Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 25 of 85
Found at i:8279052 original size:20 final size:20
Alignment explanation
Indices: 8279011--8279051 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8279001 TCTTATAATT
*
8279011 ATTTTAATAAATATATTAAA
1 ATTTTAATAAATATAATAAA
*
8279031 ATTTTAATAAAATCTAATAAA
1 ATTTTAAT-AAATATAATAAA
8279052 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTTAATAAATATAATAAA
Found at i:8287635 original size:54 final size:54
Alignment explanation
Indices: 8287559--8287677 Score: 211
Period size: 54 Copynumber: 2.2 Consensus size: 54
8287549 CTCGAGACAT
* *
8287559 GGTATCGATACCAAATTGAGTTACTAACTTCCTGCACAATCGTAATATCATGGA
1 GGTATCGATACCAAATTAAGTTACTAACTTCCTACACAATCGTAATATCATGGA
*
8287613 GGTATCGATACCAAATTAAGTTACTAACTTCCTACACAATCGTGATATCATGGA
1 GGTATCGATACCAAATTAAGTTACTAACTTCCTACACAATCGTAATATCATGGA
8287667 GGTATCGATAC
1 GGTATCGATAC
8287678 TAATGCCCGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (54 bp):
GGTATCGATACCAAATTAAGTTACTAACTTCCTACACAATCGTAATATCATGGA
Found at i:8293882 original size:12 final size:13
Alignment explanation
Indices: 8293858--8293886 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8293848 GGGCTATAAC
8293858 TATTGCATTTATT
1 TATTGCATTTATT
8293871 TATTGC-TTTATT
1 TATTGCATTTATT
8293883 TATT
1 TATT
8293887 CATGTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:8306574 original size:61 final size:62
Alignment explanation
Indices: 8306494--8306611 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 62
8306484 TAGTATCTAA
* *
8306494 GTTTTTTTTTTGTCTAATTTGAT-TTTAAAATTTGACAATTTTTTT-CTTAATTTGATACTTAC
1 GTTTTTTTTTTGTCTAATTTGATAATT-AAATTTGAC-ATTTTTTTCCCTAATTTGATACTTAC
*
8306556 GTTTTTTTTTAT-TC-AATTTGATAATTGAATTTGACATTTTTTTCCCTAATTTGATA
1 GTTTTTTTTT-TGTCTAATTTGATAATTAAATTTGACATTTTTTTCCCTAATTTGATA
8306612 TTTAAACTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
60 8 0.16
61 27 0.54
62 14 0.28
63 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (62 bp):
GTTTTTTTTTTGTCTAATTTGATAATTAAATTTGACATTTTTTTCCCTAATTTGATACTTAC
Found at i:8308654 original size:18 final size:18
Alignment explanation
Indices: 8308633--8308668 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8308623 AGGAAATTTG
*
8308633 CCAAACAATAGAAAATAT
1 CCAAACAACAGAAAATAT
*
8308651 CCAAACACCAGAAAATAT
1 CCAAACAACAGAAAATAT
8308669 TAGTTTTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.22, G:0.06, T:0.14
Consensus pattern (18 bp):
CCAAACAACAGAAAATAT
Found at i:8318265 original size:16 final size:17
Alignment explanation
Indices: 8318211--8318280 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
8318201 TTATTTTTAG
*
8318211 AAAATAAAAAGTTACAAAA
1 AAAATAAAAA-TTAC-TAA
*
8318230 AAAATATTGAAATTA-T-A
1 AAAATA--AAAATTACTAA
8318247 AAAATAAAAA-TACTAA
1 AAAATAAAAATTACTAA
*
8318263 AAATTAAAAATTACTAA
1 AAAATAAAAATTACTAA
8318280 A
1 A
8318281 TTAAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 10 0.24
17 14 0.33
19 6 0.14
20 3 0.07
21 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATAAAAATTACTAA
Found at i:8318277 original size:17 final size:16
Alignment explanation
Indices: 8318239--8318280 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
8318229 AAAAATATTG
8318239 AAATTA-TAAAAATAA
1 AAATTACTAAAAATAA
8318254 AAA-TACTAAAAATTAA
1 AAATTACTAAAAA-TAA
8318270 AAATTACTAAA
1 AAATTACTAAA
8318281 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 6 0.25
17 7 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTACTAAAAATAA
Found at i:8319062 original size:143 final size:141
Alignment explanation
Indices: 8318747--8319189 Score: 572
Period size: 143 Copynumber: 3.1 Consensus size: 141
8318737 AAGATAGGAC
* * *
8318747 TTAGCGGCACTTCTGTAGAAACGCAGCAAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTA-AAACGCCG-TAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATG
* * *
8318812 TAGTGGCATTAGCGACGATTCTGTAAAAATGC-CT--AAAACAA-ATCCAAACGCATCCTTTTGA
64 TAGTGGCATTAGCG-CGCTTCTGT-AAAA-GCGCTGCAAAA-AATATCAAAACGCATCGTTTTGA
*
8318873 TTTGAGATGTAGTGGTA
125 TTTGAGATGTAGTGGCA
* * * * *
8318890 TCAGCGGCGATTCTGTAAAAACACCGTAAAAAA-AATCCAAACGCGTCGTTTTGATTTGAGATGA
1 TTAGCGGCGCTTCTGT-AAAACGCCGTAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATGT
*
8318954 AGTGGCATTAGCAGCGCTTCTGTAAAAGCGCTGCAAAAAACTATCAAAACACATCGTTTTGATTT
65 AGTGGCATTAGC-GCGCTTCTGTAAAAGCGCTGCAAAAAA-TATCAAAACGCATCGTTTTGATTT
8319019 GAGATGTAGTGGCA
128 GAGATGTAGTGGCA
* * *
8319033 TTAGCGGCGCTTCTGTAAAAGCGCCGTAAAAAATTATCAAAACACATCGTTTTGATTTGAGATGT
1 TTAGCGGCGCTTCTGTAAAA-CGCCGTAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATGT
* *
8319098 AGTGGCATTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATT
65 AGTGGCATTAGC-GCGCTTCTGTAAAAGCGCTGC-AAAAAAT-ATCAAAACGCATCGTTTTGATT
8319163 TGAGATGTAGTGGCA
127 TGAGATGTAGTGGCA
8319178 TTAGCGGCGCTT
1 TTAGCGGCGCTT
8319190 TTCCGAAAAA
Statistics
Matches: 264, Mismatches: 25, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
139 2 0.01
140 6 0.02
141 51 0.19
142 15 0.06
143 77 0.29
144 59 0.22
145 54 0.20
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (141 bp):
TTAGCGGCGCTTCTGTAAAACGCCGTAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATGTA
GTGGCATTAGCGCGCTTCTGTAAAAGCGCTGCAAAAAATATCAAAACGCATCGTTTTGATTTGAG
ATGTAGTGGCA
Found at i:8319179 original size:73 final size:73
Alignment explanation
Indices: 8318747--8319189 Score: 585
Period size: 72 Copynumber: 6.2 Consensus size: 73
8318737 AAGATAGGAC
* * * *
8318747 TTAGCGGCACTTCTGTAGAAACGCAGCAAAAAAATAATCCAAACGCATCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
8318812 TAGTGGCA
66 TAGTGGCA
* * * * * * *
8318820 TTAGCGACGATTCTGTAAAAATG-C-CTAAAACA-AATCCAAACGCATCCTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
*
8318882 TAGTGGTA
66 TAGTGGCA
* * * * * *
8318890 TCAGCGGCGATTCTGTAAAAACACCG-TAAAAAA-AATCCAAACGCGTCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
*
8318953 AAGTGGCA
66 TAGTGGCA
* * * * *
8318961 TTAGCAGCGCTTCTGTAAAAGCGCTGCAAAAAACT-ATCAAAACACATCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
8319025 TAGTGGCA
66 TAGTGGCA
* * * *
8319033 TTAGCGGCGCTTCTGTAAAAGCGCCG-TAAAAAATTATCAAAACACATCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
8319097 TAGTGGCA
66 TAGTGGCA
8319105 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
1 TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
8319170 TAGTGGCA
66 TAGTGGCA
8319178 TTAGCGGCGCTT
1 TTAGCGGCGCTT
8319190 TTCCGAAAAA
Statistics
Matches: 325, Mismatches: 39, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
70 55 0.17
71 73 0.22
72 124 0.38
73 73 0.22
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (73 bp):
TTAGCGGCGCTTCTGTAAAAACGCCGCAAAAAAATAATCAAAACGCATCGTTTTGATTTGAGATG
TAGTGGCA
Found at i:8319780 original size:7 final size:7
Alignment explanation
Indices: 8319764--8319823 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
8319754 ACAGTTTATA
*
8319764 GTTTACG
1 GTTTAGG
8319771 GTTTAGG
1 GTTTAGG
*
8319778 GTTTAGA
1 GTTTAGG
*
8319785 G-TTAGT
1 GTTTAGG
8319791 GTTTAGG
1 GTTTAGG
8319798 GTTT-GG
1 GTTTAGG
*
8319804 GATTTATG
1 G-TTTAGG
*
8319812 GTTTAAG
1 GTTTAGG
8319819 GTTTA
1 GTTTA
8319824 TGGTATATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 8 0.18
7 34 0.77
8 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:8319781 original size:21 final size:21
Alignment explanation
Indices: 8319743--8319823 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
8319733 ATGATTTAAG
* ** *
8319743 GTTTACGATTTACAGTTTATA
1 GTTTACGGTTTAGGGTTTAGA
8319764 GTTTACGGTTTAGGGTTTAGA
1 GTTTACGGTTTAGGGTTTAGA
*
8319785 G-TTA-GTGTTTAGGGTTT-GG
1 GTTTACG-GTTTAGGGTTTAGA
* *
8319804 GATTTATGGTTTAAGGTTTA
1 G-TTTACGGTTTAGGGTTTA
8319824 TGGTATATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.06
20 14 0.29
21 31 0.63
22 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (21 bp):
GTTTACGGTTTAGGGTTTAGA
Found at i:8319905 original size:157 final size:157
Alignment explanation
Indices: 8319629--8319940 Score: 509
Period size: 157 Copynumber: 2.0 Consensus size: 157
8319619 GGGTTACAAT
*
8319629 TTAGAGTTTAGGGTTTGGGATGTAGGGTTTAAGGTTTATGGTATATTGGGGGTTGGATTTTGAGG
1 TTAGAGTTTAGGGTTTGGGATGTAGGGTTTAAGGTTTATGGTATATTGAGGGTTGGATTTTGAGG
*
8319694 TTTGGTGGTTGGTGTTTGTGGTTTACGGGTTTAATATTTATGATTTAAGGTTTACGATTTACAGT
66 TTTGGTGGTTGGTGTTTGTGGTTTACGAGTTTAATATTTATGATTTAAGGTTTACGATTTACAGT
* *
8319759 TTATAGTTTACGGTTTAGGGTTTAGAG
131 TTACAATTTACGGTTTAGGGTTTAGAG
* * *
8319786 TTAGTGTTTAGGGTTTGGGATTTATGGTTTAAGGTTTATGGTATATTGAGGGTTGGATTTTGAGG
1 TTAGAGTTTAGGGTTTGGGATGTAGGGTTTAAGGTTTATGGTATATTGAGGGTTGGATTTTGAGG
* * *
8319851 TTTGGTGGTTGGTGTTTGTGGTTTACGAGTTTAATGTTTATGGTTT-AGGATTTACGGTTTACAG
66 TTTGGTGGTTGGTGTTTGTGGTTTACGAGTTTAATATTTATGATTTAAGG-TTTACGATTTACAG
*
8319915 TTTACAATTTACTGTTTAGGGTTTAG
130 TTTACAATTTACGGTTTAGGGTTTAG
8319941 GGTTTAGGGT
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
156 3 0.02
157 140 0.98
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (157 bp):
TTAGAGTTTAGGGTTTGGGATGTAGGGTTTAAGGTTTATGGTATATTGAGGGTTGGATTTTGAGG
TTTGGTGGTTGGTGTTTGTGGTTTACGAGTTTAATATTTATGATTTAAGGTTTACGATTTACAGT
TTACAATTTACGGTTTAGGGTTTAGAG
Found at i:8319910 original size:21 final size:21
Alignment explanation
Indices: 8319886--8319953 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
8319876 CGAGTTTAAT
*
8319886 GTTTATGGTTTAGGATTTACG
1 GTTTACGGTTTAGGATTTACG
* ** *
8319907 GTTTACAGTTTACAATTTACT
1 GTTTACGGTTTAGGATTTACG
* * *
8319928 GTTTAGGGTTTAGGGTTTAGG
1 GTTTACGGTTTAGGATTTACG
8319949 GTTTA
1 GTTTA
8319954 ATTTAAGTTT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (21 bp):
GTTTACGGTTTAGGATTTACG
Found at i:8319912 original size:7 final size:7
Alignment explanation
Indices: 8319870--8319953 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
8319860 TGGTGTTTGT
8319870 GGTTTAC
1 GGTTTAC
*
8319877 GAGTTTAA
1 G-GTTTAC
* *
8319885 TGTTTAT
1 GGTTTAC
8319892 GGTTTA-
1 GGTTTAC
8319898 GGATTTAC
1 GG-TTTAC
8319906 GGTTTAC
1 GGTTTAC
*
8319913 AGTTTAC
1 GGTTTAC
**
8319920 AATTTAC
1 GGTTTAC
* *
8319927 TGTTTAG
1 GGTTTAC
*
8319934 GGTTTAG
1 GGTTTAC
*
8319941 GGTTTAG
1 GGTTTAC
8319948 GGTTTA
1 GGTTTA
8319954 ATTTAAGTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
6 2 0.03
7 55 0.86
8 7 0.11
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.46
Consensus pattern (7 bp):
GGTTTAC
Found at i:8320027 original size:2 final size:2
Alignment explanation
Indices: 8320016--8320049 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8320006 ATTTAAAAAA
*
8320016 AT AT AA 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
8320050 CAAAATGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8320583 original size:147 final size:145
Alignment explanation
Indices: 8320280--8320960 Score: 454
Period size: 147 Copynumber: 4.6 Consensus size: 145
8320270 TTTTTCAAAA
* * * * * * * ***
8320280 TTTCCATGTTCTTAGTGGCGTTTTATGCAAAAACGCCACAAAGTTGTCCTAATTATCAAGGAAAC
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAATTTG-ACTAACTGTGTGGGAAAC
* ** *
8320345 GAC-TGCGTTTCAC--GGTTATTTAGTGGCGCAT-ATGTATAAACGCCGCTGACAGGTTAATTTA
65 GACGT-CGTTTC-CGTGGTTATTTAGTGGCGC-TGATGTATAAACGCCGC-AATGGGTTCATTTA
* * * * *
8320406 ATCCCA-AAAAATGGCG-CTGTT
126 GT--CATGAATACGTCGTC-GTT
* * * * *
8320427 TTACTATGTTCTTAGTGGCGTTTTATGCCAAAATGCCAGAACATTT-ACATAATTGTGTGGGAAA
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAA-ATTTGAC-TAACTGTGTGGGAAA
* * *
8320491 CGACGTCGTTTCCGTGGTTATTTAGTGGCGCAAGAT-TATAAATGCTGCGAATGGGTTCATTTAG
64 CGACGTCGTTTCCGTGGTTATTTAGTGGCGC-TGATGTATAAACGCCGC-AATGGGTTCATTTAG
*
8320555 TCATGAATACGTCGTCATT
127 TCATGAATACGTCGTCGTT
* * * * *
8320574 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCTAGAAAATTGTACCAATTGTTTGGGAAAC
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAATTTG-ACTAACTGTGTGGGAAAC
* * ** * * * ** *
8320639 GACTTCGTTTTCAAGGTTAATTTAGTGGCGCTTATGTGTAAACGCCGCAAAGTTCTTCGTTTAGT
65 GACGTCGTTTCCGTGGTT-ATTTAGTGGCGCTGATGTATAAACGCCGCAATG-GGTTCATTTAGT
* *
8320704 CATGGAAAACATCGTCGTT
128 CAT-GAATACGTCGTCGTT
* * * * * * *
8320723 TTTCCATGTTGTGAGTGGCGTTTTATGCCTAAACGCCACAATTTTGACTAACTG-GCTGTGAAA-
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAATTTGACTAACTGTG-TGGGAAAC
* * *
8320786 GAACAG-CGTTTCTAGT-TTTAGTTT-GTGGCGCTTG-TGTATAAACGCCGCAAATGGGTTAATT
65 G-AC-GTCGTTTC-CGTGGTTA-TTTAGTGGCGC-TGATGTATAAACGCCGC-AATGGGTTCATT
*
8320847 TAGTCAGGAATACGTCGTCGTT
124 TAGTCATGAATACGTCGTCGTT
* * ** * * *
8320869 TTTCTAGGTTAGTAGTGGCGTTTTATACCAAAACGCCAGAATTTTGTCATAACTGTTTGGGAAAC
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAATTTGAC-TAACTGTGTGGGAAAC
* * *
8320934 GGCATCGTTTCCTTGGTTATTTAGTGG
65 GACGTCGTTTCCGTGGTTATTTAGTGG
8320961 AGATATATAT
Statistics
Matches: 414, Mismatches: 93, Indels: 54
0.74 0.17 0.10
Matches are distributed among these distances:
146 63 0.15
147 192 0.46
148 107 0.26
149 52 0.13
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (145 bp):
TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAATTTGACTAACTGTGTGGGAAACG
ACGTCGTTTCCGTGGTTATTTAGTGGCGCTGATGTATAAACGCCGCAATGGGTTCATTTAGTCAT
GAATACGTCGTCGTT
Found at i:8321001 original size:2 final size:2
Alignment explanation
Indices: 8320990--8321023 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8320980 ATTTAAAAAA
*
8320990 AT AT AA 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
8321024 CAAAATGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8321511 original size:147 final size:147
Alignment explanation
Indices: 8321195--8321625 Score: 462
Period size: 147 Copynumber: 2.9 Consensus size: 147
8321185 TTGTACCAAT
* * *
8321195 TGTTTGGGAAACGACTTCGTTTTCAAGGTTAATTTAGTGGCGCTTATGTGTAAACGCCGCAAA-G
1 TGTTTGGGAAACGACATCG-TTTCTAGGTT-ATTTAGTGGCGCTTATGTATAAACGCCGCAAATG
* * * * *
8321259 TTCTTCGTTTAGTCATGGAAAACATCGTCGTTTTTCCATGTT-GTGAGTGGCGTTTTATGCCTAA
64 -TGTTAGTTTAGTCATGGAAAACGTCGTCGTTTTTCAATGTTAGTGAGTGGCGTTTTATGCCAAA
*
8321323 ACGCCACAATTTTGACTAAC
128 ACGCCAGAATTTTGACTAAC
** * * * *
8321343 TGGCTGTGAAA-GAACAGCGTTTCTAGTTTTAGTTT-GTGGCGCTTGTGTATAAACGCCGCAAAT
1 TGTTTGGGAAACG-ACATCGTTTCTAG-GTTA-TTTAGTGGCGCTTATGTATAAACGCCGCAAAT
* * * * * *
8321406 GGGTTAATTTAGTCA-GGAATACGTCGTCGTTTTTCTAGGTTAGT-AGTGGCGTTTTATACCAAA
63 GTGTTAGTTTAGTCATGGAAAACGTCGTCGTTTTTCAATGTTAGTGAGTGGCGTTTTATGCCAAA
*
8321469 ACGCCAGAATTTTGTCATAAC
128 ACGCCAGAATTTTGAC-TAAC
* * * * *
8321490 TGTTTGGGAAACGGCATCGTTTCCTTGGTTATTTAGTGGCGCTTATGTAGAAACGCCACAAATTT
1 TGTTTGGGAAACGACATCGTTT-CTAGGTTATTTAGTGGCGCTTATGTATAAACGCCGCAAATGT
* * * *
8321555 GTTAGTTTAGTCATGGAAAACGTCATCGTTTTTCAATGTTA-TGAGTGGCATTTCATGCCAAAAT
65 GTTAGTTTAGTCATGGAAAACGTCGTCGTTTTTCAATGTTAGTGAGTGGCGTTTTATGCCAAAAC
8321619 GCCAGAA
130 GCCAGAA
8321626 ATAAGACTGT
Statistics
Matches: 230, Mismatches: 42, Indels: 22
0.78 0.14 0.07
Matches are distributed among these distances:
146 56 0.24
147 105 0.46
148 69 0.30
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (147 bp):
TGTTTGGGAAACGACATCGTTTCTAGGTTATTTAGTGGCGCTTATGTATAAACGCCGCAAATGTG
TTAGTTTAGTCATGGAAAACGTCGTCGTTTTTCAATGTTAGTGAGTGGCGTTTTATGCCAAAACG
CCAGAATTTTGACTAAC
Found at i:8322166 original size:14 final size:14
Alignment explanation
Indices: 8322147--8322175 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8322137 GAATATTTCA
8322147 GATTTTGTTATTCG
1 GATTTTGTTATTCG
8322161 GATTTTGTTATTCG
1 GATTTTGTTATTCG
8322175 G
1 G
8322176 GTTTCTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.24, T:0.55
Consensus pattern (14 bp):
GATTTTGTTATTCG
Found at i:8322758 original size:88 final size:88
Alignment explanation
Indices: 8322609--8322774 Score: 332
Period size: 88 Copynumber: 1.9 Consensus size: 88
8322599 CAAGTTGCTT
8322609 AAAAACAGTTTAGTTTTTCTGTATGATTTCTGATTTGTCCTAATCCTTTTTCTTTTTGTTCTTAA
1 AAAAACAGTTTAGTTTTTCTGTATGATTTCTGATTTGTCCTAATCCTTTTTCTTTTTGTTCTTAA
8322674 ACAAGACAAAACAAAAACTGAAC
66 ACAAGACAAAACAAAAACTGAAC
8322697 AAAAACAGTTTAGTTTTTCTGTATGATTTCTGATTTGTCCTAATCCTTTTTCTTTTTGTTCTTAA
1 AAAAACAGTTTAGTTTTTCTGTATGATTTCTGATTTGTCCTAATCCTTTTTCTTTTTGTTCTTAA
8322762 ACAAGACAAAACA
66 ACAAGACAAAACA
8322775 TAAATTTCAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (88 bp):
AAAAACAGTTTAGTTTTTCTGTATGATTTCTGATTTGTCCTAATCCTTTTTCTTTTTGTTCTTAA
ACAAGACAAAACAAAAACTGAAC
Found at i:8322886 original size:6 final size:6
Alignment explanation
Indices: 8322877--8322912 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
8322867 TTATTAATAT
8322877 TATTTA TA-TTA T-TTTA T-TTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TAT
8322913 ATTGCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 13 0.46
6 15 0.54
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:8323580 original size:9 final size:9
Alignment explanation
Indices: 8323568--8323959 Score: 261
Period size: 9 Copynumber: 46.4 Consensus size: 9
8323558 TGACTCACAT
8323568 CTTACATAA
1 CTTACATAA
*
8323577 CTTACATAG
1 CTTACATAA
*
8323586 CTTACATTA
1 CTTACATAA
*
8323595 --TACACAA
1 CTTACATAA
8323602 CTTACATAA
1 CTTACATAA
8323611 CCTT-CATAA
1 -CTTACATAA
8323620 --TACATAA
1 CTTACATAA
8323627 CTTACATATA
1 CTTACATA-A
* *
8323637 -ATACACAA
1 CTTACATAA
*
8323645 CATACATAA
1 CTTACATAA
*
8323654 CTTACACAA
1 CTTACATAA
*
8323663 --TACACAA
1 CTTACATAA
8323670 CTTACATAA
1 CTTACATAA
*
8323679 CTTTCATAA
1 CTTACATAA
8323688 CTTACATAA
1 CTTACATAA
8323697 --TACATAA
1 CTTACATAA
8323704 CTTACATAA
1 CTTACATAA
8323713 CTTACATAA
1 CTTACATAA
*
8323722 --TACACAA
1 CTTACATAA
8323729 CTTACATAA
1 CTTACATAA
*
8323738 TTTTA-ATAA
1 -CTTACATAA
8323747 --TACATAA
1 CTTACATAA
8323754 CTTACAT-A
1 CTTACATAA
* * *
8323762 -GTAAACAA
1 CTTACATAA
8323770 CTTACATAA
1 CTTACATAA
* *
8323779 TTTTCATAA
1 CTTACATAA
*
8323788 --TACAAAA
1 CTTACATAA
8323795 CTTACATAA
1 CTTACATAA
8323804 --TACATAA
1 CTTACATAA
8323811 CTTACATAA
1 CTTACATAA
*
8323820 --TACACAA
1 CTTACATAA
*
8323827 CTTATATAA
1 CTTACATAA
* *
8323836 TTTTCATAA
1 CTTACATAA
8323845 --TACATAA
1 CTTACATAA
8323852 CTTACATAA
1 CTTACATAA
* *
8323861 TTTTCATAA
1 CTTACATAA
8323870 --TACATAA
1 CTTACATAA
8323877 CTTACATAA
1 CTTACATAA
*
8323886 CTTATATAA
1 CTTACATAA
*
8323895 --TGCATAA
1 CTTACATAA
8323902 CTTACATAA
1 CTTACATAA
8323911 CTTACATATTA
1 CTTACATA--A
* *
8323922 CATAAATAA
1 CTTACATAA
* *
8323931 TTTTCATAA
1 CTTACATAA
8323940 --TACATAA
1 CTTACATAA
8323947 CTTACATAA
1 CTTACATAA
8323956 CTTA
1 CTTA
8323960 AATAGCTTAA
Statistics
Matches: 298, Mismatches: 49, Indels: 72
0.71 0.12 0.17
Matches are distributed among these distances:
6 3 0.01
7 78 0.26
8 3 0.01
9 200 0.67
10 7 0.02
11 7 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CTTACATAA
Found at i:8323581 original size:25 final size:25
Alignment explanation
Indices: 8323553--8323957 Score: 239
Period size: 25 Copynumber: 16.4 Consensus size: 25
8323543 CATAACTTAA
* **
8323553 TTACATGACTCACATCTTACATAAC
1 TTACATAACTCACATAATACATAAC
* * * *
8323578 TTACATAGCTTACATTATACACAAC
1 TTACATAACTCACATAATACATAAC
*
8323603 TTACATAAC-CTTCATAATACATAAC
1 TTACATAACTC-ACATAATACATAAC
*
8323628 TTACATATAATACACA-ACATACATAAC
1 TTACATA-ACT-CACATA-ATACATAAC
* *
8323655 TTACACAA-TACACA-ACTTACATAAC
1 TTACATAACT-CACATA-ATACATAAC
* *
8323680 TTTCATAACTTACATAATACATAAC
1 TTACATAACTCACATAATACATAAC
* *
8323705 TTACATAACTTACATAATACACAAC
1 TTACATAACTCACATAATACATAAC
* *
8323730 TTACATAATTTTA-ATAATACATAAC
1 TTACATAA-CTCACATAATACATAAC
* * * *
8323755 TTACAT-AGTAAACA-ACTTACATAAT
1 TTACATAACT-CACATA-ATACATAAC
* *
8323780 TTTCATAA-T-ACAAAACTTACATAA-
1 TTACATAACTCACATAA--TACATAAC
* *
8323804 -TACATAACTTACATAATACACAAC
1 TTACATAACTCACATAATACATAAC
* * **
8323828 TTATATAATTTTCATAATACATAAC
1 TTACATAACTCACATAATACATAAC
* **
8323853 TTACATAATTTTCATAATACATAAC
1 TTACATAACTCACATAATACATAAC
* * *
8323878 TTACATAACTTATATAATGCATAAC
1 TTACATAACTCACATAATACATAAC
* *
8323903 TTACATAACTTACATATTACAT-A-
1 TTACATAACTCACATAATACATAAC
* **
8323926 --A-ATAATTTTCATAATACATAAC
1 TTACATAACTCACATAATACATAAC
8323948 TTACATAACT
1 TTACATAACT
8323958 TAAATAGCTT
Statistics
Matches: 308, Mismatches: 48, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
20 15 0.05
21 2 0.01
23 16 0.05
24 7 0.02
25 241 0.78
26 9 0.03
27 17 0.06
28 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (25 bp):
TTACATAACTCACATAATACATAAC
Found at i:8323591 original size:34 final size:33
Alignment explanation
Indices: 8323553--8323955 Score: 159
Period size: 34 Copynumber: 12.2 Consensus size: 33
8323543 CATAACTTAA
* *
8323553 TTACATGACTCACATCTTACATAACTTACATAGC
1 TTACAT-AATCACATCTTACATAACTTACATAAC
* *
8323587 TTACATTATACACAACTTACATAACCTT-CATAA-
1 TTACATAAT-CACATCTTACATAA-CTTACATAAC
* * * *
8323620 -TACATAACTTACATATAATACACAACATACATAAC
1 TTACATAA-TCACATCT--TACATAACTTACATAAC
* * *
8323655 TTACACAATACACAACTTACATAACTTTCATAAC
1 TTACATAAT-CACATCTTACATAACTTACATAAC
8323689 TTAC---AT-A-A---TACATAACTTACATAAC
1 TTACATAATCACATCTTACATAACTTACATAAC
* *
8323714 TTACATAATACACAACTTACATAATTTTA-ATAA-
1 TTACATAAT-CACATCTTACATAA-CTTACATAAC
* ** * * *
8323747 -TACATAACTTACATAGTAAACAACTTACATAAT
1 TTACATAA-TCACATCTTACATAACTTACATAAC
* * *
8323780 TTTCATAATACAAAACTTACATAA--TACATAAC
1 TTACATAAT-CACATCTTACATAACTTACATAAC
* *
8323812 TTACATAATACACAACTTATATAATTTTCATAATACATAAC
1 TTACATAAT-CACATCTTACATAA----C-T--TACATAAC
** **
8323853 TTACATAATTTTCATAATACATAACTTACATAAC
1 TTACATAA-TCACATCTTACATAACTTACATAAC
* * *
8323887 TTATATAATGCATAACTTACATAACTTACAT-A-
1 TTACATAAT-CACATCTTACATAACTTACATAAC
*
8323919 TTACATAAAT-A-AT-TTTCATAA--TACATAAC
1 TTACAT-AATCACATCTTACATAACTTACATAAC
8323948 TTACATAA
1 TTACATAA
8323956 CTTAAATAGC
Statistics
Matches: 277, Mismatches: 54, Indels: 82
0.67 0.13 0.20
Matches are distributed among these distances:
25 20 0.07
27 5 0.02
28 6 0.02
29 14 0.05
30 2 0.01
31 7 0.03
32 62 0.22
33 11 0.04
34 106 0.38
35 7 0.03
36 11 0.04
37 1 0.00
41 24 0.09
42 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (33 bp):
TTACATAATCACATCTTACATAACTTACATAAC
Found at i:8323631 original size:41 final size:40
Alignment explanation
Indices: 8323579--8323885 Score: 294
Period size: 41 Copynumber: 7.4 Consensus size: 40
8323569 TTACATAACT
* * *
8323579 TACATAGCTTACATTATACACAACTTACATAACCTTCATAA
1 TACATAACTTACATAATACACAACTTACATAA-TTTCATAA
* * *
8323620 TACATAACTTACATATAATACACAACATACATAACTTACACAA
1 TACATAACTTAC--ATAATACACAACTTACATAA-TTTCATAA
* * * *
8323663 TACACAACTTACATAACTTTCATAACTTACATAA-TACATAA
1 TACATAACTTACATAA--TACACAACTTACATAATTTCATAA
*
8323704 CTTACATAACTTACATAATACACAACTTACATAATTTTAATAA
1 --TACATAACTTACATAATACACAACTTACATAA-TTTCATAA
* *
8323747 TACATAACTTACATAGTAAACAACTTACATAATTTTCATAA
1 TACATAACTTACATAATACACAACTTACATAA-TTTCATAA
* * * *
8323788 TACAAAACTTACATAATACATAACTTACATAA-TACACAA
1 TACATAACTTACATAATACACAACTTACATAATTTCATAA
* * * *
8323827 CTTATATAATTTTCATAATACATAACTTACATAATTTTCATAA
1 --TACATAACTTACATAATACACAACTTACATAA-TTTCATAA
8323870 TACATAACTTACATAA
1 TACATAACTTACATAA
8323886 CTTATATAAT
Statistics
Matches: 220, Mismatches: 34, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
39 5 0.02
41 142 0.65
43 73 0.33
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (40 bp):
TACATAACTTACATAATACACAACTTACATAATTTCATAA
Found at i:8323791 original size:16 final size:16
Alignment explanation
Indices: 8323772--8323955 Score: 90
Period size: 16 Copynumber: 12.0 Consensus size: 16
8323762 GTAAACAACT
*
8323772 TACATAATTTTCATAA
1 TACATAATTTACATAA
* *
8323788 TACAAAACTTACATAA
1 TACATAATTTACATAA
*
8323804 TACATAACTTACATAA
1 TACATAATTTACATAA
* *
8323820 TACACAACTT--AT-A
1 TACATAATTTACATAA
8323833 TA-AT--TTT-CATAA
1 TACATAATTTACATAA
*
8323845 TACATAACTTACATAA
1 TACATAATTTACATAA
*
8323861 TTTTCATAA--TACATAA
1 --TACATAATTTACATAA
* *
8323877 CTTACATAACTTATATAA
1 --TACATAATTTACATAA
* *
8323895 TGCATAACTTACATAA
1 TACATAATTTACATAA
8323911 CTTACAT-A-TTACAT-A
1 --TACATAATTTACATAA
*
8323926 -A-ATAATTTTCATAA
1 TACATAATTTACATAA
*
8323940 TACATAACTTACATAA
1 TACATAATTTACATAA
8323956 CTTAAATAGC
Statistics
Matches: 133, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.02
11 4 0.03
12 6 0.05
13 10 0.08
14 3 0.02
15 4 0.03
16 87 0.65
17 1 0.01
18 16 0.12
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (16 bp):
TACATAATTTACATAA
Found at i:8330568 original size:43 final size:43
Alignment explanation
Indices: 8330521--8330872 Score: 361
Period size: 43 Copynumber: 8.2 Consensus size: 43
8330511 AAAAAGTGGA
* * *
8330521 GCTAAAAGTCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCT
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
* * * *
8330564 GCTAAAAGTCATGACCTATAGCGGTGTTTGTGGAAAAAAGCACC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGT-GAGAAAAGCGCC
* * * * * *
8330608 GCTAAAGGTTATGGCCTATAGCGGCGTTTGAGGGTAAA-CACC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
* * * * *
8330650 TCTAAAGGGCATGACCTTTAGCGGCGTTTGTGTGGAAAA-CGCT
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTG-AGAAAAGCGCC
* *
8330693 GCTAAAGGTCTTGACCTATAGCGGCGTTTGTGAGGAAAGCGCC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
** * * **
8330736 GCTAAAGGTTTTGATCTATAGCGACGTTTGTG-GAAAAAAGCC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
* * * *
8330778 GCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
* *
8330821 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTG-GCAAAAGCGCC
1 GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG-AAAAGCGCC
8330864 GCTAAAGGT
1 GCTAAAGGT
8330873 GCCATAAAAT
Statistics
Matches: 262, Mismatches: 42, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
42 71 0.27
43 156 0.60
44 35 0.13
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
GCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAAGCGCC
Found at i:8330782 original size:85 final size:85
Alignment explanation
Indices: 8330521--8330872 Score: 386
Period size: 85 Copynumber: 4.1 Consensus size: 85
8330511 AAAAAGTGGA
* * * * * *
8330521 GCTAAAAGTCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAAGTCATGACCTATAGC
1 GCTAAAGGTCTTGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTATAGC
*
8330586 GGTGTTTGTGGAAAAAAGCACC
66 GGCGTTTGTGGAAAAAAG--CC
* * * * * * *
8330608 GCTAAAGGT-TATGGCCTATAGCGGCGTTTGAGGGTAAA-CACCTCTAAAGGGCATGACCTTTAG
1 GCTAAAGGTCT-TGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTATAG
* * *
8330671 CGGCGTTTGTGTGGAAAACGCT
65 CGGCGTTTGTG-GAAAAAAGCC
** *
8330693 GCTAAAGGTCTTGACCTATAGCGGCGTTTGTGAGG-AAAGCGCCGCTAAAGGTTTTGATCTATAG
1 GCTAAAGGTCTTGACCTATAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCATGACCTATAG
*
8330757 CGACGTTTGTGGAAAAAAGCC
65 CGGCGTTTGTGGAAAAAAGCC
* * * *
8330778 GCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GCTAAAGGTCTTGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTATAGC
**
8330843 GGCGTTTGTGGCAAAAGCGCC
66 GGCGTTTGTGG-AAAAAAGCC
8330864 GCTAAAGGT
1 GCTAAAGGT
8330873 GCCATAAAAT
Statistics
Matches: 223, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.01
85 107 0.48
86 76 0.34
87 38 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (85 bp):
GCTAAAGGTCTTGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTATAGC
GGCGTTTGTGGAAAAAAGCC
Found at i:8330805 original size:128 final size:128
Alignment explanation
Indices: 8330521--8330872 Score: 413
Period size: 128 Copynumber: 2.7 Consensus size: 128
8330511 AAAAAGTGGA
* * * * *
8330521 GCTAAAAGTCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAAGTCATGACCTATAGC
1 GCTAAAGGGCATGACCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACCTATAGC
* * * * * * *
8330586 GGTGTTTGTGGAAAAAAGCACCGCTAAAGGTTATGGCCTATAGCGGCGTTTGAGGGTAAACACC
66 GGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTTATGACCTATAGCGACGTTTGAGGGAAAAAACC
* * *
8330650 TCTAAAGGGCATGACCTTTAGCGGCGTTTGTGTGGAAAA-CGCTGCTAAAGGTCTTGACCTATAG
1 GCTAAAGGGCATGACCTATAGCGGCGTTTGTG-GGAAAAGCGCTGCTAAAGGTCATGACCTATAG
* * * *
8330714 CGGCGTTTGTGAGGAAAGCGCCGCTAAAGGTTTTGATCTATAGCGACGTTTG-TGGAAAAAAGCC
65 CGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTTATGACCTATAGCGACGTTTGAGGGAAAAAA-CC
* * * * * * *
8330778 GCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GCTAAAGGGCATGACCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACCTATAGC
8330843 GGCGTTTGTG-GCAAAAGCGCCGCTAAAGGT
66 GGCGTTTGTGAG-AAAAGCGCCGCTAAAGGT
8330873 GCCATAAAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
127 13 0.07
128 113 0.59
129 59 0.31
130 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (128 bp):
GCTAAAGGGCATGACCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACCTATAGC
GGCGTTTGTGAGAAAAGCGCCGCTAAAGGTTATGACCTATAGCGACGTTTGAGGGAAAAAACC
Found at i:8331112 original size:19 final size:21
Alignment explanation
Indices: 8331072--8331110 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8331062 TAACTAATTA
*
8331072 ATATTTTTAACTATTTCAAAT
1 ATATTTTTAACTATCTCAAAT
8331093 ATATTTTT-ACTATCTCAA
1 ATATTTTTAACTATCTCAA
8331111 TACAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTAACTATCTCAAAT
Found at i:8331247 original size:19 final size:21
Alignment explanation
Indices: 8331207--8331245 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8331197 AAACTAATTA
*
8331207 ATATTTTTAACTATTTCAAAT
1 ATATTTTTAACTATCTCAAAT
8331228 ATATTTTT-ACTATCTCAA
1 ATATTTTTAACTATCTCAA
8331246 TACAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTAACTATCTCAAAT
Found at i:8331305 original size:135 final size:136
Alignment explanation
Indices: 8331052--8331322 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 136
8331042 ATTCTATTTC
8331052 AATTAAATAATAACTAATTAATATTTTTAACTATTTCAAATATATTTTTACTATCTCAATACAAA
1 AATTAAATAATAACTAATTAATATTTTTAACTATTTCAAATATATTTTTACTATCTCAATACAAA
8331117 TTATTTGTCTTTAGACCAATATCTTAATTTGCAAACAATTTTTTTTAAAAGTGAAGTGGATATCT
66 TTATTTGTCTTTAGACCAATATCTTAATTTGCAAACAATTTTTTTTAAAAGTGAAGTGGATATCT
8331182 AAATAT
131 AAATAT
8331188 AATTAAATAA-AACTAATTAATATTTTTAACTATTTCAAATATATTTTTACTATCTCAATACAAA
1 AATTAAATAATAACTAATTAATATTTTTAACTATTTCAAATATATTTTTACTATCTCAATACAAA
8331252 TTATTTGTCTTTAGACCAATATCTTAATTTGCAAACAATTTTTTTTAAAAGTGAAGTGGATATCT
66 TTATTTGTCTTTAGACCAATATCTTAATTTGCAAACAATTTTTTTTAAAAGTGAAGTGGATATCT
8331317 AAATAT
131 AAATAT
8331323 TAACATACAC
Statistics
Matches: 135, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 125 0.93
136 10 0.07
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (136 bp):
AATTAAATAATAACTAATTAATATTTTTAACTATTTCAAATATATTTTTACTATCTCAATACAAA
TTATTTGTCTTTAGACCAATATCTTAATTTGCAAACAATTTTTTTTAAAAGTGAAGTGGATATCT
AAATAT
Found at i:8331374 original size:17 final size:18
Alignment explanation
Indices: 8331352--8331388 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8331342 CTTAAAAAAA
*
8331352 TTGAATCC-TAATGTTTT
1 TTGAATCCTTAATATTTT
8331369 TTGAATCCTTAATATTTT
1 TTGAATCCTTAATATTTT
8331387 TT
1 TT
8331389 TTATCACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (18 bp):
TTGAATCCTTAATATTTT
Found at i:8335475 original size:61 final size:61
Alignment explanation
Indices: 8335380--8335500 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
8335370 TCGAGAATCG
* *
8335380 TAGACGAGTAGTGTAACGATCCAATTTTATGTGGTGTCAGAAAATGAAGTTTTGAAACCTC
1 TAGACGAGAAGTGTAACGATCCAATTTTAAGTGGTGTCAGAAAATGAAGTTTTGAAACCTC
8335441 TAGACGAGAAGTGTAACGATCCAATTTTAAGTGGTGTCAGAAAATGAAGTTTTGAAACCT
1 TAGACGAGAAGTGTAACGATCCAATTTTAAGTGGTGTCAGAAAATGAAGTTTTGAAACCT
8335501 TATTTTTGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (61 bp):
TAGACGAGAAGTGTAACGATCCAATTTTAAGTGGTGTCAGAAAATGAAGTTTTGAAACCTC
Found at i:8340512 original size:14 final size:13
Alignment explanation
Indices: 8340489--8340536 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
8340479 CTATTCTTGC
8340489 TTTATTTTATTTA
1 TTTATTTTATTTA
8340502 TTTACTTTTATTTCA
1 TTTA-TTTTATTT-A
* *
8340517 TTCA-TTCATTTA
1 TTTATTTTATTTA
8340529 TTTATTTT
1 TTTATTTT
8340537 TATCCTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:8340560 original size:19 final size:18
Alignment explanation
Indices: 8340527--8340562 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8340517 TTCATTCATT
*
8340527 TATTTATTTTTATCCTTG
1 TATTCATTTTTATCCTTG
8340545 TATTCATTTATTATCCTT
1 TATTCATTT-TTATCCTT
8340563 CCATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.14, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTCATTTTTATCCTTG
Found at i:8352002 original size:19 final size:18
Alignment explanation
Indices: 8351970--8352006 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
8351960 CACCTTTTTG
8351970 CATTCATCACATGCATTA
1 CATTCATCACATGCATTA
*
8351988 CATTGCATCATATGCATTA
1 CATT-CATCACATGCATTA
8352007 AATTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (18 bp):
CATTCATCACATGCATTA
Found at i:8353484 original size:13 final size:13
Alignment explanation
Indices: 8353466--8353490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8353456 AAAATGGTAT
8353466 GACGCAAATGCCC
1 GACGCAAATGCCC
8353479 GACGCAAATGCC
1 GACGCAAATGCC
8353491 TAATGCAAAT
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:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (13 bp):
GACGCAAATGCCC
Found at i:8357887 original size:51 final size:51
Alignment explanation
Indices: 8357791--8357896 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
8357781 GAAATATTTC
* * *
8357791 ACCTAAAAAGGAAGGAGAGGCCAATGCAAAAATCCGCAAAGGGCGCTTTGAG
1 ACCTAAAAA-GAAGGAGAGGCCAAGGCAAAAATCCACAAAGGGCGCCTTGAG
* *
8357843 ACCTAAAAA-AAGGGAGAGGCCAAGGCGAAAA-CCTACAAATGGCGCCTTGAG
1 ACCTAAAAAGAA-GGAGAGGCCAAGGCAAAAATCC-ACAAAGGGCGCCTTGAG
8357894 ACC
1 ACC
8357897 AAAGGGGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 4 0.09
51 34 0.72
52 9 0.19
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (51 bp):
ACCTAAAAAGAAGGAGAGGCCAAGGCAAAAATCCACAAAGGGCGCCTTGAG
Found at i:8358783 original size:44 final size:44
Alignment explanation
Indices: 8358695--8359141 Score: 150
Period size: 44 Copynumber: 9.9 Consensus size: 44
8358685 TGAAGTCATC
* * *
8358695 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGT-AGGTTGAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGA-TCAGATTGAAG
* * *
8358740 TTA-C-AAGTCTTATATCCCTGAAGTTACAGTGGATCAGACTGAAG
1 ATAGCGAA-TCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
*
8358784 ATAGCGAATCTTATTCCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATAGCGAATCTTATT-CCCTGAAGTTGCAGTGGATCAGATTGAAG
* * * * *
8358829 CTATAAATTGC-AGATATTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATA-
1 --AT--A--GCGA-ATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGA-AG
* * * * * * *
8358879 TTA---AACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAA
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
* * *
8358921 ATAAATC-AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAGGACGGG
1 AT--AGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGA--A---G
* * * *
8358972 TTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
** * * * * *
8359016 CCA-CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCA-AGTTAAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGA-TTGAAG
* * * *
8359060 ATA-CTAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
* * * * * *
8359104 CTA-CTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGA
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGA
8359142 CTAAAACCGC
Statistics
Matches: 321, Mismatches: 53, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
41 26 0.08
42 4 0.01
43 4 0.01
44 140 0.44
45 36 0.11
46 34 0.11
47 3 0.01
48 3 0.01
49 37 0.12
50 3 0.01
51 30 0.09
52 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ATAGCGAATCTTATTCCCTGAAGTTGCAGTGGATCAGATTGAAG
Found at i:8359090 original size:88 final size:88
Alignment explanation
Indices: 8358977--8359139 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 88
8358967 ACGGGTTACA
* *
8358977 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACC-TATCTCCCTAAAGTT
*
8359041 GCAGTAGAGCAAGTTAAAGATACT
65 ACAGTAGAGCAAGTTAAAGATACT
* * * *
8359065 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACCTATCTCCCTAAAGTTA
*
8359130 CAGTGGAGCA
66 CAGTAGAGCA
8359140 GACTAAAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 62 0.94
89 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACCTATCTCCCTAAAGTTA
CAGTAGAGCAAGTTAAAGATACT
Found at i:8359166 original size:132 final size:136
Alignment explanation
Indices: 8358881--8359149 Score: 339
Period size: 132 Copynumber: 2.0 Consensus size: 136
8358871 AGATCATATT
* * *
8358881 AAACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAAATAAATCAATCTTATCTCCCTGAAG
1 AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
* * * * * *
8358946 TTGCAATGGAGCAGATTGAGGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
66 TTGCAATGAAGCAGATTGA-GA--GGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGAC
*
8359011 TAAAGCCAC
128 TAAAACCAC
* * * *
8359020 AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGAT-ACT-AATCTTATCTCCTTGAAG
1 AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
* *
8359083 TTGCAGTGAAGCAGATTGA-A-GCTACTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
66 TTGCAATGAAGCAGATTGAGAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
8359146 AACC
131 AACC
8359150 GCAAGTCTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
132 40 0.35
135 1 0.01
137 34 0.30
138 2 0.02
139 37 0.32
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (136 bp):
AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
TTGCAATGAAGCAGATTGAGAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
AACCAC
Found at i:8359801 original size:5 final size:5
Alignment explanation
Indices: 8359791--8359831 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
8359781 AGAGGTAGTT
* *
8359791 TTTTA TTTTA TTTTA TTTTA TTTCA -TTTG TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
8359832 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 2 0.06
5 29 0.94
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:8361084 original size:72 final size:72
Alignment explanation
Indices: 8361005--8361230 Score: 209
Period size: 72 Copynumber: 3.2 Consensus size: 72
8360995 TGTATTCATT
8361005 TTATTTATTTCTTTGTTTTTTAAGTTGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACC
1 TTATTTATTTCTTTGTTTTTTAAGTTGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACC
8361070 ATTGCTA
66 ATTGCTA
* * * * ** * * * * * *
8361077 TTATTTATTTCATTTATCTTTGATTGTTCATATTCATAAACTTTT-TCT-CTTACATTAT-TTAT
1 TTATTTATTTC-TTTGTTTTTTA-AGTTGGTATT-GT--CCTTTTATGTGCATGC-TT-TGGTAT
8361139 GTATT--CA-T--T-
59 -TATTACCATTGCTA
8361148 TTATTTATTTCTTTGTTTTTTAAGTTGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACC
1 TTATTTATTTCTTTGTTTTTTAAGTTGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACC
8361213 ATTGCTA
66 ATTGCTA
8361220 TTATTTATTTC
1 TTATTTATTTC
8361231 ATTTATCTTT
Statistics
Matches: 113, Mismatches: 24, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
66 10 0.09
67 7 0.06
68 6 0.05
69 8 0.07
70 8 0.07
71 12 0.11
72 23 0.20
73 8 0.07
74 8 0.07
75 6 0.05
76 7 0.06
77 10 0.09
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.58
Consensus pattern (72 bp):
TTATTTATTTCTTTGTTTTTTAAGTTGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACC
ATTGCTA
Found at i:8361133 original size:143 final size:144
Alignment explanation
Indices: 8360965--8361254 Score: 573
Period size: 143 Copynumber: 2.0 Consensus size: 144
8360955 TTTCAATACT
8360965 TTCATAAACTATTTTCTCTTACATTATTTATGTATTCATTTTATTTATTTCTTTGTTTTTTAAGT
1 TTCATAAACTATTTTCTCTTACATTATTTATGTATTCATTTTATTTATTTCTTTGTTTTTTAAGT
8361030 TGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACCATTGCTATTATTTATTTCATTTATC
66 TGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACCATTGCTATTATTTATTTCATTTATC
8361095 TTTGATTGTTCATA
131 TTTGATTGTTCATA
8361109 TTCATAAACT-TTTTCTCTTACATTATTTATGTATTCATTTTATTTATTTCTTTGTTTTTTAAGT
1 TTCATAAACTATTTTCTCTTACATTATTTATGTATTCATTTTATTTATTTCTTTGTTTTTTAAGT
8361173 TGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACCATTGCTATTATTTATTTCATTTATC
66 TGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACCATTGCTATTATTTATTTCATTTATC
8361238 TTTGATTGTTCATA
131 TTTGATTGTTCATA
8361252 TTC
1 TTC
8361255 TTGTTCAAAT
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 136 0.93
144 10 0.07
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (144 bp):
TTCATAAACTATTTTCTCTTACATTATTTATGTATTCATTTTATTTATTTCTTTGTTTTTTAAGT
TGGTATTGTCCTTTTATGTGCATGCTTTGGTATTATTACCATTGCTATTATTTATTTCATTTATC
TTTGATTGTTCATA
Found at i:8376143 original size:24 final size:24
Alignment explanation
Indices: 8376114--8376164 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
8376104 ATTTAATGTT
8376114 TAAAAATTTCGAGAAATTGAACCC
1 TAAAAATTTCGAGAAATTGAACCC
8376138 TAAAAATTTCGAGAAATTGAACCC
1 TAAAAATTTCGAGAAATTGAACCC
8376162 TAA
1 TAA
8376165 CTTACTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (24 bp):
TAAAAATTTCGAGAAATTGAACCC
Found at i:8381011 original size:2 final size:2
Alignment explanation
Indices: 8380998--8381039 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
8380988 GAAATGATGT
8380998 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8381040 GAAATGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8383902 original size:17 final size:17
Alignment explanation
Indices: 8383880--8383913 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8383870 AGGAGAAGAG
8383880 TTAACGTGAAATCTGTA
1 TTAACGTGAAATCTGTA
8383897 TTAACGTGAAATCTGTA
1 TTAACGTGAAATCTGTA
8383914 GGTGGGGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TTAACGTGAAATCTGTA
Found at i:8386281 original size:16 final size:17
Alignment explanation
Indices: 8386260--8386292 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8386250 TAAAACCTGC
8386260 TTTCCTTTTT-CTTTTT
1 TTTCCTTTTTCCTTTTT
8386276 TTTCCTTTTTCCTTTTT
1 TTTCCTTTTTCCTTTTT
8386293 CCTTTCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCCTTTTTCCTTTTT
Found at i:8387633 original size:19 final size:19
Alignment explanation
Indices: 8387606--8387642 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8387596 TTGATAGTTG
*
8387606 AAAATTTTTAAAAATAATC
1 AAAAATTTTAAAAATAATC
8387625 AAAAATTTTAAAAATAAT
1 AAAAATTTTAAAAATAAT
8387643 AATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTTAAAAATAATC
Found at i:8390009 original size:10 final size:10
Alignment explanation
Indices: 8389994--8390023 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8389984 CACCCGCTTA
8389994 AAACTTTTGG
1 AAACTTTTGG
8390004 AAACTTTTGG
1 AAACTTTTGG
*
8390014 AAACGTTTGG
1 AAACTTTTGG
8390024 TTCACTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (10 bp):
AAACTTTTGG
Found at i:8390543 original size:12 final size:12
Alignment explanation
Indices: 8390526--8390550 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8390516 TTGTTTCATC
8390526 TGGGGCAAATTA
1 TGGGGCAAATTA
8390538 TGGGGCAAATTA
1 TGGGGCAAATTA
8390550 T
1 T
8390551 AGGTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TGGGGCAAATTA
Found at i:8398254 original size:79 final size:77
Alignment explanation
Indices: 8398162--8398315 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 77
8398152 AATTATTGAT
8398162 ATAGAAATACAATATAAACATTTTTTTTTTCA-TTTTTTAGGGTAAATTGTAAATAAGTAGATTA
1 ATAGAAATACAATAT--A-A-TTTTTTTTTCATTTTTTTAGGGTAAATTGTAAATAAGTAGATTA
8398226 TTGATGTAAAAACAAA
62 TTGATGTAAAAACAAA
** * * *
8398242 ATAG-AATACAATATAATTTTTTTTTCATTTTTTTTTTTGGTAAATTGTGAATCAGTATATTATT
1 ATAGAAATACAATATAATTTTTTTTTCA--TTTTTTTAGGGTAAATTGTAAATAAGTAGATTATT
8398306 GATGTAAAAA
64 GATGTAAAAA
8398316 TTCAATACAA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
75 11 0.17
76 1 0.02
77 1 0.02
78 39 0.59
79 10 0.15
80 4 0.06
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (77 bp):
ATAGAAATACAATATAATTTTTTTTTCATTTTTTTAGGGTAAATTGTAAATAAGTAGATTATTGA
TGTAAAAACAAA
Found at i:8398351 original size:78 final size:76
Alignment explanation
Indices: 8398202--8398353 Score: 182
Period size: 78 Copynumber: 2.0 Consensus size: 76
8398192 CATTTTTTAG
* * *
8398202 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAATAGAATACAATATAATTTTTTTTT
1 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAACAGAATACAATACAA--TTTTGTT
8398267 CATTTTTTTTTTT
64 CATTTTTTTTTTT
* * * *
8398280 GGTAAATTGTGAATCAGTATATTATTGATGTAAAAATTCAATACA-ATATACAATACAA-TTTGT
1 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAA--CAAAACAGA-ATACAATACAATTTTGT
8398343 TCATTTTTTTT
63 TCATTTTTTTT
8398354 ATAAACATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
77 15 0.23
78 33 0.52
79 1 0.02
80 15 0.23
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (76 bp):
GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAACAGAATACAATACAATTTTGTTCA
TTTTTTTTTTT
Found at i:8398620 original size:6 final size:6
Alignment explanation
Indices: 8398590--8398681 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
8398580 TTATCGTTTT
* * * * * * *
8398590 CATCTT CATCTT CATCTT CACCTC CGTCTC CATCTC CACCTC CACCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
* * * * * * *
8398638 CACCTC CACCTC CACCTC CACCTC CATCTT GATCTT CATCTC CA
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CA
8398682 ACATTGTCTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.16, C:0.51, G:0.02, T:0.30
Consensus pattern (6 bp):
CATCTC
Found at i:8398632 original size:12 final size:12
Alignment explanation
Indices: 8398617--8398663 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
8398607 TCACCTCCGT
*
8398617 CTCCATCTCCAC
1 CTCCACCTCCAC
8398629 CTCCACCTCCAC
1 CTCCACCTCCAC
8398641 CTCCACCTCCAC
1 CTCCACCTCCAC
8398653 CTCCACCTCCA
1 CTCCACCTCCA
8398664 TCTTGATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.17, C:0.64, G:0.00, T:0.19
Consensus pattern (12 bp):
CTCCACCTCCAC
Found at i:8398638 original size:18 final size:18
Alignment explanation
Indices: 8398617--8398663 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
8398607 TCACCTCCGT
*
8398617 CTCCATCTCCACCTCCAC
1 CTCCACCTCCACCTCCAC
8398635 CTCCACCTCCACCTCCAC
1 CTCCACCTCCACCTCCAC
8398653 CTCCACCTCCA
1 CTCCACCTCCA
8398664 TCTTGATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.64, G:0.00, T:0.19
Consensus pattern (18 bp):
CTCCACCTCCACCTCCAC
Found at i:8398680 original size:18 final size:17
Alignment explanation
Indices: 8398659--8398706 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
8398649 CCACCTCCAC
8398659 CTCCATCTTGATCTTCAT
1 CTCCATCTTG-TCTTCAT
*
8398677 CTCCAACATTGTCTTCAT
1 CTCCATC-TTGTCTTCAT
* *
8398695 TTTCATCTTGTC
1 CTCCATCTTGTC
8398707 GTTCCATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 17 0.68
19 3 0.12
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (17 bp):
CTCCATCTTGTCTTCAT
Found at i:8403543 original size:21 final size:21
Alignment explanation
Indices: 8403510--8403549 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8403500 AGGTTTATAT
*
8403510 AAAAAAAATTTACCATTGGAG
1 AAAAAAAAGTTACCATTGGAG
* *
8403531 AAAAACAAGTTACTATTGG
1 AAAAAAAAGTTACCATTGG
8403550 TTCCAACAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAAAAAAGTTACCATTGGAG
Found at i:8407027 original size:177 final size:178
Alignment explanation
Indices: 8406720--8407074 Score: 703
Period size: 177 Copynumber: 2.0 Consensus size: 178
8406710 ATATTAAGTT
8406720 GTTTATATATAAAATCTTAATAAATGGAAAACATGTAAAATTATTAAATATCAAATTTAAATAAT
1 GTTTATATATAAAATCTTAATAAATGGAAAACATGTAAAATTATTAAATATCAAATTTAAATAAT
8406785 ATAATTTTTTTAAATTAAAAAATAATATGAGCGTGCTTAAAATGGGCTTGAGTTGACCATTGGCA
66 ATAATTTTTTTAAATTAAAAAATAATATGAGCGTGCTTAAAATGGGCTTGAGTTGACCATTGGCA
8406850 AATATGGGTAGGCTTGGACAAAATTTAAGCCCGTGTTTTGGGTTGGAC
131 AATATGGGTAGGCTTGGACAAAATTTAAGCCCGTGTTTTGGGTTGGAC
8406898 GTTTATATAT-AAATCTTAATAAATGGAAAACATGTAAAATTATTAAATATCAAATTTAAATAAT
1 GTTTATATATAAAATCTTAATAAATGGAAAACATGTAAAATTATTAAATATCAAATTTAAATAAT
8406962 ATAATTTTTTTAAATTAAAAAATAATATGAGCGTGCTTAAAATGGGCTTGAGTTGACCATTGGCA
66 ATAATTTTTTTAAATTAAAAAATAATATGAGCGTGCTTAAAATGGGCTTGAGTTGACCATTGGCA
8407027 AATATGGGTAGGCTTGGACAAAATTTAAGCCCGTGTTTTGGGTTGGAC
131 AATATGGGTAGGCTTGGACAAAATTTAAGCCCGTGTTTTGGGTTGGAC
8407075 TGAGATTGGA
Statistics
Matches: 177, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
177 167 0.94
178 10 0.06
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.35
Consensus pattern (178 bp):
GTTTATATATAAAATCTTAATAAATGGAAAACATGTAAAATTATTAAATATCAAATTTAAATAAT
ATAATTTTTTTAAATTAAAAAATAATATGAGCGTGCTTAAAATGGGCTTGAGTTGACCATTGGCA
AATATGGGTAGGCTTGGACAAAATTTAAGCCCGTGTTTTGGGTTGGAC
Found at i:8409846 original size:83 final size:83
Alignment explanation
Indices: 8409698--8409856 Score: 187
Period size: 83 Copynumber: 1.9 Consensus size: 83
8409688 TGTGCGATTC
* * ** * *
8409698 GAGATAGCTTTGGCTATTTATGGCACTTAGTGTGCGATTGGGAATAGCTTCGACTATATATATGG
1 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGATTGAGAATAGCTTCGACTATACATATGG
8409763 CACTTAGTGTGTGAGACT
66 CACTTAGTGTGTGAGACT
* * * *
8409781 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGGGATT-ATAATAGCTTTGGCTATGCA-AT
1 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGC--GATTGAGAATAGCTTCGACTATACATAT
*
8409844 GGCATTTAGTGTG
64 GGCACTTAGTGTG
8409857 CGAAACATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 45 0.71
84 14 0.22
85 4 0.06
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (83 bp):
GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGATTGAGAATAGCTTCGACTATACATATGG
CACTTAGTGTGTGAGACT
Found at i:8414762 original size:15 final size:14
Alignment explanation
Indices: 8414734--8414784 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
8414724 ACTAAATTTT
8414734 AAAG-AAAAATAAA
1 AAAGTAAAAATAAA
*
8414747 AAAGCTAAAGAT-AA
1 AAAG-TAAAAATAAA
8414761 AAAGTAAAAATAAA
1 AAAGTAAAAATAAA
8414775 GAAAGTAAAA
1 -AAAGTAAAA
8414785 GCAACAAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.31
14 8 0.25
15 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAGTAAAAATAAA
Found at i:8419491 original size:602 final size:602
Alignment explanation
Indices: 8418347--8419554 Score: 2409
Period size: 602 Copynumber: 2.0 Consensus size: 602
8418337 ATCATGGAGT
8418347 CAGTCCACAAGAAGTACCATGACTGAAAACTCCTAATTGTCTGCTCTTTACAAAAGCAATTCATC
1 CAGTCCACAAGAAGTACCATGACTGAAAACTCCTAATTGTCTGCTCTTTACAAAAGCAATTCATC
8418412 CAACTGCTTTGTCCGATGACCTCGTCATGTATGTGTTACCCTTATATGATATCCTTGATTCATTT
66 CAACTGCTTTGTCCGATGACCTCGTCATGTATGTGTTACCCTTATATGATATCCTTGATTCATTT
8418477 GAGTTAAATCCATTCACTCAATACAATCCTATTTTATCTCATTGTCACCAATGTGTTCTTAATGA
131 GAGTTAAATCCATTCACTCAATACAATCCTATTTTATCTCATTGTCACCAATGTGTTCTTAATGA
8418542 TTAATATGAGAACTGTCAACAAATTACTTTGATAAATTGCTCATTCAAGAATAAGCAACCCGTGG
196 TTAATATGAGAACTGTCAACAAATTACTTTGATAAATTGCTCATTCAAGAATAAGCAACCCGTGG
8418607 TCATGTTCCATATTTATCAATCCACACAATGCCAACGAGAGTATATCATTAACTCTTTAATTGAG
261 TCATGTTCCATATTTATCAATCCACACAATGCCAACGAGAGTATATCATTAACTCTTTAATTGAG
8418672 CTATGAATTCCATTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCTAACATACCAGCT
326 CTATGAATTCCATTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCTAACATACCAGCT
8418737 ATGGGCTTTATCATCTCTAGAGCATAAGCCTCCACTTATATTAAAGCACATGAGTTGCATACACA
391 ATGGGCTTTATCATCTCTAGAGCATAAGCCTCCACTTATATTAAAGCACATGAGTTGCATACACA
8418802 TGGTCAGTGACTATCTCAGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCAC
456 TGGTCAGTGACTATCTCAGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCAC
8418867 AAAAAAATTTAGAATTAATTCAACTTGGGTCCAGTCTAATGTATCATTCTACCAATGAATACATC
521 AAAAAAATTTAGAATTAATTCAACTTGGGTCCAGTCTAATGTATCATTCTACCAATGAATACATC
8418932 TATGTCTCTACTTGTGG
586 TATGTCTCTACTTGTGG
8418949 CAGTCCACAAGAAGTACCATGACTGAAAACTCCTAATTGTCTGCTCTTTACAAAAGCAATTCATC
1 CAGTCCACAAGAAGTACCATGACTGAAAACTCCTAATTGTCTGCTCTTTACAAAAGCAATTCATC
8419014 CAACTGCTTTGTCCGATGACCTCGTCATGTATGTGTTACCCTTATATGATATCCTTGATTCATTT
66 CAACTGCTTTGTCCGATGACCTCGTCATGTATGTGTTACCCTTATATGATATCCTTGATTCATTT
8419079 GAGTTAAATCCATTCACTCAATACAATCCTATTTTATCTCATTGTCACCAATGTGTTCTTAATGA
131 GAGTTAAATCCATTCACTCAATACAATCCTATTTTATCTCATTGTCACCAATGTGTTCTTAATGA
8419144 TTAATATGAGAACTGTCAACAAATTACTTTGATAAATTGCTCATTCAAGAATAAGCAACCCGTGG
196 TTAATATGAGAACTGTCAACAAATTACTTTGATAAATTGCTCATTCAAGAATAAGCAACCCGTGG
8419209 TCATGTTCCATATTTATCAATCCACACAATGCCAACGAGAGTATATCATTAACTCTTTAATTGAG
261 TCATGTTCCATATTTATCAATCCACACAATGCCAACGAGAGTATATCATTAACTCTTTAATTGAG
8419274 CTATGAATTCCATTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCTAACATACCAGCT
326 CTATGAATTCCATTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCTAACATACCAGCT
8419339 ATGGGCTTTATCATCTCTAGAGCATAAGCCTCCACTTATATTAAAGCACATGAGTTGCATACACA
391 ATGGGCTTTATCATCTCTAGAGCATAAGCCTCCACTTATATTAAAGCACATGAGTTGCATACACA
8419404 TGGTCAGTGACTATCTCAGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCAC
456 TGGTCAGTGACTATCTCAGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCAC
8419469 AAAAAAATTTAGAATTAATTCAACTTGGGTCCAGTCTAATGTATCATTCTACCAATGAATACATC
521 AAAAAAATTTAGAATTAATTCAACTTGGGTCCAGTCTAATGTATCATTCTACCAATGAATACATC
8419534 TATGTCTCTACTTGTGG
586 TATGTCTCTACTTGTGG
8419551 -AGTC
1 CAGTC
8419555 AACTGCTCCA
Statistics
Matches: 606, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
601 4 0.01
602 602 0.99
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (602 bp):
CAGTCCACAAGAAGTACCATGACTGAAAACTCCTAATTGTCTGCTCTTTACAAAAGCAATTCATC
CAACTGCTTTGTCCGATGACCTCGTCATGTATGTGTTACCCTTATATGATATCCTTGATTCATTT
GAGTTAAATCCATTCACTCAATACAATCCTATTTTATCTCATTGTCACCAATGTGTTCTTAATGA
TTAATATGAGAACTGTCAACAAATTACTTTGATAAATTGCTCATTCAAGAATAAGCAACCCGTGG
TCATGTTCCATATTTATCAATCCACACAATGCCAACGAGAGTATATCATTAACTCTTTAATTGAG
CTATGAATTCCATTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCTAACATACCAGCT
ATGGGCTTTATCATCTCTAGAGCATAAGCCTCCACTTATATTAAAGCACATGAGTTGCATACACA
TGGTCAGTGACTATCTCAGGATTTAGGTAAATCACACCATGAACGTCACAAGTGAATTAATTCAC
AAAAAAATTTAGAATTAATTCAACTTGGGTCCAGTCTAATGTATCATTCTACCAATGAATACATC
TATGTCTCTACTTGTGG
Found at i:8427568 original size:29 final size:29
Alignment explanation
Indices: 8427531--8427657 Score: 191
Period size: 29 Copynumber: 4.4 Consensus size: 29
8427521 TTTTCGTATC
8427531 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
*
8427560 GAAGCCTTTGTGGCTATCTTCGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
* * * *
8427589 AAAGCCTTTGTGTCGATCTATGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
* *
8427618 GAAGCCTTTATGGCTATCTCTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
8427647 GAAGCCTTTGT
1 GAAGCCTTTGT
8427658 TGTAATGGCC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (29 bp):
GAAGCCTTTGTGGCTATCTTTGTTAAAAG
Found at i:8433800 original size:7 final size:7
Alignment explanation
Indices: 8433788--8433819 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8433778 TCTCCTCCAA
8433788 TCCCATT
1 TCCCATT
8433795 TCCCATT
1 TCCCATT
8433802 TCCCATT
1 TCCCATT
8433809 TCCCATT
1 TCCCATT
8433816 TCCC
1 TCCC
8433820 TTCGACAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.47, G:0.00, T:0.41
Consensus pattern (7 bp):
TCCCATT
Found at i:8434764 original size:28 final size:27
Alignment explanation
Indices: 8434714--8434786 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
8434704 ATCTCTGTTA
*
8434714 AAAGGAAGCCTTTGTGGAAATCTCTATC
1 AAAGGACGCCTTTGTGGAAATCTCTA-C
** * *
8434742 AAAGGACGCCTTTGTGGTTATCTTTAG
1 AAAGGACGCCTTTGTGGAAATCTCTAC
*
8434769 AAAGGAACGCCTTCGTGG
1 AAAGG-ACGCCTTTGTGG
8434787 CGTAATCTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (27 bp):
AAAGGACGCCTTTGTGGAAATCTCTAC
Found at i:8448291 original size:37 final size:37
Alignment explanation
Indices: 8448206--8448292 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
8448196 ACACAAGTAG
*
8448206 TCCAACCGA-AACAGGCCAAACGCTCATAAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
** ** * *
8448242 TCCAACTAATAACACGCCAAGTGCTCTTGAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
8448279 TCCAACCGATAACA
1 TCCAACCGATAACA
8448293 TGCCTCGGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 7 0.17
37 34 0.83
ACGTcount: A:0.39, C:0.30, G:0.15, T:0.16
Consensus pattern (37 bp):
TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
Found at i:8448949 original size:37 final size:37
Alignment explanation
Indices: 8448903--8448984 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
8448893 GTCCAATCGA
* * *
8448903 AACACGCCAAATGCTCATAAGAGCTAATCCAACTAAT
1 AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
* * *
8448940 AACATGCCAAGTGCGCATGAGAGCTAATCCAACCGAT
1 AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
8448977 AACATGCC
1 AACATGCC
8448985 TCGGTACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (37 bp):
AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
Found at i:8449089 original size:688 final size:688
Alignment explanation
Indices: 8447773--8449150 Score: 2515
Period size: 688 Copynumber: 2.0 Consensus size: 688
8447763 GACGTAACAA
*
8447773 CCTATTACATGCCATCTAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
*
8447838 ACTTGATTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
8447903 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
8447968 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
196 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
8448033 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
261 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
*
8448098 TAATTCAAAATATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
326 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
*
8448163 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACAGGCCAAACG
391 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
* *
8448228 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCTCTTGAGAGCTAATCCAACCGATAACA
456 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAACA
* *
8448293 TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACATGCTAGAACAAAA
521 TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAAA
*
8448358 TAGTATAACATGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
586 TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
8448423 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
651 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
* * * *
8448461 CCTATTACATGCCATATAGTCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAGTGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
* *
8448526 ATTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
8448591 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATCA-AAGTAAATA
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTAT-AGAAGTAAATA
* *
8448655 TAACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAACAATTGCAAACCGGTG
195 TAACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTG
*
8448720 AATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCTACTACGAAG
260 AATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAG
8448785 TTAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAA
325 TTAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAA
* * *
8448850 TTTACGACTTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAATCGAAACACGCCAAAT
390 TTTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAAC
*
8448915 GCTCATAAGAGCTAATCCAACTAATAACATGCCAAGTGCGCATGAGAGCTAATCCAACCGATAAC
455 GCTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAAC
8448980 ATGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAA
520 ATGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAA
*
8449045 ATAGTATAACACGAGAGTTAGCACCAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAG
585 ATAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAG
* *
8449110 CACGCCACATTAATCTCCACTCCAACCCCGCATAACACG
650 CACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
8449149 CC
1 CC
8449151 ATCATTCAAT
Statistics
Matches: 664, Mismatches: 25, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
688 663 1.00
689 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (688 bp):
CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAACA
TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAAA
TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
Found at i:8451571 original size:21 final size:21
Alignment explanation
Indices: 8451541--8451588 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8451531 TCCGTATTTC
*
8451541 TTTTTACAAATGAAAACTTTA
1 TTTTTCCAAATGAAAACTTTA
8451562 TTTTTCCAAATGAAAACTTTA
1 TTTTTCCAAATGAAAACTTTA
8451583 TTTTTC
1 TTTTTC
8451589 TTTGGCTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTTCCAAATGAAAACTTTA
Found at i:8455372 original size:24 final size:25
Alignment explanation
Indices: 8455285--8455372 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 25
8455275 AAGAGCGTCT
** *
8455285 CGTTAT-TAGCTCTTATGAGCATCC
1 CGTTATATAGCTCTTGCGAGCTTCC
* * * ** *
8455309 CGATATTTGGCTCTCACGAGCTTTC
1 CGTTATATAGCTCTTGCGAGCTTCC
* *
8455334 CGTTATATGGTTCTTGCGAGCTTCC
1 CGTTATATAGCTCTTGCGAGCTTCC
8455359 CGTTA-ATAGCTCTT
1 CGTTATATAGCTCTT
8455373 CAAGCATCCC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 12 0.24
25 37 0.76
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (25 bp):
CGTTATATAGCTCTTGCGAGCTTCC
Found at i:8455465 original size:25 final size:26
Alignment explanation
Indices: 8455437--8455520 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
8455427 TATGAGCGTC
8455437 CCGATAT-ATGGCTCTTCAGAGCTTT
1 CCGATATAATGGCTCTTCAGAGCTTT
*
8455462 CCGAT-TAAAGGCTCTTTCATGAGC-TT
1 CCGATATAATGGCTC-TTCA-GAGCTTT
* ** *
8455488 CCTA-ATTAATGGCTCTTTGGAGCTTC
1 CCGATA-TAATGGCTCTTCAGAGCTTT
8455514 CCGATAT
1 CCGATAT
8455521 TGGCTCGCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
24 1 0.02
25 15 0.33
26 16 0.36
27 13 0.29
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
CCGATATAATGGCTCTTCAGAGCTTT
Found at i:8455489 original size:26 final size:27
Alignment explanation
Indices: 8455446--8455505 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
8455436 CCCGATATAT
*
8455446 GGCTC-TTCAGAGCTTTCC-GATTAAA
1 GGCTCTTTCAGAGCTTTCCTAATTAAA
*
8455471 GGCTCTTTCATGAGC-TTCCTAATTAAT
1 GGCTCTTTCA-GAGCTTTCCTAATTAAA
8455498 GGCTCTTT
1 GGCTCTTT
8455506 GGAGCTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.27
27 17 0.57
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GGCTCTTTCAGAGCTTTCCTAATTAAA
Found at i:8455561 original size:24 final size:24
Alignment explanation
Indices: 8455419--8455561 Score: 62
Period size: 25 Copynumber: 5.8 Consensus size: 24
8455409 TGGACACACC
*
8455419 ACAGCTCTTATGAGCGTCCCGATAT
1 ACAGCTCTTATGAGCTTCCCGAT-T
** *
8455444 ATGGCTCTTCA-GAGCTTTCCGATT
1 ACAGCTCTT-ATGAGCTTCCCGATT
* **
8455468 AAAGGCTCTTTCATGAGCTTCCTAATT
1 ACA-GCTC-TT-ATGAGCTTCCCGATT
8455495 A-ATGGCTCTT-TGGAGCTTCCCGA-T
1 ACA--GCTCTTAT-GAGCTTCCCGATT
** * *
8455519 ATTGGCTCGCT-TGAACTTCCCGATT
1 A-CAGCTC-TTATGAGCTTCCCGATT
8455544 ACAGCTCTTATGAGCTTC
1 ACAGCTCTTATGAGCTTC
8455562 TTGTTATACA
Statistics
Matches: 89, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
23 1 0.01
24 30 0.34
25 34 0.38
26 8 0.09
27 16 0.18
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (24 bp):
ACAGCTCTTATGAGCTTCCCGATT
Found at i:8456880 original size:34 final size:34
Alignment explanation
Indices: 8456832--8456911 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
8456822 TTCGAATGCC
* *
8456832 CACATGGCCTGAGACACGGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
8456866 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
8456900 CACACGGCCTGA
1 CACACGGCCTGA
8456912 CCAAGCGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (34 bp):
CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
Found at i:8459869 original size:2 final size:2
Alignment explanation
Indices: 8459862--8459893 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8459852 CACGCCCACT
8459862 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
8459894 AATACTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8465169 original size:6 final size:6
Alignment explanation
Indices: 8465158--8465197 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
8465148 TCTATCCCCA
8465158 GCATGG GCATGG GCATGG GCATGG GCATGG GCATGG GCAT
1 GCATGG GCATGG GCATGG GCATGG GCATGG GCATGG GCAT
8465198 AGCAACCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
GCATGG
Found at i:8486547 original size:32 final size:32
Alignment explanation
Indices: 8486511--8486581 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
8486501 GTGTGTGAGC
8486511 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
1 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
8486543 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
1 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
8486575 CCACACG
1 CCACACG
8486582 AGCATGTGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.11
Consensus pattern (32 bp):
CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
Found at i:8488960 original size:78 final size:78
Alignment explanation
Indices: 8488831--8488975 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 78
8488821 AACCATCGCT
* * * * *
8488831 AAATAATGATTCGATGCTACTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATCTCAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
8488896 ATAGCGGATTGCA
66 ATAGCGGATTGCA
* * * * * *
8488909 AAATAATAATTCCATGTTGCTCACTCAAGCTATCAAGAATTCACAATTTATGCTGGATCTTAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
8488974 AT
66 AT
8488976 CGAATAAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (78 bp):
AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
ATAGCGGATTGCA
Found at i:8491722 original size:36 final size:36
Alignment explanation
Indices: 8491675--8491746 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
8491665 ATGAAAACTT
*
8491675 AAAATTAGTTCAATTAAGTATTAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
*
8491711 AAAATTAGTTCAATTTAGTATCAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
8491747 TCTGTTGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (36 bp):
AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
Found at i:8494341 original size:22 final size:22
Alignment explanation
Indices: 8494316--8494358 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8494306 TACCCAAACA
8494316 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
*
8494338 ATAATAACAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
8494359 AACAGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:8495844 original size:31 final size:31
Alignment explanation
Indices: 8495803--8495881 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
8495793 TAATTAAATA
*
8495803 TTAAATTTTAAAAATTATTTTT-TAATAATTT
1 TTAATTTTTAAAAATTATTTTTATAAT-ATTT
*
8495834 TTAATTTTTAAAAA-TATTTTTATAATCTTT
1 TTAATTTTTAAAAATTATTTTTATAATATTT
8495864 TTAAATTTTTAAAAATTA
1 TT-AATTTTTAAAAATTA
8495882 ATTAATTGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 12 0.28
31 29 0.67
32 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TTAATTTTTAAAAATTATTTTTATAATATTT
Found at i:8503651 original size:2 final size:2
Alignment explanation
Indices: 8503646--8503678 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8503636 GTGTTGTGTG
8503646 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 T
8503679 GCAAATGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8520127 original size:44 final size:44
Alignment explanation
Indices: 8520073--8520161 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
8520063 TCCTTTAACG
*
8520073 ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
1 ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
* *
8520117 ATTACCTCCTCAATTGTCATTCTTATACTCATGTTCATTTCCAT
1 ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
8520161 A
1 A
8520162 CCTTACCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (44 bp):
ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
Found at i:8529719 original size:19 final size:21
Alignment explanation
Indices: 8529695--8529736 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8529685 TGCAACCAAC
*
8529695 CACAGGA-GG-TATGTCGTGA
1 CACAGGAGGGCTATGTCGCGA
8529714 CACAGGAGGGCTATGTCGCGA
1 CACAGGAGGGCTATGTCGCGA
8529735 CA
1 CA
8529737 TCGAGAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 11 0.55
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (21 bp):
CACAGGAGGGCTATGTCGCGA
Found at i:8534987 original size:28 final size:28
Alignment explanation
Indices: 8534955--8535010 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
8534945 CAAATCCGTG
*
8534955 ACTTGTTAGGCGAGCTAGATAGTCTAGA
1 ACTTGTTAGGCGAGCTAGATAGGCTAGA
8534983 ACTTGTTAGGCGAGCTAGATAGGCTAGA
1 ACTTGTTAGGCGAGCTAGATAGGCTAGA
8535011 CCACCACTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ACTTGTTAGGCGAGCTAGATAGGCTAGA
Found at i:8543431 original size:103 final size:105
Alignment explanation
Indices: 8543311--8543521 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 105
8543301 TTCAATCCTT
*
8543311 AAAAAATAATGAAATTATCAATTAATATATAATAAAATTACACTTCTAACCCTTT-AA-AAAAAA
1 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAATAAAAAA
*
8543374 AATCTATTTAGTTCTTTTGAAAATGATGAAATCATAAATG
66 AATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAATG
8543414 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
1 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTT--AAA--TAA
8543479 AAAAAATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAAT
62 AAAAAATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAAT
8543522 TATCATATGA
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
103 54 0.54
106 2 0.02
109 44 0.44
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (105 bp):
AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAATAAAAAA
AATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAATG
Found at i:8543445 original size:23 final size:23
Alignment explanation
Indices: 8543393--8543453 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
8543383 AGTTCTTTTG
* *
8543393 AAAATGATGAAATCATAAATGAA
1 AAAATAATGAAATTATAAATGAA
*
8543416 AAAATAATGAAATTATAAATTAA
1 AAAATAATGAAATTATAAATGAA
* * *
8543439 TATATAATAAAATTA
1 AAAATAATGAAATTA
8543454 CACTTCTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAATGAAATTATAAATGAA
Found at i:8547194 original size:19 final size:19
Alignment explanation
Indices: 8547172--8547213 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8547162 ATTTTGAACA
8547172 ATTTAATT-TTTTTTCTTTT
1 ATTTAATTCTTTTTTC-TTT
**
8547191 ATTTTTTTCTTTTTTCTTT
1 ATTTAATTCTTTTTTCTTT
8547210 ATTT
1 ATTT
8547214 TCCATTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (19 bp):
ATTTAATTCTTTTTTCTTT
Found at i:8547197 original size:13 final size:13
Alignment explanation
Indices: 8547179--8547203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8547169 ACAATTTAAT
8547179 TTTTTTTCTTTTA
1 TTTTTTTCTTTTA
8547192 TTTTTTTCTTTT
1 TTTTTTTCTTTT
8547204 TTCTTTATTT
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:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTA
Found at i:8549691 original size:49 final size:49
Alignment explanation
Indices: 8549611--8549707 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
8549601 TTATGCTATG
* *
8549611 CATTTCTAAACTTGGTCTTCCACAATCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTATA
*** *
8549660 CATTGCTAAACTTAGTCTTCCATTGTTTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTAT
8549708 CCCTTCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTATA
Found at i:8551011 original size:16 final size:17
Alignment explanation
Indices: 8550989--8551032 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
8550979 CATCTCATAA
8550989 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
8551006 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
8551021 TCA--TCTCATATT
1 TCATTTCTCATATT
8551033 CATTTCCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:8551054 original size:43 final size:43
Alignment explanation
Indices: 8550974--8551059 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
8550964 TCATATTTTA
* *
8550974 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
* * * *
8551017 TTTCTCATCTCATATTCATTTCCCGTCTTTGCTATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
8551060 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
Found at i:8552291 original size:3 final size:3
Alignment explanation
Indices: 8552283--8552307 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8552273 TGTTTTCATT
8552283 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
8552308 AAAAACCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8556944 original size:43 final size:43
Alignment explanation
Indices: 8556864--8556949 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
8556854 TCATATTTCA
* * **
8556864 TTTCTCATCTCATAATCATTTCTCTTATTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
* * *
8556907 TTTCTCATATCATATTCATTTCTCATCTTAGCTATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
8556950 CAATCACATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
Found at i:8557661 original size:19 final size:18
Alignment explanation
Indices: 8557619--8557662 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
8557609 TTAATACTAC
* *
8557619 ATATTTCAATTTCACATT
1 ATATTTTAATTTCACACT
*
8557637 AAATTTTAATTTTCACACT
1 ATATTTTAA-TTTCACACT
8557656 ATATTTT
1 ATATTTT
8557663 GCTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAATTTCACACT
Found at i:8558098 original size:15 final size:16
Alignment explanation
Indices: 8558073--8558107 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8558063 TGTGAGCTTC
8558073 TTCTCTTTTCTTTCTT
1 TTCTCTTTTCTTTCTT
*
8558089 TTCT-TTTTCTTTGTT
1 TTCTCTTTTCTTTCTT
8558104 TTCT
1 TTCT
8558108 AATTTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTCTTTTCTTTCTT
Found at i:8559120 original size:25 final size:27
Alignment explanation
Indices: 8559073--8559122 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
8559063 CTAATTAATA
8559073 ATATTATAAAAATATAAAGATAAAATT
1 ATATTATAAAAATATAAAGATAAAATT
* *
8559100 ATATTA-AAAATTA-AAATATAAAA
1 ATATTATAAAAATATAAAGATAAAA
8559123 AATTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATTATAAAAATATAAAGATAAAATT
Found at i:8559846 original size:2 final size:2
Alignment explanation
Indices: 8559841--8559868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8559831 AAAACAAATC
8559841 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
8559869 TACAAGGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8566906 original size:3 final size:3
Alignment explanation
Indices: 8566898--8566923 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8566888 TAAACTAAAT
8566898 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
8566924 TTAATTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:8569922 original size:28 final size:28
Alignment explanation
Indices: 8569890--8569946 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8569880 CACTTGTGAT
*
8569890 AGAACTTCCACTCAGTATACATCTTTTC
1 AGAACTTCCACTCAGGATACATCTTTTC
8569918 AGAACTTCCACTCAGGATACATCTTTTC
1 AGAACTTCCACTCAGGATACATCTTTTC
8569946 A
1 A
8569947 TACTTCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
AGAACTTCCACTCAGGATACATCTTTTC
Found at i:8573574 original size:30 final size:29
Alignment explanation
Indices: 8573515--8573752 Score: 266
Period size: 29 Copynumber: 8.2 Consensus size: 29
8573505 GGCGCAATCT
**
8573515 AAGGAAGCAATTGTGGC-AATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573543 AATGGAAGCCTTTGTGGCTAATCTTTTTTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573573 AATTGAAGCCTTTGTGGCTAATCTCTATTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573603 AAGGAAGCCTTTGTGGGTAATGTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573632 AAGGAATCCTTTGTGACTAATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573661 AAGGAAGCCTTTGTGGGTAATCTCTGTTT
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* * * *
8573690 AAGTAAGCCTTTGTGGC-GATCTTTATTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
8573718 AAGGTAGCCTTTGTGGCT-ATCTCTATTAA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTT-A
8573747 AAGGAA
1 AAGGAA
8573753 ACCTACATGG
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
28 32 0.18
29 107 0.60
30 38 0.21
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCTAATCTCTGTTA
Found at i:8581128 original size:10 final size:10
Alignment explanation
Indices: 8581100--8581129 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
8581090 AAGGTTTAGT
8581100 GGTTTTGAGA
1 GGTTTTGAGA
8581110 GGTTGTTGAGA
1 GGTT-TTGAGA
8581121 GGTTTTGAG
1 GGTTTTGAG
8581130 GTTAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (10 bp):
GGTTTTGAGA
Found at i:8581778 original size:15 final size:16
Alignment explanation
Indices: 8581753--8581784 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8581743 TATGTGATAT
8581753 AATATAAATGAAATAA
1 AATATAAATGAAATAA
8581769 AATA-AAATGAAATAA
1 AATATAAATGAAATAA
8581784 A
1 A
8581785 CACTATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AATATAAATGAAATAA
Found at i:8582937 original size:6 final size:6
Alignment explanation
Indices: 8582928--8582963 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8582918 TACTGAAATT
8582928 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
8582964 AATAGTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:8587290 original size:29 final size:29
Alignment explanation
Indices: 8587242--8587704 Score: 323
Period size: 29 Copynumber: 16.0 Consensus size: 29
8587232 CGAAATCTAA
* ** *
8587242 GGAAGCCTTTATGGTTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*
8587271 GGAAGCCTTTGTTGCAATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* **
8587300 GAAAGCCTTTGTGGTGATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* ** * * *
8587329 GGAAGCCTTTTTGGTGATTTTTGTTAATT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
8587358 AGAAGCCTTTGTGGCTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*
8587387 GGAAGCCTTTGTGGCTATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
8587416 TGAAGCCTTT-TCGGGTAATCTCTATTAAAT
1 GGAAGCCTTTGT--GGCAATCTCTGTTAAAT
* * *
8587446 -GAAGCCTTTGCGACTAATCTCTATTAAAT
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* * *
8587475 -AAAGCCTTTGTGGCTAATCCCTATTAAA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* *
8587503 GGAAGCCTTTTTCGCTAATCTCTGTTAAAT
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* ** *
8587533 GGAAGCCTTTGAGAATAATCTATGTTAAA-
1 GGAAGCCTTTGTG-GCAATCTCTGTTAAAT
* *
8587562 GGAAGCCTTTATAGCTAATCTCTGTTAAA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* * *
8587591 AGAAGCCTTTGTGGCTAATCTCTGTCATA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* ** * *
8587620 GGAAGCCTTTGTTGTGATCTGTGTTAAAA
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*** * *
8587649 GGATTTCTTTGTGGCTATCTCAGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
8587678 -GAATGTC-TTGTGACAAACTCTGTTAAA
1 GGAA-GCCTTTGTGGCAATCTCTGTTAAA
8587705 ATGACGCCTT
Statistics
Matches: 345, Mismatches: 79, Indels: 21
0.78 0.18 0.05
Matches are distributed among these distances:
28 29 0.08
29 280 0.81
30 36 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (29 bp):
GGAAGCCTTTGTGGCAATCTCTGTTAAAT
Found at i:8591387 original size:28 final size:28
Alignment explanation
Indices: 8591353--8591560 Score: 226
Period size: 28 Copynumber: 7.4 Consensus size: 28
8591343 GGCGTAATCT
*
8591353 AAGGAAGCCTTTTTGGCTATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
* *
8591381 ATGGAAGCCTTTGTGGCAATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCTATCTCTGTT-A
*
8591410 AAGGAAGCCTTTGTGGCTATCTCTATTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
* * * *
8591438 ATGGAAGCCTTT-T-GCGATCTTTCTTAA
1 AAGGAAGCCTTTGTGGCTATCTCTGTT-A
* *
8591465 AAGGAAGCCTTTATGGCTATC-CTTATTA
1 AAGGAAGCCTTTGTGGCTATCTC-TGTTA
* *
8591493 ATGGAAGCCTTTGTGG-TGATCTTTGTTA
1 AAGGAAGCCTTTGTGGCT-ATCTCTGTTA
* *
8591521 AAGGAAGCCTTTATGGCAATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
8591549 AAGGAAGCCTTT
1 AAGGAAGCCTTT
8591561 ATTTCAATAC
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
26 9 0.06
27 14 0.09
28 94 0.63
29 33 0.22
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (28 bp):
AAGGAAGCCTTTGTGGCTATCTCTGTTA
Found at i:8591420 original size:57 final size:57
Alignment explanation
Indices: 8591353--8591560 Score: 289
Period size: 57 Copynumber: 3.7 Consensus size: 57
8591343 GGCGTAATCT
* * * *
8591353 AAGGAAGCCTTTTTGGCTATCTCTGTTAATGGAAGCCTTTGTGGCAATCTCTGTTAA
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
* *
8591410 AAGGAAGCCTTTGTGGCTATCTCTATTAATGGAAGCCTTT-T-GCGATCTTTCTTAA
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
*
8591465 AAGGAAGCCTTTATGGCTATC-CTTATTAATGGAAGCCTTTGTGGTGATCTTTGTT-A
1 AAGGAAGCCTTTATGGCTATCTC-TATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
* * *
8591521 AAGGAAGCCTTTATGGCAATCTCTGTTAAAGGAAGCCTTT
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTT
8591561 ATTTCAATAC
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
54 1 0.01
55 48 0.35
56 38 0.28
57 49 0.36
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (57 bp):
AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
Found at i:8591592 original size:112 final size:111
Alignment explanation
Indices: 8591353--8591560 Score: 294
Period size: 112 Copynumber: 1.9 Consensus size: 111
8591343 GGCGTAATCT
* *
8591353 AAGGAAGCCTTTTTGGCTATCTCTGTTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
* * * *
8591418 CTTTGTGGCTATCTCTATTAATGGAAGCCTTTTGCGATCTTTCTTAA
66 CTTTATGGCAATCTCTATTAAAGGAAGCCTTTTGCAATC-TTCTTAA
** *
8591465 AAGGAAGCCTTTATGGCTATC-CTTATTAATGGAAGCCTTTGTGGTGATCTTTGTT-AAAGGAAG
1 AAGGAAGCCTTTATGGCTATCTC-TATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAG
*
8591528 CCTTTATGGCAATCTCTGTTAAAGGAAGCCTTT
65 CCTTTATGGCAATCTCTATTAAAGGAAGCCTTT
8591561 ATTTCAATAC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 38 0.44
112 48 0.56
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (111 bp):
AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
CTTTATGGCAATCTCTATTAAAGGAAGCCTTTTGCAATCTTCTTAA
Found at i:8591637 original size:61 final size:61
Alignment explanation
Indices: 8591565--8591760 Score: 277
Period size: 61 Copynumber: 3.2 Consensus size: 61
8591555 GCCTTTATTT
* * ** *
8591565 CAATACTCTAAAGGGAAAGCCTTTATGGAAAATACTAAATGTTAAAGGAATGTCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
* * * *
8591626 CAATACTCTAAAGGCAATGTCTGTGTGGCGAGTACTGAAA-GTTAAAGGAATGCCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACT-AAATGTTAAAGGAATGTCTTTGTGG
* *
8591687 CAATACTTTAAAGGGAAAGTGTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
8591748 CAATACTCTAAAG
1 CAATACTCTAAAG
8591761 TTAAGGCAAG
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 3 0.03
61 111 0.95
62 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (61 bp):
CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
Found at i:8591687 original size:33 final size:32
Alignment explanation
Indices: 8591597--8591748 Score: 126
Period size: 28 Copynumber: 4.9 Consensus size: 32
8591587 TTATGGAAAA
*
8591597 TACTAAATGTTAAAGGAATGTCTTTGTGGC-AA
1 TACTAAA-GTTAAAGGAATGTCTTTGTGGCGAG
* *
8591629 TACT----CTAAAGGCAATGTCTGTGTGGCGAG
1 TACTAAAGTTAAAGG-AATGTCTTTGTGGCGAG
* *
8591658 TACTGAAAGTTAAAGGAATGCCTTTGTGGC-AA
1 TACT-AAAGTTAAAGGAATGTCTTTGTGGCGAG
* *
8591690 TACT----TTAAAGGGAAAGTGTTTGTGGCGAG
1 TACTAAAGTTAAA-GGAATGTCTTTGTGGCGAG
8591719 TACTAAATGTTAAAGGAATGTCTTTGTGGC
1 TACTAAA-GTTAAAGGAATGTCTTTGTGGC
8591749 AATACTCTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
27 11 0.12
28 26 0.28
29 10 0.11
32 9 0.10
33 26 0.28
34 11 0.12
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (32 bp):
TACTAAAGTTAAAGGAATGTCTTTGTGGCGAG
Found at i:8591764 original size:33 final size:33
Alignment explanation
Indices: 8591599--8591764 Score: 124
Period size: 33 Copynumber: 5.3 Consensus size: 33
8591589 ATGGAAAATA
8591599 CTAAATGTTAAAGGAATGTCTTTGTGGCAATACT
1 CTAAA-GTTAAAGGAATGTCTTTGTGGCAATACT
* * *
8591633 CTAAAG-----GCAATGTCTGTGTGGCGAGTACT
1 CTAAAGTTAAAGGAATGTCTTTGTGGC-AATACT
* *
8591662 -GAAAGTTAAAGGAATGCCTTTGTGGCAATACT
1 CTAAAGTTAAAGGAATGTCTTTGTGGCAATACT
* * * *
8591694 TTAAAG-----GGAAAGTGTTTGTGGCGAGTA--
1 CTAAAGTTAAAGGAATGTCTTTGTGGC-AATACT
8591721 CTAAATGTTAAAGGAATGTCTTTGTGGCAATACT
1 CTAAA-GTTAAAGGAATGTCTTTGTGGCAATACT
8591755 CTAAAGTTAA
1 CTAAAGTTAA
8591765 GGCAAGTATA
Statistics
Matches: 99, Mismatches: 17, Indels: 33
0.66 0.11 0.22
Matches are distributed among these distances:
27 4 0.04
28 32 0.32
29 8 0.08
32 8 0.08
33 37 0.37
34 10 0.10
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (33 bp):
CTAAAGTTAAAGGAATGTCTTTGTGGCAATACT
Found at i:8599456 original size:6 final size:6
Alignment explanation
Indices: 8599442--8599491 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
8599432 CTGAAAAGAG
* *
8599442 AATAAA AATAGA AATAGA AATAAA AATAAA AAT--A AATAAA AATTAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA-TAAA
8599489 AAT
1 AAT
8599492 CATATATAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 4 0.10
6 29 0.74
7 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:8599463 original size:18 final size:16
Alignment explanation
Indices: 8599435--8599490 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 16
8599425 AAACGACCTG
8599435 AAAAGAGAATAAAAATA
1 AAAAGA-AATAAAAATA
8599452 GAAATAGAAATAAAAATA
1 -AAA-AGAAATAAAAATA
*
8599470 AAAATAAATAAAAATTA
1 AAAAGAAATAAAAA-TA
8599487 AAAA
1 AAAA
8599491 TCATATATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 10 0.29
17 9 0.26
18 13 0.37
19 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
AAAAGAAATAAAAATA
Found at i:8605595 original size:19 final size:21
Alignment explanation
Indices: 8605560--8605603 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
8605550 AATATTTTAG
8605560 TAAATATAAACAAATTAAAAT
1 TAAATATAAACAAATTAAAAT
8605581 TAAAT-TAAA-AAATTAAAAT
1 TAAATATAAACAAATTAAAAT
8605600 TAAA
1 TAAA
8605604 AATTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.61
20 4 0.17
21 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATATAAACAAATTAAAAT
Found at i:8605601 original size:14 final size:13
Alignment explanation
Indices: 8605571--8605610 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8605561 AAATATAAAC
8605571 AAATT-AAAATT-
1 AAATTAAAAATTA
8605582 AAATTAAAAAATTA
1 AAATT-AAAAATTA
8605596 AAATTAAAAATTA
1 AAATTAAAAATTA
8605609 AA
1 AA
8605611 CTTTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
13 16 0.62
14 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:8612254 original size:10 final size:10
Alignment explanation
Indices: 8612239--8612267 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
8612229 GCATTCGATC
8612239 GAATCAAATT
1 GAATCAAATT
8612249 GAATCAAATT
1 GAATCAAATT
8612259 GAATCAAAT
1 GAATCAAAT
8612268 GAACAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (10 bp):
GAATCAAATT
Found at i:8612744 original size:18 final size:18
Alignment explanation
Indices: 8612713--8612756 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8612703 AATTATAAAG
* *
8612713 ATTCACTATGATTAAACA
1 ATTCAATATCATTAAACA
8612731 ATTCAATATCATTAAACA
1 ATTCAATATCATTAAACA
8612749 ATTCAATA
1 ATTCAATA
8612757 ATATAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTCAATATCATTAAACA
Found at i:8613372 original size:15 final size:15
Alignment explanation
Indices: 8613334--8613372 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8613324 AGAAAGAAAA
* *
8613334 AATGAATAAATGAGT
1 AATGAATGAATGAAT
8613349 AATGAATGAATGAAT
1 AATGAATGAATGAAT
*
8613364 AATGGATGA
1 AATGAATGA
8613373 TTTTTAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (15 bp):
AATGAATGAATGAAT
Found at i:8619159 original size:12 final size:12
Alignment explanation
Indices: 8619142--8619167 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8619132 CAAAAATTTA
8619142 AAAATACTAAAT
1 AAAATACTAAAT
8619154 AAAATACTAAAT
1 AAAATACTAAAT
8619166 AA
1 AA
8619168 GAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATACTAAAT
Done.