Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 75 of 250
Found at i:23683373 original size:20 final size:20
Alignment explanation
Indices: 23683310--23683384 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
23683300 TACACTTACA
* *
23683310 TGCCCCTGTTTGTACTTCAG
1 TGCCCCTGTTTGCACTTCGG
* * * *
23683330 TACCCCTGATTGCACATCGA
1 TGCCCCTGTTTGCACTTCGG
*
23683350 TGCCCCTGTTTGCACTTTGG
1 TGCCCCTGTTTGCACTTCGG
23683370 TGCCCCTGTTGTGCA
1 TGCCCCTGTT-TGCA
23683385 TCTATGATGC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 39 0.91
21 4 0.09
ACGTcount: A:0.12, C:0.32, G:0.21, T:0.35
Consensus pattern (20 bp):
TGCCCCTGTTTGCACTTCGG
Found at i:23691430 original size:21 final size:20
Alignment explanation
Indices: 23691406--23691444 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23691396 GAGTACTTCG
23691406 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
23691427 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
23691445 ATAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:23698755 original size:93 final size:93
Alignment explanation
Indices: 23698642--23698813 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23698632 CGCCCATAAG
* *
23698642 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
23698707 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
23698735 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
23698800 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23698814 TCAATCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23698810 original size:46 final size:46
Alignment explanation
Indices: 23698635--23698810 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
23698625 TGTAACCCGC
* * *
23698635 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
23698681 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23698731 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23698774 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23698811 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23701123 original size:27 final size:27
Alignment explanation
Indices: 23701105--23701225 Score: 129
Period size: 27 Copynumber: 4.5 Consensus size: 27
23701095 GTAAAGTTAT
*
23701105 CGAAATACCTTTGATTTGTGAAATTAC
1 CGAAATACCCTTGATTTGTGAAATTAC
* * *
23701132 CCAAATACCCTTAATTTTTGAAATTAC
1 CGAAATACCCTTGATTTGTGAAATTAC
* * *
23701159 CGAAATACCCCTGACTTGTAAAATTAC
1 CGAAATACCCTTGATTTGTGAAATTAC
* *
23701186 TGAAATACCCCT-AGTTTGT-ATAATTAC
1 CGAAATACCCTTGA-TTTGTGA-AATTAC
23701213 CGAAATACCCTTG
1 CGAAATACCCTTG
23701226 TAGTGTAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.03
27 75 0.97
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (27 bp):
CGAAATACCCTTGATTTGTGAAATTAC
Found at i:23701183 original size:54 final size:53
Alignment explanation
Indices: 23701105--23701239 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 53
23701095 GTAAAGTTAT
* * * *
23701105 CGAAATACCTTTGATTTGTGAAATTACCCAAATACCCTTAATTTTTGA-AATTAC
1 CGAAATACCCTTGA-TTGTAAAATTACCCAAATACCCCTAATTTGT-ATAATTAC
* ** *
23701159 CGAAATACCCCTGACTTGTAAAATTACTGAAATACCCCTAGTTTGTATAATTAC
1 CGAAATACCCTTGA-TTGTAAAATTACCCAAATACCCCTAATTTGTATAATTAC
*
23701213 CGAAATACCCTTGTAGTGTAAAATTAC
1 CGAAATACCCTTG-ATTGTAAAATTAC
23701240 AAAAATATTC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 66 0.97
55 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (53 bp):
CGAAATACCCTTGATTGTAAAATTACCCAAATACCCCTAATTTGTATAATTAC
Found at i:23701232 original size:27 final size:27
Alignment explanation
Indices: 23701093--23701239 Score: 113
Period size: 27 Copynumber: 5.4 Consensus size: 27
23701083 TACCCCTGGG
* * *
23701093 TTGTAAAGTTATCGAAATACCTTTG-A
1 TTGTAAAATTACCGAAATACCCTTGTA
* * *
23701119 TTTGTGAAATTACCCAAATACCCTT-AA
1 -TTGTAAAATTACCGAAATACCCTTGTA
* * *
23701146 TTTTTGAAATTACCGAAATACCCCTG-A
1 -TTGTAAAATTACCGAAATACCCTTGTA
* *
23701173 CTTGTAAAATTACTGAAATACCCCTAGT-
1 -TTGTAAAATTACCGAAATA-CCCTTGTA
*
23701201 TTGTATAATTACCGAAATACCCTTGTA
1 TTGTAAAATTACCGAAATACCCTTGTA
*
23701228 GTGTAAAATTAC
1 TTGTAAAATTAC
23701240 AAAAATATTC
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 6 0.06
27 86 0.90
28 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTTGTA
Found at i:23701245 original size:27 final size:27
Alignment explanation
Indices: 23701152--23701263 Score: 84
Period size: 27 Copynumber: 4.1 Consensus size: 27
23701142 TTAATTTTTG
* * *
23701152 AAATTACCGAAATACCCCTG-ACTTGTA
1 AAATTACAGAAATACCCTTGTA-GTGTA
* * *
23701179 AAATTACTGAAATACCCCTAGT-TTGTA
1 AAATTACAGAAATA-CCCTTGTAGTGTA
* *
23701206 TAATTACCGAAATACCCTTGTAGTGTA
1 AAATTACAGAAATACCCTTGTAGTGTA
* ** *
23701233 AAATTACAAAAATATTCTTGTAGGGTA
1 AAATTACAGAAATACCCTTGTAGTGTA
23701260 AAAT
1 AAAT
23701264 GACTATTTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.09
27 59 0.86
28 4 0.06
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGTAGTGTA
Found at i:23702760 original size:50 final size:50
Alignment explanation
Indices: 23702702--23702801 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
23702692 GTTTTCGAAA
23702702 AACACTTCAATGTGACATGTCAGATCGGGTTTGGGGTGTTACAAACTAAC
1 AACACTTCAATGTGACATGTCAGATCGGGTTTGGGGTGTTACAAACTAAC
23702752 AACACTTCAATGTGACATGTCAGATCGGGTTTGGGGTGTTACAAACTAAC
1 AACACTTCAATGTGACATGTCAGATCGGGTTTGGGGTGTTACAAACTAAC
23702802 TAATGCTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (50 bp):
AACACTTCAATGTGACATGTCAGATCGGGTTTGGGGTGTTACAAACTAAC
Found at i:23705453 original size:25 final size:25
Alignment explanation
Indices: 23705425--23705472 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23705415 TTATATTATG
* * *
23705425 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
23705450 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
23705473 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:23705614 original size:27 final size:26
Alignment explanation
Indices: 23705584--23705705 Score: 203
Period size: 26 Copynumber: 4.7 Consensus size: 26
23705574 GAGGAAGTGC
23705584 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
23705610 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
23705637 AAAAGGGCTGATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
23705663 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
23705688 AAAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAG
23705706 GTATTAAAGA
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 32 0.35
26 34 0.37
27 26 0.28
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:23706791 original size:17 final size:17
Alignment explanation
Indices: 23706769--23706801 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23706759 AGTGAAAACG
23706769 AGTAAAACA-ACATAATT
1 AGTAAAA-ATACATAATT
23706786 AGTAAAAATACATAAT
1 AGTAAAAATACATAAT
23706802 GTTCATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (17 bp):
AGTAAAAATACATAATT
Found at i:23707751 original size:47 final size:47
Alignment explanation
Indices: 23707677--23707842 Score: 253
Period size: 47 Copynumber: 3.5 Consensus size: 47
23707667 AGACACATAG
*
23707677 GACAAGGATACCATGTAAGACCGTGTTTGGAACATGGAATTTGGTAA
1 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAA
* *
23707724 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGCAA
1 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAA
* *
23707771 GCCAAGGATACCATGTAAGACCATGTTTGGAACA-CGACATTTGGTAA
1 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGA-ATTTGGTAA
* *
23707818 GATAAGGATATCATGTAAGACCATG
1 GACAAGGATACCATGTAAGACCATG
23707843 CCAAGGCATG
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 107 0.99
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (47 bp):
GACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAA
Found at i:23707778 original size:121 final size:119
Alignment explanation
Indices: 23707561--23707791 Score: 263
Period size: 121 Copynumber: 1.9 Consensus size: 119
23707551 ATTGACTGTT
* * * *
23707561 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGACAAGGATACCATGTAAGACCA
* **
23707626 TGTCATGACATGGCATTGACATTGATTAAGGACT-CCATGTAAGACACATAGGAC
66 TGTCATGACATGGCATTGACATAGACCAAGGA-TACCATGTAAGACACATAGGAC
* ***
23707680 AAGGATACCATGTAAGACCGTGTTTGGAACATGGAATTTGGTAAGACAAGGATACCATGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGAA-TTGGTAAGACAAGGATACCATGTAAGAC
* *
23707745 CATGT-TTGGAACATGGCATTTGGCA-AG-CCAAGGATACCATGTAAGAC
64 CATGTCAT-G-ACATGGCA-TTGACATAGACCAAGGATACCATGTAAGAC
23707792 CATGTTTGGA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
119 23 0.25
120 9 0.10
121 47 0.51
122 9 0.10
123 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (119 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCATGACATGGCATTGACATAGACCAAGGATACCATGTAAGACACATAGGAC
Found at i:23732234 original size:30 final size:31
Alignment explanation
Indices: 23732198--23732255 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
23732188 ATCCCGAGCC
23732198 TAGGGGCAAAAATGTAAATATG-CAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCCAAAAGTT
* *
23732228 TAGGGGCAAAATTGTAAATTTGCCAAAA
1 TAGGGGCAAAAATGTAAATATGCCAAAA
23732256 TTTGAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATATGCCAAAAGTT
Found at i:23732723 original size:46 final size:46
Alignment explanation
Indices: 23732671--23732801 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
23732661 GATGGTTGAG
23732671 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
**
23732717 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * **
23732763 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23732802 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:23741030 original size:11 final size:11
Alignment explanation
Indices: 23740994--23741049 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23740984 CATGGTATGT
23740994 ATGATATGCAC
1 ATGATATGCAC
* *
23741005 ATGACATG--T
1 ATGATATGCAC
23741014 ATGATATGCAC
1 ATGATATGCAC
*
23741025 ATGATATG--T
1 ATGATATGCAC
23741034 ATGATATGCAC
1 ATGATATGCAC
23741045 ATGAT
1 ATGAT
23741050 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23741049 original size:20 final size:20
Alignment explanation
Indices: 23740983--23741049 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
23740973 ATTTTGATAA
*
23740983 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23741003 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23741023 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23741043 ACATGAT
1 ACATGAT
23741050 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23741156 original size:24 final size:23
Alignment explanation
Indices: 23741099--23741245 Score: 186
Period size: 24 Copynumber: 6.2 Consensus size: 23
23741089 GAGGAAGTGA
23741099 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
23741122 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
23741145 CAAAAGGACTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
23741169 CAAAAGGGCTTACGGCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
23741193 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
23741216 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
23741241 AAAAG
1 AAAAG
23741246 AGGTAAGGCC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 41 0.38
24 66 0.61
25 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:23741168 original size:47 final size:46
Alignment explanation
Indices: 23741099--23741245 Score: 179
Period size: 47 Copynumber: 3.1 Consensus size: 46
23741089 GAGGAAGTGA
*
23741099 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCC-AGTTAT
* * * *
23741145 CAAAAGGACTTACGCCCCAGTTATCAAAAGGGCTTACGGCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTA-TGCCCAGTTAT
* *
23741193 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATG-CCCAGTTA-T
23741241 AAAAG
1 AAAAG
23741246 AGGTAAGGCC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
46 1 0.01
47 59 0.69
48 21 0.25
49 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCAGTTAT
Found at i:23741215 original size:71 final size:71
Alignment explanation
Indices: 23741099--23741245 Score: 222
Period size: 71 Copynumber: 2.1 Consensus size: 71
23741089 GAGGAAGTGA
* * *
23741099 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGACTTACGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGACTTACGCCCCA
23741164 GTTATC
66 GTTATC
* * **
23741170 AAAAGGGCTTACGGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGACTTACGCCCCA
*
23741235 GTTATT
66 GTTATC
23741241 AAAAG
1 AAAAG
23741246 AGGTAAGGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGACTTACGCCCCA
GTTATC
Found at i:23741493 original size:31 final size:31
Alignment explanation
Indices: 23741458--23741521 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
23741448 CGTTTACAGT
* *
23741458 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
23741489 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
23741520 AA
1 AA
23741522 TATGAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:23741520 original size:7 final size:7
Alignment explanation
Indices: 23741508--23741535 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23741498 GGCCCAATGT
23741508 TATGAAA
1 TATGAAA
23741515 TATGAAA
1 TATGAAA
23741522 TATGAAA
1 TATGAAA
23741529 TATGAAA
1 TATGAAA
23741536 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:23744615 original size:27 final size:27
Alignment explanation
Indices: 23744585--23744761 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
23744575 ATATTGAGTC
* *
23744585 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
23744612 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
23744638 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
23744666 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
23744693 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
23744720 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
23744747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23744762 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 26 0.20
27 80 0.62
28 24 0.18
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23744723 original size:54 final size:54
Alignment explanation
Indices: 23744585--23744761 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
23744575 ATATTGAGTC
* * * * *
23744585 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
* *
23744638 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAA-T
** *
23744693 CGCACACTTAGTGC-ATCATTTTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCAACATAGTC-AAT
23744747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23744762 GTACAATTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
53 23 0.21
54 63 0.58
55 22 0.20
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
Found at i:23883175 original size:46 final size:48
Alignment explanation
Indices: 23883071--23883184 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
23883061 TGTCTTCGAC
* * *
23883071 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGATCATTCCTATCTCCAATGCCATATATATATAAT
* * * *
23883119 ATGGGCTTACATGGCTCATTCCTATCTCCAAAT-CCATATA-A-CTGAT
1 ATGGACTTACATGGATCATTCCTATCTCC-AATGCCATATATATATAAT
23883165 ATGGACTTACATGGATCATT
1 ATGGACTTACATGGATCATT
23883185 TCTGTCCTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 21 0.38
47 1 0.02
48 31 0.55
49 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGATCATTCCTATCTCCAATGCCATATATATATAAT
Found at i:23885441 original size:27 final size:27
Alignment explanation
Indices: 23885411--23885464 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
23885401 TGTCATGTGA
*
23885411 AATTAAATGGCAAATCATTATTACATG
1 AATTAAATGGCAAATCACTATTACATG
* ** *
23885438 AATTGAATGTTAAATTACTATTACATG
1 AATTAAATGGCAAATCACTATTACATG
23885465 GGTTGTATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTAAATGGCAAATCACTATTACATG
Found at i:23888115 original size:39 final size:39
Alignment explanation
Indices: 23888067--23888271 Score: 308
Period size: 39 Copynumber: 5.3 Consensus size: 39
23888057 GGACTAAGAT
23888067 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
1 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
* *
23888106 CCGAAGGCATTGGTGCGAGTTATTAATTTCGGGCTAAGC
1 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
23888145 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
1 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
* *
23888184 CCGAAGGCATTGGTGCGAGTTACTAAATCC-GGTTAAGTC
1 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAG-C
* * *
23888223 CCGAAGGCATTTGTGCGAG-TACT-ATACCGGGCTATGTC
1 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAG-C
23888261 CCGAAGGCATT
1 CCGAAGGCATT
23888272 TGAACGAGTA
Statistics
Matches: 153, Mismatches: 11, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
37 3 0.02
38 28 0.18
39 122 0.80
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGC
Found at i:23888158 original size:78 final size:78
Alignment explanation
Indices: 23888016--23888271 Score: 315
Period size: 78 Copynumber: 3.3 Consensus size: 78
23888006 GAATGATGTT
* * * * *
23888016 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTG
1 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGG-CTAAG-TCCCGAAGGCATTG
23888079 GTGCGAGTTACTAATTC
62 GTGCGAGTTACTAATTC
* * *
23888096 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAATTTCGGGCTAAG-CCCGAAGGCATTGGTG
1 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA-ATCCGGCTAAGTCCCGAAGGCATTGGTG
23888160 CGAGTTACTAATTC
65 CGAGTTACTAATTC
* *
23888174 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGTTAAGTCCCGAAGGCATTTGTGC
1 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGCTAAGTCCCGAAGGCATTGGTGC
*
23888239 GAG-TACT-ATAC
66 GAGTTACTAATTC
*
23888250 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAG-CCCGAAGGCATT
23888272 TGAACGAGTA
Statistics
Matches: 156, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
76 11 0.07
77 24 0.15
78 83 0.53
79 19 0.12
80 19 0.12
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTAATTC
Found at i:23888233 original size:117 final size:119
Alignment explanation
Indices: 23888014--23888268 Score: 317
Period size: 117 Copynumber: 2.2 Consensus size: 119
23888004 TCGAATGATG
* * *
23888014 TTCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TTCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATTG
*
23888079 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAT
66 GTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAT
* * *
23888133 TTCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TTCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGAC-AATATCCGGACTAAGACCCGAAGGCAT
* * *
23888194 TGGTGCGAGTTACTAAATCC-GGTTAAGTCCCGAAGGCATTTGTGCGAG-TACT-AT
64 TGGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAT
** *
23888248 ACCGGGCTATGTCCCGAAGGC
1 TTCGGGCTAAGTCCCGAAGGC
23888269 ATTTGAACGA
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
115 10 0.08
116 18 0.15
117 48 0.40
118 24 0.20
119 19 0.16
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (119 bp):
TTCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAT
Found at i:23888304 original size:39 final size:38
Alignment explanation
Indices: 23888021--23888306 Score: 201
Period size: 39 Copynumber: 7.3 Consensus size: 38
23888011 ATGTTCGGGC
* * *
23888021 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATATCCGG-T
* *
23888061 TAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-TCC-GGT
* * * * *
23888101 TAAG-CCCGAAGGCATTGGTGCGAGTTATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TACT-ATATCCGGT
* *
23888140 TAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-TCC-GGT
* *
23888179 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGT
*
23888217 TAAGTCCCGAAGGCATTTGTGCGAGTACTATA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTACTATATCC-GGT
* **
23888255 TATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGT
* *
23888294 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
23888307 TACGTGATTC
Statistics
Matches: 211, Mismatches: 20, Indels: 31
0.81 0.08 0.12
Matches are distributed among these distances:
37 2 0.01
38 41 0.19
39 127 0.60
40 31 0.15
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGT
Found at i:23893592 original size:46 final size:48
Alignment explanation
Indices: 23893520--23893622 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 48
23893510 GACAGGACAG
* * *
23893520 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGG-ATTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCA-TTGGA
*
23893566 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
23893614 GACAGGAAT
1 GACAGGAAT
23893623 AATTCATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 21 0.42
49 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:23897900 original size:46 final size:48
Alignment explanation
Indices: 23897833--23897929 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 48
23897823 ACAGGACAGA
* * * *
23897833 AATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGACAAG
1 AATGACCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
* *
23897879 AATGACCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGACCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
23897927 AAT
1 AAT
23897930 AATTCATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 21 0.49
47 1 0.02
48 21 0.49
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
AATGACCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAAG
Found at i:23905193 original size:23 final size:25
Alignment explanation
Indices: 23905143--23905195 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23905133 ATGTCATAAA
*
23905143 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACATATAC
23905168 CATAACTT-ATTCATA-AACATAT-C
1 CATAACTTCA-TCATATAACATATAC
23905191 CATAA
1 CATAA
23905196 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 7 0.27
25 13 0.50
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (25 bp):
CATAACTTCATCATATAACATATAC
Found at i:23905856 original size:42 final size:43
Alignment explanation
Indices: 23905745--23905916 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
23905735 AGCATATACA
* * * * * * *
23905745 ATGCCTACATCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * *
23905788 ATGAC-ACTATCCCAGACAGGGTCTTACACGAAATCAGATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * *
23905830 ATGCCGATGTCCCAAACATGGTCTTACACGTAGAAT-AGA-AGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-A-AATCAGATA-TCG
* *
23905874 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
23905917 GATCCTATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 30 0.29
43 43 0.41
44 31 0.30
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
Found at i:23905886 original size:44 final size:42
Alignment explanation
Indices: 23905797--23905914 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 42
23905787 GATGACACTA
* * *
23905797 TCCCAGACAGGGTCTTACACGAAATCAGATATGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATATGATGCCAACG
*
23905839 TCCCAAACATGGTCTTACACGTAGAAT-AGA-AGTCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-A-AATCAGATA-T-GATGCCAACG
* *
23905883 TCCCAGACGTGGTCTTACACGAAATCACATAT
1 TCCCAGACATGGTCTTACACGAAATCAGATAT
23905915 CGGATCCTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
42 23 0.37
43 9 0.14
44 31 0.49
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAGATATGATGCCAACG
Found at i:23906325 original size:8 final size:8
Alignment explanation
Indices: 23906312--23906341 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
23906302 AGGCCCTATT
23906312 TCACAAAA
1 TCACAAAA
23906320 TCACAAAA
1 TCACAAAA
23906328 TCACAAAA
1 TCACAAAA
23906336 TACACA
1 T-CACA
23906342 TAATTTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:23916037 original size:13 final size:13
Alignment explanation
Indices: 23916019--23916045 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23916009 GAAGTAATCG
23916019 CACACGGGCGTGT
1 CACACGGGCGTGT
23916032 CACACGGGCGTGT
1 CACACGGGCGTGT
23916045 C
1 C
23916046 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:23916130 original size:25 final size:25
Alignment explanation
Indices: 23916096--23916146 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
23916086 TTTTGAGGGT
23916096 TCTTAGGCATTCAAAAGCCTATAAA
1 TCTTAGGCATTCAAAAGCCTATAAA
23916121 TCTTAGGCATTCAAAAGCCTATAAA
1 TCTTAGGCATTCAAAAGCCTATAAA
23916146 T
1 T
23916147 AGACCCTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TCTTAGGCATTCAAAAGCCTATAAA
Found at i:23918631 original size:42 final size:42
Alignment explanation
Indices: 23918567--23918655 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
23918557 TTAAAAGGTC
*
23918567 ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
1 ACACGCCCGTGTGAACAAGCCATGTGCCTCACATGGTCTTAG
23918609 ACACGCCCGTGTGAACAAGCCATGTGCCTCACATGGTCTTAG
1 ACACGCCCGTGTGAACAAGCCATGTGCCTCACATGGTCTTAG
23918651 ACACG
1 ACACG
23918656 ATCGTGTGTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (42 bp):
ACACGCCCGTGTGAACAAGCCATGTGCCTCACATGGTCTTAG
Found at i:23921385 original size:79 final size:79
Alignment explanation
Indices: 23921247--23921466 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 79
23921237 CCCAAGAAAT
* ** * * *
23921247 CTTCGGGATTTAGCCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGAATTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
23921311 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* * *
23921325 CTTCGGGAATTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCAGGTCTTAGCCC-GATATAGC
1 CTTCGGGAATTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
23921389 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
23921404 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-ATTAG-CCGGATATAGTCA-CTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
23921467 CATTCAAATA
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 16 0.13
79 53 0.45
80 45 0.38
81 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGAATTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:23921398 original size:39 final size:40
Alignment explanation
Indices: 23921247--23921466 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
23921237 CCCAAGAAAT
** * *
23921247 CTTCGGGAT-TTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
23921285 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
23921325 CTTCGGGAATTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
23921365 CTTCAGGTCTTAGCCC-GATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
23921404 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
23921445 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
23921467 CATTCAAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 47 0.32
40 59 0.40
41 30 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:23930686 original size:28 final size:28
Alignment explanation
Indices: 23930654--23930751 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
23930644 AAAACAATAT
23930654 AAATATATAAAATATATTAAAAAATTAA
1 AAATATATAAAATATATTAAAAAATTAA
*
23930682 AAATATATATACAA-ATA-TACAAAAATGAA
1 AAATATATA-A-AATATATTA-AAAAATTAA
* * *
23930711 AAA-ATATAAAAGATTATT-GAAATTTCAA
1 AAATATATAAAATA-TATTAAAAAATT-AA
23930739 AAATAT-TAAAATA
1 AAATATATAAAATA
23930752 ATGAAATAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
26 2 0.04
27 6 0.11
28 29 0.51
29 18 0.32
30 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
AAATATATAAAATATATTAAAAAATTAA
Found at i:23930705 original size:21 final size:18
Alignment explanation
Indices: 23930654--23930751 Score: 60
Period size: 18 Copynumber: 5.3 Consensus size: 18
23930644 AAAACAATAT
23930654 AAATATATAAAATATATTA
1 AAATATA-AAAATATATTA
*
23930673 AAAAATTAAAAATATATATA
1 AAATA-TAAAAATATAT-TA
*
23930693 CAAATATACAAAA-ATGA-AA
1 -AAATATA-AAAATAT-ATTA
*
23930712 AAATATAAAAGAT-TATTG
1 AAATATAAAA-ATATATTA
* *
23930730 AAATTTCAAAA-ATATTA
1 AAATATAAAAATATATTA
23930747 AAATA
1 AAATA
23930752 ATGAAATAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
17 13 0.21
18 17 0.28
19 14 0.23
20 8 0.13
21 9 0.15
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATATAAAAATATATTA
Found at i:23930706 original size:30 final size:28
Alignment explanation
Indices: 23930654--23930718 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
23930644 AAAACAATAT
* *
23930654 AAATATATAAAATATATTAAAAAATTAAA
1 AAATATATAAAATATA-TCAAAAATGAAA
23930683 AATATATATACAAATATA-CAAAAATGAAA
1 AA-ATATATA-AAATATATCAAAAATGAAA
23930712 AAATATA
1 AAATATA
23930719 AAAGATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 7 0.22
31 7 0.22
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATATATAAAATATATCAAAAATGAAA
Found at i:23930957 original size:19 final size:18
Alignment explanation
Indices: 23930909--23930959 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
23930899 GGATGACATA
*
23930909 AAATTATAAAAAATTATT
1 AAATTAAAAAAAATTATT
*
23930927 AGAATAATAAAAAAATTATAT
1 A-AATTA-AAAAAAATTAT-T
23930948 AAATTAAAAAAA
1 AAATTAAAAAAA
23930960 TGAAAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 14 0.52
21 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATTAAAAAAAATTATT
Found at i:23930965 original size:25 final size:25
Alignment explanation
Indices: 23930937--23930984 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23930927 AGAATAATAA
*
23930937 AAAAATTATATAAATTAAAAAAATG
1 AAAAATTATAAAAATTAAAAAAATG
* *
23930962 AAAAATTGTAAAAATTACAAAAA
1 AAAAATTATAAAAATTAAAAAAA
23930985 GATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATTATAAAAATTAAAAAAATG
Found at i:23931014 original size:30 final size:30
Alignment explanation
Indices: 23930975--23931033 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23930965 AATTGTAAAA
23930975 ATTACAAAAAGATATT-T-AAAAATATAGAAT
1 ATTAC-AAAA-ATATTATAAAAAATATAGAAT
*
23931005 ATTATAAAAATATTATAAAAAATATAGAA
1 ATTACAAAAATATTATAAAAAATATAGAA
23931034 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 5 0.19
30 16 0.62
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (30 bp):
ATTACAAAAATATTATAAAAAATATAGAAT
Found at i:23931044 original size:18 final size:18
Alignment explanation
Indices: 23931021--23931055 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23931011 AAAATATTAT
*
23931021 AAAAAATATAGAAAAATG
1 AAAAAAAATAGAAAAATG
*
23931039 AAAAAAAATATAAAAAT
1 AAAAAAAATAGAAAAAT
23931056 TACAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAAAATAGAAAAATG
Found at i:23931044 original size:30 final size:29
Alignment explanation
Indices: 23930980--23931054 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
23930970 TAAAAATTAC
* *
23930980 AAAAAGATATT-T-AAAAATATAGAATATT
1 AAAAA-ATATTATAAAAAATATAGAAAATG
23931008 ATAAAAATATTATAAAAAATATAGAAAAATG
1 A-AAAAATATTATAAAAAATATAG-AAAATG
*
23931039 AAAAAA-AATATAAAAA
1 AAAAAATATTATAAAAA
23931055 TTACAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 6 0.15
29 14 0.35
30 15 0.38
31 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAAATATTATAAAAAATATAGAAAATG
Found at i:23931054 original size:28 final size:28
Alignment explanation
Indices: 23930973--23931081 Score: 87
Period size: 28 Copynumber: 3.8 Consensus size: 28
23930963 AAAATTGTAA
* * *
23930973 AAATTACAAAAAGATATTTAAAAATATAG
1 AAATTATAAAAA-AAATATAAAAATATAG
* *
23931002 AATATTATAAAAATATTATAAAAAATATAG
1 AA-ATTATAAAAAAAATAT-AAAAATATAG
* *
23931032 AAA-AATGAAAAAAAATATAAAAAT-TAC
1 AAATTAT-AAAAAAAATATAAAAATATAG
*
23931059 AAATTATTCAAAAAAATATAAAA
1 AAATTA-TAAAAAAAATATAAAA
23931082 TTACAATATA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
27 5 0.08
28 23 0.36
29 15 0.23
30 21 0.33
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (28 bp):
AAATTATAAAAAAAATATAAAAATATAG
Found at i:23931434 original size:19 final size:19
Alignment explanation
Indices: 23931381--23931425 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
23931371 TAAATTTTAA
* *
23931381 ATTTTATTT-TAATTTTTT
1 ATTTAATTTATAATATTTT
23931399 ATTTAATTTATAATATTTT
1 ATTTAATTTATAATATTTT
23931418 A-TTAATTT
1 ATTTAATTT
23931426 TTAAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTAATTTATAATATTTT
Found at i:23931492 original size:20 final size:20
Alignment explanation
Indices: 23931450--23931492 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
23931440 ATTATTTTTA
*
23931450 TTTTTAATAATTTACCTAAT
1 TTTTTAATAATTTACATAAT
* *
23931470 TTTTTTATAATTTATAT-AT
1 TTTTTAATAATTTACATAAT
23931489 TTTT
1 TTTT
23931493 CTTTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATAATTTACATAAT
Found at i:23931514 original size:24 final size:24
Alignment explanation
Indices: 23931470--23931515 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23931460 TTTACCTAAT
* *
23931470 TTTTTTATAATTTATATATTTTTC
1 TTTTTAATAATTTATACATTTTTC
23931494 TTTTTAATAAATTT-TACATTTT
1 TTTTTAAT-AATTTATACATTTT
23931516 AATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTTAATAATTTATACATTTTTC
Found at i:23931543 original size:18 final size:18
Alignment explanation
Indices: 23931471--23931621 Score: 73
Period size: 19 Copynumber: 8.3 Consensus size: 18
23931461 TTACCTAATT
23931471 TTTTTATA-ATTTATATA
1 TTTTTATATATTTATATA
*
23931488 TTTTTCT-T-TTTA-ATAA
1 TTTTTATATATTTATAT-A
* *
23931504 ATTTTACAT-TTTA-ATA
1 TTTTTATATATTTATATA
**
23931520 AATTTATATATTTATATA
1 TTTTTATATATTTATATA
* *
23931538 TTTTTATTTATAACTTTTTACA
1 TTTTTA--TAT-A-TTTATATA
* *
23931560 CTTTTTATATCTTTTTAGTA
1 -TTTTTATATATTTATA-TA
*
23931580 TTTTTAGTATTTTTATATA
1 TTTTTA-TATATTTATATA
*
23931599 TTTTTATA-ATTATCTATA
1 TTTTTATATATT-TATATA
23931617 TTTTT
1 TTTTT
23931622 TATTATTTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
15 2 0.02
16 17 0.16
17 19 0.18
18 19 0.18
19 20 0.19
20 12 0.11
21 4 0.04
22 6 0.06
23 6 0.06
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTATATATTTATATA
Found at i:23931584 original size:10 final size:9
Alignment explanation
Indices: 23931561--23931630 Score: 54
Period size: 10 Copynumber: 7.3 Consensus size: 9
23931551 CTTTTTACAC
23931561 TTTTTATAT
1 TTTTTATAT
23931570 CTTTTTAGTA-
1 -TTTTTA-TAT
23931580 TTTTTAGTA-
1 TTTTTA-TAT
23931589 TTTTTATAT
1 TTTTTATAT
23931598 ATTTTTATAAT
1 -TTTTTAT-AT
* *
23931609 TATCTATAT
1 TTTTTATAT
23931618 TTTTTATTAT
1 TTTTTA-TAT
23931628 TTT
1 TTT
23931631 AAAATTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
8 2 0.04
9 21 0.41
10 24 0.47
11 4 0.08
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTTATAT
Found at i:23931606 original size:8 final size:8
Alignment explanation
Indices: 23931471--23931640 Score: 58
Period size: 9 Copynumber: 19.8 Consensus size: 8
23931461 TTACCTAATT
23931471 TTTTTATAA
1 TTTTTAT-A
*
23931480 TTTATATA
1 TTTTTATA
*
23931488 TTTTTCT-
1 TTTTTATA
*
23931495 TTTTAATAA
1 TTTTTAT-A
* *
23931504 ATTTTACA
1 TTTTTATA
*
23931512 TTTTAATA
1 TTTTTATA
**
23931520 AATTTATA
1 TTTTTATA
*
23931528 TATTTATA
1 TTTTTATA
23931536 TATTTT-TA
1 T-TTTTATA
*
23931544 TTTATA-A
1 TTTTTATA
*
23931551 CTTTTTACA
1 -TTTTTATA
23931560 CTTTTTATA
1 -TTTTTATA
23931569 TCTTTTTAGTA
1 --TTTTTA-TA
23931580 TTTTTAGTA
1 TTTTTA-TA
23931589 TTTTTATATA
1 -TTTT-TATA
23931599 TTTTTATAA
1 TTTTTAT-A
*
23931608 TTATCTATA
1 TT-TTTATA
23931617 TTTTTTATTA
1 -TTTTTA-TA
* *
23931627 TTTTAAAA
1 TTTTTATA
23931635 TTTTTA
1 TTTTTA
23931641 ATGATTTTAA
Statistics
Matches: 123, Mismatches: 24, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
7 9 0.07
8 42 0.34
9 47 0.38
10 21 0.17
11 4 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTTATA
Found at i:23931618 original size:28 final size:28
Alignment explanation
Indices: 23931561--23931630 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
23931551 CTTTTTACAC
* *
23931561 TTTTTATATCTTTTTAGTATTTTTAGTA
1 TTTTTATATATTTTTAGTATTTCTAGTA
23931589 TTTTTATATATTTTTA-TAATTATCTA-TA
1 TTTTTATATATTTTTAGT-ATT-TCTAGTA
23931617 TTTTT-TATTATTTT
1 TTTTTATA-TATTTT
23931631 AAAATTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 3 0.08
28 31 0.84
29 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTATATATTTTTAGTATTTCTAGTA
Found at i:23931637 original size:18 final size:18
Alignment explanation
Indices: 23931616--23931651 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23931606 AATTATCTAT
* *
23931616 ATTTTTTATTATTTTAAA
1 ATTTTTAATGATTTTAAA
23931634 ATTTTTAATGATTTTAAA
1 ATTTTTAATGATTTTAAA
23931652 TATTAAATAT
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:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTAATGATTTTAAA
Found at i:23933038 original size:29 final size:30
Alignment explanation
Indices: 23932989--23933049 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
23932979 CAATACAATA
* *
23932989 TTATATATGAATTTTGATTTTA-TGTAATT
1 TTATATATAAATATTGATTTTACTGTAATT
*
23933018 TTATATATAAAATATTG-TTTTACTTTAATT
1 TTATATAT-AAATATTGATTTTACTGTAATT
23933048 TT
1 TT
23933050 CACAAGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (30 bp):
TTATATATAAATATTGATTTTACTGTAATT
Found at i:23933826 original size:29 final size:29
Alignment explanation
Indices: 23933769--23933830 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
23933759 TCAAAAGTAG
*
23933769 ATATGAATTTTGGTTCAATACAATATTAT
1 ATATGAATTTTGATTCAATACAATATTAT
** * *
23933798 ATATGAATTTTGATTTTATATAATTTTAT
1 ATATGAATTTTGATTCAATACAATATTAT
23933827 ATAT
1 ATAT
23933831 AAAATATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (29 bp):
ATATGAATTTTGATTCAATACAATATTAT
Found at i:23933843 original size:29 final size:30
Alignment explanation
Indices: 23933794--23933854 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
23933784 CAATACAATA
* *
23933794 TTATATATGAATTTTGATTTTA-TATAATT
1 TTATATATAAATATTGATTTTACTATAATT
*
23933823 TTATATATAAAATATTG-TTTTACTTTAATT
1 TTATATAT-AAATATTGATTTTACTATAATT
23933853 TT
1 TT
23933855 CACAAGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (30 bp):
TTATATATAAATATTGATTTTACTATAATT
Found at i:23934319 original size:805 final size:802
Alignment explanation
Indices: 23932738--23934595 Score: 3251
Period size: 805 Copynumber: 2.3 Consensus size: 802
23932728 TCGATATAGT
*
23932738 ACTATTTTAACTATACATATTGCAATACGAATAATTATATATATCTAATATAAAAATAAATTTAT
1 ACTATTTTAACTATACATATTGCAATACGAATAATTATATATATCTAATATAAAAATAAATTGAT
* * * *
23932803 GTATTTATTCTTTTAAATATGTACAGTTGAATCAAAATTAAAGCTTTCATTTATACATTTGAATC
66 GTATTTATTCTTTTAAATGTGTATAGTTGAATCAAAATTAAAGTTTTCATGTATACATTTGAATC
23932868 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTCTTTCTAAAT
131 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTCTTTCTAAAT
23932933 GATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATACAATATTATATATG
196 GATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATACAATATTATATATG
*
23932998 AATTTTGATTTTATGTAATTTTATATATAAAATATTGTTTTACTTTAATTTTCACAAGTTACTAA
261 AATTTTGATTTTATATAATTTTATATATAAAATATTGTTTTACTTTAATTTTCACAAGTTACTAA
*
23933063 CTCAATTATCGATATAGCACTATTTTAACTATACATATTGCAACACGAATAATTATATATATTTA
326 CTCAATTATCGATATAGCACTATTTTAACTATACATATTGCAACACGAATAATTATATATATCTA
*
23933128 ATATAAAAAATTGATGTATTTATTCTTTTAAATGTGTATCGTTAAATCAAAATTAAAATTTCATT
391 ATATAAAAAATTGATGTATTTATTCTTTTAAATCTGTATCGTTAAATCAAAATTAAAATTTCATT
*
23933193 ATACATTTGAACCATGATCAAAGTTCTATGTATATAATTGCATCAAATCAAAAACATAAATCTAC
456 ATACATTTGAACCATGATCAAAGTTCTATGTATATAATTGCACCAAATCAAAAACATAAATCTAC
* * *
23933258 ATTGCATATTGGATCAAAGTTCATATATAATTTTGAGATTTATATCATTGTTTGATTGTGGAATT
521 ATTGCATATTGGATCAAAGTTCATATATAAGTTTGAAATTTATATCATAGTTTGATTGTGGAATT
23933323 CATCCATTTCGATGAGATTGGTCCTTCAACAATTCACCTAGTATAGCTTTCTTTTTCCACTTTTA
586 CATCCATTTCGATGAGATTGGTCCTTCAACAATTCACCTAGTATAGCTTTCTTTTTCCACTTTTA
*
23933388 TTTTTTGTTATACATAAATATATTGATCATAGCAGGGATTTTACCAAAAACCCTTTTATATACAC
651 TTTTTGGTTATACATAAATATATTGATCATAGCAGGGATTTTACCAAAAACCCTTTTATATACAC
*
23933453 ATTTTTGGATTACAACAAATGGGGTTCTTTCTCTCTTCCACTCTCATATC-T-ATCCATCCATCA
716 ATTTTTGGATTACAACAAATAGGGTTCTTTCTCTCTTCCACTCTCATATCATCATCCATCCAT-A
23933516 TACACATCATTAGGCTTTTTTTTTCC
780 -ACACATCATTAGGC--TTTTTTTCC
* *
23933542 ATTATTTTAACTATACATATTGCAATACGAATAATTATATATATTTAATATAAAAATAAATTGAT
1 ACTATTTTAACTATACATATTGCAATACGAATAATTATATATATCTAATATAAAAATAAATTGAT
*
23933607 GTATTTATTCTTTTAAATGTGTATAGTTGAATCTAAATTAAAGTTTTCATGTATACATTTGAATC
66 GTATTTATTCTTTTAAATGTGTATAGTTGAATCAAAATTAAAGTTTTCATGTATACATTTGAATC
23933672 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTTCTTTCTAAA
131 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTC-TTTTTTTTCTTTCTAAA
23933737 TGATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATACAATATTATATAT
195 TGATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATACAATATTATATAT
23933802 GAATTTTGATTTTATATAATTTTATATATAAAATATTGTTTTACTTTAATTTTCACAAGTTACTA
260 GAATTTTGATTTTATATAATTTTATATATAAAATATTGTTTTACTTTAATTTTCACAAGTTACTA
23933867 ACTCAATTATCGATATAGCACTATTTTAACTATACATATTGCAACACGAATAATTATATATATCT
325 ACTCAATTATCGATATAGCACTATTTTAACTATACATATTGCAACACGAATAATTATATATATCT
*
23933932 AATATAAAAATAAATTGATGTATTTATTCTTTTAAATCTGTA-CAGTTAAATCAAAATTAAAGTT
390 AATAT--AAA-AAATTGATGTATTTATTCTTTTAAATCTGTATC-GTTAAATCAAAATTAAAATT
*
23933996 TCATTATACATTTGAACCATGATCAAAGTTCTATGTATATAATTGCACCAAATCAAAGTACATAA
451 TCATTATACATTTGAACCATGATCAAAGTTCTATGTATATAATTGCACCAAATCAAA-AACATAA
* * *
23934061 ATCTACATTGCATATTGGATCAAAGTTCATATATAGGTTTGAAATTTATCTCATAGTTTGGTTTG
515 ATCTACATTGCATATTGGATCAAAGTTCATATATAAGTTTGAAATTTATATCATAGTTT-GATTG
* *
23934126 TGGAATTCATCCATTTCGATGTGATTGGTCCTTCAACAATTCACCTAGTATAGCTTTCTTTTTTC
579 TGGAATTCATCCATTTCGATGAGATTGGTCCTTCAACAATTCACCTAGTATAGCTTTCTTTTTCC
* *
23934191 TCTTTTA-TTTTGGTTATACATAAATATATTGATCATAGCAGGGATTTTACCAAGAACCCTTTTA
644 ACTTTTATTTTTGGTTATACATAAATATATTGATCATAGCAGGGATTTTACCAAAAACCCTTTTA
* *
23934255 TATACACATTTTTGGATTAGAACGAATAGGGTTCTTTCTCTCTTCCACTCTCATATC-T-ATCCA
709 TATACACATTTTTGGATTACAACAAATAGGGTTCTTTCTCTCTTCCACTCTCATATCATCATCCA
23934318 TCCATCAAACACATCATTAGGCTTTTTTTCC
774 TCCAT--AACACATCATTAGGCTTTTTTTCC
* * *
23934349 ACTACTTTAACTATACATAATGCAATACGAATAATTATATATATCTAATATAAAATTAAATTGAT
1 ACTATTTTAACTATACATATTGCAATACGAATAATTATATATATCTAATATAAAAATAAATTGAT
23934414 GTATTTATTCTTTTAAATGTGTATAGTTGAATCAAAATTAAAGTTTTCATGTATACATTTGAATC
66 GTATTTATTCTTTTAAATGTGTATAGTTGAATCAAAATTAAAGTTTTCATGTATACATTTGAATC
23934479 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTCTTTCTAAAT
131 ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTCTTTCTAAAT
* * *
23934544 GATAGTTTGATGGAATAAATTTCAAAAGTATATATGAATATTGGTTCAATAC
196 GATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATAC
23934596 TGTAACACCC
Statistics
Matches: 1008, Mismatches: 38, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
804 169 0.17
805 215 0.21
806 67 0.07
807 184 0.18
808 105 0.10
809 194 0.19
810 74 0.07
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (802 bp):
ACTATTTTAACTATACATATTGCAATACGAATAATTATATATATCTAATATAAAAATAAATTGAT
GTATTTATTCTTTTAAATGTGTATAGTTGAATCAAAATTAAAGTTTTCATGTATACATTTGAATC
ATAATCAAAATTCCAAGTATATAATTGCACATTCAACTAGGCTTTTCTTTTTTTTCTTTCTAAAT
GATAGTTTGATGGGATAAATTTCAAAAGTAGATATGAATTTTGGTTCAATACAATATTATATATG
AATTTTGATTTTATATAATTTTATATATAAAATATTGTTTTACTTTAATTTTCACAAGTTACTAA
CTCAATTATCGATATAGCACTATTTTAACTATACATATTGCAACACGAATAATTATATATATCTA
ATATAAAAAATTGATGTATTTATTCTTTTAAATCTGTATCGTTAAATCAAAATTAAAATTTCATT
ATACATTTGAACCATGATCAAAGTTCTATGTATATAATTGCACCAAATCAAAAACATAAATCTAC
ATTGCATATTGGATCAAAGTTCATATATAAGTTTGAAATTTATATCATAGTTTGATTGTGGAATT
CATCCATTTCGATGAGATTGGTCCTTCAACAATTCACCTAGTATAGCTTTCTTTTTCCACTTTTA
TTTTTGGTTATACATAAATATATTGATCATAGCAGGGATTTTACCAAAAACCCTTTTATATACAC
ATTTTTGGATTACAACAAATAGGGTTCTTTCTCTCTTCCACTCTCATATCATCATCCATCCATAA
CACATCATTAGGCTTTTTTTCC
Found at i:23945379 original size:29 final size:30
Alignment explanation
Indices: 23945330--23945390 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
23945320 AAATACAATA
* *
23945330 TTATATATGAATTTTGATTTTA-TGTAATT
1 TTATATATAAATATTGATTTTACTGTAATT
*
23945359 TTATATATAAAATATTG-TTTTACTTTAATT
1 TTATATAT-AAATATTGATTTTACTGTAATT
23945389 TT
1 TT
23945391 CACAAGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (30 bp):
TTATATATAAATATTGATTTTACTGTAATT
Found at i:23947574 original size:72 final size:74
Alignment explanation
Indices: 23947498--23947655 Score: 189
Period size: 72 Copynumber: 2.2 Consensus size: 74
23947488 CCAAAAAATC
* ** * * *
23947498 CTTCTACTTTCCCCTAAAAATTTTATTTCC-CTCCAAACCCC-AAAACTTTTTCT-TTTTATTTT
1 CTTCTACTTCCCCCTAAAAAAATCACTTCCTC-CCAAACCCCTAAAACTTTTTCTCTTTTACTTT
23947560 CTCTCC-AAAA
65 CTC-CCTAAAA
* *
23947570 CTTCTACTTCCCCCTAAAAAAATCACTTCTTCCCAAACCCCTAAAACTTTTTTTCTTTTACTTTC
1 CTTCTACTTCCCCCTAAAAAAATCACTTCCTCCCAAACCCCTAAAACTTTTTCTCTTTTACTTTC
23947635 TCCCTAAAA
66 TCCCTAAAA
*
23947644 CTTTTACTTCCC
1 CTTCTACTTCCC
23947656 TCAAATGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
72 33 0.45
73 14 0.19
74 26 0.36
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (74 bp):
CTTCTACTTCCCCCTAAAAAAATCACTTCCTCCCAAACCCCTAAAACTTTTTCTCTTTTACTTTC
TCCCTAAAA
Found at i:23948139 original size:26 final size:26
Alignment explanation
Indices: 23948105--23948164 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
23948095 TTTTAGTTCA
23948105 ATTCGATTTGAATTCCATCTCATTCG
1 ATTCGATTTGAATTCCATCTCATTCG
* * *
23948131 ATTCTATTTGAGTTCCATCTCATTTG
1 ATTCGATTTGAATTCCATCTCATTCG
*
23948157 ACTCGATT
1 ATTCGATT
23948165 CGAGAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (26 bp):
ATTCGATTTGAATTCCATCTCATTCG
Found at i:23952759 original size:16 final size:16
Alignment explanation
Indices: 23952737--23952776 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
23952727 ACACACCCTC
23952737 CTAAGGG-TCTATTCCA
1 CTAAGGGTTC-ATTCCA
*
23952753 TTAAGGGTTCATTCCA
1 CTAAGGGTTCATTCCA
23952769 CTAAGGGT
1 CTAAGGGT
23952777 ACAACTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (16 bp):
CTAAGGGTTCATTCCA
Found at i:23952825 original size:16 final size:16
Alignment explanation
Indices: 23952787--23952817 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23952777 ACAACTTTCA
*
23952787 CACTCCCCTAAGGGTC
1 CACTCCACTAAGGGTC
23952803 CACTCCACTAAGGGT
1 CACTCCACTAAGGGT
23952818 TCATTCCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.19
Consensus pattern (16 bp):
CACTCCACTAAGGGTC
Found at i:23957421 original size:29 final size:29
Alignment explanation
Indices: 23957388--23957445 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
23957378 TTGCCTTTAT
*
23957388 GCTAATAAATTTTAAATAGCGATTATGTA
1 GCTAATAAATTTTAAATAGCGATAATGTA
23957417 GCTAATAAATTTTAAATAGCGATAATGTA
1 GCTAATAAATTTTAAATAGCGATAATGTA
23957446 ATTTAGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (29 bp):
GCTAATAAATTTTAAATAGCGATAATGTA
Found at i:23957930 original size:23 final size:21
Alignment explanation
Indices: 23957902--23957957 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
23957892 GAATTTCATG
23957902 TCTTTTATTATTATTTGATAATA
1 TCTTTTATTATTATTT--TAATA
*
23957925 TCTTTTAATATTATTTTAATA
1 TCTTTTATTATTATTTTAATA
*
23957946 TGTTTTATTATT
1 TCTTTTATTATT
23957958 TATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TCTTTTATTATTATTTTAATA
Found at i:23957978 original size:26 final size:25
Alignment explanation
Indices: 23957933--23957981 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23957923 TATCTTTTAA
*
23957933 TATTATTTTAATATGTTTTATTATT
1 TATTATTTTAAAATGTTTTATTATT
23957958 TATTATTTTTAAAAT-TATTTATTA
1 TATTA-TTTTAAAATGT-TTTATTA
23957982 GAGTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TATTATTTTAAAATGTTTTATTATT
Found at i:23958490 original size:15 final size:15
Alignment explanation
Indices: 23958455--23958496 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
23958445 ATAAATCATT
23958455 ATATTTA-TTTAATA
1 ATATTTATTTTAATA
* *
23958469 CTTTTTATTTTAATA
1 ATATTTATTTTAATA
23958484 ATATTTAATTTTA
1 ATATTT-ATTTTA
23958497 TATAGTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 5 0.23
15 11 0.50
16 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTATTTTAATA
Found at i:23959366 original size:3 final size:3
Alignment explanation
Indices: 23959360--23959396 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23959350 ATTATTTTAA
23959360 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
23959397 CCGTTTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:23964328 original size:29 final size:29
Alignment explanation
Indices: 23964286--23964344 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
23964276 ATATGGACAT
*
23964286 AGAAATGTAGATGTTTTCCTAAGTATAAG
1 AGAAATGTACATGTTTTCCTAAGTATAAG
*
23964315 AGAAATGTACATGTTTTTCTAAGTATAAG
1 AGAAATGTACATGTTTTCCTAAGTATAAG
23964344 A
1 A
23964345 CTTCGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (29 bp):
AGAAATGTACATGTTTTCCTAAGTATAAG
Found at i:23965815 original size:15 final size:15
Alignment explanation
Indices: 23965795--23965827 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23965785 ACAAAACCAA
23965795 CTATTTATATGTAAC
1 CTATTTATATGTAAC
23965810 CTATTTATATGTAAC
1 CTATTTATATGTAAC
23965825 CTA
1 CTA
23965828 ATCAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (15 bp):
CTATTTATATGTAAC
Found at i:23967352 original size:56 final size:56
Alignment explanation
Indices: 23967277--23967490 Score: 268
Period size: 56 Copynumber: 3.8 Consensus size: 56
23967267 CAGATAGGGT
* * * * * * * *
23967277 CTTACTCGTAAACACATATCAAAATCACATATCGATACTAACGTATGAAAGGTGGA
1 CTTACTCGCACACATATATCAAAATCACATATCGATGCCAACATATTAAACGTGGA
* * *
23967333 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACTTGTTAAACGTGGA
1 CTTACTCGCACACATATATCAAAATCACATATCGATGCCAACATATTAAACGTGGA
* ** * *
23967389 CTTACTCGCGCACATATATCGGAATCACATATCGATGCCAACATATTAAATGTGGT
1 CTTACTCGCACACATATATCAAAATCACATATCGATGCCAACATATTAAACGTGGA
*
23967445 CTTACTCGCACACATATATCAAAGTCACATATCGATGCC-ACATATT
1 CTTACTCGCACACATATATCAAAATCACATATCGATGCCAACATATT
23967491 CTTCCAGGTA
Statistics
Matches: 138, Mismatches: 20, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
55 7 0.05
56 131 0.95
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
CTTACTCGCACACATATATCAAAATCACATATCGATGCCAACATATTAAACGTGGA
Found at i:23970301 original size:40 final size:40
Alignment explanation
Indices: 23970206--23970440 Score: 323
Period size: 40 Copynumber: 5.8 Consensus size: 40
23970196 GATGATAACG
* * *
23970206 GGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTAATTCGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC-C
23970247 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
23970287 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
23970327 GGGCTAAGTCCCAGCCGAAGGCATTTGTGCGAAGTTACT-ATATCC
1 GGGCTAAGT--C--CCGAAGGCATTTGTGCG-AGTTACTAAT-TCC
**
23970372 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
23970412 GGGCTAAGT-CCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
23970441 AGCTATATCC
Statistics
Matches: 180, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
39 17 0.09
40 70 0.39
41 53 0.29
42 1 0.01
43 1 0.01
44 19 0.11
45 19 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:23970384 original size:85 final size:82
Alignment explanation
Indices: 23970206--23970440 Score: 313
Period size: 85 Copynumber: 2.9 Consensus size: 82
23970196 GATGATAACG
* * *
23970206 GGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTAATTCGCGGGCTAAGT--CCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC-CGGGCTAAGTCCCCCGAAGGCATTT
23970269 GTGCGAGTTACTAATTCC
65 GTGCGAGTTACTAATTCC
23970287 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCAGCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCC--CCGAAGGCATT
23970352 TGTGCGAAGTTACT-ATATCC
64 TGTGCG-AGTTACTAAT-TCC
**
23970372 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGT---CCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCCCGAAGGCATTT
*
23970433 GAGCGAGT
65 GTGCGAGT
23970441 AGCTATATCC
Statistics
Matches: 141, Mismatches: 6, Indels: 16
0.87 0.04 0.10
Matches are distributed among these distances:
79 3 0.02
80 26 0.18
81 36 0.26
82 1 0.01
84 21 0.15
85 54 0.38
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (82 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCCCGAAGGCATTTG
TGCGAGTTACTAATTCC
Found at i:23978411 original size:80 final size:80
Alignment explanation
Indices: 23978278--23978533 Score: 358
Period size: 80 Copynumber: 3.2 Consensus size: 80
23978268 GATGATAACG
* * * * *
23978278 GGGCTAAGTCTCGAAGGAATTTGTGCTAGTGACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
23978343 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
23978358 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
23978423 CGAGTTACTATATCC
66 CGAGTTACTATATCC
** * *
23978438 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCTCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
23978502 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
23978518 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
23978534 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
79 18 0.11
80 143 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:23978519 original size:40 final size:40
Alignment explanation
Indices: 23978278--23978507 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
23978268 GATGATAACG
* * * * *
23978278 GGGCTAAGTCTCGAAGGAATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
23978318 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
23978358 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
23978398 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
23978438 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* *
23978478 GGGCTAAGTCTCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
23978508 AGCTATATCC
Statistics
Matches: 178, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 176 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:23985386 original size:12 final size:12
Alignment explanation
Indices: 23985369--23985394 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23985359 GCATGCATAA
23985369 GATTATACTGAG
1 GATTATACTGAG
23985381 GATTATACTGAG
1 GATTATACTGAG
23985393 GA
1 GA
23985395 GGGAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATTATACTGAG
Found at i:24003646 original size:366 final size:366
Alignment explanation
Indices: 24002974--24003711 Score: 1458
Period size: 366 Copynumber: 2.0 Consensus size: 366
24002964 AGGCTATTAT
24002974 GTGTAAAAGGTTCGAAGATGGGCTGAATGAGGACATCCAACTGTTAGTTGGAATCTTGGAACTAA
1 GTGTAAAAGGTTCGAAGATGGGCTGAATGAGGACATCCAACTGTTAGTTGGAATCTTGGAACTAA
24003039 AAGAATTTGTTGTATTGGTTGAATGAGCTTGCAAAGTCGAAGAGCTAAGCAAAGAGAAAAGAAAG
66 AAGAATTTGTTGTATTGGTTGAATGAGCTTGCAAAGTCGAAGAGCTAAGCAAAGAGAAAAGAAAG
24003104 GCCGAGAGTGAGGCTAGAGATGTAAGAAAAAGGCAGATGAGTAAGTCATTTCAATCTAAGTCAAA
131 GCCGAGAGTGAGGCTAGAGATGTAAGAAAAAGGCAGATGAGTAAGTCATTTCAATCTAAGTCAAA
*
24003169 GAAATCTAGAGAAATGTATTCTCGTTTGAATGTATTAGCTGGGTATTTACACAGAGACTGTGGGA
196 GAAATCTAGAGAAATGTATTCTCGTTTGAATGTATTAGCTGGGTATTTACACAGAGACCGTGGGA
24003234 AACAATTTTTGGGTCTGAAAACTCAAGCTACTTTAATGGAAAGTGTGGGTAATGTTAGGTCTAGC
261 AACAATTTTTGGGTCTGAAAACTCAAGCTACTTTAATGGAAAGTGTGGGTAATGTTAGGTCTAGC
24003299 AGACCTGGATGTTAGCATTGTGCAAGAAGACACCCCAGCGA
326 AGACCTGGATGTTAGCATTGTGCAAGAAGACACCCCAGCGA
24003340 GTGTAAAAGGTTCGAAGATGGGCTGAATGAGGACATCCAACTGTTAGTTGGAATCTTGGAACTAA
1 GTGTAAAAGGTTCGAAGATGGGCTGAATGAGGACATCCAACTGTTAGTTGGAATCTTGGAACTAA
24003405 AAGAATTTGTTGTATTGGTTGAATGAGCTTGCAAAGTCGAAGAGCTAAGCAAAGAGAAAAGAAAG
66 AAGAATTTGTTGTATTGGTTGAATGAGCTTGCAAAGTCGAAGAGCTAAGCAAAGAGAAAAGAAAG
24003470 GCCGAGAGTGAGGCTAGAGATGTAAGAAAAAGGCAGATGAGTAAGTCATTTCAATCTAAGTCAAA
131 GCCGAGAGTGAGGCTAGAGATGTAAGAAAAAGGCAGATGAGTAAGTCATTTCAATCTAAGTCAAA
24003535 GAAATCTAGAGAAATGTATTCTCGTTTGAATGTATTAGCTGGGTATTTACACAGAGACCGTGGGA
196 GAAATCTAGAGAAATGTATTCTCGTTTGAATGTATTAGCTGGGTATTTACACAGAGACCGTGGGA
*
24003600 AACAATTTTTGGGTTTGAAAACTCAAGCTACTTTAATGGAAAGTGTGGGTAATGTTAGGTCTAGC
261 AACAATTTTTGGGTCTGAAAACTCAAGCTACTTTAATGGAAAGTGTGGGTAATGTTAGGTCTAGC
24003665 AGACCTGGATGTTAGCATTGTGCAAGAAGACACCCCAGCGA
326 AGACCTGGATGTTAGCATTGTGCAAGAAGACACCCCAGCGA
24003706 GTGTAA
1 GTGTAA
24003712 GATGAATGGT
Statistics
Matches: 370, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
366 370 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (366 bp):
GTGTAAAAGGTTCGAAGATGGGCTGAATGAGGACATCCAACTGTTAGTTGGAATCTTGGAACTAA
AAGAATTTGTTGTATTGGTTGAATGAGCTTGCAAAGTCGAAGAGCTAAGCAAAGAGAAAAGAAAG
GCCGAGAGTGAGGCTAGAGATGTAAGAAAAAGGCAGATGAGTAAGTCATTTCAATCTAAGTCAAA
GAAATCTAGAGAAATGTATTCTCGTTTGAATGTATTAGCTGGGTATTTACACAGAGACCGTGGGA
AACAATTTTTGGGTCTGAAAACTCAAGCTACTTTAATGGAAAGTGTGGGTAATGTTAGGTCTAGC
AGACCTGGATGTTAGCATTGTGCAAGAAGACACCCCAGCGA
Found at i:24010346 original size:9 final size:9
Alignment explanation
Indices: 24010302--24010330 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
24010292 TGGCTCTGAT
24010302 AGAGTTGAA
1 AGAGTTGAA
24010311 AGAGTTGAA
1 AGAGTTGAA
24010320 AGAGTTGAA
1 AGAGTTGAA
24010329 AG
1 AG
24010331 CTCAGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:24012681 original size:21 final size:20
Alignment explanation
Indices: 24012653--24012691 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24012643 ATGTGTATTT
*
24012653 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTAATAGATTA
*
24012673 TGAATGTTTGTTAATAGAT
1 TGAA-GTTTCTTAATAGAT
24012692 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:24015045 original size:25 final size:24
Alignment explanation
Indices: 24015017--24015063 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
24015007 TGTCGAGGAA
*
24015017 GGCCACTATGAGCCTCATGGGCCTG
1 GGCCACAATGAGCCT-ATGGGCCTG
* *
24015042 GGCCGCAATGGGCCTATGGGCC
1 GGCCACAATGAGCCTATGGGCC
24015064 CGTGTGGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.15, C:0.32, G:0.36, T:0.17
Consensus pattern (24 bp):
GGCCACAATGAGCCTATGGGCCTG
Found at i:24015729 original size:22 final size:22
Alignment explanation
Indices: 24015704--24015746 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24015694 CTGCGATATT
*
24015704 TATGGCCTTTAGCCGTTCTGTC
1 TATGGCCTTGAGCCGTTCTGTC
* *
24015726 TATGGCGTTGAGCTGTTCTGT
1 TATGGCCTTGAGCCGTTCTGT
24015747 TGACTTAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
TATGGCCTTGAGCCGTTCTGTC
Found at i:24030235 original size:79 final size:81
Alignment explanation
Indices: 24030126--24030308 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
24030116 TACTCGTTCA
* * *
24030126 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
24030189 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
24030206 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
24030269 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
24030285 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
24030309 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:24030308 original size:40 final size:40
Alignment explanation
Indices: 24030105--24030308 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
24030095 CGAAATTTAA
** *
24030105 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
24030145 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24030185 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24030224 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24030264 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24030304 CCGGA
1 CCGGA
24030309 CATCATTCGA
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:24032797 original size:42 final size:42
Alignment explanation
Indices: 24032739--24033039 Score: 476
Period size: 42 Copynumber: 7.2 Consensus size: 42
24032729 TTGATGCCTC
* * *
24032739 TGTCCCAGATAGGGTCTTACACGAAATCAGATACGATGTCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
* * *
24032781 TGTCCCAAACATGGTCTTACATGAAATCAGATACGATGTCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
*
24032823 TGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
*
24032865 TGTCCCAGACATGGTCTTACACGAAATCAGATAAGATGCCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
* * *
24032907 TGTCCCAGACATGATCTTACATGAAATCAGATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
*
24032949 TGTCCCAAACATGGTCTTACACGAAATCAGATACGATGCCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
* *
24032991 TGTCCTAGACATGGTCTTACACGAAATCAGATACGATGTCGA
1 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
24033033 TGTCCCA
1 TGTCCCA
24033040 TTAGAAACAT
Statistics
Matches: 237, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 237 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGA
Found at i:24041174 original size:29 final size:29
Alignment explanation
Indices: 24041141--24041214 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
24041131 GTTGTGAGAT
* *
24041141 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
24041170 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
24041199 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24041215 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:24047153 original size:41 final size:42
Alignment explanation
Indices: 24047088--24047203 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 42
24047078 ATTAAATATC
* *
24047088 GATGCC-ACTATCCCAGATAAGGTCTTACACGAAA-TCAAATT
1 GATGCCAAC-ATCCCAGACATGGTCTTACACGAAACTCAAATT
* * **
24047129 GATGTCGATGTCCCAGACATGGTCTT--A-GTAAATCTCAAATT
1 GATGCCAACATCCCAGACATGGTCTTACACG-AAA-CTCAAATT
*
24047170 GATGCCAACATCCCAAACATGGTCTTACACGAAA
1 GATGCCAACATCCCAGACATGGTCTTACACGAAA
24047204 ACACATATCG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
41 47 0.81
42 1 0.02
43 4 0.07
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
GATGCCAACATCCCAGACATGGTCTTACACGAAACTCAAATT
Found at i:24050476 original size:45 final size:45
Alignment explanation
Indices: 24050407--24050631 Score: 292
Period size: 45 Copynumber: 5.0 Consensus size: 45
24050397 GGAAAGAACT
* *
24050407 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTC
1 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
24050452 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
* * *
24050497 GGTGAAATGTTAGTAGGG-TCTTTGAGCCTAGCAGTCTATAATGCC
1 GGTGAAATGTTATTCGGGCT-TTTGAGCCTAGCAGGCTATAATGCC
* * *
24050542 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
* *** * * *
24050587 GGTGAGACACTATTCCGGCTTTCGAGCCTAGCAGG-TAAAATGCC
1 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
24050631 G
1 G
24050632 ATGATTTGAG
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
44 10 0.06
45 151 0.94
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (45 bp):
GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
Found at i:24053672 original size:18 final size:18
Alignment explanation
Indices: 24053651--24053694 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24053641 GCAGTAGTAA
*
24053651 TAAACAGTGCAGAAACAG
1 TAAACAGTGCAAAAACAG
* *
24053669 TAAACAGTTCAAAAATAG
1 TAAACAGTGCAAAAACAG
24053687 TAAACAGT
1 TAAACAGT
24053695 ATGCAACTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (18 bp):
TAAACAGTGCAAAAACAG
Found at i:24056921 original size:53 final size:52
Alignment explanation
Indices: 24056858--24057032 Score: 156
Period size: 53 Copynumber: 3.3 Consensus size: 52
24056848 GGGGTAAAAT
* * *
24056858 GTCATCTTACCATAAAGGGCAAAATAGTCATTTCACCACCTAAGGG-AACAACA
1 GTCATTTTACCATAAAGGGCAAAATAGTCATTTAACCA-CAAAGGGCAA-AACA
** * *
24056911 GTCATTTTACC-TCATGGGGAAAAATAGTCATTTAACCACAAAGGGCAAAATA
1 GTCATTTTACCAT-AAAGGGCAAAATAGTCATTTAACCACAAAGGGCAAAACA
* * * * * * **
24056963 GCCATTTAACCACAAAGGGCAAAATAGTCATTTTACAACACAGGGGCATTACA
1 GTCATTTTACCATAAAGGGCAAAATAGTCATTTAACCACA-AAGGGCAAAACA
*
24057016 GTCATTTTACCACAAAG
1 GTCATTTTACCATAAAG
24057033 TGGGTCTAGG
Statistics
Matches: 97, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
52 41 0.42
53 56 0.58
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (52 bp):
GTCATTTTACCATAAAGGGCAAAATAGTCATTTAACCACAAAGGGCAAAACA
Found at i:24057007 original size:26 final size:26
Alignment explanation
Indices: 24056853--24057032 Score: 166
Period size: 26 Copynumber: 6.9 Consensus size: 26
24056843 ACATAGGGGT
* *
24056853 AAAAT-GTCATCTTACCATAAAGGGC
1 AAAATAGTCATTTTACCACAAAGGGC
* *
24056878 AAAATAGTCATTTCACCACCTAAGGG-
1 AAAATAGTCATTTTACCA-CAAAGGGC
* * ** *
24056904 AACAACAGTCATTTTACCTCATGGGGA
1 AA-AATAGTCATTTTACCACAAAGGGC
*
24056931 AAAATAGTCATTTAACCACAAAGGGC
1 AAAATAGTCATTTTACCACAAAGGGC
* *
24056957 AAAATAGCCATTTAACCACAAAGGGC
1 AAAATAGTCATTTTACCACAAAGGGC
* *
24056983 AAAATAGTCATTTTACAACACAGGGGC
1 AAAATAGTCATTTTACCACA-AAGGGC
** *
24057010 ATTACAGTCATTTTACCACAAAG
1 AAAATAGTCATTTTACCACAAAG
24057033 TGGGTCTAGG
Statistics
Matches: 124, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
25 5 0.04
26 78 0.63
27 41 0.33
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.23
Consensus pattern (26 bp):
AAAATAGTCATTTTACCACAAAGGGC
Found at i:24057019 original size:79 final size:78
Alignment explanation
Indices: 24056858--24057032 Score: 185
Period size: 79 Copynumber: 2.2 Consensus size: 78
24056848 GGGGTAAAAT
* * * * *
24056858 GTCATCTTACCATAAAGGGCAAAATAGTCATTTCACCACCTAAGGGAACAACAGTCATTTTACCT
1 GTCAT-TTACCACAAAGGGCAAAATAGCCATTTAACCACCAAAGGGAACAACAGTCATTTTACCA
*
24056923 CATGGGGAAAAATA
65 CATGGGGAAAAACA
*
24056937 GTCATTTAACCACAAAGGGCAAAATAGCCATTTAACCA-CAAAGGGCAA-AATAGTCATTTTACA
1 GTCATTT-ACCACAAAGGGCAAAATAGCCATTTAACCACCAAAGGG-AACAACAGTCATTTTAC-
* **
24057000 ACACA-GGGGCATTACA
63 -CACATGGGGAAAAACA
24057016 GTCATTTTACCACAAAG
1 GTCA-TTTACCACAAAG
24057033 TGGGTCTAGG
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
78 21 0.26
79 54 0.67
80 6 0.07
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (78 bp):
GTCATTTACCACAAAGGGCAAAATAGCCATTTAACCACCAAAGGGAACAACAGTCATTTTACCAC
ATGGGGAAAAACA
Found at i:24057985 original size:37 final size:37
Alignment explanation
Indices: 24057935--24058013 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24057925 TTATTACGAA
* * *
24057935 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24057972 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24058009 GTCTT
1 GTCTT
24058014 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24058210 original size:47 final size:47
Alignment explanation
Indices: 24058132--24058365 Score: 360
Period size: 47 Copynumber: 4.9 Consensus size: 47
24058122 CCCTTCGGGA
* * * * * *
24058132 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24058179 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24058226 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24058273 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24058322 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
24058366 CGCCATACTA
Statistics
Matches: 173, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 126 0.73
49 47 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24058328 original size:96 final size:94
Alignment explanation
Indices: 24058132--24058365 Score: 360
Period size: 96 Copynumber: 2.5 Consensus size: 94
24058122 CCCTTCGGGA
* * * * * * *
24058132 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
24058197 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
24058226 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
24058291 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
24058322 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
24058366 CGCCATACTA
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 46 0.36
96 81 0.64
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:24062325 original size:39 final size:39
Alignment explanation
Indices: 24062299--24062451 Score: 261
Period size: 39 Copynumber: 3.9 Consensus size: 39
24062289 GTCCAGCACG
*
24062299 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
24062338 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * *
24062377 TAGCCTACGGACTTGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
24062416 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGC
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGC
24062452 GAATATATAT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:24067594 original size:27 final size:27
Alignment explanation
Indices: 24067564--24067740 Score: 118
Period size: 27 Copynumber: 6.7 Consensus size: 27
24067554 GAGCAAAACG
* *
24067564 GTCATTTCACAACATAAGGGAAAAATA
1 GTCATTTTACAACATAAGGGCAAAATA
** * *
24067591 GTCATTTTACCTCATAGGGGCAAATTA
1 GTCATTTTACAACATAAGGGCAAAATA
* * *
24067618 GTCA-TTTA-ACCATAAAGGCCGAAATA
1 GTCATTTTACAACAT-AAGGGCAAAATA
* * * *
24067644 GTCATTTTAC--CATAGGGGTAATACA
1 GTCATTTTACAACATAAGGGCAAAATA
*
24067669 GTCATTTTACCACA-AAGGGCAAAATA
1 GTCATTTTACAACATAAGGGCAAAATA
* *
24067695 GTCATTTTAC--CATACAGGGGCAATACA
1 GTCATTTTACAACATA-A-GGGCAAAATA
*
24067722 GTCATTTTACCACA-AAGGG
1 GTCATTTTACAACATAAGGG
24067741 GGTCTAAGTA
Statistics
Matches: 116, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
24 2 0.02
25 20 0.17
26 41 0.35
27 50 0.43
28 1 0.01
29 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
GTCATTTTACAACATAAGGGCAAAATA
Found at i:24067675 original size:51 final size:51
Alignment explanation
Indices: 24067585--24067739 Score: 204
Period size: 51 Copynumber: 3.0 Consensus size: 51
24067575 ACATAAGGGA
* * *
24067585 AAAATAGTCATTTTACCTCATAGGGGCAA-ATTAGTCATTTAACCATAAAGGCC
1 AAAATAGTCATTTTA-C-CATAGGGGCAATA-CAGTCATTTTACCACAAAGGCC
* * *
24067638 GAAATAGTCATTTTACCATAGGGGTAATACAGTCATTTTACCACAAAGGGC
1 AAAATAGTCATTTTACCATAGGGGCAATACAGTCATTTTACCACAAAGGCC
24067689 AAAATAGTCATTTTACCATACAGGGGCAATACAGTCATTTTACCACAAAGG
1 AAAATAGTCATTTTACCAT--AGGGGCAATACAGTCATTTTACCACAAAGG
24067740 GGGTCTAAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
51 46 0.51
52 2 0.02
53 43 0.47
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (51 bp):
AAAATAGTCATTTTACCATAGGGGCAATACAGTCATTTTACCACAAAGGCC
Found at i:24067740 original size:53 final size:52
Alignment explanation
Indices: 24067564--24067740 Score: 207
Period size: 53 Copynumber: 3.4 Consensus size: 52
24067554 GAGCAAAACG
* * * *
24067564 GTCATTTCACAACATAAGGGAAAAATAGTCATTTTACC-TCATAGGGGCAA-ATTA
1 GTCATTTTACCACA-AAGGGCAAAATAGTCATTTTACCAT-A-AGGGGCAATA-CA
* * * * *
24067618 GTCATTTAACCATAAAGGCCGAAATAGTCATTTTACCAT-AGGGGTAATACA
1 GTCATTTTACCACAAAGGGCAAAATAGTCATTTTACCATAAGGGGCAATACA
24067669 GTCATTTTACCACAAAGGGCAAAATAGTCATTTTACCATACAGGGGCAATACA
1 GTCATTTTACCACAAAGGGCAAAATAGTCATTTTACCATA-AGGGGCAATACA
24067722 GTCATTTTACCACAAAGGG
1 GTCATTTTACCACAAAGGG
24067741 GGTCTAAGTA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 43 0.41
52 1 0.01
53 50 0.47
54 12 0.11
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (52 bp):
GTCATTTTACCACAAAGGGCAAAATAGTCATTTTACCATAAGGGGCAATACA
Found at i:24067741 original size:27 final size:26
Alignment explanation
Indices: 24067586--24067741 Score: 140
Period size: 27 Copynumber: 6.0 Consensus size: 26
24067576 CATAAGGGAA
* *
24067586 AAATAGTCATTTTACCTCATAGGGGC
1 AAATAGTCATTTTACCACAAAGGGGC
* * *
24067612 AAATTAGTCATTTAACCATAAA-GGCC
1 AAA-TAGTCATTTTACCACAAAGGGGC
* *
24067638 GAAATAGTCATTTTA-C-CATAGGGGT
1 -AAATAGTCATTTTACCACAAAGGGGC
*
24067663 AATACAGTCATTTTACCACAAA-GGGC
1 AA-ATAGTCATTTTACCACAAAGGGGC
* *
24067689 AAAATAGTCATTTTACCATACAGGGGC
1 -AAATAGTCATTTTACCACAAAGGGGC
*
24067716 AATACAGTCATTTTACCACAAAGGGG
1 AA-ATAGTCATTTTACCACAAAGGGG
24067742 GTCTAAGTAC
Statistics
Matches: 102, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
24 4 0.04
25 14 0.14
26 38 0.37
27 46 0.45
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (26 bp):
AAATAGTCATTTTACCACAAAGGGGC
Found at i:24076571 original size:40 final size:40
Alignment explanation
Indices: 24076516--24076737 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
24076506 ATTTGAATAC
24076516 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
24076556 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
24076596 ATACGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
24076635 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
24076675 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
24076715 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
24076738 ATTGAGCTTG
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 37 0.22
40 134 0.78
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:24076727 original size:119 final size:119
Alignment explanation
Indices: 24076516--24076737 Score: 390
Period size: 119 Copynumber: 1.9 Consensus size: 119
24076506 ATTTGAATAC
*
24076516 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
24076581 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
24076635 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * *
24076700 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCA
24076738 ATTGAGCTTG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 97 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
Found at i:24076763 original size:119 final size:119
Alignment explanation
Indices: 24076516--24076764 Score: 383
Period size: 119 Copynumber: 2.1 Consensus size: 119
24076506 ATTTGAATAC
*
24076516 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * *
24076581 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGAGCAAGTGGATAT
24076635 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
24076700 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGC-ATTGAGCAAGTGGATAT
24076755 ATCC-GGCTAA
1 ATCCGGGCTAA
24076765 ATTCCAAAGA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 102 0.86
120 16 0.14
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGAGCAAGTGGATAT
Found at i:24076764 original size:79 final size:79
Alignment explanation
Indices: 24076516--24076741 Score: 371
Period size: 79 Copynumber: 2.8 Consensus size: 79
24076506 ATTTGAATAC
*
24076516 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
24076581 TGTGCGAGTTGATAT
65 TGTGCAAGTTGATAT
*
24076596 ATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATT
24076661 GTGCAAGTTGATAT
66 GTGCAAGTTGATAT
* * * *
24076675 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
24076740 TG
65 TG
24076742 AGCTTGTGGT
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
79 78 0.57
80 59 0.43
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATT
GTGCAAGTTGATAT
Found at i:24084976 original size:40 final size:39
Alignment explanation
Indices: 24084921--24085142 Score: 345
Period size: 40 Copynumber: 5.6 Consensus size: 39
24084911 ATTTGAATAC
*
24084921 ATCCGGGCTAAGACCCGAAGGCATTTCTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGATAT
*
24084961 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGATAT
*
24085001 ATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
24085040 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTGATAT
* *
24085080 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGATAT
* *
24085120 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
24085143 ATTGAGCTTG
Statistics
Matches: 171, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 39 0.23
40 132 0.77
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
Found at i:24085132 original size:119 final size:119
Alignment explanation
Indices: 24084921--24085142 Score: 381
Period size: 119 Copynumber: 1.9 Consensus size: 119
24084911 ATTTGAATAC
*
24084921 ATCCGGGCTAAGACCCGAAGGCATTTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
24084986 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
*
24085040 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * *
24085105 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCA
24085143 ATTGAGCTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
Found at i:24085168 original size:119 final size:119
Alignment explanation
Indices: 24084921--24085169 Score: 374
Period size: 119 Copynumber: 2.1 Consensus size: 119
24084911 ATTTGAATAC
*
24084921 ATCCGGGCTAAGACCCGAAGGCATTTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * *
24084986 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTGTGCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGAGCAAGTGGATAT
*
24085040 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
24085105 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGC-ATTGAGCAAGTGGATAT
24085160 ATCC-GGCTAA
1 ATCCGGGCTAA
24085170 ATTCCAAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 101 0.86
120 16 0.14
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCATTGAGCAAGTGGATAT
Found at i:24085169 original size:79 final size:80
Alignment explanation
Indices: 24084921--24085146 Score: 366
Period size: 79 Copynumber: 2.8 Consensus size: 80
24084911 ATTTGAATAC
*
24084921 ATCCGGGCTAAGACCCGAAGGCATTTC-TGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCA-TTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
*
24084985 TTGTGCGAGTTGATAT
65 TTGTGCAAGTTGATAT
*
24085001 ATACGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
24085065 TGTGCAAGTTGATAT
66 TGTGCAAGTTGATAT
* * * *
24085080 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
24085145 TG
66 TG
24085147 AGCTTGTGGT
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 77 0.57
80 59 0.43
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTTGATAT
Found at i:24092813 original size:33 final size:31
Alignment explanation
Indices: 24092742--24092817 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 31
24092732 GTAGTCCAAC
* **
24092742 TATGGTCTTACACTTATATTGCCATGGCCCT
1 TATGGTCTTACACTTATAATGCCATAACCCT
*
24092773 TCCATGGTCTTACACTTGTAATGCCATAACCCAGT
1 T--ATGGTCTTACACTTATAATGCCATAACCC--T
24092808 TATGGTCTTA
1 TATGGTCTTA
24092818 TCATCAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 1 0.03
33 34 0.92
35 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (31 bp):
TATGGTCTTACACTTATAATGCCATAACCCT
Found at i:24101572 original size:46 final size:47
Alignment explanation
Indices: 24101427--24101687 Score: 207
Period size: 47 Copynumber: 5.6 Consensus size: 47
24101417 GTAAGGTGCT
* * * *
24101427 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAA-GTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAAGGCC
* * *
24101474 AATGCCATGTCCCAGAAATGGTCTTACACTGAC-TATCATCTCATA-GCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGGCC
* * *
24101522 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCC
* * * * *
24101568 GATG-CATGTCTCGGACATGTCTTACACTAGCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAGGCC
* * * **
24101614 GATGCCATGTCCTAGACATGCTTTTACACTGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCT-TACAT-CTCAAGGCC
24101662 GATG-CATGTCCCAGACATGTCTTACA
1 GATGCCATGTCCCAGACATGTCTTACA
24101688 TTAGCTCACA
Statistics
Matches: 175, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.39
47 77 0.44
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCC
Found at i:24101679 original size:94 final size:92
Alignment explanation
Indices: 24101427--24101694 Score: 242
Period size: 94 Copynumber: 2.9 Consensus size: 92
24101417 GTAAGGTGCT
* * * * *
24101427 GATGCCATGTCCCAAACATGGTCTTACACTGGC-T-CATATCTCAAGTCAATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATATC-GAGGCCGATG-CATGTCCCAGA
* *
24101490 AATGGTCTTACACT-GACTATCATCTCATAGCC
62 CAT-GTCTTACACTAG-CTCTCATCTCATAGCC
* * * * *
24101522 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCTCGGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
*
24101587 TCTTACACTAGCTCTCGTCTCA-ATGCC
66 TCTTACACTAGCTCTCATCTCATA-GCC
* * *
24101614 GATGCCATGTCCTAGACATGCTTTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGA
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCCAGA
*
24101677 CATGTCTTACATTAGCTC
62 CATGTCTTACACTAGCTC
24101695 ACAAACAAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
91 1 0.01
92 26 0.18
93 39 0.27
94 67 0.47
95 10 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCATCTCATAGCC
Found at i:24103379 original size:13 final size:13
Alignment explanation
Indices: 24103363--24103387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24103353 TAGACATAAG
24103363 GTCAAGACACACA
1 GTCAAGACACACA
24103376 GTCAAGACACAC
1 GTCAAGACACAC
24103388 GCCTGTGCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (13 bp):
GTCAAGACACACA
Found at i:24109842 original size:27 final size:26
Alignment explanation
Indices: 24109804--24109890 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
24109794 TGGAGGAAGC
*
24109804 GTTCTGGTGGCTACGCCACAAATATTT
1 GTTCTGGTGGCTACGCCAC-AATATCT
**
24109831 GTTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTACGCCACAATATCT
* *
24109857 GTATCTGGTGACT-CTGTCACAATATCT
1 GT-TCTGGTGGCTAC-GCCACAATATCT
24109884 GTTCTGG
1 GTTCTGG
24109891 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
26 13 0.25
27 39 0.75
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTACGCCACAATATCT
Found at i:24112440 original size:18 final size:18
Alignment explanation
Indices: 24112417--24112451 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24112407 CTGACGTTAT
24112417 AACTGGTACGTTCTTGAG
1 AACTGGTACGTTCTTGAG
24112435 AACTGGTACGTTCTTGA
1 AACTGGTACGTTCTTGA
24112452 TTTTTAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (18 bp):
AACTGGTACGTTCTTGAG
Found at i:24116452 original size:40 final size:40
Alignment explanation
Indices: 24116380--24116562 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
24116370 GCTACTCGTT
* *
24116380 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
24116420 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
24116460 TC-AATGCCTTCGAG-CTTAGCCCGAAATTAGTAGCTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24116499 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
24116540 CAAA-GCCGTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
24116563 AACATCATTC
Statistics
Matches: 117, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 71 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24116505 original size:39 final size:40
Alignment explanation
Indices: 24116408--24116510 Score: 138
Period size: 39 Copynumber: 2.6 Consensus size: 40
24116398 AGCCCAGTTA
* * *
24116408 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGAAAT
*
24116448 TAGTAACTCGCATC-AATGCCTTCGAG-CTTAGCCCGAAAT
1 TAGTAACTCGCA-CAAATGCCTTCGAGACTTAACCCGAAAT
*
24116487 TAGTAGCTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
24116511 GATCTTAGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 31 0.55
40 23 0.41
41 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGAAAT
Done.