Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 401 of 433
Found at i:124494628 original size:17 final size:16
Alignment explanation
Indices: 124494608--124494669 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
124494598 AACAAATTGT
124494608 AAAAATATATAAAAGA
1 AAAAATATATAAAAGA
124494624 AAAAAT-TA-AGAAA-A
1 AAAAATATATA-AAAGA
* *
124494638 TAAAAATGATATAAATGG
1 -AAAAAT-ATATAAAAGA
124494656 AAAAA-ATATAAAAG
1 AAAAATATATAAAAG
124494670 TTATTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
14 2 0.05
15 19 0.51
16 6 0.16
17 9 0.24
18 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAAAATATATAAAAGA
Found at i:124495177 original size:2 final size:2
Alignment explanation
Indices: 124495130--124495162 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124495120 AAAATTGTAG
124495130 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124495163 TTGTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:124495797 original size:12 final size:12
Alignment explanation
Indices: 124495782--124495913 Score: 104
Period size: 12 Copynumber: 11.0 Consensus size: 12
124495772 AGAACGAGAA
124495782 TGAGAGTGTGAG
1 TGAGAGTGTGAG
*
124495794 TGAGAGTGAG-G
1 TGAGAGTGTGAG
* *
124495805 ATGTGAGTTTGAG
1 -TGAGAGTGTGAG
*
124495818 TGAGAGTGTGAA
1 TGAGAGTGTGAG
* * ** *
124495830 CGAGAATAAGAA
1 TGAGAGTGTGAG
* *
124495842 TGAGAGTGAGAA
1 TGAGAGTGTGAG
* *
124495854 TGAGAATGAGAG
1 TGAGAGTGTGAG
124495866 TGAGAGTGTGAG
1 TGAGAGTGTGAG
*
124495878 TGTGAGTGTGAG
1 TGAGAGTGTGAG
*
124495890 TGTGAGTGTGAG
1 TGAGAGTGTGAG
*
124495902 TGTGAGTGTGAG
1 TGAGAGTGTGAG
124495914 CAAGAATGAG
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
11 1 0.01
12 97 0.98
13 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.45, T:0.25
Consensus pattern (12 bp):
TGAGAGTGTGAG
Found at i:124495798 original size:18 final size:18
Alignment explanation
Indices: 124495777--124495909 Score: 106
Period size: 18 Copynumber: 7.4 Consensus size: 18
124495767 GATGAAGAAC
*
124495777 GAGAATGAGAGTGTGAGT
1 GAGAGTGAGAGTGTGAGT
124495795 GAGAGTGAG-GATGTGAGT
1 GAGAGTGAGAG-TGTGAGT
** **
124495813 TTGAGTGAGAGTGTGAAC
1 GAGAGTGAGAGTGTGAGT
* * * *
124495831 GAGAATAAGAATGAGAGT
1 GAGAGTGAGAGTGTGAGT
* * *
124495849 GAGAATGAGAATGAGAGT
1 GAGAGTGAGAGTGTGAGT
*
124495867 GAGAGTGTGAGTGTGAGT
1 GAGAGTGAGAGTGTGAGT
* *
124495885 GTGAGTGTGAGTGTGAGT
1 GAGAGTGAGAGTGTGAGT
*
124495903 GTGAGTG
1 GAGAGTG
124495910 TGAGCAAGAA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
17 1 0.01
18 92 0.98
19 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.44, T:0.24
Consensus pattern (18 bp):
GAGAGTGAGAGTGTGAGT
Found at i:124495871 original size:6 final size:6
Alignment explanation
Indices: 124495777--124495909 Score: 79
Period size: 6 Copynumber: 22.2 Consensus size: 6
124495767 GATGAAGAAC
* * * **
124495777 GAGAAT GAGAGT GTGAGT GAGAGT GAG-GAT GTGAGT TTGAGT GAGAGT
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAG-T GAGAGT GAGAGT GAGAGT
* ** * * * * *
124495825 GTGAAC GAGAAT AAGAAT GAGAGT GAGAAT GAGAAT GAGAGT GAGAGT
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT
* * * * * *
124495873 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT G
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT G
124495910 TGAGCAAGAA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
5 1 0.01
6 105 0.98
7 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.44, T:0.24
Consensus pattern (6 bp):
GAGAGT
Found at i:124495910 original size:6 final size:6
Alignment explanation
Indices: 124495863--124495913 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
124495853 ATGAGAATGA
*
124495863 GAGTGA GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT
1 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT
124495911 GAG
1 GAG
124495914 CAAGAATGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (6 bp):
GAGTGT
Found at i:124498627 original size:40 final size:40
Alignment explanation
Indices: 124498499--124498611 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
124498489 TGCTGGAAAT
* * * *
124498499 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * *
124498539 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
*
124498579 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGC
124498612 ACGTGATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:124503856 original size:57 final size:57
Alignment explanation
Indices: 124503768--124503881 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
124503758 TCGGCCAATG
124503768 GCCGGGGCGGGGAACGAAGAAGCAAGAGAGCCCTTCTCTTTTCTCTTGTATTGTTGT
1 GCCGGGGCGGGGAACGAAGAAGCAAGAGAGCCCTTCTCTTTTCTCTTGTATTGTTGT
*
124503825 GCCGGGGCGGGGAACGAAGAAGCAAGAGAGCCCTTCTCTTTTCTCTTGTGTTGTTGT
1 GCCGGGGCGGGGAACGAAGAAGCAAGAGAGCCCTTCTCTTTTCTCTTGTATTGTTGT
124503882 AGGCCATGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.28
Consensus pattern (57 bp):
GCCGGGGCGGGGAACGAAGAAGCAAGAGAGCCCTTCTCTTTTCTCTTGTATTGTTGT
Found at i:124504985 original size:18 final size:18
Alignment explanation
Indices: 124504958--124504992 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
124504948 TTCAAAATTC
124504958 TATTTATTTATT-TTCAA
1 TATTTATTTATTATTCAA
124504975 TATTCTATTTATTATTCA
1 TATT-TATTTATTATTCA
124504993 TTATAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTTATTATTCAA
Found at i:124506840 original size:21 final size:22
Alignment explanation
Indices: 124506816--124506856 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
124506806 GGAAAGTTAC
*
124506816 AAATGTT-AGTTTTAAAACCCA
1 AAATGTTAAGTTTGAAAACCCA
*
124506837 AAATTTTAAGTTTGAAAACC
1 AAATGTTAAGTTTGAAAACC
124506857 ATATCAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (22 bp):
AAATGTTAAGTTTGAAAACCCA
Found at i:124510986 original size:78 final size:78
Alignment explanation
Indices: 124510853--124511014 Score: 297
Period size: 78 Copynumber: 2.1 Consensus size: 78
124510843 CATGAAATTC
*
124510853 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
124510918 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
124510931 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCAAGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
124510996 TTTACCTAACCTA
66 TTTACCTAACCTA
124511009 TTATCA
1 TTATCA
124511015 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
TTTACCTAACCTA
Found at i:124511015 original size:26 final size:26
Alignment explanation
Indices: 124510853--124511014 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
124510843 CATGAAATTC
124510853 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
124510879 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
124510905 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
124510931 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
124510957 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
124510983 TTATCAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
124511009 TTATCA
1 TTATCA
124511015 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:124511826 original size:23 final size:23
Alignment explanation
Indices: 124511763--124511820 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
124511753 TACTAAACTA
* *
124511763 TCAATGATAGTCAGTATAGAGTC
1 TCAATGACAGTCAGTACAGAGTC
*
124511786 TCAATAACAGTCAGTACAGAGTC
1 TCAATGACAGTCAGTACAGAGTC
124511809 TCAATGACAGTC
1 TCAATGACAGTC
124511821 GATACAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (23 bp):
TCAATGACAGTCAGTACAGAGTC
Found at i:124514728 original size:33 final size:32
Alignment explanation
Indices: 124514691--124514798 Score: 76
Period size: 33 Copynumber: 3.2 Consensus size: 32
124514681 GCAGAATTGA
124514691 GCAAAAGAGGACTTCTTAATAGGTAAGGAATTT
1 GCAAAAGAGGACTTCTTAAT-GGTAAGGAATTT
* * * * *
124514724 GCAAACTGA--ATTTCTGTTAATGGCATGGCAGAATTGA
1 GCAAA-AGAGGACTTC--TTAATGGTA-AG--GAATT-T
124514761 GCAAAAGAGGACTTCTTAATGGGTAAGGAATTT
1 GCAAAAGAGGACTTCTTAAT-GGTAAGGAATTT
124514794 GCAAA
1 GCAAA
124514799 CTGAATTTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 20
0.65 0.12 0.24
Matches are distributed among these distances:
32 4 0.07
33 13 0.24
34 13 0.24
36 13 0.24
37 8 0.15
38 4 0.07
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (32 bp):
GCAAAAGAGGACTTCTTAATGGTAAGGAATTT
Found at i:124514780 original size:36 final size:36
Alignment explanation
Indices: 124514672--124514782 Score: 99
Period size: 36 Copynumber: 3.1 Consensus size: 36
124514662 TATGAGTGAG
124514672 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTT
1 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTT
* * * * *
124514708 AATAGGTA-AG--GAATT-TGCAAACTGA--ATTTCTGTT
1 AAT-GGCATGGCAGAATTGAGCAAA-AGAGGACTTC--TT
124514742 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTT
1 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTT
124514778 AATGG
1 AATGG
124514783 GTAAGGAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 20
0.65 0.12 0.24
Matches are distributed among these distances:
32 4 0.07
33 8 0.15
34 13 0.24
36 18 0.33
37 8 0.15
38 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (36 bp):
AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTT
Found at i:124514786 original size:70 final size:70
Alignment explanation
Indices: 124514672--124514810 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
124514662 TATGAGTGAG
124514672 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTTAATAGGTAAGGAATTTGCAAACTGAATTT
1 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTTAATAGGTAAGGAATTTGCAAACTGAATTT
124514737 CTGTT
66 CTGTT
*
124514742 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTTAATGGGTAAGGAATTTGCAAACTGAATTT
1 AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTTAATAGGTAAGGAATTTGCAAACTGAATTT
124514807 CTGT
66 CTGT
124514811 GAGCACTGTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (70 bp):
AATGGCATGGCAGAATTGAGCAAAAGAGGACTTCTTAATAGGTAAGGAATTTGCAAACTGAATTT
CTGTT
Found at i:124515835 original size:20 final size:20
Alignment explanation
Indices: 124515797--124515844 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
124515787 TAAATTCTAA
* **
124515797 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
124515817 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
124515837 AAA-ATAAA
1 AAAGATAAA
124515845 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:124515869 original size:27 final size:26
Alignment explanation
Indices: 124515839--124515901 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
124515829 AGATAATTAA
124515839 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
124515866 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
124515893 AATATAAAT
1 AATA-AAAT
124515902 AAAGTGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:124515888 original size:15 final size:15
Alignment explanation
Indices: 124515868--124515897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
124515858 ATAATCCTAA
*
124515868 TAATTATCTTAATAT
1 TAATTATCCTAATAT
124515883 TAATTATCCTAATAT
1 TAATTATCCTAATAT
124515898 AAATAAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:124519043 original size:11 final size:11
Alignment explanation
Indices: 124519027--124519059 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
124519017 GGAGGCTAGG
124519027 GGGAAAAATGT
1 GGGAAAAATGT
124519038 GGGAAAAATG-
1 GGGAAAAATGT
124519048 GGTGAAAAATGT
1 GG-GAAAAATGT
124519060 TAGGGTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 18 0.90
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GGGAAAAATGT
Found at i:124519295 original size:5 final size:5
Alignment explanation
Indices: 124519287--124519357 Score: 52
Period size: 5 Copynumber: 12.8 Consensus size: 5
124519277 AATATAATTA
* * *
124519287 AAAAT AAAAC AAAAT GAAAT AAAAT AAAAT AAGAAAT AAATAA AAATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -A-AAAT AAA-AT AAA-AT
124519336 AATAAT AATAAT AAAATT AAAA
1 AA-AAT AA-AAT AAAA-T AAAA
124519358 ATTCAAGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
5 25 0.45
6 25 0.45
7 5 0.09
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:124519329 original size:11 final size:10
Alignment explanation
Indices: 124519280--124519356 Score: 61
Period size: 10 Copynumber: 7.5 Consensus size: 10
124519270 TTTTATTAAT
*
124519280 ATAATTAAAA
1 ATAAATAAAA
124519290 ATAAA-ACAAA
1 ATAAATA-AAA
124519300 ATGAAAT-AAA
1 AT-AAATAAAA
124519310 ATAAAATAAGAA
1 AT-AAATAA-AA
124519322 ATAAATAAAA
1 ATAAATAAAA
*
124519332 ATATAATAATA
1 ATA-AATAAAA
124519343 AT-AATAAAA
1 ATAAATAAAA
*
124519352 TTAAA
1 ATAAA
124519357 AATTCAAGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 8 0.15
10 25 0.45
11 18 0.33
12 4 0.07
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:124526154 original size:2 final size:2
Alignment explanation
Indices: 124526142--124526192 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
124526132 TTATTGTTAT
124526142 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
124526183 TA TA TA TA TA
1 TA TA TA TA TA
124526193 AAGTAAAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124528083 original size:20 final size:20
Alignment explanation
Indices: 124528041--124528088 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
124528031 TAAATTCTAA
* ** *
124528041 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAACT
124528061 AAAGATAAATAAAGATAACT
1 AAAGATAAATAAAGATAACT
124528081 AAA-ATAAA
1 AAAGATAAA
124528089 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAACT
Found at i:124528113 original size:27 final size:26
Alignment explanation
Indices: 124528083--124528145 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
124528073 AGATAACTAA
124528083 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
124528110 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
124528137 AATATAAAT
1 AATA-AAAT
124528146 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:124528132 original size:15 final size:15
Alignment explanation
Indices: 124528112--124528141 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
124528102 ATAATCCTAA
*
124528112 TAATTATCTTAATAT
1 TAATTATCCTAATAT
124528127 TAATTATCCTAATAT
1 TAATTATCCTAATAT
124528142 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:124531599 original size:66 final size:66
Alignment explanation
Indices: 124531488--124531620 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 66
124531478 CTCTTTCTAG
* * * * *
124531488 TCATATTACACGGTTTATTCTCTTCATCTTCTCCTTTAAGGGATTCACCTATCTCGCCACACCTG
1 TCATATTACAAGGTTTATTCTCTCCATCTTCTCCATCAAGGGATTCACCTACCTCGCCACACCTG
124531553 T
66 T
* * * * * * *
124531554 TCATATTGCAAGGTTTATTTTCTCCATCTTCTTCATCATGTGATTCACCTGCCTCGCCACACTTG
1 TCATATTACAAGGTTTATTCTCTCCATCTTCTCCATCAAGGGATTCACCTACCTCGCCACACCTG
124531619 T
66 T
124531620 T
1 T
124531621 TGTTCCTAAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.41
Consensus pattern (66 bp):
TCATATTACAAGGTTTATTCTCTCCATCTTCTCCATCAAGGGATTCACCTACCTCGCCACACCTG
T
Found at i:124532319 original size:14 final size:14
Alignment explanation
Indices: 124532302--124532335 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
124532292 TCTGTGTACA
*
124532302 AATAACATTGTTAT
1 AATAACATTGCTAT
124532316 AATAACATTGCTAT
1 AATAACATTGCTAT
*
124532330 ATTAAC
1 AATAAC
124532336 GTTTTTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (14 bp):
AATAACATTGCTAT
Found at i:124532664 original size:22 final size:22
Alignment explanation
Indices: 124532607--124532665 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
124532597 ATATTCAAAT
* *
124532607 AATAACAACAAAATAGTAGCAA
1 AATAATAATAAAATAGTAGCAA
* *
124532629 CATAATAATGAAATAGTAGCAA
1 AATAATAATAAAATAGTAGCAA
**
124532651 AATAATGTTAAAATA
1 AATAATAATAAAATA
124532666 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAATAATAAAATAGTAGCAA
Found at i:124533689 original size:9 final size:9
Alignment explanation
Indices: 124533677--124533789 Score: 51
Period size: 9 Copynumber: 12.9 Consensus size: 9
124533667 TATAAATGAA
124533677 AAAAATATT
1 AAAAATATT
*
124533686 -AAAATTTT
1 AAAAATATT
* *
124533694 AAAATTTTT
1 AAAAATATT
124533703 AAAAAGTATT
1 AAAAA-TATT
124533713 --AAA-ATT
1 AAAAATATT
124533719 -AAAAT-TT
1 AAAAATATT
*
124533726 AAAACTA-T
1 AAAAATATT
*
124533734 AAAAATTATG
1 AAAAA-TATT
* *
124533744 AAAATTGTT
1 AAAAATATT
* *
124533753 TAAAATATA
1 AAAAATATT
124533762 AAAAATTATT
1 AAAAA-TATT
*
124533772 TAAAATATT
1 AAAAATATT
124533781 ATAAAATAT
1 A-AAAATAT
124533790 GGAAAAGTGA
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
6 3 0.04
7 5 0.07
8 19 0.25
9 28 0.37
10 21 0.28
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATATT
Found at i:124533706 original size:27 final size:25
Alignment explanation
Indices: 124533676--124533725 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
124533666 ATATAAATGA
124533676 AAAAAATATTAAAATTTTAAAATTTTT
1 AAAAAATATTAAAA--TTAAAATTTTT
*
124533703 AAAAAGTATTAAAATTAAAATTT
1 AAAAAATATTAAAATTAAAATTT
124533726 AAAACTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
27 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAAAATATTAAAATTAAAATTTTT
Found at i:124535655 original size:21 final size:21
Alignment explanation
Indices: 124535629--124535668 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
124535619 AGCTCAGGTA
124535629 TTTTTATTCGAAAAAGGCCTC
1 TTTTTATTCGAAAAAGGCCTC
124535650 TTTTTATTCGAAAAAGGCC
1 TTTTTATTCGAAAAAGGCC
124535669 ACACTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTTTATTCGAAAAAGGCCTC
Found at i:124540313 original size:22 final size:23
Alignment explanation
Indices: 124540288--124540338 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
124540278 AATTGAAGTT
*
124540288 GAAATTTTAAATTC-GAAAAATA
1 GAAATATTAAATTCTGAAAAATA
* *
124540310 GAAAAATTAAATTCTTAAAAATA
1 GAAATATTAAATTCTGAAAAATA
*
124540333 AAAATA
1 GAAATA
124540339 AAAAAACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (23 bp):
GAAATATTAAATTCTGAAAAATA
Found at i:124542667 original size:22 final size:21
Alignment explanation
Indices: 124542636--124542677 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
124542626 TAACCCTTCT
124542636 TTCATTCATCTCCTTCATTTA
1 TTCATTCATCTCCTTCATTTA
124542657 TTCATATCATCTCCTTCATTT
1 TTCAT-TCATCTCCTTCATTT
124542678 CTCACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (21 bp):
TTCATTCATCTCCTTCATTTA
Found at i:124543733 original size:4 final size:4
Alignment explanation
Indices: 124543690--124543717 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
124543680 TATACAAAAA
124543690 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
124543718 GTATTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:124544043 original size:2 final size:2
Alignment explanation
Indices: 124543973--124544027 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
124543963 AATATATGCC
124543973 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
124544015 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
124544028 TAAAGATATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124544215 original size:25 final size:24
Alignment explanation
Indices: 124544181--124544256 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
124544171 ACAGTAAGAA
*
124544181 ATATACAATACATA-ACATTAAAAAT
1 ATATATAATA-ATATACA-TAAAAAT
*
124544206 ATATATAATAATATACATAAATAT
1 ATATATAATAATATACATAAAAAT
* *
124544230 ATAATATATATATTATA-ATAATAAT
1 AT-ATATA-ATAATATACATAAAAAT
124544255 AT
1 AT
124544257 GAAAAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.26
25 25 0.58
26 7 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATATAATAATATACATAAAAAT
Found at i:124544242 original size:31 final size:30
Alignment explanation
Indices: 124544188--124544249 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
124544178 GAAATATACA
124544188 ATACATAACATTAAAAATATATATAATAAT
1 ATACATAACATTAAAAATATATATAATAAT
* *
124544218 ATACATAA-ATATATAATATATATATTATAAT
1 ATACATAACAT-TA-AAAATATATATAATAAT
124544249 A
1 A
124544250 ATAATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 10 0.36
31 16 0.57
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
ATACATAACATTAAAAATATATATAATAAT
Found at i:124544253 original size:20 final size:19
Alignment explanation
Indices: 124544204--124544256 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
124544194 AACATTAAAA
124544204 ATATAT-ATAATAATATAC
1 ATATATAATAATAATATAC
* *
124544222 ATAAAT-AT-ATAATATAT
1 ATATATAATAATAATATAC
124544239 ATATTATAATAATAATAT
1 ATA-TATAATAATAATAT
124544257 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 9 0.31
19 2 0.07
20 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATAATAATAATATAC
Found at i:124545038 original size:27 final size:29
Alignment explanation
Indices: 124545008--124545066 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
124544998 ACATTTGAGA
124545008 AGGGGA-AGAAAAAAAAGAAGAGA-GGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
* **
124545035 A-GGGAGAGAAAAGAAAGGGGAGAGGGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
124545063 AGGG
1 AGGG
124545067 AGCTCCGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.15
27 15 0.58
28 5 0.19
29 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (29 bp):
AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
Found at i:124545063 original size:20 final size:23
Alignment explanation
Indices: 124545020--124545064 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
124545010 GGGAAGAAAA
124545020 AAAAGAAGAGAGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
*
124545043 AAAAGAA-AGGGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
124545065 GGAGCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAGAGGAGAGGGAGAG
Found at i:124545196 original size:16 final size:17
Alignment explanation
Indices: 124545175--124545210 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
124545165 TAAAAATCTG
*
124545175 ATTTTTTTTATTTTT-T
1 ATTTTTATTATTTTTAT
124545191 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTTAT
124545208 ATT
1 ATT
124545211 CTAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:124546490 original size:13 final size:13
Alignment explanation
Indices: 124546472--124546496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124546462 TTTGAAACAT
124546472 AGAAATTAAAAGC
1 AGAAATTAAAAGC
124546485 AGAAATTAAAAG
1 AGAAATTAAAAG
124546497 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:124546630 original size:67 final size:66
Alignment explanation
Indices: 124546428--124546684 Score: 297
Period size: 67 Copynumber: 3.8 Consensus size: 66
124546418 AGGTGAACTG
** * * * * *
124546428 AGGCTCAACTCATTTTTCGCAATATGGGTTGATTTTTGAAACATAGAAATT-AAAAGC-AGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAA-ATAGAATTTGAAAAACGA-AAAT
124546491 TAAA
64 T-AA
* * *
124546495 AGGCTCAACTCACCTCTCGCAATATGAGTTAATAATTTGAAAAGTAG-ATTTCGAAAAACGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAA-TAGAATTT-GAAAAACGAAAA
124546559 TTAA
63 TTAA
*
124546563 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA-TAGAATTTGAAAAACGAAAATT
124546628 AA
65 AA
* *
124546630 AGGCTCAACTCACCTCTCGCAATATGAATT-AACTTTTGAAAATAGAATTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATC-TTTGAAAATAGAATTTGAAAA
124546685 TACCTTAGCG
Statistics
Matches: 167, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
66 14 0.08
67 96 0.57
68 47 0.28
69 10 0.06
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (66 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAATAGAATTTGAAAAACGAAAATTA
A
Found at i:124546865 original size:145 final size:145
Alignment explanation
Indices: 124546634--124547262 Score: 929
Period size: 145 Copynumber: 4.2 Consensus size: 145
124546624 AATTAAAGGC
* * * * * * * * *
124546634 TCAACTCACCTCTCGCAATATGAATTAACTTTTGAAA-ATAGAATTTGAAAATACCTTAGCGTGC
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAACGTGT
*** *
124546698 CGCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACC
64 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACC
124546763 TCAGCGTGCCCCGAGGT
129 TCAGCGTGCCCCGAGGT
124546780 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
124546845 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
124546910 AGCGTGCCCCGAGGT
131 AGCGTGCCCCGAGGT
124546925 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
124546990 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
124547055 AGCGTG-CCCGAGGT
131 AGCGTGCCCCGAGGT
124547069 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
* *
124547134 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGGAAAACATGAATTAAAAAGTAGA
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-TT-------A-G-ATT--TAA-TAGG
* * *
124547199 AATTGAAAATACCTCAGCGTGCCCTGAGGC
116 AATTGAAATTACCTCAGCGTGCCCCGAGGT
124547229 TCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTTG
124547263 GAAAAAACAA
Statistics
Matches: 448, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
144 107 0.24
145 230 0.51
146 36 0.08
147 5 0.01
154 1 0.00
155 1 0.00
156 3 0.01
158 2 0.00
159 23 0.05
160 40 0.09
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (145 bp):
TCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTC
AGCGTGCCCCGAGGT
Found at i:124546866 original size:71 final size:71
Alignment explanation
Indices: 124546630--124547171 Score: 624
Period size: 71 Copynumber: 7.5 Consensus size: 71
124546620 CGAAAATTAA
* * * * *
124546630 AGGCTCAACTCACCTCTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCG
* *
124546695 TGCCGCA
65 TGCCCCG
* * *
124546702 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
124546767 CGTGCCCCG
63 CGTGCCCCG
* * * *
124546776 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
124546840 TGTCTTG
65 TGCCCCG
* *
124546847 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
124546912 CGTGCCCCG
63 CGTGCCCCG
* * * *
124546921 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
124546985 TGTCTTG
65 TGCCCCG
* *
124546992 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
124547057 CGTG-CCCG
63 CGTGCCCCG
* * * *
124547065 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
124547129 TGTCTTG
65 TGCCCCG
124547136 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
124547172 CTTGGAAAAC
Statistics
Matches: 400, Mismatches: 55, Indels: 31
0.82 0.11 0.06
Matches are distributed among these distances:
70 20 0.05
71 150 0.38
72 45 0.11
73 45 0.11
74 137 0.34
75 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:124547131 original size:289 final size:298
Alignment explanation
Indices: 124546630--124547267 Score: 954
Period size: 289 Copynumber: 2.1 Consensus size: 298
124546620 CGAAAATTAA
* * * * * * *
124546630 AGGCTCAACTCACCTCTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAATAGAATTTGAAAATACCTCAACG
*
124546695 TGCCGCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATT
66 TGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATT
124546760 ACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATT
131 ACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATT
124546825 GAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TT-A-G-
196 GAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTAATGA
* * *
124546885 ATT-TAA-TAGGAATTGAAATTACCTCAGCGTGCCCCG
261 ATTAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCCG
* *
124546921 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAAC
1 AGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAA-ATAGAATTTGAAAATACCTCAAC
* ***
124546984 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAAT
65 GTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAAT
124547049 TACCTCAGCGTG-CCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAAT
130 TACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAAT
124547113 TGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGGA
195 TGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTCTT---
*
124547178 AAACATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTG
256 --A-ATGAATT-AAAAGTAGAAATTGAAAATACCTCAGCGTGCCCCG
124547225 AGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGGAAAA
1 AGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTT-GAAAA
124547268 AACAAAATTG
Statistics
Matches: 311, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
289 107 0.34
290 85 0.27
291 39 0.13
292 5 0.02
299 1 0.00
300 1 0.00
301 3 0.01
303 2 0.01
304 64 0.21
305 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (298 bp):
AGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAATAGAATTTGAAAATACCTCAACG
TGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATT
ACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATT
GAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTAATGA
ATTAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCCG
Found at i:124559786 original size:2 final size:2
Alignment explanation
Indices: 124559732--124559768 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
124559722 AATATATGCC
124559732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124559769 GTTAAAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124559955 original size:25 final size:24
Alignment explanation
Indices: 124559921--124559990 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
124559911 ACAGTAAGAA
*
124559921 ATATACAATACATA-ACATTAAAAAT
1 ATATATAATA-ATATACA-TAAAAAT
*
124559946 ATATATAATAATATACATAAATAT
1 ATATATAATAATATACATAAAAAT
*
124559970 ATAATATATATATTATA-ATAA
1 AT-ATATA-ATAATATACATAA
124559991 TAATGAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 11 0.28
25 21 0.54
26 7 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATATAATAATATACATAAAAAT
Found at i:124559982 original size:31 final size:30
Alignment explanation
Indices: 124559928--124559989 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
124559918 GAAATATACA
124559928 ATACATAACATTAAAAATATATATAATAAT
1 ATACATAACATTAAAAATATATATAATAAT
* *
124559958 ATACATAA-ATATATAATATATATATTATAAT
1 ATACATAACAT-TA-AAAATATATATAATAAT
124559989 A
1 A
124559990 ATAATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 10 0.36
31 16 0.57
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
ATACATAACATTAAAAATATATATAATAAT
Found at i:124559993 original size:20 final size:19
Alignment explanation
Indices: 124559944--124559994 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
124559934 AACATTAAAA
124559944 ATATAT-ATAATAATATAC
1 ATATATAATAATAATATAC
* *
124559962 ATAAAT-AT-ATAATATAT
1 ATATATAATAATAATATAC
124559979 ATATTATAATAATAAT
1 ATA-TATAATAATAAT
124559995 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.41
18 9 0.33
19 2 0.07
20 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATATAATAATAATATAC
Found at i:124560771 original size:27 final size:29
Alignment explanation
Indices: 124560741--124560799 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
124560731 ACATTTGAGA
124560741 AGGGGA-AGAAAAAAAAGAAGAGA-GGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
* **
124560768 A-GGGAGAGAAAAGAAAGGGGAGAGGGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
124560796 AGGG
1 AGGG
124560800 AGCTCCGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.15
27 15 0.58
28 5 0.19
29 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (29 bp):
AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
Found at i:124560796 original size:20 final size:23
Alignment explanation
Indices: 124560753--124560797 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
124560743 GGGAAGAAAA
124560753 AAAAGAAGAGAGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
*
124560776 AAAAGAA-AGGGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
124560798 GGAGCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAGAGGAGAGGGAGAG
Found at i:124572747 original size:3 final size:3
Alignment explanation
Indices: 124572734--124572780 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
124572724 ATATAATGAA
124572734 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
124572780 A
1 A
124572781 TGAAAATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:124574235 original size:31 final size:33
Alignment explanation
Indices: 124574179--124574241 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 33
124574169 CAATTCAGTG
*
124574179 ACTTAAATAAAAACACTTTTGAATAGCTCAATA
1 ACTTAAATAAAAACACTTTTAAATAGCTCAATA
* *
124574212 ACTTAAAT-GAAA-ACTTTTAAATAGTTCAAT
1 ACTTAAATAAAAACACTTTTAAATAGCTCAAT
124574242 GACCAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 3 0.11
33 8 0.30
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (33 bp):
ACTTAAATAAAAACACTTTTAAATAGCTCAATA
Found at i:124575409 original size:29 final size:31
Alignment explanation
Indices: 124575364--124575430 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
124575354 TAGTAAATAA
124575364 TAAA-TTTTTATGATGTTAA-G-TTAAATTG
1 TAAACTTTTTATGATGTTAAGGATTAAATTG
124575392 TAAACTTTTTATGATGTTAAGGATTAAATTG
1 TAAACTTTTTATGATGTTAAGGATTAAATTG
124575423 TAAACTTT
1 TAAACTTT
124575431 GTGAAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 4 0.11
29 15 0.42
30 1 0.03
31 16 0.44
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (31 bp):
TAAACTTTTTATGATGTTAAGGATTAAATTG
Found at i:124576293 original size:9 final size:10
Alignment explanation
Indices: 124576265--124576292 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
124576255 TGTTAAGTTT
124576265 ATTTTTTTTC
1 ATTTTTTTTC
124576275 ATTTTTTTTC
1 ATTTTTTTTC
124576285 ATTTTTTT
1 ATTTTTTT
124576293 CTTCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:124577317 original size:26 final size:26
Alignment explanation
Indices: 124577278--124577385 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
124577268 TGGTACAAAT
124577278 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
124577304 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
124577330 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
124577356 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
124577382 TGAT
1 TGAT
124577386 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:124584370 original size:26 final size:26
Alignment explanation
Indices: 124584330--124584436 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
124584320 TGGTACAAAT
124584330 TGATAA-GGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
124584355 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
124584381 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
124584407 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
124584433 TGAT
1 TGAT
124584437 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 6 0.08
26 70 0.92
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:124587190 original size:2 final size:2
Alignment explanation
Indices: 124587183--124587207 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
124587173 ATAAACAATT
124587183 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
124587208 TACTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124587241 original size:22 final size:22
Alignment explanation
Indices: 124587213--124587257 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
124587203 TATATTACTA
*
124587213 TTTTCATTTAGTGGTGAAGGAG
1 TTTTCATTTAGTGGTGAAAGAG
124587235 TTTTCATTTAGTGGTGAAAGAG
1 TTTTCATTTAGTGGTGAAAGAG
124587257 T
1 T
124587258 GACTATTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.29, T:0.42
Consensus pattern (22 bp):
TTTTCATTTAGTGGTGAAAGAG
Found at i:124594051 original size:36 final size:36
Alignment explanation
Indices: 124593992--124594060 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
124593982 TAATATAATA
* **
124593992 ATAAATAACATTTTAATGGTTTAAGAAAATAATTTG
1 ATAAATAACATTTAAATAATTTAAGAAAATAATTTG
* * *
124594028 ATAAATAATATTTAAATAATTTAATATAATAAT
1 ATAAATAACATTTAAATAATTTAAGAAAATAAT
124594061 ACATGAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (36 bp):
ATAAATAACATTTAAATAATTTAAGAAAATAATTTG
Found at i:124594070 original size:36 final size:34
Alignment explanation
Indices: 124593894--124594070 Score: 78
Period size: 36 Copynumber: 5.1 Consensus size: 34
124593884 ATTAATTTAG
** * *
124593894 ATAATATTTAAATCGTTTAATATAATTATACAATAG
1 ATAATATTTAAATAATTTAA-ATAATAATAC-ATAA
* * * *
124593930 ATAAGCATTTTAAAT-ACTTCAGTAATAAATACATGAA
1 ATAA-TA-TTTAAATAATTTAAATAAT-AATACAT-AA
*
124593967 AT-AT-TTTAAA-AATTTTAAT-ATAATA-ATAA
1 ATAATATTTAAATAATTTAAATAATAATACATAA
* * ** * **
124593996 ATAACATTTTAATGGTTTAAGAAAATAATTTGATAA
1 ATAATATTTAAATAATTTAA-ATAATAA-TACATAA
124594032 ATAATATTTAAATAATTTAATATAATAATACATGAA
1 ATAATATTTAAATAATTTAA-ATAATAATACAT-AA
124594068 ATA
1 ATA
124594071 TTTTATACAT
Statistics
Matches: 102, Mismatches: 26, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
29 4 0.04
30 3 0.03
31 9 0.09
32 6 0.06
33 12 0.12
34 4 0.04
35 4 0.04
36 42 0.41
37 11 0.11
38 7 0.07
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.39
Consensus pattern (34 bp):
ATAATATTTAAATAATTTAAATAATAATACATAA
Found at i:124595785 original size:22 final size:22
Alignment explanation
Indices: 124595760--124595805 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
124595750 TCAATCTTAA
*
124595760 TATTATTA-TATTAATAATATTT
1 TATT-TTATTATTAAAAATATTT
*
124595782 TATTTTATTTTTAAAAATATTT
1 TATTTTATTATTAAAAATATTT
124595804 TA
1 TA
124595806 AAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTTATTATTAAAAATATTT
Found at i:124595960 original size:28 final size:30
Alignment explanation
Indices: 124595929--124595991 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
124595919 ATTTAATAAT
* *
124595929 ATAATAATT-ATTAATATAATT-TATTTTA
1 ATAATAATTGAATAATAAAATTCTATTTTA
*
124595957 ATAAT--TTGAATACTAAAATTCTATTTTA
1 ATAATAATTGAATAATAAAATTCTATTTTA
124595985 ATAATAA
1 ATAATAA
124595992 ATTTTAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 2 0.07
27 9 0.32
28 17 0.61
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
ATAATAATTGAATAATAAAATTCTATTTTA
Found at i:124596023 original size:7 final size:7
Alignment explanation
Indices: 124596011--124596035 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
124596001 TTAATAGGTG
124596011 AATTTTA
1 AATTTTA
124596018 AATTTTA
1 AATTTTA
124596025 AATTTTA
1 AATTTTA
124596032 AATT
1 AATT
124596036 ATATCCTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:124600033 original size:29 final size:28
Alignment explanation
Indices: 124599948--124600034 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 28
124599938 GTGAAATAAG
124599948 TCCCTATACTCTTTAAAAATTTCAAATTTAA
1 TCCCTATACT-TTT--AAATTTCAAATTTAA
* *
124599979 TCCCTATACTTTT-ATTTTCGTGAATTTAA
1 TCCCTATACTTTTAAATTTC--AAATTTAA
* *
124600008 TCCTTCTACATTTTAAATTTCAAATTT
1 TCCCTATAC-TTTTAAATTTCAAATTT
124600035 CAAATTCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
27 5 0.11
29 19 0.41
30 7 0.15
31 15 0.33
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.48
Consensus pattern (28 bp):
TCCCTATACTTTTAAATTTCAAATTTAA
Found at i:124602497 original size:147 final size:147
Alignment explanation
Indices: 124602059--124602497 Score: 501
Period size: 147 Copynumber: 3.0 Consensus size: 147
124602049 TCATTCTTTT
* * *
124602059 CTACATTAACTTTATCTTCCACAA--TCAAGGAATCAACCCTTTCGGTGACCTCCTCCTTAAGTT
1 CTACATTAACTTTATCTTCCACAACCTC-A-GAATCATCCATTTCGGTAACCTCCTCCTTAAGTT
* * * * *
124602122 CAGACGTC-AGCCTATCTTCCTTGATTGCATTTTCAGCATCTCTAATGTTCGATGAAATGCCACA
64 CAGATGTCAAG-TTATCTTCCTTAATTGCATTTTCAGCATCTCAAATGTTCGATGAAATGCCAGA
* ** * *
124602186 CTGAGCTATCCTCCACTTGG
128 CTGAACTATAGTCGACTTCG
* * * * *
124602206 CTACAGTAACTTTATCTGCTACGACCCCAGAATCATCCATTTCGGTAACCTCCTCCTTAAGTTCA
1 CTACATTAACTTTATCTTCCACAACCTCAGAATCATCCATTTCGGTAACCTCCTCCTTAAGTTCA
* * ** * *
124602271 GATGTTAGGTTATCTTCCTTAATTGCACCTTCAGCATCTCCAATGTTCGATGAAATGTCAGACTG
66 GATGTCAAGTTATCTTCCTTAATTGCATTTTCAGCATCTCAAATGTTCGATGAAATGCCAGACTG
* * *
124602336 AACTGTTGTAGACTTCG
131 AACTATAGTCGACTTCG
* * *
124602353 CTACATTATA-TTTAACTTCCACAACCTCAGAATCATCCATTTCAGTAACCTCCTCCTTAAGTTG
1 CTACATTA-ACTTTATCTTCCACAACCTCAGAATCATCCATTTCGGTAACCTCCTCCTTAAGTTC
* * *
124602417 AGATGTCAAGTTATCTTCCTTAATTACGTTTTCCGCATCT-AAATTGTTCGATGAAATGCCAGAC
65 AGATGTCAAGTTATCTTCCTTAATTGCATTTTCAGCATCTCAAA-TGTTCGATGAAATGCCAGAC
124602481 TGAACTATAGTCGACTT
129 TGAACTATAGTCGACTT
124602498 GGGTTCAAAA
Statistics
Matches: 242, Mismatches: 45, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
146 2 0.01
147 236 0.98
148 3 0.01
149 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (147 bp):
CTACATTAACTTTATCTTCCACAACCTCAGAATCATCCATTTCGGTAACCTCCTCCTTAAGTTCA
GATGTCAAGTTATCTTCCTTAATTGCATTTTCAGCATCTCAAATGTTCGATGAAATGCCAGACTG
AACTATAGTCGACTTCG
Found at i:124605979 original size:24 final size:23
Alignment explanation
Indices: 124605952--124605996 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
124605942 ATTGAATTTA
124605952 ACTTTATATT-TTATCTTAAATTAC
1 ACTTTAT-TTATTAT-TTAAATTAC
*
124605976 ACTTTCTTTATTATTTAAATT
1 ACTTTATTTATTATTTAAATT
124605997 GTTCAAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTTATTTATTATTTAAATTAC
Found at i:124610336 original size:10 final size:10
Alignment explanation
Indices: 124610321--124610372 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
124610311 AATACCAACA
124610321 ACCATAAACC
1 ACCATAAACC
*
124610331 ACCATAAACAAA
1 ACCATAAAC--C
124610343 AGCCATAAACC
1 A-CCATAAACC
*
124610354 ACAATAAACC
1 ACCATAAACC
124610364 ACCATAAAC
1 ACCATAAAC
124610373 AAAAGCCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 25 0.71
11 1 0.03
12 1 0.03
13 8 0.23
ACGTcount: A:0.56, C:0.33, G:0.02, T:0.10
Consensus pattern (10 bp):
ACCATAAACC
Found at i:124611264 original size:16 final size:16
Alignment explanation
Indices: 124611240--124611274 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
124611230 AATATAATTA
124611240 TCAGAATCTTATTTTC
1 TCAGAATCTTATTTTC
*
124611256 TCAGGATCTTATTTTC
1 TCAGAATCTTATTTTC
124611272 TCA
1 TCA
124611275 TGCACTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (16 bp):
TCAGAATCTTATTTTC
Found at i:124616209 original size:63 final size:63
Alignment explanation
Indices: 124616054--124616210 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 63
124616044 AGCCGTGTGA
* * * * *
124616054 TAGGCCGTGTGACTCATTGTTTGCTATTAGGGACCACACGGGCCAGAGACACTGGCGTGTATC
1 TAGGCCGTGTGACTCACTGTTTGATATTAGGGACCACAAGGGCCAAAGACACGGGCGTGTATC
* * * *
124616117 TAGGCTGTGTGACTCACTATTT-ACTATTAGGGACCACAAGGGTCAAAGACACGGGTGTGTATC
1 TAGGCCGTGTGACTCACTGTTTGA-TATTAGGGACCACAAGGGCCAAAGACACGGGCGTGTATC
* *
124616180 TAGGCCGTGTGACTTACTGTTTGAGATTAGG
1 TAGGCCGTGTGACTCACTGTTTGATATTAGG
124616211 CTTACACGGG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
63 78 0.99
64 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (63 bp):
TAGGCCGTGTGACTCACTGTTTGATATTAGGGACCACAAGGGCCAAAGACACGGGCGTGTATC
Found at i:124623833 original size:9 final size:9
Alignment explanation
Indices: 124623787--124623872 Score: 64
Period size: 10 Copynumber: 8.7 Consensus size: 9
124623777 TTCATGCTTT
124623787 TTTTTTAAAA
1 TTTTTT-AAA
124623797 TTTTTGTAAA
1 TTTTT-TAAA
124623807 TTTTCTTATAA
1 TTTT-TTA-AA
*
124623818 TTCTTTTTAA
1 TT-TTTTAAA
124623828 TTTTTTAAA
1 TTTTTTAAA
*
124623837 ATTTTTAAA
1 TTTTTTAAA
* *
124623846 CATTTTTATTA
1 -TTTTTTA-AA
124623857 TTTTTTAAA
1 TTTTTTAAA
124623866 TTATTTT
1 TT-TTTT
124623873 TTGATGCGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
9 17 0.27
10 35 0.56
11 9 0.14
12 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:124630088 original size:37 final size:38
Alignment explanation
Indices: 124630043--124630123 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 38
124630033 TAATAAATTA
124630043 TATA-AAAATAAAGTGCTTGTTATAT-AAAAAAATAAG
1 TATAGAAAATAAAGTGCTTGTTATATAAAAAAAATAAG
124630079 TATAGAAAATAAAGTGCTTGTTATATAAAAAAAAATAAG
1 TATAGAAAATAAAGTGCTTGTTATAT-AAAAAAAATAAG
124630118 TATAGA
1 TATAGA
124630124 GATTAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 4 0.10
37 21 0.50
39 17 0.40
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (38 bp):
TATAGAAAATAAAGTGCTTGTTATATAAAAAAAATAAG
Found at i:124630103 original size:21 final size:21
Alignment explanation
Indices: 124630040--124630108 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
124630030 AGGTAATAAA
124630040 TTATATAAAAATAAAGTGCTTG
1 TTATAT-AAAATAAAGTGCTTG
**
124630062 TTATATAAAA-AAA-T--AAG
1 TTATATAAAATAAAGTGCTTG
*
124630079 -TATAGAAAATAAAGTGCTTG
1 TTATATAAAATAAAGTGCTTG
124630099 TTATATAAAA
1 TTATATAAAA
124630109 AAAAATAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
16 8 0.22
17 4 0.11
18 1 0.03
19 1 0.03
20 4 0.11
21 12 0.33
22 6 0.17
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (21 bp):
TTATATAAAATAAAGTGCTTG
Found at i:124630739 original size:19 final size:19
Alignment explanation
Indices: 124630702--124630739 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
124630692 AGTTGGGAAA
*
124630702 TAAAATTTAAAAATTAACT
1 TAAAATTTAAAAATAAACT
124630721 TAAAATGTTAAAAA-AAACT
1 TAAAAT-TTAAAAATAAACT
124630740 CAAGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATTTAAAAATAAACT
Found at i:124630921 original size:16 final size:17
Alignment explanation
Indices: 124630886--124630937 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
124630876 AATTATAATT
*
124630886 AAATAAAATATTTATTA
1 AAATAAAATATTTATAA
*
124630903 AAATATAATATTT-TAA
1 AAATAAAATATTTATAA
*
124630919 AAATAAAATGAATTATAA
1 AAATAAAAT-ATTTATAA
124630937 A
1 A
124630938 TTCAAATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 10 0.34
17 15 0.52
18 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATAAAATATTTATAA
Found at i:124631944 original size:16 final size:18
Alignment explanation
Indices: 124631925--124631957 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
124631915 CATACTAGAT
124631925 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
124631941 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
124631958 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:124632589 original size:43 final size:43
Alignment explanation
Indices: 124632521--124632685 Score: 251
Period size: 43 Copynumber: 3.8 Consensus size: 43
124632511 CTGAACTCAT
* *
124632521 TCACCGGCATT-TCGTCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
*
124632563 TCACCGGCATTATAACCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
* *
124632606 TCACCGGCATTATAGCCTGTTAAGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
* *
124632649 TCACCGACATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCCCGAA-GCCCGA
124632686 ATAGTACCGT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 11 0.10
43 94 0.85
44 6 0.05
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
Found at i:124634479 original size:14 final size:15
Alignment explanation
Indices: 124634452--124634480 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
124634442 AAAATCAAAG
124634452 CATGCAATTTTCACA
1 CATGCAATTTTCACA
124634467 CATGCAA-TTTCACA
1 CATGCAATTTTCACA
124634481 TATAATAGAC
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:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
CATGCAATTTTCACA
Found at i:124639126 original size:31 final size:31
Alignment explanation
Indices: 124639088--124639199 Score: 163
Period size: 31 Copynumber: 3.6 Consensus size: 31
124639078 GACAAAAACA
124639088 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
124639119 AGTGAAAAGTGGTAGCTCCGGCTGCCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
*
124639150 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCT-GCTACCTGATC
*
124639181 AGTGAATAGTGGTAGCTTC
1 AGTGAAAAGTGGTAGCTTC
124639200 GACTACAACT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.01
31 67 0.96
32 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:124639294 original size:47 final size:46
Alignment explanation
Indices: 124639225--124639387 Score: 156
Period size: 47 Copynumber: 3.6 Consensus size: 46
124639215 GTGATTTCCA
* *
124639225 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-G
* * * *
124639272 TATAAGACCATATCTGAGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
* * * *
124639318 TGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATATG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACG
* * *
124639360 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
124639388 ATTATGTGAA
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 25 0.25
47 39 0.38
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
Found at i:124639375 original size:42 final size:43
Alignment explanation
Indices: 124639317--124639431 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
124639307 TATGTGATTC
*
124639317 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
124639359 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
124639401 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
124639432 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:124640587 original size:16 final size:16
Alignment explanation
Indices: 124640566--124640598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
124640556 TTGGTCGTCG
124640566 AAGAACCGCCAAAGCC
1 AAGAACCGCCAAAGCC
*
124640582 AAGAACCGCCGAAGCC
1 AAGAACCGCCAAAGCC
124640598 A
1 A
124640599 TCAAAGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.36, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAACCGCCAAAGCC
Found at i:124641658 original size:18 final size:18
Alignment explanation
Indices: 124641631--124641668 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
124641621 CTTACGATTA
*
124641631 CTCATGTATCGACTAGCC
1 CTCATATATCGACTAGCC
124641649 CTCATATATCGACTAGCC
1 CTCATATATCGACTAGCC
124641667 CT
1 CT
124641669 TCCAATTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (18 bp):
CTCATATATCGACTAGCC
Found at i:124644941 original size:51 final size:51
Alignment explanation
Indices: 124644881--124644984 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
124644871 TAATTTCGCC
124644881 AAAGTTTCCCAAGCTGCTTTCGGTGTCGTATCTTCAAAAATATACTCCAAT
1 AAAGTTTCCCAAGCTGCTTTCGGTGTCGTATCTTCAAAAATATACTCCAAT
*
124644932 AAAGTTTCCCAGGCTGCTTTCGGTGTCGTATCTTCAAAAATATACTCCAAT
1 AAAGTTTCCCAAGCTGCTTTCGGTGTCGTATCTTCAAAAATATACTCCAAT
124644983 AA
1 AA
124644985 GTCCTCATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (51 bp):
AAAGTTTCCCAAGCTGCTTTCGGTGTCGTATCTTCAAAAATATACTCCAAT
Found at i:124649814 original size:25 final size:25
Alignment explanation
Indices: 124649772--124649862 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
124649762 GCTTTTTTAT
*
124649772 GAGCTTCCTGACTA-ATGGCTCTCCG
1 GAGCTTCCCGA-TATATGGCTCTCCG
*
124649797 GAGCTTCCCGATATATGGCTCGCAC-
1 GAGCTTCCCGATATATGGCTCTC-CG
* * **
124649822 GAGCTTCCTGAT-TAATGGATCTTTG
1 GAGCTTCCCGATAT-ATGGCTCTCCG
*
124649847 GAGCTTCCCGTTATAT
1 GAGCTTCCCGATATAT
124649863 AACTCACATT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
24 3 0.06
25 47 0.90
26 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCTCCG
Found at i:124649879 original size:50 final size:50
Alignment explanation
Indices: 124649772--124649870 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
124649762 GCTTTTTTAT
* ** *
124649772 GAGCTTCCTGACTAATGGCTCTCCGGAGCTTCCCGATATATGGCTCGCAC
1 GAGCTTCCTGACTAATGGATCTCCGGAGCTTCCCGATATATAACTCACAC
* ** *
124649822 GAGCTTCCTGATTAATGGATCTTTGGAGCTTCCCGTTATATAACTCACA
1 GAGCTTCCTGACTAATGGATCTCCGGAGCTTCCCGATATATAACTCACA
124649871 TTTGCTTCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
GAGCTTCCTGACTAATGGATCTCCGGAGCTTCCCGATATATAACTCACAC
Found at i:124652017 original size:41 final size:41
Alignment explanation
Indices: 124651972--124652055 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
124651962 ACACATATAT
124651972 ATAGCCAAAGTTTGCACAGTCTCCTTAATCCTTTATAACCA
1 ATAGCCAAAGTTTGCACAGTCTCCTTAATCCTTTATAACCA
*
124652013 ATAGCCAAAGTTTGCACAGTCTCCTTAATCCTTTATAGCCA
1 ATAGCCAAAGTTTGCACAGTCTCCTTAATCCTTTATAACCA
124652054 AT
1 AT
124652056 CACTACTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (41 bp):
ATAGCCAAAGTTTGCACAGTCTCCTTAATCCTTTATAACCA
Found at i:124654750 original size:31 final size:31
Alignment explanation
Indices: 124654712--124654782 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
124654702 TAATTTGATA
*
124654712 AATTTTAGTTTTTATA-TTTTTCAAATTAGTC
1 AATTTTAGTTCTTATACTTTTT-AAATTAGTC
* * *
124654743 AATTTTAGCTCTTATACTTTTTGAATTGGTC
1 AATTTTAGTTCTTATACTTTTTAAATTAGTC
124654774 AATTTTAGT
1 AATTTTAGT
124654783 CCTGACCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
AATTTTAGTTCTTATACTTTTTAAATTAGTC
Found at i:124656825 original size:223 final size:226
Alignment explanation
Indices: 124656427--124656841 Score: 658
Period size: 223 Copynumber: 1.8 Consensus size: 226
124656417 TATCGAAGCT
*
124656427 GCTGAGAAAACAATACGGGATCGAGAAAGAGAAGCAGCTAGGATTGCATTGCAAAAGATGGGAAA
1 GCTGAGAAAACAATACGGGATCGAGAAAGAGAAGCAGCTAGGATTGCATTGCAAAAGATGAGAAA
* *
124656492 CACAGCCGGGATTGAATTGAATTTGGAGACGCAAAAGGAGCTCATGATTCTGTGTGGAGGCTCTC
66 CACAGCCGGG--TGAATTGAATTTGGAGACACAAAAGGAGCTCATGATTCTGCGTGGAGGCTCTC
*
124656557 TTTCTGGTCCGAATCCACTGCATCGGCTAGGCTTGTTCCTCAAACACGACTACTA-GGAAGACAC
129 TTTCGGGTCCGAATCCACTGCATCGGCTAGGCTTGTTCCTCAAACACGACTAC-AGGGAAGACAC
124656621 TGATCTGTATGAGGATACTGAAGATCATATCCAA
193 TGATCTGTATGAGGATACTGAAGATCATATCCAA
* **
124656655 GCTGTGAAAACAATACGGGATCGAGGTAGAGAAGCAGCTAGGATTGCATTGCAAAAGATGAGAAA
1 GCTGAGAAAACAATACGGGATCGAGAAAGAGAAGCAGCTAGGATTGCATTGCAAAAGATGAGAAA
* *
124656720 CACAG-CTGG-G-ATTGAATTTGGAGACACAAAAGGAGCTCCTGATTCTGCGTGGAGGCTCTCTT
66 CACAGCCGGGTGAATTGAATTTGGAGACACAAAAGGAGCTCATGATTCTGCGTGGAGGCTCTCTT
* * * *
124656782 TGGGGTCCGAGTCCGCTGCATCGGCTAGGCTTGTTCCTCAAACATGACTACAGGGAAGAC
131 TCGGGTCCGAATCCACTGCATCGGCTAGGCTTGTTCCTCAAACACGACTACAGGGAAGAC
124656842 GAAACCAAAG
Statistics
Matches: 173, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
222 1 0.01
223 102 0.59
224 1 0.01
227 3 0.02
228 66 0.38
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (226 bp):
GCTGAGAAAACAATACGGGATCGAGAAAGAGAAGCAGCTAGGATTGCATTGCAAAAGATGAGAAA
CACAGCCGGGTGAATTGAATTTGGAGACACAAAAGGAGCTCATGATTCTGCGTGGAGGCTCTCTT
TCGGGTCCGAATCCACTGCATCGGCTAGGCTTGTTCCTCAAACACGACTACAGGGAAGACACTGA
TCTGTATGAGGATACTGAAGATCATATCCAA
Found at i:124657139 original size:18 final size:18
Alignment explanation
Indices: 124657116--124657151 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
124657106 TTAAACAAGC
124657116 TAACTGCTAACAACTAAT
1 TAACTGCTAACAACTAAT
*
124657134 TAACTGCTAACAGCTAAT
1 TAACTGCTAACAACTAAT
124657152 ATTAACTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (18 bp):
TAACTGCTAACAACTAAT
Found at i:124658961 original size:13 final size:14
Alignment explanation
Indices: 124658935--124658967 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
124658925 CTTAAAATAA
124658935 ATATATTATAAAAT
1 ATATATTATAAAAT
124658949 ATATATT-TAAAAT
1 ATATATTATAAAAT
*
124658962 AAATAT
1 ATATAT
124658968 ATGGCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATTATAAAAT
Found at i:124661724 original size:19 final size:19
Alignment explanation
Indices: 124661702--124661740 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
124661692 AATTATTAAT
124661702 AGATAAAATAATTAAAATA
1 AGATAAAATAATTAAAATA
* *
124661721 AGATACAATAATTAATATA
1 AGATAAAATAATTAAAATA
124661740 A
1 A
124661741 AAAATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
AGATAAAATAATTAAAATA
Found at i:124662186 original size:25 final size:25
Alignment explanation
Indices: 124662158--124662220 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
124662148 AATTTTACAG
*
124662158 TTTTTCAATTTTTATAATTTAATAA
1 TTTTTAAATTTTTATAATTTAATAA
**
124662183 -TTTTAAATATTTTATGTTTTAATAA
1 TTTTTAAAT-TTTTATAATTTAATAA
124662208 TTTATTAAATTTT
1 TTT-TTAAATTTT
124662221 AATTAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.22
25 14 0.44
26 5 0.16
27 6 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTAAATTTTTATAATTTAATAA
Found at i:124665676 original size:26 final size:26
Alignment explanation
Indices: 124665647--124665698 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
124665637 TATCATCACC
124665647 TCCCATTCCTTCTTCATGTACATATG
1 TCCCATTCCTTCTTCATGTACATATG
124665673 TCCCATTCCTTCTTCATGTACATATG
1 TCCCATTCCTTCTTCATGTACATATG
124665699 AGCTTCGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.08, T:0.42
Consensus pattern (26 bp):
TCCCATTCCTTCTTCATGTACATATG
Found at i:124667286 original size:93 final size:93
Alignment explanation
Indices: 124667174--124667345 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
124667164 GCCCATAACT
* *
124667174 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
124667239 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
124667267 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
124667332 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
124667346 CAACCATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:124667341 original size:46 final size:46
Alignment explanation
Indices: 124667166--124667341 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
124667156 TGTAACCCGC
* * * *
124667166 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
124667212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
124667262 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
124667305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
124667342 TGCCCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:124672539 original size:6 final size:7
Alignment explanation
Indices: 124672523--124672579 Score: 78
Period size: 7 Copynumber: 7.7 Consensus size: 7
124672513 AAGTTTTCTC
124672523 TTTTGAT
1 TTTTGAT
124672530 TTTTGAT
1 TTTTGAT
124672537 TTTTGATT
1 TTTTGA-T
124672545 TTTTGATT
1 TTTTGA-T
124672553 TTTTGATT
1 TTTTGA-T
124672561 TTTTGAT
1 TTTTGAT
*
124672568 TTTTTAT
1 TTTTGAT
124672575 TTTTG
1 TTTTG
124672580 CGAAAAGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 24 0.51
8 23 0.49
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (7 bp):
TTTTGAT
Found at i:124672547 original size:8 final size:8
Alignment explanation
Indices: 124672523--124672578 Score: 91
Period size: 8 Copynumber: 7.4 Consensus size: 8
124672513 AAGTTTTCTC
124672523 TTTTGA-T
1 TTTTGATT
124672530 TTTTGA-T
1 TTTTGATT
124672537 TTTTGATT
1 TTTTGATT
124672545 TTTTGATT
1 TTTTGATT
124672553 TTTTGATT
1 TTTTGATT
124672561 TTTTGATT
1 TTTTGATT
124672569 TTTT-ATT
1 TTTTGATT
124672576 TTT
1 TTT
124672579 GCGAAAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.40
8 29 0.60
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (8 bp):
TTTTGATT
Found at i:124675096 original size:111 final size:110
Alignment explanation
Indices: 124674903--124675123 Score: 388
Period size: 111 Copynumber: 2.0 Consensus size: 110
124674893 CCTAATACGA
* *
124674903 GAAAAGTTATTACATTGTATTGTGATAACAATAAAACAATAGAGTAGACATTTTAAGAGGACTAA
1 GAAAAGTTATTACATTGTATTGTGACAAAAATAAAACAATAGAGTAGACATTTTAAGAGGACTAA
*
124674968 ACACATCGATCATATTGTCAAAGAGATTGTTAAAGATGGAATAGT
66 ACACATCGATCACATTGTCAAAGAGATTGTTAAAGATGGAATAGT
*
124675013 GAAAAGTTATTACATTGTATTGTGACAAAATATAAAACAATAGAGTAGGCATTTTAAGAGGACTA
1 GAAAAGTTATTACATTGTATTGTGACAAAA-ATAAAACAATAGAGTAGACATTTTAAGAGGACTA
*
124675078 AACACATCGATCACATTGTCAAAGAGATTGTTAAATATGGAATAGT
65 AACACATCGATCACATTGTCAAAGAGATTGTTAAAGATGGAATAGT
124675124 TGGTATAGTC
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
110 28 0.27
111 77 0.73
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (110 bp):
GAAAAGTTATTACATTGTATTGTGACAAAAATAAAACAATAGAGTAGACATTTTAAGAGGACTAA
ACACATCGATCACATTGTCAAAGAGATTGTTAAAGATGGAATAGT
Found at i:124675589 original size:2 final size:2
Alignment explanation
Indices: 124675582--124675615 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
124675572 ATTATGACTA
124675582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124675616 TCAGGGCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124680082 original size:39 final size:39
Alignment explanation
Indices: 124680028--124680103 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
124680018 ATCTACATAC
124680028 CTTCTTGAGATGGGAATGTTCTGAATCTGCTTGAAAACT
1 CTTCTTGAGATGGGAATGTTCTGAATCTGCTTGAAAACT
124680067 CTTCTTGAGATGGGAATGTTCTGAATCTGCTTGAAAA
1 CTTCTTGAGATGGGAATGTTCTGAATCTGCTTGAAAA
124680104 TTACTTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (39 bp):
CTTCTTGAGATGGGAATGTTCTGAATCTGCTTGAAAACT
Found at i:124681898 original size:111 final size:109
Alignment explanation
Indices: 124681688--124681908 Score: 336
Period size: 111 Copynumber: 2.0 Consensus size: 109
124681678 ACACCTCTTG
* *
124681688 TATCATTCAGTTTTCAACATTAGTGAATTTCTTCTCTTTTGCTTGCGGTTTTTTCCCGAAAGGGT
1 TATCATTCAGTTTTCAACATTAGTGAATTTCTTCTCTTCTGCCTGCGGTTTTTTCCCGAAAGGGT
* * *
124681753 TTCCACGTAAAATCTGTGTGTTTTATTTTTCTTTTCTTATTGTT
66 TTCCACATAAAATCTATGTGTTTTATTTTACTTTTCTTATTGTT
* * *
124681797 TATCATTCAGTTTTCAACATTAGTGAATTTCTTCT-TCTCTGCCTGTGGTTTTTTTTTCTGAAAG
1 TATCATTCAGTTTTCAACATTAGTGAATTTCTTCTCT-TCTGCCTGCGG--TTTTTTCCCGAAAG
124681861 GGTTTCCACATAAAATCTATGTGTTTTATTTTACTTTTCTTATTGTT
63 GGTTTCCACATAAAATCTATGTGTTTTATTTTACTTTTCTTATTGTT
124681908 T
1 T
124681909 TACGATCATT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 1 0.01
109 43 0.43
111 57 0.56
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.52
Consensus pattern (109 bp):
TATCATTCAGTTTTCAACATTAGTGAATTTCTTCTCTTCTGCCTGCGGTTTTTTCCCGAAAGGGT
TTCCACATAAAATCTATGTGTTTTATTTTACTTTTCTTATTGTT
Found at i:124683499 original size:28 final size:28
Alignment explanation
Indices: 124683459--124683540 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
124683449 GCAATCAAAT
* * *
124683459 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
124683487 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
124683515 ATGACACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTGCGAAATATTGA
124683541 ATGATTCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:124685562 original size:75 final size:74
Alignment explanation
Indices: 124685427--124685566 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 74
124685417 AAGCTAAAAC
* *
124685427 CTTTTTCCTTGTTGTAATTTTGTAAAAATGATTGATTATTCAAGTAAAAAATAGAACCTTTTAAC
1 CTTTTTCCTTGTTGCAATTTTGTAAAAATGAGTGATTATTCAAGTAAAAAATAGAACC-TTTAAC
124685492 ACACGCACGG
65 ACACGCACGG
* *
124685502 CTTTTTCCTTGTTGCAATTTTGTTAAAATGAGTGATTATTCAAGT-AAAGATAGAACCCTTTAAC
1 CTTTTTCCTTGTTGCAATTTTGTAAAAATGAGTGATTATTCAAGTAAAAAATAGAA-CCTTTAAC
124685566 A
65 A
124685567 AACACGCTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
74 16 0.27
75 44 0.73
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (74 bp):
CTTTTTCCTTGTTGCAATTTTGTAAAAATGAGTGATTATTCAAGTAAAAAATAGAACCTTTAACA
CACGCACGG
Found at i:124687328 original size:53 final size:53
Alignment explanation
Indices: 124687247--124687392 Score: 186
Period size: 53 Copynumber: 2.7 Consensus size: 53
124687237 CTTACACGGT
* *
124687247 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CGATGGTCTTATACGGAATCACATTA
* *
124687302 TCACATTATACCGATGCCATAGCCCAGCGATGGTCTTATACGGAGTCATATTA
1 TCACATTATACCGATGCCATAGCCCAGCGATGGTCTTATACGGAATCACATTA
** * *
124687355 TCACATTGCACCGATGCCATAGCCCAGCTACGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCGATGGTCTTA
124687393 AATGGGCGCA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 74 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCGATGGTCTTATACGGAATCACATTA
Found at i:124690367 original size:35 final size:35
Alignment explanation
Indices: 124690340--124690505 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
124690330 CATGGCAAAG
*
124690340 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
124690375 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
124690410 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
124690450 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
124690485 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
124690506 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:124690459 original size:75 final size:75
Alignment explanation
Indices: 124690340--124690510 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
124690330 CATGGCAAAG
** *
124690340 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
124690399 CCATACTGAGC
65 CCATACCGAGC
124690410 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
124690475 CATACCGAGT
66 CATACCGAGC
**
124690485 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
124690511 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:124697856 original size:35 final size:35
Alignment explanation
Indices: 124697829--124697994 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
124697819 CATGGCAAAG
*
124697829 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
124697864 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
124697899 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
124697939 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
124697974 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
124697995 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:124697948 original size:75 final size:75
Alignment explanation
Indices: 124697829--124697999 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
124697819 CATGGCAAAG
** *
124697829 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
124697888 CCATACTGAGC
65 CCATACCGAGC
124697899 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
124697964 CATACCGAGT
66 CATACCGAGC
**
124697974 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
124698000 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:124710023 original size:2 final size:2
Alignment explanation
Indices: 124709971--124710005 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
124709961 AATATATGCC
124709971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124710006 GTTAAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124710194 original size:25 final size:24
Alignment explanation
Indices: 124710160--124710233 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
124710150 ACAGTAAGAA
*
124710160 ATATACAATACATA-ACATTAAAAAT
1 ATATATAATA-ATATACA-TAAAAAT
*
124710185 ATATATAATAATATACATAAATAT
1 ATATATAATAATATACATAAAAAT
* *
124710209 ATA-ATATATATTATA-ATAATAAT
1 ATATATA-ATAATATACATAAAAAT
124710232 AT
1 AT
124710234 GAAAAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 11 0.26
24 19 0.45
25 12 0.29
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATATAATAATATACATAAAAAT
Found at i:124710224 original size:20 final size:20
Alignment explanation
Indices: 124710185--124710233 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
124710175 CATTAAAAAT
124710185 ATATATAATA-ATATACATAA
1 ATATATAATATATATACAT-A
*
124710205 ATATATAATATATAT-TATA
1 ATATATAATATATATACATA
124710224 ATA-ATAATAT
1 ATATATAATAT
124710234 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 12 0.44
21 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATAATATATATACATA
Found at i:124711009 original size:27 final size:29
Alignment explanation
Indices: 124710979--124711037 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
124710969 ACATTTGAGA
124710979 AGGGGA-AGAAAAAAAAGAAGAGA-GGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
* **
124711006 A-GGGAGAGAAAAGAAAGGGGAGAGGGAG
1 AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
124711034 AGGG
1 AGGG
124711038 AGCTCCGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.15
27 15 0.58
28 5 0.19
29 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (29 bp):
AGGGGAGAGAAAAAAAAGAAGAGAGGGAG
Found at i:124711034 original size:20 final size:23
Alignment explanation
Indices: 124710991--124711035 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
124710981 GGGAAGAAAA
124710991 AAAAGAAGAGAGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
*
124711014 AAAAGAA-AGGGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
124711036 GGAGCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAGAGGAGAGGGAGAG
Found at i:124711166 original size:16 final size:17
Alignment explanation
Indices: 124711145--124711180 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
124711135 GTAAAATCTG
*
124711145 ATTTTTTTTATTTTT-T
1 ATTTTTATTATTTTTAT
124711161 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTTAT
124711178 ATT
1 ATT
124711181 CTAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:124716585 original size:2 final size:2
Alignment explanation
Indices: 124716580--124716613 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
124716570 TTCCCATATT
124716580 CA CA CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
124716614 CACCACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:124717307 original size:19 final size:20
Alignment explanation
Indices: 124717279--124717324 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
124717269 AGTATATATA
*
124717279 GTATTGTTATCACTATTATT
1 GTATTATTATCACTATTATT
* *
124717299 -TATTATTATTATTATTATT
1 GTATTATTATCACTATTATT
124717318 GTATTAT
1 GTATTAT
124717325 ATTTAGCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (20 bp):
GTATTATTATCACTATTATT
Found at i:124723700 original size:13 final size:14
Alignment explanation
Indices: 124723669--124723702 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
124723659 ATTATCCCTT
124723669 CTTTTATTCATCTC
1 CTTTTATTCATCTC
124723683 C-TTTATTCAT-TC
1 CTTTTATTCATCTC
124723695 CTTTTATT
1 CTTTTATT
124723703 TCCTTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 15 0.79
14 1 0.05
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (14 bp):
CTTTTATTCATCTC
Done.