Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 61 of 313
Found at i:20607421 original size:46 final size:46
Alignment explanation
Indices: 20607298--20607421 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
20607288 TACAGCCATA
*
20607298 TCCCAAACATGGTCTTACACT-G-ACTATCATCTCGTAGCCGATGCATG
1 TCCCAAACAT-GTCTTACACTAGCAC--TCGTCTCGTAGCCGATGCATG
* *
20607345 TCCCAGACATGTCTTACACTAGC-TTACGTCTCG-AGGCCGATGCATG
1 TCCCAAACATGTCTTACACTAGCACT-CGTCTCGTA-GCCGATGCATG
20607391 TCCCAAACATGTCTTACACTAGCACTCGTCT
1 TCCCAAACATGTCTTACACTAGCACTCGTCT
20607422 TAATACCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
45 2 0.03
46 54 0.81
47 11 0.16
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
TCCCAAACATGTCTTACACTAGCACTCGTCTCGTAGCCGATGCATG
Found at i:20611148 original size:183 final size:181
Alignment explanation
Indices: 20610805--20611172 Score: 610
Period size: 183 Copynumber: 2.0 Consensus size: 181
20610795 AGCTTCAGAC
* * *
20610805 TTCTGTCACGTTCCTCGACGGTTTCCACTCCATATAGCTGAGATCTTGCTTGGATCAACTCAGAT
1 TTCTGTCACGTTCCTCGACAGTTTCCACTCCAAATAGCTGAGATCTTGCTTAGATCAACTCAGAT
*
20610870 CCCGTCTCCCGACACAATGTGTCCTAGGATCCTACCTCTTTAAGCCAAAATTCACTCTTACTGAA
66 CCCGTCTCCCGACACAATGTGTCCTAGGATCCTACCTCCTTAAGCCAAAATTCACTCTTACTGAA
* * *
20610935 CTTGGCGTATAATTGCTTGTTTCTCAAGTTTTGCAACACAACTCTCAAATG
131 CATAGCGTATAATTGCTAGTTTCTCAAGTTTTGCAACACAACTCTCAAATG
* *
20610986 TTCTGTCACGTTCTTCGACAGTTTCCACTCCACAATAGCTGAGATCTTGCTTAGATCAACTCGGA
1 TTCTGTCACGTTCCTCGACAGTTTCCACTCCA-AATAGCTGAGATCTTGCTTAGATCAACTCAGA
*
20611051 TCCCGTCTCCCGACACAATGTGTCCTAGGAATCCTACCTCCTTAAGCCAAAATTCACTTTTACTG
65 TCCCGTCTCCCGACACAATGTGTCCTAGG-ATCCTACCTCCTTAAGCCAAAATTCACTCTTACTG
* *
20611116 AACATAGCGTATAATTTCTAGTTTCTCAAGTTTTGCAACACAACTCTCAGATG
129 AACATAGCGTATAATTGCTAGTTTCTCAAGTTTTGCAACACAACTCTCAAATG
20611169 TTCT
1 TTCT
20611173 CCTTACTCAC
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
181 30 0.17
182 58 0.34
183 85 0.49
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (181 bp):
TTCTGTCACGTTCCTCGACAGTTTCCACTCCAAATAGCTGAGATCTTGCTTAGATCAACTCAGAT
CCCGTCTCCCGACACAATGTGTCCTAGGATCCTACCTCCTTAAGCCAAAATTCACTCTTACTGAA
CATAGCGTATAATTGCTAGTTTCTCAAGTTTTGCAACACAACTCTCAAATG
Found at i:20615164 original size:46 final size:45
Alignment explanation
Indices: 20615056--20615273 Score: 154
Period size: 46 Copynumber: 4.7 Consensus size: 45
20615046 TGGGTAAGGT
* * * *
20615056 GCCGATGCCATGTCCCAGACACGATCTTACACTGGCTCACATCCCAA
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCTTACATCTCAG
* * * *
20615103 GTCGATCCATATCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AG
* * * * * *
20615149 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACATC-TCAG
* * *
20615195 GCCGATGCCATGTCCCGGACATGGTCTCACACTGGCTCTA-ATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCA-G
* *
20615243 GCCGATGGATGTCCCAGACATATCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
20615274 AGCTCACGCA
Statistics
Matches: 134, Mismatches: 28, Indels: 19
0.74 0.15 0.10
Matches are distributed among these distances:
45 18 0.13
46 63 0.47
47 32 0.24
48 21 0.16
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAG
Found at i:20615640 original size:30 final size:30
Alignment explanation
Indices: 20615605--20615685 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
20615595 TATCTTCAGT
*
20615605 AAAATAACCATTTTGCCTCTAGACTTTGGC
1 AAAATAACCATTTTGCCCCTAGACTTTGGC
20615635 AAAATAACCATTTTGCCCCTAGACTTTGGC
1 AAAATAACCATTTTGCCCCTAGACTTTGGC
* * *
20615665 GAAATGACCATTTTACCCCTA
1 AAAATAACCATTTTGCCCCTA
20615686 TGCTCAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (30 bp):
AAAATAACCATTTTGCCCCTAGACTTTGGC
Found at i:20618044 original size:41 final size:42
Alignment explanation
Indices: 20617970--20618077 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 42
20617960 AATACTCGAT
* * *
20617970 ATCTCGCACACTAAGT-ACTAATACATAGCCGAAGTTATATTA
1 ATCTCGCACACTAAGTGCCT-ATACATAGCCGAAGCTATAGTA
* * *
20618012 ATTTCGCACACTAAGTGCCT-TACATAGCCGAAGCTATCGTG
1 ATCTCGCACACTAAGTGCCTATACATAGCCGAAGCTATAGTA
*
20618053 ATCTCGCACACCAAGTGCCATATAC
1 ATCTCGCACACTAAGTGCC-TATAC
20618078 TGTTGATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 34 0.62
42 16 0.29
43 5 0.09
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCTATACATAGCCGAAGCTATAGTA
Found at i:20633733 original size:21 final size:20
Alignment explanation
Indices: 20633694--20633742 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
20633684 AGCCTATAAT
* *
20633694 ATAAACAATAGTAATAATAG
1 ATAAACAATAATAACAATAG
20633714 ATAAACGAATAATAACAATAG
1 ATAAAC-AATAATAACAATAG
*
20633735 GTAAACAA
1 ATAAACAA
20633743 ATTCGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (20 bp):
ATAAACAATAATAACAATAG
Found at i:20634400 original size:21 final size:21
Alignment explanation
Indices: 20634376--20634430 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
20634366 GTCCACTTCT
20634376 CCCACGCCCGTGTATGAAAGC
1 CCCACGCCCGTGTATGAAAGC
20634397 CCCACGCCCGTGTATGAAAGC
1 CCCACGCCCGTGTATGAAAGC
20634418 CCCACGCCCGTGT
1 CCCACGCCCGTGT
20634431 TCATTTGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.42, G:0.24, T:0.15
Consensus pattern (21 bp):
CCCACGCCCGTGTATGAAAGC
Found at i:20643067 original size:39 final size:39
Alignment explanation
Indices: 20642982--20643203 Score: 176
Period size: 39 Copynumber: 5.7 Consensus size: 39
20642972 TCAAGAGTAT
** * *
20642982 CGAAGTACAATAGGGGCACGTAGGTGCAACCAGGGCTAC
1 CGAAGTATGATAGGGGCACGTAAGTGCAACCAAGGCTAC
* *
20643021 CAAAGTATGATAGGGGCACGTAGGTGCAACCAAGGCTAC
1 CGAAGTATGATAGGGGCACGTAAGTGCAACCAAGGCTAC
* ** * ** *
20643060 CGAAGTATGACAGGGAAATGTAAGTGCAATAAAGGGTAC
1 CGAAGTATGATAGGGGCACGTAAGTGCAACCAAGGCTAC
* * * * *
20643099 CGAAGTATGACAAGGGCACGTAAATGCGATCAAGTG-TAC
1 CGAAGTATGATAGGGGCACGTAAGTGCAACCAAG-GCTAC
* * ** * * *
20643138 CGAAGTATGATAAGGGCACATAAGTGTGATCAAGGGTAT
1 CGAAGTATGATAGGGGCACGTAAGTGCAACCAAGGCTAC
* * *
20643177 CGAAGTACGATAGTGGCACATAAGTGC
1 CGAAGTATGATAGGGGCACGTAAGTGC
20643204 GATCAGGGAT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
38 1 0.01
39 150 0.99
40 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (39 bp):
CGAAGTATGATAGGGGCACGTAAGTGCAACCAAGGCTAC
Found at i:20643208 original size:39 final size:38
Alignment explanation
Indices: 20642957--20643208 Score: 175
Period size: 39 Copynumber: 6.5 Consensus size: 38
20642947 ACGTAACCAC
* * * * **
20642957 GGCACAAAAGTGCTATCAAGAGTATCGAAGTACAATAGG
1 GGCACATAAGTGCGATCAAGGGTACCGAAGTATGATA-G
* * * * *
20642996 GGCACGTAGGTGC-AACCAGGGCTACCAAAGTATGATAGG
1 GGCACATAAGTGCGATCAAGGG-TACCGAAGTATGATA-G
* * * * * *
20643035 GGCACGTAGGTGCAACCAAGGCTACCGAAGTATGACAG
1 GGCACATAAGTGCGATCAAGGGTACCGAAGTATGATAG
* * * *
20643073 GG-AAATGTAAGTGCAATAAAGGGTACCGAAGTATGACAAG
1 GGCACA--TAAGTGCGATCAAGGGTACCGAAGTATGA-TAG
* * *
20643113 GGCACGTAAATGCGATCAAGTGTACCGAAGTATGATAAG
1 GGCACATAAGTGCGATCAAGGGTACCGAAGTATGAT-AG
* * *
20643152 GGCACATAAGTGTGATCAAGGGTATCGAAGTACGATAG
1 GGCACATAAGTGCGATCAAGGGTACCGAAGTATGATAG
20643190 TGGCACATAAGTGCGATCA
1 -GGCACATAAGTGCGATCA
20643209 GGGATATAAG
Statistics
Matches: 169, Mismatches: 36, Indels: 16
0.76 0.16 0.07
Matches are distributed among these distances:
37 1 0.01
38 10 0.06
39 148 0.88
40 9 0.05
41 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.18
Consensus pattern (38 bp):
GGCACATAAGTGCGATCAAGGGTACCGAAGTATGATAG
Found at i:20647823 original size:44 final size:44
Alignment explanation
Indices: 20647732--20647847 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
20647722 AACATCCACA
* * * * *
20647732 TCCCAGAC-GTGGTCTTACATGT-AATCACATATCGATGTCATTT
1 TCCCAGACAG-GGTCTTACACGTAAATCACAAATCGATGCCAATG
20647775 TCCCAGACAGGGTCTTACACGTAAATCACAAATCGATGCCAATG
1 TCCCAGACAGGGTCTTACACGTAAATCACAAATCGATGCCAATG
*
20647819 TCCCAGACATGGTCTTACACG-AAATCACA
1 TCCCAGACAGGGTCTTACACGTAAATCACA
20647848 TACTAGAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 27 0.42
44 38 0.58
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAGACAGGGTCTTACACGTAAATCACAAATCGATGCCAATG
Found at i:20647864 original size:44 final size:43
Alignment explanation
Indices: 20647732--20647864 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 43
20647722 AACATCCACA
* * * * * *
20647732 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGTCAT-TT
1 TCCCAGACATGGTCTTACACGAAATCACATATCGA-ATCCTATG
* * *
20647775 TCCCAGACAGGGTCTTACACGTAAATCACAAATCG-ATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAATCACATATCGAAT-CCTATG
*
20647819 TCCCAGACATGGTCTTACACGAAATCACATACTAGAATCCTATG
1 TCCCAGACATGGTCTTACACGAAATCACATA-TCGAATCCTATG
20647863 TC
1 TC
20647865 ATGACATATG
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 28 0.39
44 41 0.57
45 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATATCGAATCCTATG
Found at i:20649758 original size:79 final size:82
Alignment explanation
Indices: 20649647--20649831 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20649637 GCTACTCGTT
* *
20649647 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20649710 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20649727 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20649790 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20649807 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20649832 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20649831 original size:40 final size:40
Alignment explanation
Indices: 20649628--20649831 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20649618 CGGAATTTAA
** *
20649628 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20649668 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20649708 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20649747 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20649787 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20649827 CCGGA
1 CCGGA
20649832 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20653274 original size:71 final size:71
Alignment explanation
Indices: 20653177--20653370 Score: 189
Period size: 71 Copynumber: 2.7 Consensus size: 71
20653167 ACATGGAATA
* * * * ***
20653177 GTTGTTATCGCAACATCGATGATTGAATGCTCCCTCTATAGGTTCGAAGTTTTTTGTTGTGACAT
1 GTTGTTATCGCGACATCGAAGGTTGAATGCTCCCTCTATAGGTTCGAAGTTTGTTGTCCCGACAT
20653242 TGAGTG
66 TGAGTG
* * * * *
20653248 GTTGTTGTTGCGACATTGAAGGTTGAATGCTCCCCTTCTA-A-GTTCAAAATTTGTTGTCCCGAC
1 GTTGTTATCGCGACATCGAAGGTTGAATGCT-CCC-TCTATAGGTTCGAAGTTTGTTGTCCCGAC
20653311 ATTGAGTG
64 ATTGAGTG
* * *
20653319 GTTGTTATCGCGACATCGATGGCTGAATGTTCTCCCT-T-TAGGTCCGAAGTTT
1 GTTGTTATCGCGACATCGAAGGTTGAATG--CTCCCTCTATAGGTTCGAAGTTT
20653371 AGTGTCATGA
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
70 2 0.02
71 82 0.85
72 7 0.07
73 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (71 bp):
GTTGTTATCGCGACATCGAAGGTTGAATGCTCCCTCTATAGGTTCGAAGTTTGTTGTCCCGACAT
TGAGTG
Found at i:20656270 original size:50 final size:50
Alignment explanation
Indices: 20656195--20656294 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
20656185 ACAATGGAGT
*
20656195 CCATGTTGCGATCGATCCTCATAGCAAAACCCAAATTATTGAAGTATAAA
1 CCATGTTGCGATCGATCCTCATAGCAAAACCCAAATTATTGAAATATAAA
*
20656245 CCATGTTGCGATCGATCCTTATAGCAAAACCCAAATTATTGAAATATAAA
1 CCATGTTGCGATCGATCCTCATAGCAAAACCCAAATTATTGAAATATAAA
20656295 GTTTTCAATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (50 bp):
CCATGTTGCGATCGATCCTCATAGCAAAACCCAAATTATTGAAATATAAA
Found at i:20657782 original size:30 final size:30
Alignment explanation
Indices: 20657684--20657775 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 30
20657674 GAAAAATCAA
20657684 ATATCAAGTCTTTCCAAGCTCCTGAATGAG
1 ATATCAAGTCTTTCCAAGCTCCTGAATGAG
* * *
20657714 ATATCAAATCTTCTCAAACCCAAGATCTTGAATGAG
1 ATATCAAGTCTT-T-----CCAAGCTCCTGAATGAG
20657750 ATATCAAGTCTTTCCAAGCTCCTGAA
1 ATATCAAGTCTTTCCAAGCTCCTGAA
20657776 CAAGATACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
30 22 0.44
31 1 0.02
35 1 0.02
36 26 0.52
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (30 bp):
ATATCAAGTCTTTCCAAGCTCCTGAATGAG
Found at i:20659260 original size:104 final size:104
Alignment explanation
Indices: 20659080--20659284 Score: 365
Period size: 104 Copynumber: 2.0 Consensus size: 104
20659070 GTTGAGCTTG
* *
20659080 AAACTGGCAAAGGGAAAAATTAAGTTGGTACTCTCCAACGTCTAGGCGATACTCAATGGAGATCT
1 AAACTGGCAAAGGGAAAAATCAAGTTGGTACTCTCCAACGTCTAGGCGATACCCAATGGAGATCT
20659145 CATTTAGCTTCTCTCAATAGCTTGATGAGGATGTTCTTA
66 CATTTAGCTTCTCTCAATAGCTTGATGAGGATGTTCTTA
* * *
20659184 AAACTGGCAAAGGGAAAAATCAAGTTGGTACTCTCCAACGTCTAGGTGTTGCCCAATGGAGATCT
1 AAACTGGCAAAGGGAAAAATCAAGTTGGTACTCTCCAACGTCTAGGCGATACCCAATGGAGATCT
20659249 CATTTAGCTTCTCTCAATAGCTTGATGAGGATGTTC
66 CATTTAGCTTCTCTCAATAGCTTGATGAGGATGTTC
20659285 AATTATGTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (104 bp):
AAACTGGCAAAGGGAAAAATCAAGTTGGTACTCTCCAACGTCTAGGCGATACCCAATGGAGATCT
CATTTAGCTTCTCTCAATAGCTTGATGAGGATGTTCTTA
Found at i:20662699 original size:86 final size:86
Alignment explanation
Indices: 20662554--20662723 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
20662544 GATGCATATA
*
20662554 TATAGTTTAACTTGCACCTGGTGGTGGTGGTGGCGGCAATGGTAGAGTCGGGATCTGTTGAGCTG
1 TATAGTTTAACTTGCACCTGGTGGTGGTGGCGGCGGCAATGGTAGAGTCGGGATCTGTTGAGCTG
20662619 GTGGTCGCTTACGCTTCTTTT
66 GTGGTCGCTTACGCTTCTTTT
* *
20662640 TATAGTTTAACTTGCACCTGGTGGTGGTGGCGGCGGCATTGGTAGAGTCGGGATCTGTTGAGTTG
1 TATAGTTTAACTTGCACCTGGTGGTGGTGGCGGCGGCAATGGTAGAGTCGGGATCTGTTGAGCTG
20662705 GTGGTCGCTTACGCTTCTT
66 GTGGTCGCTTACGCTTCTT
20662724 CTTCTCATAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.14, C:0.16, G:0.35, T:0.35
Consensus pattern (86 bp):
TATAGTTTAACTTGCACCTGGTGGTGGTGGCGGCGGCAATGGTAGAGTCGGGATCTGTTGAGCTG
GTGGTCGCTTACGCTTCTTTT
Found at i:20663939 original size:54 final size:54
Alignment explanation
Indices: 20663822--20663931 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
20663812 GGAGCAATAC
20663822 TAGAAGATTTTTGAGGGTCGTCTTTTCTCAGATTGAGTTGCTGAAATATATGAG
1 TAGAAGATTTTTGAGGGTCGTCTTTTCTCAGATTGAGTTGCTGAAATATATGAG
*
20663876 TAGAAGATTTTTGAGGGTCGTCTTTTCTCAGATTGAGTTGCTGAAATATATTAG
1 TAGAAGATTTTTGAGGGTCGTCTTTTCTCAGATTGAGTTGCTGAAATATATGAG
20663930 TA
1 TA
20663932 AGTGATTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (54 bp):
TAGAAGATTTTTGAGGGTCGTCTTTTCTCAGATTGAGTTGCTGAAATATATGAG
Found at i:20665265 original size:33 final size:35
Alignment explanation
Indices: 20665192--20665266 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 35
20665182 AATTTTTTTA
* *
20665192 AAAAATT-TAAAATAGATAATAAATTAAAAAATGC
1 AAAAATTATAAAATAGATAATAAAATAAAAAATAC
*
20665226 ATAAATTAT-AAATA-AT-ATAAAATATAAAAATAC
1 AAAAATTATAAAATAGATAATAAAATA-AAAAATAC
20665259 AAAAATTA
1 AAAAATTA
20665267 GTTATACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 7 0.20
33 16 0.46
34 11 0.31
35 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (35 bp):
AAAAATTATAAAATAGATAATAAAATAAAAAATAC
Found at i:20667099 original size:25 final size:25
Alignment explanation
Indices: 20667071--20667150 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
20667061 CTCTAAAAAA
20667071 GCTTTTCACAATATTAGCCACAAAG
1 GCTTTTCACAATATTAGCCACAAAG
* *
20667096 GC-TTTCTA-GATAATACGCCACAAAG
1 GCTTTTC-ACAATATTA-GCCACAAAG
* *
20667121 GCTTTTTACAAGATTAGCCACAAAG
1 GCTTTTCACAATATTAGCCACAAAG
20667146 GCTTT
1 GCTTT
20667151 CTAAAGAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 9 0.20
25 29 0.64
26 7 0.16
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
GCTTTTCACAATATTAGCCACAAAG
Found at i:20667125 original size:50 final size:50
Alignment explanation
Indices: 20667047--20667153 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
20667037 GTCACACGGT
* * * *
20667047 CTTTCCAGATAATACTCTAAAAAAGCTTTTCACAATATTAGCCACAAAGG
1 CTTTCTAGATAATACGCCAAAAAAGCTTTTCACAAGATTAGCCACAAAGG
* * *
20667097 CTTTCTAGATAATACGCCACAAAGGCTTTTTACAAGATTAGCCACAAAGG
1 CTTTCTAGATAATACGCCAAAAAAGCTTTTCACAAGATTAGCCACAAAGG
20667147 CTTTCTA
1 CTTTCTA
20667154 AAGAATTCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (50 bp):
CTTTCTAGATAATACGCCAAAAAAGCTTTTCACAAGATTAGCCACAAAGG
Found at i:20670946 original size:27 final size:27
Alignment explanation
Indices: 20670915--20670973 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
20670905 GACAACATAA
*
20670915 ATAGTCCGACAGGACATTAAATATGGG
1 ATAGTCCGACAGGACATTAAACATGGG
** **
20670942 ATAGTTTGATGGGACATTAAACATGGG
1 ATAGTCCGACAGGACATTAAACATGGG
20670969 ATAGT
1 ATAGT
20670974 TTGACGAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (27 bp):
ATAGTCCGACAGGACATTAAACATGGG
Found at i:20670974 original size:27 final size:27
Alignment explanation
Indices: 20670926--20670977 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
20670916 TAGTCCGACA
*
20670926 GGACATTAAATATGGGATAGTTTGATG
1 GGACATTAAACATGGGATAGTTTGATG
20670953 GGACATTAAACATGGGATAGTTTGA
1 GGACATTAAACATGGGATAGTTTGA
20670978 CGAGACTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (27 bp):
GGACATTAAACATGGGATAGTTTGATG
Found at i:20672512 original size:45 final size:46
Alignment explanation
Indices: 20672458--20672555 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 46
20672448 AGCTCTGATG
* **
20672458 AGCTAAAACGATAAGCT-TTATCGAGCTG-AATAGTAAGCTCGTACA
1 AGCTGAAACGATAAGCTCCAAT-GAGCTGAAATAGTAAGCTCGTACA
* * *
20672503 AGCTGAAACGGTAAGCTCCAATGAGCTGAAAATAGTAAGCTCTTACG
1 AGCTGAAACGATAAGCTCCAATGAGCTG-AAATAGTAAGCTCGTACA
20672550 AGCTGA
1 AGCTGA
20672556 TATATCGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 21 0.48
46 2 0.05
47 21 0.48
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (46 bp):
AGCTGAAACGATAAGCTCCAATGAGCTGAAATAGTAAGCTCGTACA
Found at i:20673213 original size:21 final size:21
Alignment explanation
Indices: 20673174--20673213 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20673164 AAACTAGTAT
*
20673174 ATCTATCATTAAACCTTCATA
1 ATCTATCATTAAACATTCATA
*
20673195 ATCTATCATTAAATATTCA
1 ATCTATCATTAAACATTCA
20673214 AATACTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCTATCATTAAACATTCATA
Found at i:20676592 original size:14 final size:15
Alignment explanation
Indices: 20676573--20676604 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20676563 AACTCTTTTA
20676573 ATTCTGT-TGGAGCT
1 ATTCTGTATGGAGCT
20676587 ATTCTGTATGGAGCT
1 ATTCTGTATGGAGCT
20676602 ATT
1 ATT
20676605 GATATCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (15 bp):
ATTCTGTATGGAGCT
Found at i:20680165 original size:45 final size:45
Alignment explanation
Indices: 20680112--20680250 Score: 160
Period size: 45 Copynumber: 3.1 Consensus size: 45
20680102 CTTGAGCTGA
20680112 TGAACAGTAAGCTCTAATGAGCTAAAATGGTAAGCTCTAT-CGAGC
1 TGAACAGTAAGCTCTAATGAGCTAAAAT-GTAAGCTCTATACGAGC
*
20680157 TGAACAGTAAGCTCTATTGAGCTAAACA-GTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAATGAGCTAAA-ATGTAAGCTCTATACGAGC
* * * *
20680201 TGAAACGGTAAGCTCCAATGAGTTGAAAATAGTAAGATCT-TACGAGC
1 TG-AACAGTAAGCTCTAATGAGCT-AAAAT-GTAAGCTCTATACGAGC
20680248 TGA
1 TGA
20680251 TATATCGGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
43 2 0.02
44 15 0.19
45 43 0.53
46 5 0.06
47 16 0.20
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCTAATGAGCTAAAATGTAAGCTCTATACGAGC
Found at i:20680169 original size:22 final size:22
Alignment explanation
Indices: 20680112--20680215 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 22
20680102 CTTGAGCTGA
20680112 TGAACAGTAAGCTCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
*
20680134 T-AAAATGGTAAGCTCTATCGAGC
1 TGAACA--GTAAGCTCTATCGAGC
*
20680157 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
*
20680179 TAAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
*
20680201 TGAAACGGTAAGCTC
1 TG-AACAGTAAGCTC
20680216 CAATGAGTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.07
22 36 0.52
23 25 0.36
24 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:20680211 original size:23 final size:22
Alignment explanation
Indices: 20680105--20680275 Score: 103
Period size: 23 Copynumber: 7.3 Consensus size: 22
20680095 AGCTTCTCTT
*
20680105 GAGCTGATGAACAGTAAGCTCTAAT
1 GAGCTGA--AACAGTAAGCTCT-AC
* **
20680130 GAGCTAAAATGGTAAGCTCTATC
1 GAGCTGAAACAGTAAGCTCTA-C
*
20680153 GAGCTG-AACAGTAAGCTCTATT
1 GAGCTGAAACAGTAAGCTCTA-C
20680175 GAGCT-AAACAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTC-TAC
* * *
20680197 GAGCTGAAACGGTAAGCTCCAAT
1 GAGCTGAAACAGTAAGCT-CTAC
* * *
20680220 GAGTTGAAAATAGTAAGATCTTAC
1 GAGCTG-AAACAGTAAGCTC-TAC
*
20680244 GAGCTGATATATCGGTAAGCTCTTAC
1 GAGCTGA-A-A-CAGTAAGCTC-TAC
20680270 GAGCTG
1 GAGCTG
20680276 TGGTGAGTCT
Statistics
Matches: 114, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
22 36 0.32
23 37 0.32
24 17 0.15
25 7 0.06
26 17 0.15
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (22 bp):
GAGCTGAAACAGTAAGCTCTAC
Found at i:20688467 original size:49 final size:47
Alignment explanation
Indices: 20688388--20689370 Score: 1705
Period size: 47 Copynumber: 20.6 Consensus size: 47
20688378 TATTTGAATA
*
20688388 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
20688435 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688484 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
20688533 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688582 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
20688631 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688680 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
20688729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688776 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688825 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688874 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688921 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20688968 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689015 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689062 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689109 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689156 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689203 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
20689250 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
20689297 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
20689344 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
20689371 TCCCGAAGGG
Statistics
Matches: 915, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 533 0.58
49 382 0.42
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:20689545 original size:37 final size:37
Alignment explanation
Indices: 20689489--20689567 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20689479 CCGAGCTCTA
* * *
20689489 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20689526 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20689563 AAGAC
1 AAGAC
20689568 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20694120 original size:24 final size:24
Alignment explanation
Indices: 20694093--20694139 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
20694083 CTGAAAAGAG
*
20694093 AGATAGTCAAGTTCATTGCAAAAC
1 AGATAGTCAAGTCCATTGCAAAAC
20694117 AGATAGTCAAGTCCATTGCAAAA
1 AGATAGTCAAGTCCATTGCAAAA
20694140 TGCTTGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (24 bp):
AGATAGTCAAGTCCATTGCAAAAC
Found at i:20698721 original size:42 final size:42
Alignment explanation
Indices: 20698650--20698733 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
20698640 ATGTTGTCAA
*
20698650 ATATCGATGCCACTGTCCCAAACAGGGTCTTACGCG-AAATC
1 ATATCGATGCCACTGTCCCAAACAGGGTCTTACACGTAAATC
* * *
20698691 ATATACGATGCCGA-TGTCCTAGACATGGTCTTACACGTAAATC
1 ATAT-CGATGCC-ACTGTCCCAAACAGGGTCTTACACGTAAATC
20698734 TCAAATTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 26 0.72
43 6 0.17
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCACTGTCCCAAACAGGGTCTTACACGTAAATC
Found at i:20700144 original size:25 final size:25
Alignment explanation
Indices: 20700087--20700170 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
20700077 ACGTTGCAAC
20700087 CTACAGCTCATGAGAGCATATCGAT
1 CTACAGCTCATGAGAGCATATCGAT
* * * *
20700112 TTATAGCTCCTGGGAGCATA-CTGAT
1 CTACAGCTCATGAGAGCATATC-GAT
* *
20700137 CTACAGCTCGA-GTGAGCATACCGAT
1 CTACAGCTC-ATGAGAGCATATCGAT
20700162 -TCACAGCTC
1 CT-ACAGCTC
20700171 TTATGAGCGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 44 0.94
26 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (25 bp):
CTACAGCTCATGAGAGCATATCGAT
Found at i:20701757 original size:38 final size:39
Alignment explanation
Indices: 20701714--20701840 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 39
20701704 TTAACACGTA
20701714 TAACCGTGGCATATCCACTTAGCACCACGTTATATGT-T
1 TAACCGTGGCATATCCACTTAGCACCACGTTATATGTAT
*
20701752 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATTGATATAT
1 TAACCGTGGCATATCCACTTAGCACCACGTT-AT--A-TG---TAT
* *
20701798 GTAACCGTGACATATCCACTTAGCACCACGTTACATGTAT
1 -TAACCGTGGCATATCCACTTAGCACCACGTTATATGTAT
20701838 TAA
1 TAA
20701841 TATGGGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
38 30 0.39
39 5 0.07
40 3 0.04
41 1 0.01
42 2 0.03
43 2 0.03
44 1 0.01
45 1 0.01
46 2 0.03
47 29 0.38
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (39 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTATATGTAT
Found at i:20701877 original size:48 final size:48
Alignment explanation
Indices: 20701752--20701885 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
20701742 GTTATATGTT
* * *
20701752 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATTGATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATTAATATAGG
** *
20701799 TAACCGTGACATATCCACTTAGCACCACGTTACATGTATTAATATGGG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATTAATATAGG
* *
20701847 TAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
20701886 AACCATGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 30 0.39
48 46 0.61
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATTAATATAGG
Found at i:20703791 original size:30 final size:30
Alignment explanation
Indices: 20703756--20703812 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20703746 GAAAATTGAG
*
20703756 TAAAGAAATTCAAG-ATAGAGAAACCCAGAA
1 TAAAGAAA-TCAAGAATAAAGAAACCCAGAA
*
20703786 TAAAGAAATCCAGAATAAAGAAACCCA
1 TAAAGAAATCAAGAATAAAGAAACCCA
20703813 AGATACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (30 bp):
TAAAGAAATCAAGAATAAAGAAACCCAGAA
Found at i:20703792 original size:15 final size:15
Alignment explanation
Indices: 20703774--20703812 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
20703764 TTCAAGATAG
20703774 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
20703789 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
20703804 AGAAACCCA
1 AGAAACCCA
20703813 AGATACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:20703854 original size:26 final size:26
Alignment explanation
Indices: 20703825--20703878 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
20703815 ATACAATACT
20703825 ATGTCGGAAGATC-AAATACCAAACTC
1 ATGTCGGAAGATCGAAA-ACCAAACTC
20703851 ATGTCGGAAGATCGAAAACCAAACTC
1 ATGTCGGAAGATCGAAAACCAAACTC
20703877 AT
1 AT
20703879 AGGAAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (26 bp):
ATGTCGGAAGATCGAAAACCAAACTC
Found at i:20706889 original size:48 final size:48
Alignment explanation
Indices: 20706769--20706907 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
20706759 TCAAATTAAC
* **
20706769 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATTGAT
1 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
20706816 ATATGTAACCGTGGCATATCCACTTAGAACCACGTTACATGTATCAAT
1 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
20706864 ATGTATAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTAT
20706908 AACCATGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 34 0.43
48 45 0.57
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (48 bp):
ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:20707265 original size:13 final size:13
Alignment explanation
Indices: 20707247--20707274 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20707237 AAGTACTTAG
20707247 TACCTTTGTGAAC
1 TACCTTTGTGAAC
20707260 TACCTTTGTGAAC
1 TACCTTTGTGAAC
20707273 TA
1 TA
20707275 GAACACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (13 bp):
TACCTTTGTGAAC
Found at i:20708057 original size:20 final size:20
Alignment explanation
Indices: 20708011--20708057 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
20708001 ATTTAAAGAT
*
20708011 AGAAAATGCAATGGAAAGTA
1 AGAAAATGCAATGGAAAATA
20708031 ATG-AAATGCAAAT-GAAAATA
1 A-GAAAATGC-AATGGAAAATA
20708051 AGAAAAT
1 AGAAAAT
20708058 TTGAAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (20 bp):
AGAAAATGCAATGGAAAATA
Found at i:20714181 original size:20 final size:20
Alignment explanation
Indices: 20714143--20714191 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
20714133 TAATTTAAAG
20714143 ATAAT-AAATGCAATGGAAA
1 ATAATAAAATGCAATGGAAA
*
20714162 CTAATAAAATGCAAAT-GAAA
1 ATAATAAAATGC-AATGGAAA
*
20714182 ATAAGAAAAT
1 ATAATAAAAT
20714192 TTGAAAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 3 0.12
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.20
Consensus pattern (20 bp):
ATAATAAAATGCAATGGAAA
Found at i:20714616 original size:20 final size:20
Alignment explanation
Indices: 20714584--20714622 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20714574 GACATATAGT
*
20714584 TTGGCTTGTATTATGGTATC
1 TTGGCTTGTATTATAGTATC
20714604 TTGG-TTGTGATTATAGTAT
1 TTGGCTTGT-ATTATAGTAT
20714623 TTTGAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTATTATAGTATC
Found at i:20715812 original size:22 final size:22
Alignment explanation
Indices: 20715787--20715833 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
20715777 AAATGAAAGA
20715787 TATGTGTTGGGTTAGTATATTT
1 TATGTGTTGGGTTAGTATATTT
20715809 TATGTGTTGGGTTAGTATATTT
1 TATGTGTTGGGTTAGTATATTT
20715831 TAT
1 TAT
20715834 CTTTGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (22 bp):
TATGTGTTGGGTTAGTATATTT
Found at i:20716021 original size:8 final size:8
Alignment explanation
Indices: 20716008--20716032 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20715998 ATTAAGGACT
20716008 AAAATGTG
1 AAAATGTG
20716016 AAAATGTG
1 AAAATGTG
20716024 AAAATGTG
1 AAAATGTG
20716032 A
1 A
20716033 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:20716507 original size:42 final size:43
Alignment explanation
Indices: 20716450--20716552 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 43
20716440 TATGATTTAT
* * *
20716450 GTGTAAGACCATGTCTGGCACA-TCGGCATCG-TATTTGATTTC
1 GTGTAAGACCCTGTCTGGCACAGT-GGCATCGATATTCGATTAC
* *
20716492 GTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTCGATTAC
1 GTGTAAGACCCTGTCTGGCACAGTGGCATCGATATTCGATTAC
*
20716535 ATGTAAGACCAC-GTCTGG
1 GTGTAAGACC-CTGTCTGG
20716553 GACGTTGGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
42 26 0.50
43 25 0.48
44 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGCACAGTGGCATCGATATTCGATTAC
Found at i:20716562 original size:43 final size:43
Alignment explanation
Indices: 20716405--20716563 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
20716395 TATGTGTTTT
*
20716405 CGTGTAAGACCACATCTGGGACGTTGGCATC-A-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATA-TT-TGA-TTA
* * * * * *
20716449 TGTGTAAGACCATGTCTGGCACATCGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* *
20716491 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTCGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTA
*
20716534 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
20716564 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:20718150 original size:42 final size:42
Alignment explanation
Indices: 20718091--20718190 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
20718081 GTCAGGCTGT
*
20718091 TACACAGCCTT-GCACACGGGCGTGTAAGGTTACTTTGAAGGG
1 TACACAG-CTTGGCACACGGACGTGTAAGGTTACTTTGAAGGG
*
20718133 TACACAGCTTGGCACACGGACGTGTGAGGTTACTTTGAAGGG
1 TACACAGCTTGGCACACGGACGTGTAAGGTTACTTTGAAGGG
* * *
20718175 TAAACGGCCTGGCACA
1 TACACAGCTTGGCACA
20718191 TGCTCGTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 3 0.06
42 49 0.94
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (42 bp):
TACACAGCTTGGCACACGGACGTGTAAGGTTACTTTGAAGGG
Found at i:20727425 original size:40 final size:40
Alignment explanation
Indices: 20727325--20727589 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
20727315 GCTCCTCGTT
* * * *
20727325 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
20727365 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20727404 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20727444 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
20727484 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
20727524 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20727565 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20727590 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20727549 original size:80 final size:80
Alignment explanation
Indices: 20727292--20727589 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
20727282 AAATCACGTA
* ** * * *
20727292 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
20727354 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
20727370 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
20727433 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
20727450 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
20727514 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
20727530 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
20727590 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:20727598 original size:41 final size:41
Alignment explanation
Indices: 20727521--20727598 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20727511 TTTGTATCTC
* * *
20727521 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20727562 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20727599 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20730996 original size:25 final size:25
Alignment explanation
Indices: 20730962--20731056 Score: 118
Period size: 25 Copynumber: 3.7 Consensus size: 25
20730952 ATTTACATAG
20730962 ATGCTCACACGAGCTGTGAATATGT
1 ATGCTCACACGAGCTGTGAATATGT
* *
20730987 ATGCTCACACGAACTGTGAATAAGT
1 ATGCTCACACGAGCTGTGAATATGT
* *
20731012 ATGCTCACATGAGCTGTGAAAATTGGT
1 ATGCTCACACGAGCTGTGAATA-T-GT
* *
20731039 CTGCTCACACAAGCTGTG
1 ATGCTCACACGAGCTGTG
20731057 GGTCAGAACG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 42 0.71
27 17 0.29
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATATGT
Found at i:20735942 original size:26 final size:26
Alignment explanation
Indices: 20735913--20735967 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
20735903 AATTTTATGT
20735913 ATGTTTGAAAATCCGATTCAGTTGTG
1 ATGTTTGAAAATCCGATTCAGTTGTG
*
20735939 ATGTTTGAAAATCTGATTCAGTTGTG
1 ATGTTTGAAAATCCGATTCAGTTGTG
20735965 ATG
1 ATG
20735968 CTGTACCCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (26 bp):
ATGTTTGAAAATCCGATTCAGTTGTG
Found at i:20741584 original size:49 final size:47
Alignment explanation
Indices: 20741495--20741601 Score: 160
Period size: 49 Copynumber: 2.2 Consensus size: 47
20741485 CTGGAGGCCT
* *
20741495 AGCCTCTTTTAATAACTGGGGCAAAACCCTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTGATAACTAGGGCAAAACCCTTTTGATAAACTGGGGCAA
*
20741543 AGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
1 AGCCCTTTTGAT-AACTAGGGCAAAACCCTTTT-GATAAACTGGGGCAA
20741592 AGCCCTTTTG
1 AGCCCTTTTG
20741602 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
47 7 0.13
48 22 0.41
49 25 0.46
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AGCCCTTTTGATAACTAGGGCAAAACCCTTTTGATAAACTGGGGCAA
Found at i:20741589 original size:25 final size:24
Alignment explanation
Indices: 20741495--20741601 Score: 162
Period size: 24 Copynumber: 4.4 Consensus size: 24
20741485 CTGGAGGCCT
*
20741495 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
20741519 AACCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
20741543 AGCCCTTTTGATAAACTAGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
20741567 AGCCCTTTTCGATAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
20741592 AGCCCTTTTG
1 AGCCCTTTTG
20741602 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 7 0.09
24 46 0.61
25 23 0.30
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:20741659 original size:10 final size:10
Alignment explanation
Indices: 20741646--20741684 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
20741636 ATATATGAAT
*
20741646 ATATAATGGC
1 ATATCATGGC
20741656 ATATCATGTGC
1 ATATCATG-GC
20741667 ATATCATGGC
1 ATATCATGGC
20741677 ATATCATG
1 ATATCATG
20741685 TATAAAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:20741675 original size:21 final size:21
Alignment explanation
Indices: 20741646--20741685 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20741636 ATATATGAAT
20741646 ATATAATGGCATATCATGTGC
1 ATATAATGGCATATCATGTGC
*
20741667 ATATCATGGCATATCATGT
1 ATATAATGGCATATCATGT
20741686 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATAATGGCATATCATGTGC
Found at i:20741752 original size:25 final size:25
Alignment explanation
Indices: 20741724--20741774 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20741714 ATAACATATC
* *
20741724 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20741749 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20741774 C
1 C
20741775 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:20742562 original size:25 final size:24
Alignment explanation
Indices: 20742484--20742574 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
20742474 TTTTAATAAT
*
20742484 TGGGGCAAAACCCTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTGATAAAC
20742508 TGGGGCAAAGCCCTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTGATAAAC
*
20742532 TAGGGCAAAGCCCTTTTCGATAAAC
1 TGGGGCAAAGCCCTTTT-GATAAAC
20742557 TGGGGCAAAGCCCTTTTG
1 TGGGGCAAAGCCCTTTTG
20742575 CACTTCCTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 40 0.63
25 23 0.37
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
TGGGGCAAAGCCCTTTTGATAAAC
Found at i:20742632 original size:10 final size:10
Alignment explanation
Indices: 20742619--20742657 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
20742609 ATATATGAAT
*
20742619 ATATAATGGC
1 ATATCATGGC
20742629 ATATCATGTGC
1 ATATCATG-GC
20742640 ATATCATGGC
1 ATATCATGGC
20742650 ATATCATG
1 ATATCATG
20742658 TATAAAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:20742648 original size:21 final size:21
Alignment explanation
Indices: 20742619--20742658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20742609 ATATATGAAT
20742619 ATATAATGGCATATCATGTGC
1 ATATAATGGCATATCATGTGC
*
20742640 ATATCATGGCATATCATGT
1 ATATAATGGCATATCATGT
20742659 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATAATGGCATATCATGTGC
Found at i:20742725 original size:25 final size:25
Alignment explanation
Indices: 20742697--20742747 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20742687 ATAACATATC
* *
20742697 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20742722 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20742747 C
1 C
20742748 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:20742977 original size:973 final size:972
Alignment explanation
Indices: 20741080--20743022 Score: 3590
Period size: 973 Copynumber: 2.0 Consensus size: 972
20741070 GGCTCCAAGT
20741080 TCCCACATCAAGGCTCACCTGCAAGGTTAAGGAAGGGGGTGAGTTTGGAAACTCAATATGCAACA
1 TCCCACATCAAGGCTCACCTGCAAGGTTAAGGAAGGGGGTGAGTTTGGAAACTCAATATGCAACA
20741145 AGCCCCCTTTAGAGCCCAAACCAATATCAGCATATTGGGCCTAAGCCCAAAATCAGTCTCAACAT
66 AGCCCCCTTTAGAGCCCAAACCAATATCAGCATATTGGGCCTAAGCCCAAAATCAGTCTCAACAT
20741210 ATACTGGGCCGAAGCCTTTTGTTAAACGGTTACTGGGCCGAAGCCTTTTCATAATTCATATCACT
131 ATACTGGGCCGAAGCCTTTTGTTAAACGGTTACTGGGCCGAAGCCTTTTCATAATTCATATCACT
20741275 AGGCCGAAGCCTTTATGTAAACAGTATGGCCCATAGGCCCATTTCAATAACACATGCAATATCAA
196 AGGCCGAAGCCTTTATGTAAACAGTATGGCCCATAGGCCCATTTCAATAACACATGCAATATCAA
20741340 TGAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACTATCCGCTACTCTCCACCCGTACC
261 TGAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACTATCCGCTACTCTCCACCCGTACC
* * ** *
20741405 AACCAACACACCATGTGGGGATTAACTCGACCCACCCCGCCATAACTTTCCACTGGCAGCATAGC
326 AACCAACACACCATGTGGGGAGTAACTCAACCCACCCAACCATAACTCTCCACTGGCAGCATAGC
20741470 TGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAACCCTTTTGATAAAC
391 TGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAACCCTTTTGATAAAC
20741535 TGGGGCAAAGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTT
456 TGGGGCAAAGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTT
20741600 TGCACTTCCTCCATTCATATAAAACCCAACCCATGCATATATGAATATATAATGGCATATCATGT
521 TGCACTTCCTCCATTCATATAAAACCCAACCCATGCATATATGAATATATAATGGCATATCATGT
20741665 GCATATCATGGCATATCATGTATAAAACAGTATCAAATGCATCTTAATTATAACATATCCCTAGG
586 GCATATCATGGCATATCATGTATAAAACAGTATCAAATGCATCTTAATTATAACATATCCCTAGG
20741730 GGTATAATGGTCATTTTCACCTAGGGGCAAAATGGTCATTTTCACATTATAAGGGTAATTTCATT
651 GGTATAATGGTCATTTTCACCTAGGGGCAAAATGGTCATTTTCACATTATAAGGGTAATTTCATT
*
20741795 ATTTTATCAATTTTTAGGGTTTTCCATGCTCATTACCAATTATCAACAATTTCAAGTGTTTAGCA
716 ATTTTATCAATTTTTAGGGTTTTCCATGCTCATTACAAATTATCAACAATTTCAAGTGTTTAGCA
20741860 GCGATTCTAGCCCCATTCTAGCAAAACCGAGTCATTGGGCCAAAACCCCTAATGGGCCTTACATA
781 GCGATTCTAGCCCCATTCTAGCAAAACCGAGTCATTGGGCCAAAACCCCTAATGGGCCTTACATA
* * *
20741925 GCCAATCTAGTCCTCTAGGCCCATTTAGCCTATACTCCATAACAGTATTAACTGTCTTAACGCGC
846 GCCAACCTAGTCATCTAGGCCCATTTAGCCTATACTCCATAACAGTATTAACTGTCTTAACGCGA
* * *
20741990 AATTTAATAGGATTCCATTTTCTACCAAATTTAACCAAATGGGCCCGGAAGCCCATTGGGCCC
911 AATTTAATAGGATTCCATTTTCTACC-AACTTAACCAAATAGGCCCGAAAGCCCATTGGGCCC
20742053 TCCCACATCAAGGCTCACCTGCAAGGTTAAGGAAGGGGGTGAGTTTGGAAACTCAATATGCAACA
1 TCCCACATCAAGGCTCACCTGCAAGGTTAAGGAAGGGGGTGAGTTTGGAAACTCAATATGCAACA
20742118 AGCCCCCTTTAGAGCCCAAACCAATATCAGCATATTGGGCCTAAGCCCAAAATCAGTCTCAACAT
66 AGCCCCCTTTAGAGCCCAAACCAATATCAGCATATTGGGCCTAAGCCCAAAATCAGTCTCAACAT
20742183 ATACTGGGCCGAAGCCTTTTGTTAAACGGTTACTGGGCCGAAGCCTTTTCATAATTCATATCACT
131 ATACTGGGCCGAAGCCTTTTGTTAAACGGTTACTGGGCCGAAGCCTTTTCATAATTCATATCACT
20742248 AGGCCGAAGCCTTTATGTAAACAGTATGGCCCATAGGCCCATTTCAATAACACATGCAATATCAA
196 AGGCCGAAGCCTTTATGTAAACAGTATGGCCCATAGGCCCATTTCAATAACACATGCAATATCAA
20742313 TGAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACTATCCGCTACTCTCCACCCGTACC
261 TGAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACTATCCGCTACTCTCCACCCGTACC
* *
20742378 AACCAAGCTCTCCATGTGGGGAGTAACTCAACCCACCCAACCA-AACTCTCCACTGGCAGCATAG
326 AACCAA-CACACCATGTGGGGAGTAACTCAACCCACCCAACCATAACTCTCCACTGGCAGCATAG
*
20742442 CTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAATTGGGGCAAAACCCTTTTGATAAA
390 CTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAACCCTTTTGATAAA
20742507 CTGGGGCAAAGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTT
455 CTGGGGCAAAGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTT
20742572 TTGCACTTCCTCCATTCATATAAAACCCAACCCATGCATATATGAATATATAATGGCATATCATG
520 TTGCACTTCCTCCATTCATATAAAACCCAACCCATGCATATATGAATATATAATGGCATATCATG
20742637 TGCATATCATGGCATATCATGTATAAAACAGTATCAAATGCATCTTAATTATAACATATCCCTAG
585 TGCATATCATGGCATATCATGTATAAAACAGTATCAAATGCATCTTAATTATAACATATCCCTAG
20742702 GGGTATAATGGTCATTTTCACCTAGGGGCAAAATGGTCATTTTCACATTATAAGGGTAATTTCAT
650 GGGTATAATGGTCATTTTCACCTAGGGGCAAAATGGTCATTTTCACATTATAAGGGTAATTTCAT
20742767 TATTTTATCAA-TTTTAGGGTTTTCCATGCTCATTACAAATTATCAACAATTTCAAGTGTTTAGC
715 TATTTTATCAATTTTTAGGGTTTTCCATGCTCATTACAAATTATCAACAATTTCAAGTGTTTAGC
* *
20742831 AGCGATTCTAG-CCCATTCTTAGCAAAACTGAGTTATTGGGCCAAAAACCCCTAATGGGCCTTAC
780 AGCGATTCTAGCCCCATTC-TAGCAAAACCGAGTCATTGGGCC-AAAACCCCTAATGGGCCTTAC
* * * *
20742895 TTAGCCGACCTAGTCATCTAGGCCCATTTAGCCTATA-TACCATAACGGTATTAACTGTCTTAAT
843 ATAGCCAACCTAGTCATCTAGGCCCATTTAGCCTATACT-CCATAACAGTATTAACTGTCTTAAC
* *
20742959 GTGAAATTT-ATCAGGATTCCATTTTCTACCAACTTACCCAAATAGGCCCGAAAGCCCATTGGGC
907 GCGAAATTTAAT-AGGATTCCATTTTCTACCAACTTAACCAAATAGGCCCGAAAGCCCATTGGGC
20743023 TCGATTTCAT
Statistics
Matches: 942, Mismatches: 23, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
971 7 0.01
972 117 0.12
973 788 0.84
974 30 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (972 bp):
TCCCACATCAAGGCTCACCTGCAAGGTTAAGGAAGGGGGTGAGTTTGGAAACTCAATATGCAACA
AGCCCCCTTTAGAGCCCAAACCAATATCAGCATATTGGGCCTAAGCCCAAAATCAGTCTCAACAT
ATACTGGGCCGAAGCCTTTTGTTAAACGGTTACTGGGCCGAAGCCTTTTCATAATTCATATCACT
AGGCCGAAGCCTTTATGTAAACAGTATGGCCCATAGGCCCATTTCAATAACACATGCAATATCAA
TGAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACTATCCGCTACTCTCCACCCGTACC
AACCAACACACCATGTGGGGAGTAACTCAACCCACCCAACCATAACTCTCCACTGGCAGCATAGC
TGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAACCCTTTTGATAAAC
TGGGGCAAAGCCCTTTTGATAAACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTT
TGCACTTCCTCCATTCATATAAAACCCAACCCATGCATATATGAATATATAATGGCATATCATGT
GCATATCATGGCATATCATGTATAAAACAGTATCAAATGCATCTTAATTATAACATATCCCTAGG
GGTATAATGGTCATTTTCACCTAGGGGCAAAATGGTCATTTTCACATTATAAGGGTAATTTCATT
ATTTTATCAATTTTTAGGGTTTTCCATGCTCATTACAAATTATCAACAATTTCAAGTGTTTAGCA
GCGATTCTAGCCCCATTCTAGCAAAACCGAGTCATTGGGCCAAAACCCCTAATGGGCCTTACATA
GCCAACCTAGTCATCTAGGCCCATTTAGCCTATACTCCATAACAGTATTAACTGTCTTAACGCGA
AATTTAATAGGATTCCATTTTCTACCAACTTAACCAAATAGGCCCGAAAGCCCATTGGGCCC
Found at i:20750461 original size:24 final size:25
Alignment explanation
Indices: 20750434--20750503 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
20750424 CTCTGTTAAT
20750434 AACTGGGGCAAAGCCCTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTGAGTA
*
20750458 AACTGGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTGAGTA
20750483 AACTGGGGCAAAGCCCTTTTG
1 AACTGGGGCAAAGCCCTTTTG
20750504 CACTTCCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 21 0.49
25 22 0.51
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTGAGTA
Found at i:20750561 original size:10 final size:10
Alignment explanation
Indices: 20750548--20750582 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
20750538 ATATATGAAT
20750548 ATATCATGGC
1 ATATCATGGC
20750558 ATATCATGTGC
1 ATATCATG-GC
20750569 ATATCATGGC
1 ATATCATGGC
20750579 ATAT
1 ATAT
20750583 TATGTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:20750574 original size:21 final size:21
Alignment explanation
Indices: 20750548--20750587 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20750538 ATATATGAAT
20750548 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
20750569 ATATCATGGCATATTATGT
1 ATATCATGGCATATCATGT
20750588 ATAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:20750654 original size:25 final size:25
Alignment explanation
Indices: 20750626--20750676 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20750616 ATAATATATC
* *
20750626 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20750651 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
20750676 C
1 C
20750677 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:20761869 original size:12 final size:12
Alignment explanation
Indices: 20761839--20761868 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20761829 TTATTAAAAC
20761839 TACTTTTATTTT
1 TACTTTTATTTT
20761851 TACTTTTATTTT
1 TACTTTTATTTT
20761863 TA-TTTT
1 TACTTTT
20761869 TTAGCAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:20763843 original size:19 final size:19
Alignment explanation
Indices: 20763806--20763844 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20763796 AAAGCAGAAT
**
20763806 TCTTTCTTTTTCTTTTCTC
1 TCTTTCTTTTTCTCATCTC
20763825 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTTTTCTCATCTC
20763844 T
1 T
20763845 TCCTTCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTCTTTTTCTCATCTC
Found at i:20765215 original size:20 final size:21
Alignment explanation
Indices: 20765172--20765217 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
20765162 ACTGTTTTGT
20765172 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
20765192 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
20765211 TATGGGC
1 TATGGGC
20765218 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:20767723 original size:79 final size:82
Alignment explanation
Indices: 20767612--20767796 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20767602 GCTACTCGTT
* *
20767612 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20767675 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20767692 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20767755 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20767772 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20767797 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20767796 original size:40 final size:40
Alignment explanation
Indices: 20767593--20767796 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20767583 CGGAATTTAA
** *
20767593 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20767633 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20767673 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20767712 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20767752 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20767792 CCGGA
1 CCGGA
20767797 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20780059 original size:19 final size:19
Alignment explanation
Indices: 20780028--20780066 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20780018 AAAGCCGAAT
*
20780028 TCTTTTTTCTTCTTTTCTC
1 TCTTTTTTCTTCTTATCTC
20780047 TCTTTCTTT-TTCTTATCTC
1 TCTTT-TTTCTTCTTATCTC
20780066 T
1 T
20780067 TCCTCCCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTTTTCTTCTTATCTC
Found at i:20798531 original size:46 final size:46
Alignment explanation
Indices: 20798479--20798654 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
20798469 TATTTGGGCA
20798479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
20798525 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
20798572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* ** *
20798618 -CCCAAGCTTATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20798655 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 5 0.05
46 64 0.60
47 36 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:20798585 original size:93 final size:93
Alignment explanation
Indices: 20798475--20798647 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
20798465 CGGATATTTG
* *
20798475 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGA
20798539 GTTGAGTCCGAGTTCGTGAAATGTAACTA
65 GTTGAGTCCGAGTTCGTGAAATGTAACTA
*
20798568 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTTATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCATTGAG
20798633 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
20798648 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:20800058 original size:27 final size:27
Alignment explanation
Indices: 20800028--20800232 Score: 209
Period size: 27 Copynumber: 7.6 Consensus size: 27
20800018 TAATAAAGAG
*
20800028 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* *
20800055 AAATTA-TCGAAATACCCTCGATTT-TG
1 AAATTACT-GAAATACCCTTGATTTGTA
* **
20800081 AAATTACTGAAATATCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
** ** *
20800108 AAATTACCAAAATACCCCCGATTTGTG
1 AAATTACTGAAATACCCTTGATTTGTA
*
20800135 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* *
20800162 AAATTATTGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* *
20800189 AAATTACTGAAATA-CCTTCAATTTGTG
1 AAATTACTGAAATACCCTT-GATTTGTA
* *
20800216 AAATTACCGAAACACCC
1 AAATTACTGAAATACCC
20800233 CCTGTAACAC
Statistics
Matches: 148, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 25 0.17
27 121 0.82
28 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTGTA
Found at i:20800161 original size:54 final size:54
Alignment explanation
Indices: 20800027--20800234 Score: 240
Period size: 54 Copynumber: 3.9 Consensus size: 54
20800017 ATAATAAAGA
* * * *
20800027 GAAATTACTAAAATACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTT-T
1 GAAATTACTGAAATACCCTTAATTTGTAAAATTACCGAAATACCCCCGATTTGT
* * *
20800080 GAAATTACTGAAATATCCTCAATTTGTAAAATTACCAAAATACCCCCGATTTGT
1 GAAATTACTGAAATACCCTTAATTTGTAAAATTACCGAAATACCCCCGATTTGT
* * ** ***
20800134 GAAATTACCGAAATACCCTTGATTTGTAAAATTATTGAAATACCTTTGATTTGT
1 GAAATTACTGAAATACCCTTAATTTGTAAAATTACCGAAATACCCCCGATTTGT
* * *
20800188 AAAATTACTGAAATA-CCTTCAATTTGTGAAATTACCGAAACACCCCC
1 GAAATTACTGAAATACCCTT-AATTTGTAAAATTACCGAAATACCCCC
20800235 TGTAACACCC
Statistics
Matches: 126, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 49 0.39
54 77 0.61
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
GAAATTACTGAAATACCCTTAATTTGTAAAATTACCGAAATACCCCCGATTTGT
Found at i:20800204 original size:81 final size:80
Alignment explanation
Indices: 20800028--20800232 Score: 259
Period size: 81 Copynumber: 2.5 Consensus size: 80
20800018 TAATAAAGAG
* * * *
20800028 AAATTACTAAAATACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTTGAAATTACTGAAA
1 AAATTACTAAAATACCCTCGATTTGTGAAATTACCGAAATACCCTCGATTTTAAAATTACTGAAA
20800093 TATCCTCAATTTGTA
66 TATCCTCAATTTGTA
* * * *
20800108 AAATTACCAAAATACCCCCGATTTGTGAAATTACCGAAATACCCTTGATTTGTAAAATTATTGAA
1 AAATTACTAAAATACCCTCGATTTGTGAAATTACCGAAATACCCTCGATTT-TAAAATTACTGAA
**
20800173 ATA-CCTTTGATTTGTA
65 ATATCC-TCAATTTGTA
* * * *
20800189 AAATTACTGAAATACCTTCAATTTGTGAAATTACCGAAACACCC
1 AAATTACTAAAATACCCTCGATTTGTGAAATTACCGAAATACCC
20800233 CCTGTAACAC
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 47 0.44
81 60 0.56
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (80 bp):
AAATTACTAAAATACCCTCGATTTGTGAAATTACCGAAATACCCTCGATTTTAAAATTACTGAAA
TATCCTCAATTTGTA
Found at i:20801677 original size:40 final size:40
Alignment explanation
Indices: 20801584--20801800 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
20801574 AAGCCAAGTA
* * *
20801584 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
20801622 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20801662 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20801702 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
20801742 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
20801782 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
20801801 TTATCATCCA
Statistics
Matches: 166, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 136 0.82
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:20811071 original size:27 final size:27
Alignment explanation
Indices: 20810982--20811073 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
20810972 ACCCCCGACT
* *
20810982 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
20811009 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* * *
20811036 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
20811063 GGTAAAATGAC
1 TGTAAAATGAC
20811074 TATTTTGCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:20811648 original size:27 final size:27
Alignment explanation
Indices: 20811558--20811651 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 27
20811548 TATTGTGATG
* ** *
20811558 TGGGCTTTGGCCCAACTGAGGCT-AAGA
1 TGGGCTTTGGCCCAAATGATTCTGTA-A
* * *
20811585 TGGGC-TAGGCCCAATTGATTCTGTTA
1 TGGGCTTTGGCCCAAATGATTCTGTAA
* *
20811611 TGCGCTGTGGCCCAAATGATAT-TGTAA
1 TGGGCTTTGGCCCAAATGAT-TCTGTAA
20811638 TGGGCTTTGGCCCA
1 TGGGCTTTGGCCCA
20811652 CGTATGCTCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
26 18 0.35
27 32 0.63
28 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (27 bp):
TGGGCTTTGGCCCAAATGATTCTGTAA
Found at i:20817407 original size:49 final size:52
Alignment explanation
Indices: 20817333--20817449 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 52
20817323 ACTTGTGACT
* *
20817333 CAAGTGTGCTACTATGTGAAGGCCAC-TT-TGAAAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTAAAGGCCACTTTCTGAAAAGAGATAGCTTTGGTCA
* * *
20817382 CTAGTGTGGTACTATGTAAAGGCCACTTTCTGAAGAGATATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTAAAGGCCACTTTCTGAAAAGAGATAGCTTTGGTCA
20817434 CAAGTGTGGTACTATG
1 CAAGTGTGGTACTATG
20817450 CGAAGGCGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 23 0.39
50 2 0.03
51 12 0.20
52 22 0.37
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTAAAGGCCACTTTCTGAAAAGAGATAGCTTTGGTCA
Found at i:20817456 original size:52 final size:50
Alignment explanation
Indices: 20817333--20817478 Score: 179
Period size: 52 Copynumber: 2.9 Consensus size: 50
20817323 ACTTGTGACT
* *
20817333 CAAGTGTGCTACTATGTGAAGGCCAC-TTTGAAAAGAGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAGAGATAGCTTGGTCA
* * *
20817382 CTAGTGTGGTACTATGTAAAGGCCACTTTCTGAAGAGATATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTT-TGAAGAGAGATAGC-TTGGTCA
* * *
20817434 CAAGTGTGGTACTATGCGAAGGCGACCTTTTGAAGA-AGGTAGCTT
1 CAAGTGTGGTACTATGTGAAGGCCA-CTTTTGAAGAGAGATAGCTT
20817479 TGACTACAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
49 23 0.28
50 4 0.05
51 17 0.21
52 34 0.41
53 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAGAGATAGCTTGGTCA
Found at i:20820548 original size:18 final size:21
Alignment explanation
Indices: 20820510--20820551 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
20820500 TCATTAAACT
20820510 ATATCAACAACTAATGCCAAC
1 ATATCAACAACTAATGCCAAC
20820531 ATATCAA-AA-TAA-GCCAAC
1 ATATCAACAACTAATGCCAAC
20820549 ATA
1 ATA
20820552 GAAGGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 2 0.10
21 7 0.33
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (21 bp):
ATATCAACAACTAATGCCAAC
Found at i:20825197 original size:18 final size:21
Alignment explanation
Indices: 20825159--20825200 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
20825149 TCATTAAACT
20825159 ATATCAACAACTAATGCCAAC
1 ATATCAACAACTAATGCCAAC
20825180 ATATCAA-AA-TAA-GCCAAC
1 ATATCAACAACTAATGCCAAC
20825198 ATA
1 ATA
20825201 GAAGGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 2 0.10
21 7 0.33
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (21 bp):
ATATCAACAACTAATGCCAAC
Found at i:20831883 original size:27 final size:26
Alignment explanation
Indices: 20831853--20831923 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
20831843 AGCATTTTTT
20831853 GCTAACTATGAAAAGAAAGCCTTTGTG
1 GCTAACTATG-AAAGAAAGCCTTTGTG
* *
20831880 GCTAACTGTGAAAGAAATTCCTTTGTG
1 GCTAACTATGAAAGAAA-GCCTTTGTG
* *
20831907 GCAAACCATGAAAGAAA
1 GCTAACTATGAAAGAAA
20831924 ATCCCTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 7 0.18
27 31 0.82
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (26 bp):
GCTAACTATGAAAGAAAGCCTTTGTG
Found at i:20832826 original size:52 final size:52
Alignment explanation
Indices: 20832748--20832847 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
20832738 TTAAAATCAT
* * *
20832748 ATTTTGAGTATAATCGTAATAATTTAGGTTTTCAAATTAGGAACCTTTTTGC
1 ATTTTGAGTATAACCATAATAATTTAGGTTTTCAAATTAGAAACCTTTTTGC
*
20832800 ATTTTGAGTATAACCATAATAATTTAGGTTTTTAAATTAGAAACCTTT
1 ATTTTGAGTATAACCATAATAATTTAGGTTTTCAAATTAGAAACCTTT
20832848 GTACCTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (52 bp):
ATTTTGAGTATAACCATAATAATTTAGGTTTTCAAATTAGAAACCTTTTTGC
Found at i:20835903 original size:28 final size:28
Alignment explanation
Indices: 20835793--20835904 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
20835783 GTGAGTAGCC
* * * *
20835793 CAAATATCAAAACTTGTGTGAGAAATTT
1 CAAATATCACAGCTCGTGTGAGAAAATT
*
20835821 CAAATATCATAGCTCGTGTGAGAAAATT
1 CAAATATCACAGCTCGTGTGAGAAAATT
* *
20835849 CAAATATCACAGCTCGTGTAAGCAAATT
1 CAAATATCACAGCTCGTGTGAGAAAATT
* * *
20835877 CAAAAATTACAGCTTGTGTGAGAAAATT
1 CAAATATCACAGCTCGTGTGAGAAAATT
20835905 AGTCTCGTGT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (28 bp):
CAAATATCACAGCTCGTGTGAGAAAATT
Found at i:20844762 original size:40 final size:40
Alignment explanation
Indices: 20844699--20844840 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
20844689 TATTCGGATG
*
20844699 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * * *
20844739 A-ATTCTGGGCTAAGCCCCAAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
20844779 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CT
* *
20844819 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
20844841 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 17 0.20
40 68 0.79
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:20851419 original size:39 final size:40
Alignment explanation
Indices: 20851374--20851558 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
20851364 GCTCCTCGTT
* * *
20851374 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
20851414 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
20851453 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
20851493 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
20851534 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
20851559 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:20851474 original size:40 final size:39
Alignment explanation
Indices: 20851341--20851558 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
20851331 AAATCACGTA
* * **
20851341 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
20851380 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
20851419 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
20851459 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
20851499 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
20851539 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
20851559 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:20860655 original size:40 final size:39
Alignment explanation
Indices: 20860557--20860819 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
20860547 TCCTCGTTCA
* * * *
20860557 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
20860596 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
20860635 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
20860675 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
20860715 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
20860755 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
20860796 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20860820 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:20860779 original size:120 final size:119
Alignment explanation
Indices: 20860557--20860819 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
20860547 TCCTCGTTCA
* * *
20860557 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
20860622 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
20860675 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
20860740 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
20860796 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20860820 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:20860828 original size:41 final size:41
Alignment explanation
Indices: 20860751--20860828 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20860741 TTTGTATCTC
* * *
20860751 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20860792 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20860829 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20871084 original size:67 final size:67
Alignment explanation
Indices: 20870995--20871127 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
20870985 CTAGCCAGTT
* * *
20870995 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGC-GACCTAGCTAC
1 TATCCCGTAGCTCTCTTGTCTACATGGTATCCTTCACCTGGAACCACGCAT-CTGACCTAGCTAC
20871059 ATA
65 ATA
*
20871062 TATCCCGTAGCTCTCTTGTCTACATGGTATTCTTCACCTGGAACCACGCATCTGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGTATCCTTCACCTGGAACCACGCATCTGACCTAGCTACA
20871127 T
66 T
20871128 CATAATGTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 1 0.02
67 60 0.98
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.32
Consensus pattern (67 bp):
TATCCCGTAGCTCTCTTGTCTACATGGTATCCTTCACCTGGAACCACGCATCTGACCTAGCTACA
TA
Found at i:20871895 original size:30 final size:30
Alignment explanation
Indices: 20871861--20871919 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
20871851 CTTAACTCAG
20871861 ACTTTGGAAAAATTACAATTTTGCCCCTAA
1 ACTTTGGAAAAATTACAATTTTGCCCCTAA
* * * * *
20871891 ACTTTTGCATATTTACACTTTTGCCCCTA
1 ACTTTGGAAAAATTACAATTTTGCCCCTA
20871920 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:20874428 original size:42 final size:42
Alignment explanation
Indices: 20874316--20874438 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
20874306 AAAAAGCTCG
* * * **
20874316 TACAATGCCAATGTCCCAGACATGGTTTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACATAATCAAA
*
20874358 TATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACATAATCAAA
1 TA-CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCAAA
*
20874401 TACAATGCCAACATCCCAGACGTGGTCTTACACGATAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACAC-ATAA
20874439 CACATATCGG
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 27 0.40
43 39 0.58
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACGTGGTCTTACACATAATCAAA
Found at i:20904284 original size:216 final size:216
Alignment explanation
Indices: 20903910--20904341 Score: 864
Period size: 216 Copynumber: 2.0 Consensus size: 216
20903900 CAAACTCACC
20903910 TCTTTCTCTTCTATCCTTGCGGGTGAGCCCTAGTTGGTGGACTTGGAGATGGGCGGGATTCAGAG
1 TCTTTCTCTTCTATCCTTGCGGGTGAGCCCTAGTTGGTGGACTTGGAGATGGGCGGGATTCAGAG
20903975 TGGCCACGAAGATTAATCTCTATTTTTTTTAAGGTTCGCATTTATTATTTTGACTATTTTTATTC
66 TGGCCACGAAGATTAATCTCTATTTTTTTTAAGGTTCGCATTTATTATTTTGACTATTTTTATTC
20904040 TGGTTTAAGTTGTAATAAGGCCGCTCTTCTTATTATTTTTATTATTTTGGGTTATTAAATTGGTT
131 TGGTTTAAGTTGTAATAAGGCCGCTCTTCTTATTATTTTTATTATTTTGGGTTATTAAATTGGTT
20904105 AGCTCTAGGGCGTGATTTATA
196 AGCTCTAGGGCGTGATTTATA
20904126 TCTTTCTCTTCTATCCTTGCGGGTGAGCCCTAGTTGGTGGACTTGGAGATGGGCGGGATTCAGAG
1 TCTTTCTCTTCTATCCTTGCGGGTGAGCCCTAGTTGGTGGACTTGGAGATGGGCGGGATTCAGAG
20904191 TGGCCACGAAGATTAATCTCTATTTTTTTTAAGGTTCGCATTTATTATTTTGACTATTTTTATTC
66 TGGCCACGAAGATTAATCTCTATTTTTTTTAAGGTTCGCATTTATTATTTTGACTATTTTTATTC
20904256 TGGTTTAAGTTGTAATAAGGCCGCTCTTCTTATTATTTTTATTATTTTGGGTTATTAAATTGGTT
131 TGGTTTAAGTTGTAATAAGGCCGCTCTTCTTATTATTTTTATTATTTTGGGTTATTAAATTGGTT
20904321 AGCTCTAGGGCGTGATTTATA
196 AGCTCTAGGGCGTGATTTATA
20904342 AAAGTTACTT
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 216 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (216 bp):
TCTTTCTCTTCTATCCTTGCGGGTGAGCCCTAGTTGGTGGACTTGGAGATGGGCGGGATTCAGAG
TGGCCACGAAGATTAATCTCTATTTTTTTTAAGGTTCGCATTTATTATTTTGACTATTTTTATTC
TGGTTTAAGTTGTAATAAGGCCGCTCTTCTTATTATTTTTATTATTTTGGGTTATTAAATTGGTT
AGCTCTAGGGCGTGATTTATA
Found at i:20911688 original size:18 final size:18
Alignment explanation
Indices: 20911667--20911702 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20911657 ATATTTTCAA
20911667 ATATAATTTAAATTTTTT
1 ATATAATTTAAATTTTTT
* *
20911685 ATATATTTTTAATTTTTT
1 ATATAATTTAAATTTTTT
20911703 TATTGTTTTG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATAATTTAAATTTTTT
Found at i:20914484 original size:21 final size:21
Alignment explanation
Indices: 20914460--20914502 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20914450 TACTAACACA
20914460 TTCTAATATATATTCTGCCAT
1 TTCTAATATATATTCTGCCAT
*
20914481 TTCTAATATATATTCTGGCAT
1 TTCTAATATATATTCTGCCAT
20914502 T
1 T
20914503 CTTACTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (21 bp):
TTCTAATATATATTCTGCCAT
Found at i:20919796 original size:46 final size:44
Alignment explanation
Indices: 20919695--20919911 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 44
20919685 GGTAAGGTGT
* *
20919695 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTC-ATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGAC--TCATCTCGA-GGC
* * *
20919743 CGGTGCATGTCCCAGACATGTCTTACACTGAATTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTG-ACT-CATCTCGAGGC
* * *
20919789 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCGATGT
1 CGATGCATGTCCCAGACATGTCTTACACT-G-ACTCATCTCGAGGC
* ** * * *
20919835 CGATGCCATATCTTAGACATGGTCTTACACTGGCTC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTCATC-T--CGAGGC
20919883 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
20919912 AGCTCACTAT
Statistics
Matches: 136, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 72 0.53
47 40 0.29
48 21 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTCATCTCGAGGC
Found at i:20923273 original size:46 final size:45
Alignment explanation
Indices: 20923134--20923285 Score: 130
Period size: 46 Copynumber: 3.3 Consensus size: 45
20923124 AGTCACTTGT
* * * *
20923134 ATGA-GCTAGTGTAAGACATGGCTGGGACATGCATCGGCCAC-ATT
1 ATGATGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-G
* * * * *
20923178 ATGAAAGCCAGTGTAAGACCATGTCTGGAACATGGCATC-AGCATTGAG
1 ATG-ATGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGA-CCTCGAG
*
20923226 ATGAGTGCTAGTGTAAGACATGTTTGGGACATGCATCGACCTCGAG
1 ATGA-TGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAG
20923272 ATGTATGCTAGTGT
1 ATG-ATGCTAGTGT
20923286 CTTATGTTTG
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
44 3 0.04
45 1 0.01
46 33 0.39
47 27 0.32
48 20 0.24
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
ATGATGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAG
Found at i:20936636 original size:44 final size:44
Alignment explanation
Indices: 20936571--20936657 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
20936561 TTGATATCTC
* *
20936571 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
20936615 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
20936658 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:20936881 original size:95 final size:92
Alignment explanation
Indices: 20936658--20936889 Score: 236
Period size: 95 Copynumber: 2.5 Consensus size: 92
20936648 GAATTGACGG
* * *
20936658 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGAC
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
*
20936723 CATGTCAAGACATGGCATCGGCATTGA
66 CATGTCAAGACATGGCATCGGCATAGA
** **
20936750 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGACAAGGATACCATGTA
*** * *
20936814 AGACCATGTTTGGAACATGGCATTTGGTA-AGA
62 AGACCATGTCAAG-ACATGGCA-TCGGCATAGA
* * * *
20936846 -TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
20936890 TTCTATAAGG
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
92 39 0.35
93 1 0.01
94 1 0.01
95 57 0.51
96 10 0.09
97 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (92 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
CATGTCAAGACATGGCATCGGCATAGA
Found at i:20936976 original size:55 final size:54
Alignment explanation
Indices: 20936847--20937040 Score: 257
Period size: 55 Copynumber: 3.6 Consensus size: 54
20936837 TTGGTAAGAT
* * *
20936847 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
20936901 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
20936956 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
20937009 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
20937041 ACAATGGTAA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 42 0.34
55 43 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:20940427 original size:41 final size:41
Alignment explanation
Indices: 20940370--20940448 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
20940360 CACAGGCTAG
* * *
20940370 GACACGGGCGTGTCATGGCCGTGTGAAGGACACGGGCCGGA
1 GACACGGGCATGTCATGGCCATGTAAAGGACACGGGCCGGA
20940411 GACACGGGCATGTCATGGCCATGTAAAGGACACGGGCC
1 GACACGGGCATGTCATGGCCATGTAAAGGACACGGGCC
20940449 ATGGACACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.39, T:0.13
Consensus pattern (41 bp):
GACACGGGCATGTCATGGCCATGTAAAGGACACGGGCCGGA
Found at i:20940456 original size:41 final size:40
Alignment explanation
Indices: 20940369--20940458 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 40
20940359 ACACAGGCTA
* * *
20940369 GGACACGGGCGTGTCATGGCCGTGTGAAGGACACGGGCCG
1 GGACACGGGCATGTCATGGCCATGTAAAGGACACGGGCCG
*
20940409 GAGACACGGGCATGTCATGGCCATGTAAAGGACACGGGCCAT
1 G-GACACGGGCATGTCATGGCCATGTAAAGGACACGGGCC-G
20940451 GGACACGG
1 GGACACGG
20940459 ACGTGTGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 42 0.95
42 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.40, T:0.12
Consensus pattern (40 bp):
GGACACGGGCATGTCATGGCCATGTAAAGGACACGGGCCG
Found at i:20942229 original size:47 final size:44
Alignment explanation
Indices: 20942157--20942414 Score: 193
Period size: 47 Copynumber: 5.6 Consensus size: 44
20942147 TGATTTGTGC
*
20942157 GCCAGTGTAAGACATGTCTGAGACATGCTTCGGCCACATTATGAT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TATGAT
* * * *
20942202 AGCCAGTGTAAGACCATGTCTGGGACATGGTATCGG-CATCCAGACGAGG
1 -GCCAGTGTAAGA-CATGTCTGGGACATGCT-TCGGCCA--CATATGA-T
* * *
20942251 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TATGA-T
* *
20942297 GCCAGTGTAAGACATGTCTGGGATATGCATT-GGCCTCGACAGA-GAT
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGG-C-C-ACATATGAT
* * * * *
20942343 AGCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGTTG-T
1 -GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATA--TGAT
*
20942388 GCTAGTGTAAGACATGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
20942415 GCATCGGCAA
Statistics
Matches: 171, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
43 3 0.02
44 25 0.15
45 2 0.01
46 50 0.29
47 67 0.39
48 20 0.12
49 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATATGAT
Found at i:20949745 original size:47 final size:47
Alignment explanation
Indices: 20949674--20949987 Score: 270
Period size: 47 Copynumber: 6.7 Consensus size: 47
20949664 GATTTGTGCA
* *
20949674 CCAGTGTAAGACATGTCTGAGACATGCTTCGGC-CACATTATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTCACATTATGATAG
* * ***
20949720 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-CA-GACGCGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCACATTATGATAG
* * * *
20949768 CTAGTGTAAGACATGTCTGGGACATGCTTCAGC-CATATTATGAGT-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTCACATTATGA-TAG
* * *
20949814 CCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGACA-GA-GGTAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-CTC-ACATTATGATAG
* * * * *
20949861 CCAGTGAAAGACATGTCTGGGACACGCATCGGCTAAGAGT-TG-T-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTCACATTATGATAG
* * * *
20949905 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACACATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTCACAT-TATGATAG
20949953 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
20949988 AATTTATCCC
Statistics
Matches: 210, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
44 33 0.16
45 5 0.02
46 54 0.26
47 59 0.28
48 33 0.16
49 18 0.09
50 8 0.04
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCTCACATTATGATAG
Found at i:20949945 original size:140 final size:139
Alignment explanation
Indices: 20949674--20949979 Score: 376
Period size: 140 Copynumber: 2.2 Consensus size: 139
20949664 GATTTGTGCA
* * *
20949674 CCAGTGTAAGACATGTCTGAGACATGCTTCGGCCACATTATGATAGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATGATGATAGCCAGTGAAAGACCATGTCT
* * *
20949739 GGGACATGGCATCGGCATCCAGACGCGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT
66 GGGACATCGCATCGGCATCAAGACGCGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT
*
20949804 ATTATGAGTG
131 A-TATGAGAG
*
20949814 CCAGTGTAAGACATGTCTGGGACATGCATT-GGCCTCGACA-GA-GGTAGCCAGTGAAAGA-CAT
1 CCAGTGTAAGACATGTCTGGGACATGC-TTCGG-C-C-ACATGATGATAGCCAGTGAAAGACCAT
* *
20949875 GTCTGGGACA-CGCATCGGC-T-AAGA-GTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCA
62 GTCTGGGACATCGCATCGGCATCAAGACG-CGGGCTAGTGTAAGACATGTCTGGGACATGCATCA
20949936 GCACACATATATGAGAG
126 G--C-CATATATGAGAG
20949953 CCAGTGTAAGACCATGTCTGGGACATG
1 CCAGTGTAAGA-CATGTCTGGGACATG
20949980 GCATCGGCAA
Statistics
Matches: 147, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
136 1 0.01
137 36 0.24
138 1 0.01
139 27 0.18
140 60 0.41
141 17 0.12
142 2 0.01
143 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (139 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATGATGATAGCCAGTGAAAGACCATGTCT
GGGACATCGCATCGGCATCAAGACGCGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT
ATATGAGAG
Found at i:20953767 original size:63 final size:63
Alignment explanation
Indices: 20953668--20953981 Score: 228
Period size: 67 Copynumber: 4.8 Consensus size: 63
20953658 ATATAGTTCG
* * * *
20953668 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACA-TTTATCCCGTA
* * **
20953731 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC-ACAT--T--TATCCC
20953796 GTA
61 GTA
* * * * * *
20953799 GCT-TCTTGTAC-ACATGCCT-T-CACCTGGAACCACGCAT-CTGACCTAGCTACATCTATCCCG
1 GCTCTCTTGT-CTACATG-GTGTACACATAGTACCACCCATGC-GACCTAGC-ACATTTATCCCG
20953859 TA
62 TA
* * * * * * *
20953861 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATCCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGC-ACATTTATCCCG
20953926 TA
62 TA
* *
20953928 GCTCTCTTGTCTAGATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC-ACAT
20953982 CATAATGTCT
Statistics
Matches: 206, Mismatches: 27, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
62 12 0.06
63 54 0.26
64 28 0.14
65 3 0.01
66 27 0.13
67 69 0.33
68 13 0.06
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACATTTATCCCGTA
Found at i:20953896 original size:67 final size:67
Alignment explanation
Indices: 20953815--20953948 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 67
20953805 TGTACACATG
* *
20953815 CCTTCACCTGGAACCACGCATCTGACCTAGCTACATCTATCCCGTAGCTCTCTTGTCTACATGGT
1 CCTTCACCTGGAACCACGCATCCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGT
20953880 GT
66 GT
* *
20953882 CCTTCACTTGGAACCACGCATCCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTAGATGGT
1 CCTTCACCTGGAACCACGCATCCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGT
20953947 GT
66 GT
20953949 ACACATAGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (67 bp):
CCTTCACCTGGAACCACGCATCCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGT
GT
Found at i:20954750 original size:30 final size:30
Alignment explanation
Indices: 20954716--20954776 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20954706 TCCTTAACTC
20954716 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
20954746 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
20954776 A
1 A
20954777 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:20960148 original size:47 final size:47
Alignment explanation
Indices: 20960079--20960200 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
20960069 GGTAAGGTGC
* *
20960079 CGATGCCATATCCCAGACATGGTCTTACACTGGTTCATATCTCAAGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGTTCATATCTCAAGT
*
20960126 CGATGCCATGTTCCAGACATGGTCTTACACTGGTTCATATCTCACGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGTTCATATCTCAAGT
* *
20960173 TGATGCCATG-TCTCGGACATGGTCTTAC
1 CGATGCCATGTTC-CAGACATGGTCTTAC
20960201 TGTCTCGTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 2 0.03
47 67 0.97
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGTTCATATCTCAAGT
Found at i:20960277 original size:85 final size:84
Alignment explanation
Indices: 20960126--20960284 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 84
20960116 TATCTCAAGT
* * *
20960126 CGATGCCATGTTCCAGACATGGTCTTACACTGGTTCATATCTCACGTTGATGCCATGTCTCGGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATCT-ACGATGATGCCATGTCTCAGAC
20960191 ATGGTCTTACTGTCTCGTAAG
65 AT-GTCTTACTGTCTCGTAAG
* *
20960212 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGATGATG-CATGTC-CTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-T-TCAT-ATCTACGATGATGCCATGTCTC-A
20960273 GACATGTCTTAC
62 GACATGTCTTAC
20960285 ACTAGCTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
84 8 0.12
85 37 0.58
86 12 0.19
87 4 0.06
88 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (84 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATATCTACGATGATGCCATGTCTCAGACA
TGTCTTACTGTCTCGTAAG
Found at i:20970170 original size:38 final size:39
Alignment explanation
Indices: 20970119--20970199 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
20970109 TCATGTCATT
*
20970119 ATTTTTTTTCTATTTT-TTATGTTTTGGTAAAATAATAA
1 ATTTTTTTTCTATTTTGTTATGTTTTGATAAAATAATAA
20970157 ATTTTTTTTCTATTTTGTTATGTTTTGATAAAATAATAA
1 ATTTTTTTTCTATTTTGTTATGTTTTGATAAAATAATAA
20970196 ATTT
1 ATTT
20970200 AACTCTCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 16 0.39
39 25 0.61
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (39 bp):
ATTTTTTTTCTATTTTGTTATGTTTTGATAAAATAATAA
Found at i:20975821 original size:49 final size:48
Alignment explanation
Indices: 20975673--20975846 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
20975663 TATTGGTGCC
* * *** *
20975673 GATGCCATGTTCCAGACATGGTCTTACACTAGTACACATATCATCCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAGCT
* *
20975721 GATGCCATGTCCCAGACATGGTCTTACACTAGCATACATATCAAAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAGCT
* * *
20975769 GATGCCTTGTCCTAGACATGGTCTTTACACTGGCACACATATCAAAGCT
1 GATGCCATGTCCCAGACATGGTC-TTACACTAGCACACATATCAAAGCT
20975818 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
20975847 GGGATCTCAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
48 67 0.61
49 43 0.39
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAGCT
Found at i:20988384 original size:24 final size:25
Alignment explanation
Indices: 20988343--20988400 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
20988333 AAGCTTCTCC
* *
20988343 TGAGCTGATAAATAGTAAGCTTTAT
1 TGAGCTGAAAAATAGTAAGCTCTAT
*
20988368 TGAGCT-AAAAATGGTAAGCTCTAT
1 TGAGCTGAAAAATAGTAAGCTCTAT
20988392 TGAGCTGAA
1 TGAGCTGAA
20988401 CAGTAAGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (25 bp):
TGAGCTGAAAAATAGTAAGCTCTAT
Done.