA
1 AAATTATTAAATAAAA-AATTAA
**
20017831 AAATTATTACTTAAAAAATTAA
1 AAATTATTAAATAAAAAATTAA
20017853 TATCAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATTATTAAATAAAAAATTAA
Found at i:20018233 original size:13 final size:13
Alignment explanation
Indices: 20018215--20018242 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20018205 GGGTTAGTTT
20018215 AATATTACTTTTG
1 AATATTACTTTTG
20018228 AATATTACTTTTG
1 AATATTACTTTTG
20018241 AA
1 AA
20018243 AATTGTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (13 bp):
AATATTACTTTTG
Found at i:20018253 original size:13 final size:13
Alignment explanation
Indices: 20018218--20018270 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
20018208 TTAGTTTAAT
* *
20018218 ATTACTTTTGAAT
1 ATTAGTTTTGAAA
*
20018231 ATTACTTTTGAAA
1 ATTAGTTTTGAAA
*
20018244 ATT-GTCTTTGAGA
1 ATTAGT-TTTGAAA
20018257 ATTAGTTTTGAAA
1 ATTAGTTTTGAAA
20018270 A
1 A
20018271 GTTTGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.03
13 31 0.91
14 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (13 bp):
ATTAGTTTTGAAA
Found at i:20018848 original size:13 final size:15
Alignment explanation
Indices: 20018819--20018855 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
20018809 ATTTAAAGTG
20018819 AATGAAAAATGGGAGA
1 AATG-AAAATGGGAGA
20018835 AA-GAAAAT-GGAGA
1 AATGAAAATGGGAGA
20018848 AATGAAAA
1 AATGAAAA
20018856 AATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 1 0.05
16 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.11
Consensus pattern (15 bp):
AATGAAAATGGGAGA
Found at i:20028492 original size:93 final size:93
Alignment explanation
Indices: 20028380--20028551 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
20028370 GCCCATAAGT
* *
20028380 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20028445 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
20028473 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20028538 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
20028552 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:20028547 original size:46 final size:46
Alignment explanation
Indices: 20028372--20028547 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20028362 TGTAACCCGC
* *
20028372 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20028418 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
20028464 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20028511 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20028548 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20029004 original size:30 final size:30
Alignment explanation
Indices: 20028970--20029029 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
20028960 ATTTAATACG
20028970 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
20029000 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
20029030 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:20032102 original size:56 final size:56
Alignment explanation
Indices: 20032033--20032208 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
20032023 ACAAGGGATG
20032033 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
20032089 ATGGGCAATACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
20032145 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
20032201 ATGGGCAA
1 ATGGGCAA
20032209 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:20033476 original size:39 final size:40
Alignment explanation
Indices: 20033377--20033520 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
20033367 CGAATGATGT
* * *
20033377 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
20033417 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
20033457 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
20033496 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20033521 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:20033534 original size:40 final size:39
Alignment explanation
Indices: 20033429--20033527 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
20033419 AGACTAAGAT
** * *
20033429 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
20033468 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
20033508 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
20033528 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:20033539 original size:79 final size:80
Alignment explanation
Indices: 20033376--20033526 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
20033366 TCGAATGATG
*
20033376 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
20033441 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
20033456 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
20033518 TTGAACGAG
64 TTGAACGAG
20033527 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:20040646 original size:40 final size:40
Alignment explanation
Indices: 20040602--20040863 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
20040592 GCTCCTCGTT
* *
20040602 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
20040642 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
20040682 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
20040721 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
20040760 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
20040799 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
20040840 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20040864 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20047889 original size:27 final size:26
Alignment explanation
Indices: 20047855--20047974 Score: 123
Period size: 27 Copynumber: 4.5 Consensus size: 26
20047845 TGGATAAGTT
* *
20047855 GTAGAATTACTAAAATACCTCTGTAAG
1 GTAGAATTACCAAAATACC-CTGTAGG
* *
20047882 GTAGAATTGCCGAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCC-TGTAGG
* *
20047909 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCAAAATA-CCCTGTAGG
* *
20047936 GTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCAAAATACCC-TGTAGG
*
20047963 GTAAAATTACCA
1 GTAGAATTACCA
20047975 TTTTGCGTCT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.05
27 69 0.91
28 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (26 bp):
GTAGAATTACCAAAATACCCTGTAGG
Found at i:20047939 original size:54 final size:54
Alignment explanation
Indices: 20047855--20047974 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
20047845 TGGATAAGTT
* * * * *
20047855 GTAGAATTACTAAAATACCTCTGTAAGGTAGAATTGCCGAAATACCCTTGTAGG
1 GTAGAAATACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGG
* *
20047909 GTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAAATACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGG
20047963 GTA-AAATTACCA
1 GTAGAAA-TACCA
20047975 TTTTGCGTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.05
54 55 0.95
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
GTAGAAATACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:20048367 original size:24 final size:24
Alignment explanation
Indices: 20048340--20048395 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
20048330 GGCCGAAAAC
*
20048340 GGGCCAACAGG-CTAACAGGCCAAT
1 GGGCCAAC-GGACCAACAGGCCAAT
*
20048364 GGGCCAACGGACCAACGGGCCAAT
1 GGGCCAACGGACCAACAGGCCAAT
20048388 GGGCCAAC
1 GGGCCAAC
20048396 TTTGGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.30, C:0.32, G:0.32, T:0.05
Consensus pattern (24 bp):
GGGCCAACGGACCAACAGGCCAAT
Found at i:20048368 original size:8 final size:8
Alignment explanation
Indices: 20048337--20048395 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
20048327 TTGGGCCGAA
20048337 AACGGGCC
1 AACGGGCC
* *
20048345 AACAGGCT
1 AACGGGCC
*
20048353 AACAGGCC
1 AACGGGCC
*
20048361 AATGGGCC
1 AACGGGCC
*
20048369 AACGGACC
1 AACGGGCC
20048377 AACGGGCC
1 AACGGGCC
*
20048385 AATGGGCC
1 AACGGGCC
20048393 AAC
1 AAC
20048396 TTTGGTAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.31, T:0.05
Consensus pattern (8 bp):
AACGGGCC
Found at i:20048692 original size:27 final size:26
Alignment explanation
Indices: 20048648--20048699 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
20048638 CTCGCTGCAA
*
20048648 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
20048675 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
20048700 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:20055524 original size:54 final size:53
Alignment explanation
Indices: 20055451--20055554 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
20055441 TAGAATTACT
* *
20055451 GAAATACTCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATATC
* * *
20055505 GAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAAT
1 GAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAAAAT
20055555 TACCATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (53 bp):
GAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATATC
Found at i:20055558 original size:27 final size:27
Alignment explanation
Indices: 20055444--20055558 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
20055434 TAAGTTGTAG
* * *
20055444 AATTACTGAAATACTCC-TGTAAGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAA
20055471 AATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCTTGTAGGGTA-A
* * * *
20055499 AA-TATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAA
* *
20055525 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAA
20055552 AATTACC
1 AATTACC
20055559 ATTTTGCCCC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.06
27 66 0.92
28 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAA
Found at i:20062081 original size:45 final size:44
Alignment explanation
Indices: 20062017--20062103 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
20062007 CCAAAACATG
20062017 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCATA
1 TGTCACATATATCATGAACTCAAACCACAACTC-ATGAGTTCATA
*
20062062 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCA
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCA
20062104 GATTGCATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 9 0.22
45 32 0.78
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.26
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCATA
Found at i:20064234 original size:45 final size:44
Alignment explanation
Indices: 20064170--20064256 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
20064160 CCAAAACATG
20064170 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCATA
1 TGTCACATATATCATGAACTCAAACCACAACTC-ATGAGTTCATA
*
20064215 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCA
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCA
20064257 GATCGCATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 9 0.22
45 32 0.78
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.26
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCATA
Found at i:20067119 original size:46 final size:45
Alignment explanation
Indices: 20067066--20067156 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 45
20067056 AGAGACAATG
** *
20067066 AGATCCTCTTTCTCGTTACTTGTTCATTCTCGGCATGGAAAGAGT
1 AGATCCTCTTTCTCCCTACTTGTTCATTCTCGGAATGGAAAGAGT
* *
20067111 NAGATCCTCTTTCTCCCTATTTGTTCATTCTTGGAATGGAAAGAGT
1 -AGATCCTCTTTCTCCCTACTTGTTCATTCTCGGAATGGAAAGAGT
20067157 GGGACATCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (45 bp):
AGATCCTCTTTCTCCCTACTTGTTCATTCTCGGAATGGAAAGAGT
Found at i:20069613 original size:3 final size:3
Alignment explanation
Indices: 20069605--20069634 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20069595 CTCTGAAGCA
20069605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20069635 GAAAAACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20070022 original size:24 final size:24
Alignment explanation
Indices: 20069990--20070036 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
20069980 TCTAATGTAA
20069990 AATGATTAATATATTTATTTTTTT
1 AATGATTAATATATTTATTTTTTT
20070014 AATGATTAATATATTTATTTTTT
1 AATGATTAATATATTTATTTTTT
20070037 AATAAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
AATGATTAATATATTTATTTTTTT
Found at i:20072895 original size:48 final size:46
Alignment explanation
Indices: 20072786--20072903 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
20072776 TATGTGAGCC
* * * *
20072786 AGTGTAAGACATGTCTGAGACATGCATCGTCATTGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGTCATCGAGATGAAACCT
* * *
20072832 AGTGTAAGACATGTCTGGGACATGCATCGTCCTCGGGATATACAACCT
1 AGTGTAAGACATGTCTGGGACATGCATCGTCATCGAGAT-GA-AACCT
* *
20072880 AGTGTAAGACCTGTCTCGGACATG
1 AGTGTAAGACATGTCTGGGACATG
20072904 GAGTTAGCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 35 0.57
47 1 0.02
48 25 0.41
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGTCATCGAGATGAAACCT
Found at i:20077943 original size:22 final size:21
Alignment explanation
Indices: 20077913--20077978 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
20077903 TACAAATTAA
20077913 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
20077935 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
20077956 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
20077975 ATCT
1 ATCT
20077979 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:20077994 original size:36 final size:39
Alignment explanation
Indices: 20077930--20078032 Score: 140
Period size: 36 Copynumber: 2.6 Consensus size: 39
20077920 AGATTACAAG
20077930 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
20077970 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
20078006 ATCATATCATATCTAAGATTGCATATC
1 ATCATATC-T-TC-AAGATTG-ATATC
20078033 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
36 28 0.50
38 7 0.12
39 2 0.04
40 8 0.14
41 7 0.12
43 4 0.07
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:20078015 original size:24 final size:24
Alignment explanation
Indices: 20077986--20078032 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
20077976 TCTAAGATTG
20077986 TATCATATCTAAGATTGCATATCA
1 TATCATATCTAAGATTGCATATCA
20078010 TATCATATCTAAGATTGCATATC
1 TATCATATCTAAGATTGCATATC
20078033 CTTAAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (24 bp):
TATCATATCTAAGATTGCATATCA
Found at i:20078032 original size:19 final size:19
Alignment explanation
Indices: 20077930--20078013 Score: 136
Period size: 19 Copynumber: 4.4 Consensus size: 19
20077920 AGATTACAAG
20077930 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
20077951 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
20077970 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
20077987 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
20078006 ATCATATC
1 ATCATATC
20078014 ATATCTAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.28
19 35 0.57
20 1 0.02
21 8 0.13
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:20078593 original size:87 final size:86
Alignment explanation
Indices: 20078446--20078772 Score: 247
Period size: 87 Copynumber: 3.7 Consensus size: 86
20078436 TTTTGACAAA
* ** * * ** * *
20078446 ACAAAGATGCCAAATCATCTTAAATCTGCTTCAGCATAAACA-CGTGAAAGCCAAATCTGCTATG
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATC-TGAAGGTTAGACCTGCTATG
20078510 TCTTCGATTTGCTCCTTGTGAAC
64 TCTTCGATTTGCTCCTTGTGAAC
20078533 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGACCTGCTATGT
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAGGTTAGACCTGCTATGT
* * * *
20078598 ACCT-G--CT-CTCCAT-CGAA-
65 -CTTCGATTTGCTCCTTGTGAAC
** * ** * * * *
20078615 A-TGGAGATGCCAGATTAGTTATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCT
1 ACAAG-GATGCCA-A--A-TCATCTTGGATCTGC-TT-CAGTAA-AACATCTGAAGGTTAGACCT
* *
20078679 GCTATGTCTTCGATTTGTTCCTTGTAAAC
58 GCTATGTCTTCGATTTGCTCCTTGTGAAC
* *
20078708 ACAAGAATTCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGT
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGACCTGCTATGT
20078773 ACCTGCTCTC
Statistics
Matches: 182, Mismatches: 39, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
81 1 0.01
82 8 0.04
83 4 0.02
84 5 0.03
85 2 0.01
86 17 0.09
87 81 0.45
88 32 0.18
89 16 0.09
90 2 0.01
91 4 0.02
92 3 0.02
93 6 0.03
94 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (86 bp):
ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTGAAGGTTAGACCTGCTATGTC
TTCGATTTGCTCCTTGTGAAC
Found at i:20078683 original size:88 final size:85
Alignment explanation
Indices: 20078589--20078860 Score: 205
Period size: 88 Copynumber: 3.1 Consensus size: 85
20078579 AAGGTTAGAC
20078589 CTGCTATGTACCTGCTCTCCATCGAAATGGAGATGCCAGATTAGTTATCTTGGATCTGCTTTGGT
1 CTGCTATGTACCTGCTCTCC-TCGAAATGGAGATGCCA-ATTAGTTATCTTGGATCTGCTTTGGT
20078654 GTAAGAACATCTGAAAGTCAAAT
64 GT-AGAACATCTGAAAGTCAAAT
* * * * *** * *
20078677 CTGCTATGT-CTTCGATTTGTTCCTTGTAAACACAAGAATTCCAA--A-TCATCTTGGATCTGCT
1 CTGCTATGTACCT-G--CT-CTCCTCG-AAA-TGGAG-ATGCCAATTAGTTATCTTGGATCTGCT
** * * * * *
20078738 TCAGTATA-AACATCTGAAGGTTAGAC
59 TTGGTGTAGAACATCTGAAAGTCAAAT
* *
20078764 CTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCATATCT-GTTATCTTAGATCTTCTTTGG
1 CTGCTATGTACCTGCTCTCC-TCGAAATGGAGATGCCA-AT-TAGTTATCTTGGATCTGCTTTGG
*
20078828 TGTGAGAACATCCGAAAGTCAAAT
63 TGT-AGAACATCTGAAAGTCAAAT
20078852 CTGCTATGT
1 CTGCTATGT
20078861 TTTCGATTTG
Statistics
Matches: 133, Mismatches: 35, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
82 5 0.04
83 3 0.02
84 6 0.05
85 3 0.02
86 17 0.13
87 27 0.20
88 35 0.26
89 19 0.14
90 4 0.03
91 6 0.05
92 3 0.02
93 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (85 bp):
CTGCTATGTACCTGCTCTCCTCGAAATGGAGATGCCAATTAGTTATCTTGGATCTGCTTTGGTGT
AGAACATCTGAAAGTCAAAT
Found at i:20078695 original size:175 final size:175
Alignment explanation
Indices: 20078491--20079073 Score: 927
Period size: 175 Copynumber: 3.3 Consensus size: 175
20078481 ATAAACACGT
* * * *
20078491 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
20078556 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCATCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
* *
20078620 GATGCCAGAT-TAGTTATCTTGGATCTGCTTTGGTGTAAGAACATCT
130 GATGCCAGATCT-GTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
20078666 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATTCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
20078731 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
* * *
20078796 ATGCCATATCTGTTATCTTAGATCTTCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* *
20078841 GAAAGTCAAATCTGCTATGTTTTCGATTTGTTCCTTGTAAACACAATAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * *
20078906 ATCTGTTTCAGTATAAACATCTAAAGGTTAGACCTACTATGTACCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
* *
20078971 ATGCCAGATCTGTTACCTTGGATTTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * * * *
20079016 GAAAATCAGATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATC
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
20079074 TGCTATCTTC
Statistics
Matches: 377, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
175 373 0.99
176 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:20079091 original size:44 final size:44
Alignment explanation
Indices: 20079025--20079206 Score: 170
Period size: 44 Copynumber: 4.1 Consensus size: 44
20079015 CGAAAATCAG
* *
20079025 ATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAA
1 ATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
20079071 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAT
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
* *** * * * * * * *
20079115 GT-TAAAATCTTTGATCTGTTTCGCTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
*
20079159 ATCTGCTATCTTCGATCTGTTCCCTATAAAGACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
20079203 ATCT
1 ATCT
20079207 TGTTTCTTTG
Statistics
Matches: 104, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
43 9 0.09
44 75 0.72
45 12 0.12
46 8 0.08
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:20086700 original size:530 final size:530
Alignment explanation
Indices: 20085685--20087273 Score: 2922
Period size: 530 Copynumber: 3.0 Consensus size: 530
20085675 AACAGGTAAA
* *
20085685 GGTATTATATTTTATGAGAAATCTGAGTTTTAGTGAAACAAGGTCAGAG-AGATTTCTGGATCCC
1 GGTATTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCA-ATTTCTGGATCCC
*
20085749 CTATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATT---AGGTGTAATTTACATGG
65 CTATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGG
*
20085811 TTAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTTTACAG
130 TTAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTGTACAG
*
20085876 GAAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTAAGTTTTGAAACAGGGGAAACTTTA
195 GAAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAACAGGGGAAACTTTA
20085941 ACTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAG---AAAATTAGTAGATAGATATATG
260 ACTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATG
*
20086003 AGGCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTT
325 AGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTT
*
20086068 TAAGCAACCATGACGCAGAAAAACAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTT
390 TAAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTT
*
20086133 AAAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCAGGCGTGGGGGT
455 AAAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCGGGCGTGGGGGT
20086198 GTTACATTATT
520 GTTACATTATT
20086209 GGTATTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCAATTTCTGGATCCCC
1 GGTATTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCAATTTCTGGATCCCC
20086274 TATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGGT
66 TATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGGT
20086339 TAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTGTACAGG
131 TAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTGTACAGG
20086404 AAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAACAGGGGAAACTTTAA
196 AAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAACAGGGGAAACTTTAA
20086469 CTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATGA
261 CTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATGA
20086534 GTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTTT
326 GTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTTT
20086599 AAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTTA
391 AAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTTA
20086664 AAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCGGGCGTGGGGGTG
456 AAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCGGGCGTGGGGGTG
20086729 TTACATTATT
521 TTACATTATT
* * *
20086739 GGTACTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCGATTTCTAGATCCCC
1 GGTATTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCAATTTCTGGATCCCC
* *
20086804 TGTTTCAACTTTGGAAATTTACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGGT
66 TATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGGT
* *
20086869 TAGAATCCTTATTTAATCTAGTTTTGAGAGAAAGAAACGGCTTAGTCATATGAATTTTGTACAGG
131 TAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTGTACAGG
*
20086934 AAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAATAGGGGAAACTTTAA
196 AAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAACAGGGGAAACTTTAA
20086999 CTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATGA
261 CTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATGA
* *
20087064 GTCTAGTTTCAGAAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTTT
326 GTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTTT
20087129 AAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTTA
391 AAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTTA
* * * *
20087194 AAAGGTAAGATAAGTTTAGTAACACCGCAAGCTTGACTCCGGTGATGATTTCGGGCGCGGGGGAG
456 AAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCGGGCGTGGGGGTG
20087259 TTACATTATT
521 TTACATTATT
20087269 GGTAT
1 GGTAT
20087274 CAGAGCAGGT
Statistics
Matches: 1035, Mismatches: 23, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
524 105 0.10
525 1 0.00
527 184 0.18
530 745 0.72
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (530 bp):
GGTATTATATTTTATGAGATATCTGAGTTTTAGTGAAACAGGGTCAGAGCAATTTCTGGATCCCC
TATTTCAACTTTGGAAATTCACCATAAATTGTACAAAACTAATTAGAAGGTGTAATTTATATGGT
TAGAATCCTTATTGAATCTAGTTTTGAGAGAAACAAACGGCTTAGTCATATGAATTTTGTACAGG
AAGAAACATGGCTCGTAGTAAGAAGAGGTCAGTGTAGTTGAGTTTTGAAACAGGGGAAACTTTAA
CTAATAAACTGTACTAATTGGCCAAGTCAAAAATTCTAGAAAAAAATTAGTAGATAGATATATGA
GTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTTGAGTTTTGAAACTCGAGAAATGAATTTTT
AAGCAACCATGACGCAGAAAAATAGTTTATTCCAAAAATTAAAATAAGTGGTTTAGAGTTGTTTA
AAAGGTAAGATAAGTTTAGTAACACCTCAAGCTTGACTCCGGTGATGGTTTCGGGCGTGGGGGTG
TTACATTATT
Found at i:20093085 original size:48 final size:48
Alignment explanation
Indices: 20093026--20093121 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
20093016 CTAAAAAAAC
20093026 CCGAAGTGCCTCTAAACTGGCCCGCATCATCCCGAAATCTCTTCGATG
1 CCGAAGTGCCTCTAAACTGGCCCGCATCATCCCGAAATCTCTTCGATG
*
20093074 CCGAAGTGCCTCTAAACTGGCCCGCATCATCTCGAAATCTCTTCGATG
1 CCGAAGTGCCTCTAAACTGGCCCGCATCATCCCGAAATCTCTTCGATG
20093122 TCTGTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (48 bp):
CCGAAGTGCCTCTAAACTGGCCCGCATCATCCCGAAATCTCTTCGATG
Found at i:20095652 original size:80 final size:80
Alignment explanation
Indices: 20095536--20095721 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
20095526 AGTAACTCAT
* * *
20095536 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
20095600 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
20095615 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
20095679 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
20095696 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
20095722 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:20095681 original size:40 final size:40
Alignment explanation
Indices: 20095538--20095721 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
20095528 TAACTCATAC
* *
20095538 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20095578 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20095618 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
20095658 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20095699 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20095722 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20097457 original size:46 final size:46
Alignment explanation
Indices: 20097407--20097582 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 46
20097397 TGATTGAGCA
*
20097407 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
20097453 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGAT-TTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
20097498 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20097546 -CCTGAGCTTGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20097583 GCGGATTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 4 0.04
46 55 0.52
47 26 0.25
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20097563 original size:93 final size:93
Alignment explanation
Indices: 20097404--20097573 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
20097394 GGATGATTGA
*
20097404 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
20097469 TGAGTCCGAGTTTGTGAGATTTAACTAG
66 TGAGTCCGAGTTTGTGAGATTTAACTAG
* * *
20097497 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
20097561 TTGAGTCTGAGTT
65 TTGAGTCCGAGTT
20097574 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATTTAACTAG
Found at i:20104172 original size:62 final size:62
Alignment explanation
Indices: 20104071--20104257 Score: 259
Period size: 62 Copynumber: 3.0 Consensus size: 62
20104061 CTACACTCGA
* * * * *
20104071 CGTACTTTTT-GATTTTAGGAAACTTACTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTA-TTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
* *
20104133 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATTTAATGTTGATGCATAAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
* * * *
20104195 CGTATTTTTGTATTTTAAGAAATTTATTGCATGCGATGAAATGTAATGTTGTTGTATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
20104257 C
1 C
20104258 AAAAAAAAGA
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 5 0.05
62 106 0.95
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:20108670 original size:216 final size:216
Alignment explanation
Indices: 20108296--20108728 Score: 848
Period size: 216 Copynumber: 2.0 Consensus size: 216
20108286 GATGAGGCGG
* *
20108296 TTATCTGTGTTGGATGTAACGAAACCGACATAAAGTGTGCCTTCCAAAACCACAAGGATCTCCGT
1 TTATCTGTGTTGGATGTAACGAAACCGACATAAAGGGTGCCTTCCAAAACAACAAGGATCTCCGT
20108361 TGCACGAGGGTGCGTGTGAGGAGGGTTTAGGCCACCATATGGAGCATAGTCAATTCGAACTAGAG
66 TGCACGAGGGTGCGTGTGAGGAGGGTTTAGGCCACCATATGGAGCATAGTCAATTCGAACTAGAG
20108426 ATATGCCGAGAGTGTTAAGTCCCGGTATTTGTGCCACATTGACAGAGTCACAGTTGATCCAACCG
131 ATATGCCGAGAGTGTTAAGTCCCGGTATTTGTGCCACATTGACAGAGTCACAGTTGATCCAACCG
20108491 GATTTGAGGTGTTTCTAGGGA
196 GATTTGAGGTGTTTCTAGGGA
20108512 TTATCTGTGTTGGATGTAACGAAACCGACATAAAGGGTGCCTTCCAAAACAACAAGGATCTCCGT
1 TTATCTGTGTTGGATGTAACGAAACCGACATAAAGGGTGCCTTCCAAAACAACAAGGATCTCCGT
20108577 TGCACGAGGGTGCGTGTGAGGAGGGTTTAGGCCACCATATGGAGCATAGTCAATTCGAACTAGAG
66 TGCACGAGGGTGCGTGTGAGGAGGGTTTAGGCCACCATATGGAGCATAGTCAATTCGAACTAGAG
20108642 ATATGCCGAGAGTGTTAAGTCCCGGTATTTGTGCCACATTGACAGAGTCACAGTTGATCCAACCG
131 ATATGCCGAGAGTGTTAAGTCCCGGTATTTGTGCCACATTGACAGAGTCACAGTTGATCCAACCG
20108707 GATTTGAGGTGTTTCTAGGGA
196 GATTTGAGGTGTTTCTAGGGA
20108728 T
1 T
20108729 ATTAAGCCCT
Statistics
Matches: 215, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 215 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (216 bp):
TTATCTGTGTTGGATGTAACGAAACCGACATAAAGGGTGCCTTCCAAAACAACAAGGATCTCCGT
TGCACGAGGGTGCGTGTGAGGAGGGTTTAGGCCACCATATGGAGCATAGTCAATTCGAACTAGAG
ATATGCCGAGAGTGTTAAGTCCCGGTATTTGTGCCACATTGACAGAGTCACAGTTGATCCAACCG
GATTTGAGGTGTTTCTAGGGA
Found at i:20113942 original size:18 final size:19
Alignment explanation
Indices: 20113919--20113956 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20113909 GGAAGCAAGC
*
20113919 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
20113937 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
20113956 A
1 A
20113957 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:20117351 original size:24 final size:24
Alignment explanation
Indices: 20117323--20117374 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20117313 TTAGTAAATC
*
20117323 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20117347 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20117371 AAAT
1 AAAT
20117375 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20119320 original size:24 final size:24
Alignment explanation
Indices: 20119293--20119344 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20119283 TTAGTAAGTC
*
20119293 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20119317 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20119341 AAAT
1 AAAT
20119345 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.