Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 177 of 255
Found at i:58454571 original size:30 final size:30
Alignment explanation
Indices: 58454513--58454571 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
58454503 ATTTTCGAGC
* **
58454513 CTAGGGGAAAAATGGTTATTTTGTCAAAGT
1 CTAGGGGAAAAATGGTCATTTTACCAAAGT
* *
58454543 CTAGGGGCAAAATGGTCGTTTTACCAAAG
1 CTAGGGGAAAAATGGTCATTTTACCAAAG
58454572 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (30 bp):
CTAGGGGAAAAATGGTCATTTTACCAAAGT
Found at i:58455092 original size:46 final size:44
Alignment explanation
Indices: 58454910--58455131 Score: 171
Period size: 46 Copynumber: 4.8 Consensus size: 44
58454900 TCACTTGTGT
* * **
58454910 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATATTATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GAC
* * *
58454956 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGTC-ATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAC
* * **
58455002 GAGTGCTAGTGTAAGACATGTCTAGGACATGCATCATCCT-CGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGAC
* *
58455048 GTAAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCTACGAGAT
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAC
* *
58455094 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
58455132 ACAGATATGC
Statistics
Matches: 143, Mismatches: 20, Indels: 26
0.76 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 18 0.13
46 70 0.49
47 26 0.18
48 18 0.13
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAC
Found at i:58458942 original size:118 final size:118
Alignment explanation
Indices: 58458727--58458942 Score: 254
Period size: 118 Copynumber: 1.8 Consensus size: 118
58458717 GGTTTATCGA
* * * * * *
58458727 TTTAAGTTCACAACCTCCAAAGTAGCTAGTAGGCCTAAGCTCCTAGCTGATATTATAAGAGCTCG
1 TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTAAGCTCCCAGCTGACATTATAAGAGCTCA
* * * * ** *
58458792 CAGAGTTAAGTTTGTAGCTCCAACACAGCTAGTGGACCTACGCTCGTTTGTAG
66 CAGAATTAAGCTCGCAAATCCAACACAACTAGTGGACCTACGCTCGTTTGTAG
* * *
58458845 TTTAAGATCGCAACCTCTAAAGTAGCTAGCAGACCTACA-TTCCCAGCTGACATTATAAGAGCTC
1 TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTA-AGCTCCCAGCTGACATTATAAGAGCTC
**
58458909 ACAGAATTAAGCTCGCAAATCCAGTACAACTAGT
65 ACAGAATTAAGCTCGCAAATCCAACACAACTAGT
58458943 AAGACTACCT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
118 78 0.99
119 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (118 bp):
TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTAAGCTCCCAGCTGACATTATAAGAGCTCA
CAGAATTAAGCTCGCAAATCCAACACAACTAGTGGACCTACGCTCGTTTGTAG
Found at i:58460191 original size:25 final size:28
Alignment explanation
Indices: 58460161--58460219 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
58460151 TTTATGAAGG
*
58460161 AAATAAAAATATT-TAAATTTAT-TT-T
1 AAATAAAAATATTATAAAATTATGTTGT
58460186 AAATAAAAAATATTATAAAATTATGTTGT
1 AAAT-AAAAATATTATAAAATTATGTTGT
58460215 AAATA
1 AAATA
58460220 TTGATTTACC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.14
26 9 0.31
27 8 0.28
28 3 0.10
29 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
AAATAAAAATATTATAAAATTATGTTGT
Found at i:58461072 original size:28 final size:28
Alignment explanation
Indices: 58461040--58461093 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
58461030 TGTAAGAAAT
* * *
58461040 TATTAATAATATTATTTAAATTATAATA
1 TATTAATAATAGTATTCAAATCATAATA
*
58461068 TATTAATATTAGTATTCAAATCATAA
1 TATTAATAATAGTATTCAAATCATAA
58461094 CGAATATTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTAATAATAGTATTCAAATCATAATA
Found at i:58461841 original size:25 final size:24
Alignment explanation
Indices: 58461797--58461845 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
58461787 AATTTAAATT
*
58461797 TTATATTAATATGAAGTAAATATAA
1 TTATATTAATATGAAATAAA-ATAA
*
58461822 TTATATTAATATTAAATAAAATAA
1 TTATATTAATATGAAATAAAATAA
58461846 AAATCCCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TTATATTAATATGAAATAAAATAA
Found at i:58463901 original size:58 final size:58
Alignment explanation
Indices: 58463822--58463951 Score: 228
Period size: 58 Copynumber: 2.3 Consensus size: 58
58463812 TAATAGAAAC
*
58463822 AAAAAC-AATTAA-GTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGAAAAATT
1 AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGAAAAATT
*
58463878 AAAAATAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGAAAAATT
1 AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGAAAAATT
58463936 AAAAACAAATTAATTT
1 AAAAACAAATTAATTT
58463952 GAAGAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
56 5 0.07
57 6 0.09
58 58 0.84
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (58 bp):
AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGAAAAATT
Found at i:58494915 original size:43 final size:43
Alignment explanation
Indices: 58494854--58494983 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 43
58494844 GAGATATGTG
* * **
58494854 GCATCCAAGCTCGTTGAGAGG-TCTGAGTTTGTTATGGATGCGA
1 GCATCCAAGCTAGTTGAGAGGTTC-GAGCTCATTATGGATGCGA
*
58494897 GCATCCGAGCTAGTTGAGAGGTTCGAGCTCATTATGGATGCGA
1 GCATCCAAGCTAGTTGAGAGGTTCGAGCTCATTATGGATGCGA
** * *
58494940 GCATTTGAA-CTCA-TTAGAGAGGTTCGAGTTCATAATGGATGCGA
1 GCA-TCCAAGCT-AGTT-GAGAGGTTCGAGCTCATTATGGATGCGA
58494984 TTCATGTAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
43 42 0.58
44 31 0.42
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (43 bp):
GCATCCAAGCTAGTTGAGAGGTTCGAGCTCATTATGGATGCGA
Found at i:58494978 original size:44 final size:43
Alignment explanation
Indices: 58494887--58494983 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 43
58494877 TGAGTTTGTT
* *
58494887 ATGGATGCGAGCATCCGAGCTAGTTGAGAGGTTCGAGCTCATT
1 ATGGATGCGAGCATCCGAACTAGTTGAGAGGTTCGAGCTCATA
** *
58494930 ATGGATGCGAGCATTTGAACTCA-TTAGAGAGGTTCGAGTTCATA
1 ATGGATGCGAGCATCCGAACT-AGTT-GAGAGGTTCGAGCTCATA
58494974 ATGGATGCGA
1 ATGGATGCGA
58494984 TTCATGTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 20 0.43
44 27 0.57
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (43 bp):
ATGGATGCGAGCATCCGAACTAGTTGAGAGGTTCGAGCTCATA
Found at i:58496006 original size:21 final size:22
Alignment explanation
Indices: 58495980--58496020 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58495970 CACTTGATAC
58495980 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
58496001 AGGGGCAACACGCCCTTGTG
1 AGGGGCAACACGCCCGTGTG
58496021 ACCAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.29, G:0.41, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:58497308 original size:46 final size:44
Alignment explanation
Indices: 58497224--58497392 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 44
58497214 ATATTTGTGC
*
58497224 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTC-ATAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCGA-AGT
*
58497270 CGATGCATGTCCCA-AGCATGTCTTACACTAACTTACATCTCGAGGT
1 CGATGCATGTCCCAGA-CATGTCTTACACTAAC--ACATCTCGAAGT
* * * * *
58497316 TGATGCATGCCCCAGACATGTCTTACACTAGCAC-TCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAACACATC-TC-GAA-GT
58497362 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
58497393 GGCTCTCATA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
43 2 0.02
44 17 0.17
45 13 0.13
46 46 0.45
47 15 0.15
48 10 0.10
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGAAGT
Found at i:58497415 original size:94 final size:94
Alignment explanation
Indices: 58497175--58497446 Score: 276
Period size: 94 Copynumber: 2.9 Consensus size: 94
58497165 GTAAGGTGCT
*
58497175 GATGCCATGTCCCAGACATGGTCTTACA-TAAGCTCTAGCATATTTGTGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTA-CATATATG-GCCGATG-CATGTCCCA
*
58497239 GACATGGTCTTACACT-G-ACACATCTCATAGTC
62 GACAT-GTCTTACACTAGCACACATCTCATAGCC
* * ** *
58497271 GATG-CATGTCCCA-AGCAT-GTCTTACACTAACT-TACATCTCGA-GGTTGATGCATGCCCCAG
1 GATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTACATAT--ATGGCCGATGCATGTCCCAG
* *
58497331 ACATGTCTTACACTAGCACTCGTCTCA-ATGCC
63 ACATGTCTTACACTAGCACACATCTCATA-GCC
*
58497363 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATATGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-ATATGGCCGATGCATGTCCCAGAC
* *
58497427 ATGTCTCACACTAGCTCACA
65 ATGTCTTACACTAGCACACA
58497447 ATAACCCATA
Statistics
Matches: 144, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 23 0.16
93 16 0.11
94 61 0.42
95 15 0.10
96 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATATGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACACATCTCATAGCC
Found at i:58503679 original size:16 final size:17
Alignment explanation
Indices: 58503649--58503683 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58503639 CGTCAAAATT
58503649 AACTCACCAAAATTTTC
1 AACTCACCAAAATTTTC
*
58503666 AACTCACCAAATTTTTC
1 AACTCACCAAAATTTTC
58503683 A
1 A
58503684 CACACTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (17 bp):
AACTCACCAAAATTTTC
Found at i:58510487 original size:40 final size:39
Alignment explanation
Indices: 58510418--58510495 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
58510408 GTTATGGGAG
58510418 AAGAAATATTTTTTCAACAAAATCCAAAAAATTTTGCCT
1 AAGAAATATTTTTTCAACAAAATCCAAAAAATTTTGCCT
58510457 AAGAAATATTTTTTCAACAAAATCCAAAAAATTTTGCCT
1 AAGAAATATTTTTTCAACAAAATCCAAAAAATTTTGCCT
58510496 TCAGCCATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (39 bp):
AAGAAATATTTTTTCAACAAAATCCAAAAAATTTTGCCT
Found at i:58514133 original size:43 final size:43
Alignment explanation
Indices: 58514019--58514255 Score: 236
Period size: 43 Copynumber: 5.6 Consensus size: 43
58514009 ATCAAGATGA
* * *
58514019 GATTCCATGTAAGACCATGTCTGGGACATTGGCATC-GTATTGT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATCATTA-TAT
* * *
58514062 GA-TT-ACGT--GACCATTTCTGGGACATTGGCATCATTATGT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATCATTATAT
* **
58514101 GATTTCATGTAAGACCACGTCTGGGATGTTGGCATCGA-TATAT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATC-ATTATAT
** *
58514144 GATAACATGTAAGACCATTTCTGGGACATTGGCATCATTATAT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATCATTATAT
* *
58514187 GATTTCATGTAAGACCACGTCTGGAACATTGGCATCGA-TATAT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATC-ATTATAT
** * *
58514230 GATAACTTGTAAGACCATATCTGGGA
1 GATTTCATGTAAGACCATGTCTGGGA
58514256 TATGACATTC
Statistics
Matches: 159, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 28 0.18
40 4 0.03
41 6 0.04
42 2 0.01
43 117 0.74
44 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTTCATGTAAGACCATGTCTGGGACATTGGCATCATTATAT
Found at i:58514184 original size:86 final size:85
Alignment explanation
Indices: 58514019--58514255 Score: 338
Period size: 86 Copynumber: 2.8 Consensus size: 85
58514009 ATCAAGATGA
* * * *
58514019 GATTCCATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGTGATTAC-GT--GACCATTTCT
1 GATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATA-TATGATAACTGTAAGACCATTTCT
*
58514080 GGGACATTGGCATCATTATGT
65 GGGACATTGGCATCATTATAT
**
58514101 GATTTCATGTAAGACCACGTCTGGGATGTTGGCATCGATATATGATAACATGTAAGACCATTTCT
1 GATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATAAC-TGTAAGACCATTTCT
58514166 GGGACATTGGCATCATTATAT
65 GGGACATTGGCATCATTATAT
* *
58514187 GATTTCATGTAAGACCACGTCTGGAACATTGGCATCGATATATGATAACTTGTAAGACCATATCT
1 GATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATAAC-TGTAAGACCATTTCT
58514252 GGGA
65 GGGA
58514256 TATGACATTC
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
82 40 0.29
83 2 0.01
84 2 0.01
86 94 0.68
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATAACTGTAAGACCATTTCTG
GGACATTGGCATCATTATAT
Found at i:58514253 original size:129 final size:125
Alignment explanation
Indices: 58514024--58514256 Score: 281
Period size: 129 Copynumber: 1.8 Consensus size: 125
58514014 GATGAGATTC
* ** *
58514024 CATGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTACGTGACCATTTCTGGGACATTG
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTACGTGACCACGTCTGGAACATTG
* ** *
58514089 GCATCATTATGTGATTTCATGTAAGACCACGTCTGGGATGTTGGCATCGATATATGATAA
66 GCATCATTATATGATAACATGTAAGACCACATCTGGGATGTTGGCATCGATATATGATAA
* * *
58514149 CATGTAAGACCATTTCTGGGACATTGGCATCAT-TATATGATTTCATGTAAGACCACGTCTGGAA
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TATGA-TT-ACGT--GACCACGTCTGGAA
* *
58514213 CATTGGCATCGA-TATATGATAACTTGTAAGACCATATCTGGGAT
61 CATTGGCATC-ATTATATGATAACATGTAAGACCACATCTGGGAT
58514257 ATGACATTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
124 1 0.01
125 35 0.39
126 2 0.02
127 3 0.03
129 47 0.53
130 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (125 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTACGTGACCACGTCTGGAACATTG
GCATCATTATATGATAACATGTAAGACCACATCTGGGATGTTGGCATCGATATATGATAA
Found at i:58521680 original size:43 final size:43
Alignment explanation
Indices: 58521633--58521772 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
58521623 TTGGATTACA
* * *
58521633 TGTAAGACCAGGTCTGGGACATTGGCATTG-TATTTTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATT-TCG
58521676 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
* * ** *
58521719 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
58521762 TGTAAGACCAT
1 TGTAAGACCAT
58521773 ATTTGGGATA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 84 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:58534886 original size:26 final size:28
Alignment explanation
Indices: 58534857--58534911 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
58534847 TATTCATGTG
58534857 GTTTAAAGC-TTTT-TTATTTTAATTTT
1 GTTTAAAGCTTTTTCTTATTTTAATTTT
*
58534883 GTTTCAAGCTTTTTTCTTATTTTAATTTT
1 GTTTAAAGC-TTTTTCTTATTTTAATTTT
58534912 TACTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
28 4 0.16
29 13 0.52
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (28 bp):
GTTTAAAGCTTTTTCTTATTTTAATTTT
Found at i:58541290 original size:9 final size:9
Alignment explanation
Indices: 58541276--58541300 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58541266 TAGCATACAA
58541276 CCTCCTTAT
1 CCTCCTTAT
58541285 CCTCCTTAT
1 CCTCCTTAT
58541294 CCTCCTT
1 CCTCCTT
58541301 CTCAACCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.48, G:0.00, T:0.44
Consensus pattern (9 bp):
CCTCCTTAT
Found at i:58542561 original size:22 final size:22
Alignment explanation
Indices: 58542536--58542579 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58542526 TAGTCATATA
58542536 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
58542558 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
58542580 TACTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:58542617 original size:13 final size:14
Alignment explanation
Indices: 58542599--58542640 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
58542589 TTTCAATTTT
58542599 ATTTTAATAAT-TA
1 ATTTTAATAATATA
*
58542612 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
58542627 ATTTTAAATAATAT
1 ATTTT-AATAATAT
58542641 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:58542630 original size:15 final size:17
Alignment explanation
Indices: 58542603--58542639 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
58542593 AATTTTATTT
58542603 TAATAATTAATTTTAAA
1 TAATAATTAATTTTAAA
58542620 -AATAA-TAATTTTAAA
1 TAATAATTAATTTTAAA
58542635 TAATA
1 TAATA
58542640 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATTAATTTTAAA
Found at i:58542692 original size:15 final size:15
Alignment explanation
Indices: 58542672--58542728 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
58542662 ATTCAATATT
58542672 AATATTTTAATAATA
1 AATATTTTAATAATA
*
58542687 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
58542706 AATATATTAATAATA
1 AATATTTTAATAATA
*
58542721 AATGTTTT
1 AATATTTT
58542729 GTAGTGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:58543112 original size:33 final size:32
Alignment explanation
Indices: 58543024--58543115 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
58543014 AGATAAAAAT
*
58543024 AAATTCAACTAAACACCAGAAAATATTTTTAA
1 AAATTCAACTAAACACCAGAAAATATTTTCAA
* * * * *
58543056 AAAATCTACCAAACAACAGAAAATATTTTGCAC
1 AAATTCAACTAAACACCAGAAAATATTTT-CAA
* *
58543089 AGATTCAACTAAACACCAAAAAATATT
1 AAATTCAACTAAACACCAGAAAATATT
58543116 AACTTTTCTA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
32 25 0.53
33 22 0.47
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.24
Consensus pattern (32 bp):
AAATTCAACTAAACACCAGAAAATATTTTCAA
Found at i:58546028 original size:2 final size:2
Alignment explanation
Indices: 58546023--58546054 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
58546013 TATATATATA
58546023 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
58546055 GCAGAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:58546744 original size:14 final size:15
Alignment explanation
Indices: 58546725--58546771 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
58546715 TTTGTGTTAG
58546725 AAATTAAAATA-TAA
1 AAATTAAAATATTAA
58546739 AAATT-AAATATTAA
1 AAATTAAAATATTAA
* *
58546753 ATATTAAATTTATTAA
1 AAATTAAA-ATATTAA
58546769 AAA
1 AAA
58546772 ATCAAAGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 2 0.07
16 8 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTAAAATATTAA
Found at i:58548591 original size:42 final size:42
Alignment explanation
Indices: 58548527--58548651 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
58548517 ATGCCACACG
*
58548527 GCCTAGACACACGGCCATGTCCTTGCTCGTGTGGCTCACATA
1 GCCTGGACACACGGCCATGTCCTTGCTCGTGTGGCTCACATA
* **
58548569 GCCTGGACACACGGCCATGTCCTTGCTCGTATGGCTCACACG
1 GCCTGGACACACGGCCATGTCCTTGCTCGTGTGGCTCACATA
* * * *
58548611 GCCTGGA-ACACGCCCATGTCGTATGCCCGTGTGGTTCACAT
1 GCCTGGACACACGGCCATGTCCT-TGCTCGTGTGGCTCACAT
58548652 GGGCACACGC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 13 0.18
42 59 0.82
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.23
Consensus pattern (42 bp):
GCCTGGACACACGGCCATGTCCTTGCTCGTGTGGCTCACATA
Found at i:58550575 original size:18 final size:17
Alignment explanation
Indices: 58550554--58550595 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
58550544 ATGAATTTTG
58550554 ATATATGTTTA-TATTTAT
1 ATATAT-TTTACT-TTTAT
58550572 ATATATTTTACTTTTAT
1 ATATATTTTACTTTTAT
58550589 ATTATAT
1 A-TATAT
58550596 AATATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATATTTTACTTTTAT
Found at i:58550589 original size:23 final size:23
Alignment explanation
Indices: 58550561--58550604 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
58550551 TTGATATATG
58550561 TTTATATT-TATATATATTTTACT
1 TTTATATTATATA-ATATTTTACT
58550584 TTTATATTATATAATATTTTA
1 TTTATATTATATAATATTTTA
58550605 ATTAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATTATATAATATTTTACT
Found at i:58553920 original size:25 final size:25
Alignment explanation
Indices: 58553886--58553935 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58553876 GATACTTGGG
58553886 ATAGCTCACACATAGTGTGCTAACT
1 ATAGCTCACACATAGTGTGCTAACT
58553911 ATAGCTCACACATAGTGTGCTAACT
1 ATAGCTCACACATAGTGTGCTAACT
58553936 CATATAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (25 bp):
ATAGCTCACACATAGTGTGCTAACT
Found at i:58556929 original size:13 final size:14
Alignment explanation
Indices: 58556913--58556945 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
58556903 TTTTTCCATC
58556913 TTAATTATT-TATT
1 TTAATTATTGTATT
*
58556926 TTAATTATTGTTTT
1 TTAATTATTGTATT
58556940 TTAATT
1 TTAATT
58556946 TACAGATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTAATTATTGTATT
Found at i:58569893 original size:15 final size:15
Alignment explanation
Indices: 58569873--58569902 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58569863 AGTTTAGGGG
58569873 CAAAAATATAATTTT
1 CAAAAATATAATTTT
*
58569888 CAAAAATATGATTTT
1 CAAAAATATAATTTT
58569903 TGGATCACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
CAAAAATATAATTTT
Found at i:58575334 original size:39 final size:39
Alignment explanation
Indices: 58575291--58575373 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
58575281 TTATATATAC
*
58575291 TTTATAAATTTATAAAATCATAAAATTTTAGTTGTTTTA
1 TTTATAAATATATAAAATCATAAAATTTTAGTTGTTTTA
**
58575330 TTTATTTATATATAAAATCATAAAATTTTAGTTGTTTTA
1 TTTATAAATATATAAAATCATAAAATTTTAGTTGTTTTA
58575369 TTTAT
1 TTTAT
58575374 TTATATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTATAAATATATAAAATCATAAAATTTTAGTTGTTTTA
Found at i:58575374 original size:39 final size:39
Alignment explanation
Indices: 58575301--58575381 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
58575291 TTTATAAATT
58575301 TATAAAATCATAAAATTTTAGTTGTTTTATTTATTTATA
1 TATAAAATCATAAAATTTTAGTTGTTTTATTTATTTATA
58575340 TATAAAATCATAAAATTTTAGTTGTTTTATTTATTTATA
1 TATAAAATCATAAAATTTTAGTTGTTTTATTTATTTATA
58575379 TAT
1 TAT
58575382 TTTTTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.54
Consensus pattern (39 bp):
TATAAAATCATAAAATTTTAGTTGTTTTATTTATTTATA
Found at i:58575494 original size:25 final size:24
Alignment explanation
Indices: 58575461--58575508 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
58575451 TATAGTTTTT
*
58575461 TATTATATATTTTTAATTTATATG
1 TATTATATATTTATAATTTATATG
*
58575485 TATTGATATATTTATATTTTATAT
1 TATT-ATATATTTATAATTTATAT
58575509 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTATATATTTATAATTTATATG
Found at i:58575511 original size:23 final size:23
Alignment explanation
Indices: 58575467--58575511 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58575457 TTTTTATTAT
* *
58575467 ATATTTTTAATTTATATGTATTG
1 ATATATTTAATTTATATATATTG
58575490 ATATATTTATATTT-TATATATT
1 ATATATTTA-ATTTATATATATT
58575512 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
ATATATTTAATTTATATATATTG
Found at i:58581669 original size:49 final size:49
Alignment explanation
Indices: 58581616--58581713 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
58581606 TACTTTAAAT
* *
58581616 AATTCTTGTTATTTTTCAAAGGACTAAAGTGAATTTTGTGATAAGTTAA
1 AATTCTTGTTATTTTTCAAAGGACTAAAGTGAATTATGTGATAACTTAA
58581665 AATTCTTGTTATTTTTCAAAGGACTAAAGTGAATTATGTGATAACTTAA
1 AATTCTTGTTATTTTTCAAAGGACTAAAGTGAATTATGTGATAACTTAA
58581714 GTGTATTGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (49 bp):
AATTCTTGTTATTTTTCAAAGGACTAAAGTGAATTATGTGATAACTTAA
Found at i:58584033 original size:42 final size:42
Alignment explanation
Indices: 58583985--58584204 Score: 260
Period size: 42 Copynumber: 5.2 Consensus size: 42
58583975 ATAAATGCTA
* * * * * *
58583985 AATAGAAACCCGTAAAGGCTGATCGGAAGCTCATAAGAGCTG
1 AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
* * *
58584027 AATAGAAATCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTT
1 AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
* *
58584069 AACAGAAACCCATAAAAGTTAAACAGAAGCTCAAAAGAGCTG
1 AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
* * **
58584111 AATAAAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTG
1 AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
* * * *
58584153 AATAAAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCAG
1 AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
*
58584195 AACAGAAACC
1 AATAGAAACC
58584205 TATTAGGGTT
Statistics
Matches: 154, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 154 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (42 bp):
AATAGAAACCCATAAAGGTTAAACAGAAGCTCAAAAGAGCTG
Found at i:58584072 original size:21 final size:22
Alignment explanation
Indices: 58584045--58584109 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
58584035 TCCATAAGGG
58584045 TTAAACAGAAGCTCAAAAGAGC
1 TTAAACAGAAGCTCAAAAGAGC
* *
58584067 TT-AACAGAAACCCATAAA-AG-
1 TTAAACAGAAGCTCA-AAAGAGC
58584087 TTAAACAGAAGCTCAAAAGAGC
1 TTAAACAGAAGCTCAAAAGAGC
58584109 T
1 T
58584110 GAATAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 5 0.14
21 24 0.69
22 6 0.17
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (22 bp):
TTAAACAGAAGCTCAAAAGAGC
Found at i:58584213 original size:42 final size:42
Alignment explanation
Indices: 58584010--58584214 Score: 275
Period size: 42 Copynumber: 4.9 Consensus size: 42
58584000 AGGCTGATCG
* *
58584010 GAAGCTCATAAGAGCTGAATAGAAATCCATAAGGGTTAAACA
1 GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTTAAACA
* * **
58584052 GAAGCTCAAAAGAGCTTAACAGAAACCCATAAAAGTTAAACA
1 GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTTAAACA
* **
58584094 GAAGCTCAAAAGAGCTGAATAAAAACCCATAAGGGTTAAATG
1 GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTTAAACA
* *
58584136 GAAGCTCAAAAGAGCTGAATAAAAACCCATAAGGGTTAAATA
1 GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTTAAACA
* * * *
58584178 GAAGCTCAAAAGAGCAGAACAGAAACCTATTAGGGTT
1 GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTT
58584215 GAACGGAAAC
Statistics
Matches: 144, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 144 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.17
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTGAATAGAAACCCATAAGGGTTAAACA
Found at i:58586122 original size:11 final size:11
Alignment explanation
Indices: 58586106--58586130 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58586096 TTATGGTGGT
58586106 TCTATTAACAA
1 TCTATTAACAA
58586117 TCTATTAACAA
1 TCTATTAACAA
58586128 TCT
1 TCT
58586131 TTTAGAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (11 bp):
TCTATTAACAA
Found at i:58586471 original size:22 final size:22
Alignment explanation
Indices: 58586446--58586546 Score: 130
Period size: 22 Copynumber: 4.5 Consensus size: 22
58586436 AGAATTCTAA
* *
58586446 TTAATCTAAACAAGAAGTAGTT
1 TTAAACTAAACTAGAAGTAGTT
58586468 TTAAACTAAACTAGAAGTAGTT
1 TTAAACTAAACTAGAAGTAGTT
*****
58586490 TTAAACTAAACTTTCTTTTAGTT
1 TTAAACTAAAC-TAGAAGTAGTT
58586513 TTAAACTAAACTAGAAGTAGTT
1 TTAAACTAAACTAGAAGTAGTT
58586535 TTAAACTAAACT
1 TTAAACTAAACT
58586547 TTATTTTTGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 49 0.74
23 17 0.26
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (22 bp):
TTAAACTAAACTAGAAGTAGTT
Found at i:58586520 original size:45 final size:45
Alignment explanation
Indices: 58586463--58586553 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
58586453 AAACAAGAAG
*
58586463 TAGTTTTAAACTAAACTAGAAGTAGTTTTAAACTAAACTTTCTTT
1 TAGTTTTAAACTAAACTAGAAGTAGTTTTAAACTAAACTTTATTT
58586508 TAGTTTTAAACTAAACTAGAAGTAGTTTTAAACTAAACTTTATTT
1 TAGTTTTAAACTAAACTAGAAGTAGTTTTAAACTAAACTTTATTT
58586553 T
1 T
58586554 TGAAATAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (45 bp):
TAGTTTTAAACTAAACTAGAAGTAGTTTTAAACTAAACTTTATTT
Found at i:58588349 original size:13 final size:13
Alignment explanation
Indices: 58588331--58588355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58588321 AATCTCACAC
58588331 ACCCGTGTGGACA
1 ACCCGTGTGGACA
58588344 ACCCGTGTGGAC
1 ACCCGTGTGGAC
58588356 TCACACGTCC
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:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
ACCCGTGTGGACA
Found at i:58597541 original size:43 final size:42
Alignment explanation
Indices: 58597397--58597570 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 42
58597387 GGTTACCGAG
*
58597397 ATGA-GATTACATGTAAGACCATGTCTAGGACATTGCTATTGT
1 ATGATGATTACATGTAAGACCATGTCTAGGACATTGC-ATCGT
**
58597439 ACT-ATGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT
1 A-TGATGATTACATGTAAGACCATGTCTAGGACATT-GCATCGT
* * * * *
58597482 TTTATGATTTCGTGTAAGACCGTGTCTAGGACATTAGCATCGAT
1 ATGATGATTACATGTAAGACCATGTCTAGGACATT-GCATCG-T
* * * * * *
58597526 ATGA-GATAACATGTAAGACCATATCTGGGATATGGCATTGT
1 ATGATGATTACATGTAAGACCATGTCTAGGACATTGCATCGT
58597567 ATGA
1 ATGA
58597571 GCTTTATGTG
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 5 0.05
42 8 0.07
43 90 0.83
44 5 0.05
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (42 bp):
ATGATGATTACATGTAAGACCATGTCTAGGACATTGCATCGT
Found at i:58598036 original size:33 final size:33
Alignment explanation
Indices: 58597997--58598074 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
58597987 TAAGTTTCCA
* *
58597997 AATAAGATCATAGCTTGG-CTATGGCAATCGAAT
1 AATAAGACCATAGC-TGGACTATGACAATCGAAT
*
58598030 AATAAGACCATAGCTGGACTATGACAATCGACT
1 AATAAGACCATAGCTGGACTATGACAATCGAAT
*
58598063 AAAAAGACCATA
1 AATAAGACCATA
58598075 ATCGGGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.08
33 37 0.93
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (33 bp):
AATAAGACCATAGCTGGACTATGACAATCGAAT
Found at i:58601249 original size:19 final size:20
Alignment explanation
Indices: 58601204--58601250 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
58601194 ATTACAAAAT
58601204 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
*
58601224 AAATCAAAAT-ATTTTTAAA
1 AATTCAAAATAATTTTTAAA
*
58601243 ATTTCAAA
1 AATTCAAA
58601251 TTTTATACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:58607034 original size:92 final size:92
Alignment explanation
Indices: 58606885--58607196 Score: 398
Period size: 93 Copynumber: 3.4 Consensus size: 92
58606875 ATGAAATGTG
* **
58606885 TAAGACAATGGTTGAAAGATACCATGGCAACATGATACAAG--ATGTGTAAGACCATGGTTGAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG--ACAAGAAATGAATAAGACCATGGTTGAAA
*
58606948 GATACCATGGCAACGTGACA-AGAAATGAA
64 GATACCATGGCAACATGACAGA-AAATGAA
* * *
58606977 TAAGACCATGGTTAAAAGATACCATGGCAACGTGACAAGAAATGAATATGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATGGTTGAAAGA
*
58607042 TACCATGGCAACATGACGGGAAAATGAA
66 TACCATGGCAACATGAC-AGAAAATGAA
** **
58607070 TAAGACCATGGTTGAAAGATACCACAGCAACATGACGGGGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AAGAAATGAATAAGACCATGGTTGAAAG
58607135 ATACCATGGCAACATGACAGAAAAT-AA
65 ATACCATGGCAACATGACAGAAAATGAA
* * * *
58607162 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
58607197 TCGAAGATAA
Statistics
Matches: 192, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
90 5 0.03
92 70 0.36
93 73 0.38
94 44 0.23
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:58607081 original size:47 final size:47
Alignment explanation
Indices: 58606885--58607196 Score: 391
Period size: 46 Copynumber: 6.7 Consensus size: 47
58606875 ATGAAATGTG
* * * * **
58606885 TAAGACAATGGTTGAAAGATACCATGGCAACATGA-TACAAGATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
*
58606931 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACAAG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
* *
58606977 TAAGACCATGGTTAAAAGATACCATGGCAACGTGACAAG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
* **
58607023 TATGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
** ** *
58607070 TAAGACCATGGTTGAAAGATACCACAGCAACATGACGGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
58607117 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAAT-AA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
* * * *
58607162 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
58607197 TCGAAGATAA
Statistics
Matches: 238, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
45 2 0.01
46 151 0.63
47 85 0.36
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAAATGAA
Found at i:58607143 original size:140 final size:138
Alignment explanation
Indices: 58606884--58607196 Score: 405
Period size: 140 Copynumber: 2.3 Consensus size: 138
58606874 AATGAAATGT
* * * **
58606884 GTAAGACAATGGTTGAAAGATACCATGGCAACATGATACAAGATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGAGACAAAATGAATAAGACCATGGTTGAAAG
** * *
58606949 ATACCATGGCAACGTGACAAGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACGTGACA
66 ATACCACAGCAACATGACAAGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGACA
58607014 -AGAAATGAA
131 GA-AAAT-AA
* **
58607023 -TATGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGA-GACAAAATGAATAAGACCATGGTTGAAA
** *
58607087 GATACCACAGCAACATGACGGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
65 GATACCACAGCAACATGAC-AAGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGA
58607152 CAGAAAATAA
129 CAGAAAATAA
* * * *
58607162 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
58607197 TCGAAGATAA
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
138 33 0.22
139 40 0.27
140 76 0.51
141 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (138 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGAGACAAAATGAATAAGACCATGGTTGAAAG
ATACCACAGCAACATGACAAGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGACA
GAAAATAA
Found at i:58607300 original size:13 final size:13
Alignment explanation
Indices: 58607279--58607322 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
58607269 TTCAGATGAC
58607279 AAATGGTTATATG
1 AAATGGTTATATG
* **
58607292 AATTGGTTATACA
1 AAATGGTTATATG
*
58607305 AAATGGTTATGTG
1 AAATGGTTATATG
58607318 AAATG
1 AAATG
58607323 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:58608236 original size:19 final size:19
Alignment explanation
Indices: 58608177--58608243 Score: 75
Period size: 18 Copynumber: 3.6 Consensus size: 19
58608167 TCGGTTATCT
*
58608177 AGTAACAGTC-AATTATTC
1 AGTAACAATCAAATTATTC
* *
58608195 AGTAAAAATCAAA-TATAC
1 AGTAACAATCAAATTATTC
*
58608213 AGTAACAATTAAATTATTC
1 AGTAACAATCAAATTATTC
*
58608232 AGTAACAGTCAA
1 AGTAACAATCAA
58608244 TCTTTCCAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 23 0.59
19 16 0.41
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (19 bp):
AGTAACAATCAAATTATTC
Found at i:58608370 original size:6 final size:6
Alignment explanation
Indices: 58608354--58608384 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
58608344 CTGAAGCCGG
*
58608354 AACAGT GACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
58608385 CGGTACACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:58608448 original size:47 final size:47
Alignment explanation
Indices: 58608372--58608484 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
58608362 CAGTAACAGT
* * * **
58608372 AACAGTAACAGTACGGTACACAGAGTACCTCACCGGAACAAATCCGG
1 AACAGTAACAGTATGGTACACACAATACCTCACCGGAACAAATCCAA
*
58608419 AACAGTAACAGTATGGTACACACAATACCTCATCGGAACAAATCCAA
1 AACAGTAACAGTATGGTACACACAATACCTCACCGGAACAAATCCAA
*
58608466 AACAATAACAGTAATGGTA
1 AACAGTAACAGT-ATGGTA
58608485 ACAGTAACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 52 0.90
48 6 0.10
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTATGGTACACACAATACCTCACCGGAACAAATCCAA
Found at i:58612109 original size:77 final size:78
Alignment explanation
Indices: 58612001--58612307 Score: 413
Period size: 76 Copynumber: 4.0 Consensus size: 78
58611991 GGAAATTAAA
* * * *
58612001 AGTAAAATAAAAATCATTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAAATTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCATTCAATGATTTTATTCCAAATTTGTTTT
58612066 ATTTCTAAAAATG
66 ATTTCTAAAAATG
* * *
58612079 AGTAAAAT-AAAATCGTTTCAGGATCGATTCCCACCATTCAATGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCATTCAATGATTTTATTCCAAATTTGTTTT
*
58612143 ATTTCTAAAAACG
66 ATTTCTAAAAATG
* * * *
58612156 AGTAATATAAAAATCGTTTCGGGATTGATTCTCGCCGTTCAATGATTTTATTCCACATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCATTCAATGATTTTATTCCAAATTTGTTTT
*
58612221 ATTTCCAAAAA--
66 ATTTCTAAAAATG
* * * * * *
58612232 AATGAGATAAAAATCGTTTCGGGATTGATTCCCGCCCTTCAATGATTTCATTCCAAATTTGGTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCATTCAATGATTTTATTCCAAATTTGTTTT
*
58612297 ATTTCCAAAAA
66 ATTTCTAAAAA
58612308 CAAGAAATTA
Statistics
Matches: 204, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
76 68 0.33
77 68 0.33
78 68 0.33
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCATTCAATGATTTTATTCCAAATTTGTTTT
ATTTCTAAAAATG
Found at i:58612459 original size:84 final size:84
Alignment explanation
Indices: 58612316--58612559 Score: 307
Period size: 84 Copynumber: 2.9 Consensus size: 84
58612306 AACAAGAAAT
* * * *
58612316 TAAATAAAATAAAATTTGTTTCG-GAATTTATT-TCCCCGTTTAACAAGATTTTATTTGATTTTA
1 TAAATTAAATAAAATATGTTTCGAG-ATTTATTCTCACCATTTAACAAGATTTTATTTGATTTTA
58612379 TTTTGTTTCCAAATT-AGAA-
65 TTTTGTTTCCAAATTCA-AAC
* * *
58612398 TAGAATTAAATAAAATCTATTTCGAGATTTATTCTCACCATTTAACAAGATTTAATTTGATTTTA
1 TA-AATTAAATAAAATATGTTTCGAGATTTATTCTCACCATTTAACAAGATTTTATTTGATTTTA
58612463 TTTTGTTTCCAAATTCAAAC
65 TTTTGTTTCCAAATTCAAAC
* * * * * * *
58612483 TAAATTAAATAAAATATGTTTCAATATTTATTCCCTCTATTTAACAAGATTTTATTTGATATTGT
1 TAAATTAAATAAAATATGTTTCGAGATTTATTCTCACCATTTAACAAGATTTTATTTGATTTTAT
58612548 TTTGTTTCCAAA
66 TTTGTTTCCAAA
58612560 CAAAGACGTA
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
82 2 0.01
83 25 0.18
84 111 0.79
85 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (84 bp):
TAAATTAAATAAAATATGTTTCGAGATTTATTCTCACCATTTAACAAGATTTTATTTGATTTTAT
TTTGTTTCCAAATTCAAAC
Found at i:58613963 original size:31 final size:32
Alignment explanation
Indices: 58613897--58613969 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
58613887 GTTGGTAAGT
* *
58613897 AGATATTTATTATTTATTATTATTAAGTTAAA
1 AGATATTTATTAATTATAATTATTAAGTTAAA
*
58613929 AGATATTTATTAATTA-AATTATTATA-TTATA
1 AGATATTTATTAATTATAATTATTA-AGTTAAA
*
58613960 AGATTTTTAT
1 AGATATTTAT
58613970 ATGATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (32 bp):
AGATATTTATTAATTATAATTATTAAGTTAAA
Found at i:58614285 original size:11 final size:11
Alignment explanation
Indices: 58614269--58614302 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
58614259 ATACGGAAAT
58614269 AAGAAGAAAGA
1 AAGAAGAAAGA
58614280 AAGAAGAAAGAA
1 AAGAAGAAAG-A
*
58614292 AAGAAAAAAGA
1 AAGAAGAAAGA
58614303 GAAATAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAGA
Found at i:58614654 original size:22 final size:24
Alignment explanation
Indices: 58614626--58614669 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
58614616 TATGGCAAGA
58614626 AATTAAG-TAGAAAAG-AAGTACG
1 AATTAAGTTAGAAAAGTAAGTACG
*
58614648 AATTAAGTTAGAATAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
58614670 AACTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTACG
Found at i:58615447 original size:38 final size:39
Alignment explanation
Indices: 58615347--58615453 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 39
58615337 CCTTGAGTCT
* ** *
58615347 ATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATTCG
1 ATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGCCA
** * * *
58615388 ATGAGGTACTGGGT-ACCACTTTACTTCGGCTA-AGCCA
1 ATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGCCA
*
58615425 ATGAGACACTGGGTGTCAACTTTGCTTCG
1 ATGAGACACTGGGTGTCAACTTTACTTCG
58615454 AACTATCCGA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
37 14 0.27
38 24 0.47
40 1 0.02
41 12 0.24
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGCCA
Found at i:58617361 original size:27 final size:27
Alignment explanation
Indices: 58617331--58617508 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
58617321 ATATCGAGTC
* * * *
58617331 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
58617358 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58617385 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
58617413 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
58617440 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
58617467 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58617494 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58617509 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:58617426 original size:82 final size:81
Alignment explanation
Indices: 58617331--58617508 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
58617321 ATATCGAGTC
* *
58617331 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTA
*
58617395 GTGCTACATAGTCAAACT
65 GTGCAACATAGTCAAA-T
** ** * * **
58617413 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAG
58617478 TGCAACATAGTCAAAT
66 TGCAACATAGTCAAAT
58617494 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58617509 GTACAATTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 15 0.18
82 67 0.81
83 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:58622737 original size:23 final size:23
Alignment explanation
Indices: 58622707--58622764 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
58622697 GTGGATTCCT
58622707 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
58622730 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
58622753 CCCAAACACACC
1 CCCAAACACACC
58622765 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:58623286 original size:15 final size:15
Alignment explanation
Indices: 58623266--58623312 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
58623256 TAATATATAT
58623266 TTCAATCAATAAAAA
1 TTCAATCAATAAAAA
* *
58623281 TTCAATCAA-AATGAT
1 TTCAATCAATAA-AAA
*
58623296 TTCAATCAATATAAA
1 TTCAATCAATAAAAA
58623311 TT
1 TT
58623313 TGATAAATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.88
16 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (15 bp):
TTCAATCAATAAAAA
Found at i:58625852 original size:466 final size:467
Alignment explanation
Indices: 58623646--58625970 Score: 4427
Period size: 467 Copynumber: 5.0 Consensus size: 467
58623636 ATTCACCTCT
*
58623646 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATAGTACAGAACTC
1 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
*
58623711 AGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
66 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
58623776 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
131 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
*
58623841 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTTCTTAAACCGT
196 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
*
58623906 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATCCTCTAATTCAAT
261 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
* * * *
58623971 TTCTAAAATTTTTTATGATTTTTTAAAGTTAGACTACTGCTGCTGTCCAAAATAGTCTTAGTGCA
326 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
58624036 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
391 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
58624101 AATCCTAACTAA
456 AATCCTAACTAA
* *
58624113 ATTCTGCTATCTAACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
1 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
58624178 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
66 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
* *
58624243 ACCCTCTAATTATTTTTCTCCAATTTTTTGTGATTTTTCAAAGTCAGAACAGGGGAACCCGAATT
131 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
*
58624308 CATTCTGACCTTGTCTTACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
196 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
*
58624373 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCTATATTTTATTCATTCTCTAATTCAAT
261 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
*
58624438 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACAGCTGTCCAAAATAGTCTTAGTGCA
326 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
58624503 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
391 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
58624568 AATCCTAACTAA
456 AATCCTAACTAA
58624580 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
1 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
58624645 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
66 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
58624710 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
131 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
* *
58624775 CATTCTGACCTTATCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCAT
196 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
*
58624840 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATCCTCTAATTCAAT
261 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
*
58624905 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTGCTGCTGTCCAAAATAGTCTTAGTGCA
326 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
58624970 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
391 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
58625035 AATCCTAACTAA
456 AATCCTAACTAA
58625047 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
1 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
58625112 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
66 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
*
58625177 ACCCTCTAATTATTTTTCTCTAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
131 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
*
58625242 CATTCTGACCTTATCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
196 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
58625307 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
261 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
*
58625372 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACAGCTGTCCAAAATAGTCTTAGTGCA
326 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
58625437 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
391 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
58625502 AATCCTAACTAA
456 AATCCTAACTAA
58625514 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
1 ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
*
58625579 GGATAATATTCCTGTTGATTTATCCT-AAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
66 GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
58625643 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
131 ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
*
58625708 CATTCTGACCTTGTCTCACAAAATTCATTATATCTTATAATTTACAATTCAATTGCTTAAACCGT
196 CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
58625773 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
261 TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
58625838 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
326 TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
58625903 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
391 AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
58625968 AAT
456 AAT
58625971 TCATACTTTA
Statistics
Matches: 1822, Mismatches: 36, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
466 362 0.20
467 1460 0.80
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (467 bp):
ATTCTGCTGTCTGACAGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTC
GGATAATATTCCTGTTGATTTCTCCTAAAAATAGACTCATTAGGGATTCTAAACATATAACTTTA
ACCCTCTAATTATTTTTCTCCAATTTTTGGTGATTTTCCAAAGTCAGAACAGGGGAACCCGAATT
CATTCTGACCTTGTCTCACAAAATTCATTATATCTCATAATTTACAATTCAATTGCTTAAACCGT
TTCTTTTATAAGAAACTAGACTCAATAAGCTTTAATTCCATATTTTATTCATTCTCTAATTCAAT
TTCTACAATTTTTGATGATTTTTCAAAGTTAGACTACTACTGCTGTCCAAAATAGTCTTAGTGCA
AAATGTTGATTTTCTACTTTTAATTTCAATTTAATCCTAACTAAATTCACTTACTTTTCTATCTT
AATCCTAACTAA
Found at i:58626338 original size:4 final size:4
Alignment explanation
Indices: 58626323--58626356 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
58626313 GATTTTCCCT
*
58626323 TTTC TCTC TTTC TTTC TTTC TTTCC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC T
58626357 CCCATGTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:58626420 original size:13 final size:13
Alignment explanation
Indices: 58626402--58626433 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
58626392 TTTTATTTCA
58626402 TTTATTTCTTTAT
1 TTTATTTCTTTAT
58626415 TTTATTTCTTTAT
1 TTTATTTCTTTAT
58626428 TTTATT
1 TTTATT
58626434 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:58636755 original size:21 final size:21
Alignment explanation
Indices: 58636714--58636756 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
58636704 AAAATAAGTT
**
58636714 AAATTATATTATAATTTAAAA
1 AAATTATATTATAATGGAAAA
58636735 AAATTATATTATGAA-GGAAAA
1 AAATTATATTAT-AATGGAAAA
58636756 A
1 A
58636757 TGATTTGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
AAATTATATTATAATGGAAAA
Found at i:58643439 original size:299 final size:299
Alignment explanation
Indices: 58642901--58643492 Score: 1094
Period size: 299 Copynumber: 2.0 Consensus size: 299
58642891 TTCAGTAGCT
*
58642901 CTAGCCATCGTCTCTGTCTTAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGG
1 CTAGCCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGG
*
58642966 TCTGTATACACATAACATTTCTCACCATAGAGGTAGTGTCTCCAAATTTTTAAAGCAAAAACGAT
66 TCTGTATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGAT
* *
58643031 AGCAGCTAACTCAAGATCATGTGTAGGGTAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCAT
131 AGCAACTAACTCAAGATCATGTGGAGGGTAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCAT
*
58643096 ATGCTACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACGTATCACTATAT
196 ATGCTACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATAT
58643161 AGCACATATGACACACCTGACTCAGGTTGAGTCAACAAG
261 AGCACATATGACACACCTGACTCAGGTTGAGTCAACAAG
*
58643200 CTAGCCATCTTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGG
1 CTAGCCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGG
* *
58643265 TGTGTATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGTAAAAACGAT
66 TCTGTATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGAT
*
58643330 AGCAACTAACTCAAGATCATGTGGAGGGTAGTTCCTCTCATGTGATTTCAACTGCTGAGAAGCAT
131 AGCAACTAACTCAAGATCATGTGGAGGGTAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCAT
*
58643395 ATGCTACAACTTTTCCTGACTGCATCAGTACACAGCCTAAACCATTCAGAGACATATCACTATAT
196 ATGCTACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATAT
58643460 AGCACATATGACACACCTGACTCAGGTTGAGTC
261 AGCACATATGACACACCTGACTCAGGTTGAGTC
58643493 GACACTGGGG
Statistics
Matches: 283, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
299 283 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (299 bp):
CTAGCCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGG
TCTGTATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGAT
AGCAACTAACTCAAGATCATGTGGAGGGTAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCAT
ATGCTACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATAT
AGCACATATGACACACCTGACTCAGGTTGAGTCAACAAG
Found at i:58647611 original size:47 final size:47
Alignment explanation
Indices: 58647521--58647611 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
58647511 TCACACATCA
* *
58647521 CACTGATGCCAAATCCCAGAAATGGTCTAACATAAAAGTACATATAT
1 CACTGATGCCAAATACCAGAAATGGTCTAACATAAAAGCACATATAT
* * * * * *
58647568 CACTGATGCCATATACTAGATATGGTCTTATATGAAAGCACATA
1 CACTGATGCCAAATACCAGAAATGGTCTAACATAAAAGCACATA
58647612 ATCTCATCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (47 bp):
CACTGATGCCAAATACCAGAAATGGTCTAACATAAAAGCACATATAT
Found at i:58650915 original size:38 final size:38
Alignment explanation
Indices: 58650873--58650968 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
58650863 TAAAGAATAT
*
58650873 ATATATATAAGTATGTATATG-ATGTA-AAATATGCATAA
1 ATATATATAAGTATGTATAAGAAT-TAGAAATATGCA-AA
* *
58650911 ATATATGTAAGTA--TATAAGAATTATGAAATATGGAAA
1 ATATATATAAGTATGTATAAGAATTA-GAAATATGCAAA
*
58650948 ATATATTTAAGTATGTATAAG
1 ATATATATAAGTATGTATAAG
58650969 TATGTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 7 0.14
37 16 0.33
38 20 0.41
39 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (38 bp):
ATATATATAAGTATGTATAAGAATTAGAAATATGCAAA
Found at i:58653031 original size:44 final size:43
Alignment explanation
Indices: 58652903--58653351 Score: 330
Period size: 44 Copynumber: 10.2 Consensus size: 43
58652893 CGCCATCGTC
* * * **
58652903 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCGCCAATATATGAAGACAA
* * ** * * *
58652948 GATCTG-TATCTTGGATCCACTTCCTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-GCCAATATATGAAGACAA
* *
58652991 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CGCCAATATATGAAGACAA
* * * * * **
58653035 GATCTGCTTTCTGCTATCTAATTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCGCCAATATATGAAGACAA
* * * * ** *
58653080 GATATGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGGTAG
1 GATCTGCTATCTTCGATCTACTTCC-GCCAATATATGAAGACAA
* *
58653123 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CGCCAATATATGAAGACAA
* * *
58653167 GATCTGCTTTCTGCGATCTACTT-CGCCACTAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCGCCAAT-ATAT--GAAGACAA
* * * * *
58653212 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-GCCAATATATGAAGACAA
* *
58653255 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CGCCAATATATGAAGACAA
* * * **
58653299 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCGCCAATATATGAAGACAA
58653344 GATCTGCT
1 GATCTGCT
58653352 TTAATGATTT
Statistics
Matches: 315, Mismatches: 72, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
42 10 0.03
43 55 0.17
44 172 0.55
45 72 0.23
46 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GATCTGCTATCTTCGATCTACTTCCGCCAATATATGAAGACAA
Found at i:58653093 original size:88 final size:87
Alignment explanation
Indices: 58652903--58653351 Score: 386
Period size: 88 Copynumber: 5.1 Consensus size: 87
58652893 CGCCATCGTC
* * * *** *
58652903 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCTTG-GATCC
1 GATCTGCTATCTTCGATCTACTT--CCGCCAATACATGAAGACAAGATCTGCTATC-TGCGATCT
* * * *
58652966 ACTTCCTATCAATATAGGAAGATAG
63 ACTTCCCACCAATATAGGAAGACAA
* * * *
58652991 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCTATCTAA
1 GATCTGCTATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATCTGCTATCTGCGATCTAC
*
58653056 TTCGCCACCAATATGGGAAGACAA
65 TTC-CCACCAATATAGGAAGACAA
* * * * * ** * * *
58653080 GATATGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGGTAGGATCTGCTACCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCC-GCCAATACATGAAGACAAGATCTGCTATCTGCGATCTAC
* * * *
58653144 TTCACGCCAATACATGAAGACAA
65 TTCCCACCAATATAGGAAGACAA
* * * * * *
58653167 GATCTGCTTTCTGCGATCTACTT-CGCCACTAATATGGGAAGACAAGATCTGC-ATCTTCGATCC
1 GATCTGCTATCTTCGATCTACTTCCGCCAAT-ACAT--GAAGACAAGATCTGCTATCTGCGATCT
* * *
58653230 ACTTCCTACCAATATAGGAAGATAG
63 ACTTCCCACCAATATAGGAAGACAA
* *
58653255 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATCTGCTATCTGCGATCTAC
*
58653320 TTCGCCACCAATATGGGAAGACAA
65 TTC-CCACCAATATAGGAAGACAA
58653344 GATCTGCT
1 GATCTGCT
58653352 TTAATGATTT
Statistics
Matches: 282, Mismatches: 66, Indels: 25
0.76 0.18 0.07
Matches are distributed among these distances:
86 5 0.02
87 63 0.22
88 148 0.52
89 60 0.21
90 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (87 bp):
GATCTGCTATCTTCGATCTACTTCCGCCAATACATGAAGACAAGATCTGCTATCTGCGATCTACT
TCCCACCAATATAGGAAGACAA
Found at i:58653140 original size:132 final size:132
Alignment explanation
Indices: 58652903--58653350 Score: 797
Period size: 132 Copynumber: 3.4 Consensus size: 132
58652893 CGCCATCGTC
* * * * *
58652903 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
58652968 TTCCTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
58653033 AA
131 AA
* * *
58653035 GATCTGCTTTCTGCTATCTAATTCGCCACCAATATGGGAAGACAAGATATGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
58653100 TTCCTACCAATATAGGAAGGTAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
58653165 AA
131 AA
*
58653167 GATCTGCTTTCTGCGATCTACTTCGCCACTAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
58653232 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
58653297 AA
131 AA
58653299 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
58653351 TTTAATGATT
Statistics
Matches: 300, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 300 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:58666938 original size:38 final size:38
Alignment explanation
Indices: 58666888--58666984 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
58666878 GAATATAAAG
*
58666888 AATATATATAAGTATGTATATG-ATGTA-AAATATGCATA
1 AATATATATAAGTATGTATAAGAAT-TAGAAATATGCA-A
* *
58666926 AATATATGTAAGTA--TATAAGAATTATGAAATATGGAA
1 AATATATATAAGTATGTATAAGAATTA-GAAATATGCAA
*
58666963 AATATATTTAAGTATGTATAAG
1 AATATATATAAGTATGTATAAG
58666985 TATGTATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
36 7 0.14
37 16 0.32
38 21 0.42
39 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
AATATATATAAGTATGTATAAGAATTAGAAATATGCAA
Found at i:58669075 original size:20 final size:21
Alignment explanation
Indices: 58669023--58669076 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
58669013 AATCGTAGTG
*
58669023 TATTATAA-TTTAAATATTTTA
1 TATTATAATTTTAAATA-TATA
*
58669044 TATT-T-ATCTTAAATA-ATA
1 TATTATAATTTTAAATATATA
58669062 TATTATAATTTTAAA
1 TATTATAATTTTAAA
58669077 ATTGTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 15 0.56
21 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATAATTTTAAATATATA
Found at i:58676257 original size:20 final size:18
Alignment explanation
Indices: 58676216--58676251 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
58676206 TAGACCTTAT
58676216 AATATAATATATATGATA
1 AATATAATATATATGATA
58676234 AATAT-ATATCATATGATA
1 AATATAATAT-ATATGATA
58676252 TGAATACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
AATATAATATATATGATA
Found at i:58677079 original size:21 final size:22
Alignment explanation
Indices: 58677038--58677089 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
58677028 TATAAATTAT
*
58677038 TAATATATTT-ATGAATCTTTA
1 TAATATTTTTAATGAATCTTTA
*
58677059 TAATATTTTTAATG-ATGTTTA
1 TAATATTTTTAATGAATCTTTA
*
58677080 TTA-ATTTTTA
1 TAATATTTTTA
58677090 TAATTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 17 0.63
22 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (22 bp):
TAATATTTTTAATGAATCTTTA
Found at i:58677090 original size:31 final size:30
Alignment explanation
Indices: 58677025--58677098 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
58677015 TTATTTTTTA
58677025 TTTTATAA-ATTATTAATATATTTATGAAT
1 TTTTATAATATTATTAATATATTTATGAAT
* * * *
58677054 CTTTATAATATTTTTAATGATGTTTATTAAT
1 TTTTATAATATTATTAAT-ATATTTATGAAT
58677085 TTTTATAATTATTA
1 TTTTATAA-TATTA
58677099 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.19
30 8 0.22
31 17 0.47
32 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTTATAATATTATTAATATATTTATGAAT
Found at i:58677096 original size:16 final size:17
Alignment explanation
Indices: 58677077--58677110 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58677067 TTAATGATGT
58677077 TTATT-AATTTTTATAA
1 TTATTAAATTTTTATAA
*
58677093 TTATTAAATTTTTTTAA
1 TTATTAAATTTTTATAA
58677110 T
1 T
58677111 AATTTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTAAATTTTTATAA
Found at i:58677198 original size:15 final size:14
Alignment explanation
Indices: 58677168--58677221 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
58677158 ATTTTTATAG
*
58677168 TTTTTAA-TTTATT
1 TTTTTAATTTTAAT
58677181 TTTATTAATTTTAAT
1 TTT-TTAATTTTAAT
* *
58677196 TTTTTAGATTTAAAA
1 TTTTTA-ATTTTAAT
58677211 TTTTTAATTTT
1 TTTTTAATTTT
58677222 TTTTACTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.09
14 11 0.32
15 20 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTTAATTTTAAT
Found at i:58679778 original size:25 final size:23
Alignment explanation
Indices: 58679738--58679784 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
58679728 CTAAAATTTT
*
58679738 ATTTTAAAAATTATTTATTTAAA
1 ATTTTAAAAATAATTTATTTAAA
*
58679761 ATTTTATAAATATAATTTTTTTAA
1 ATTTTA-AAA-ATAATTTATTTAA
58679785 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATAATTTATTTAAA
Found at i:58681374 original size:32 final size:32
Alignment explanation
Indices: 58681336--58681407 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
58681326 AAAATCAACA
* *
58681336 ATATATAAAACAAT-TTAAAATATATGATATAT
1 ATATATAAAA-AATATTAAAATAGATAATATAT
* *
58681368 ATATATATAAAATATTAAAATAGGTAATATAT
1 ATATATAAAAAATATTAAAATAGATAATATAT
58681400 ATA-ATAAA
1 ATATATAAA
58681408 TACTATATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (32 bp):
ATATATAAAAAATATTAAAATAGATAATATAT
Found at i:58681554 original size:26 final size:26
Alignment explanation
Indices: 58681525--58681660 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 26
58681515 GGCAAGTTTA
58681525 AAATAATATATAAAGAAATTTAAAAT
1 AAATAATATATAAAGAAATTTAAAAT
*** *
58681551 --A-AATAT-T-AAGAGGCTCAAAAT
1 AAATAATATATAAAGAAATTTAAAAT
*
58681572 -AATAATATGTAAAAGAGAAATTTAAAAT
1 AAATAATA--TATAA-AGAAATTTAAAAT
*
58681600 AAATAATATATAAA-AAATTTAAAGT
1 AAATAATATATAAAGAAATTTAAAAT
* * * *
58681625 GAATAACATATAAA-ACAGTTTAAATT
1 AAATAATATATAAAGA-AATTTAAAAT
*
58681651 AAATATTATA
1 AAATAATATA
58681661 CATGAAAATT
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
21 10 0.12
22 2 0.02
23 9 0.11
24 1 0.01
25 24 0.29
26 16 0.19
27 5 0.06
28 9 0.11
29 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATAATATATAAAGAAATTTAAAAT
Found at i:58681561 original size:21 final size:22
Alignment explanation
Indices: 58681521--58681561 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58681511 TAAAGGCAAG
58681521 TTTAAAATAATATATAAAGAAA
1 TTTAAAATAATATATAAAGAAA
*
58681543 TTTAAAATAA-ATATTAAGA
1 TTTAAAATAATATATAAAGA
58681562 GGCTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TTTAAAATAATATATAAAGAAA
Found at i:58681617 original size:25 final size:25
Alignment explanation
Indices: 58681589--58681691 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 25
58681579 TGTAAAAGAG
58681589 AAATTTAAAATAAATAATATATAAA
1 AAATTTAAAATAAATAATATATAAA
* * *
58681614 AAATTTAAAGTGAATAACATATAAA
1 AAATTTAAAATAAATAATATATAAA
* * * * *
58681639 ACAGTTTAAATTAAATATTATACATGA
1 A-AATTTAAAATAAATAATATATA-AA
* *
58681666 AAATTTAGAATAGAA-CATATATAAA
1 AAATTTAAAATA-AATAATATATAAA
58681691 A
1 A
58681692 TAAAATAAAT
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
25 25 0.43
26 29 0.50
27 4 0.07
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
AAATTTAAAATAAATAATATATAAA
Found at i:58687271 original size:8 final size:8
Alignment explanation
Indices: 58687258--58687289 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
58687248 CTAGATCGGT
58687258 AAAAGCCG
1 AAAAGCCG
58687266 AAAAGCCG
1 AAAAGCCG
58687274 AAAAGCCG
1 AAAAGCCG
58687282 AAAAGCCG
1 AAAAGCCG
58687290 GCATTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:58687929 original size:20 final size:20
Alignment explanation
Indices: 58687899--58687943 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
58687889 CTGTTTTATT
58687899 ATGGG-CCAACTATATTAAA
1 ATGGGCCCAACTATATTAAA
* * *
58687918 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTATATTAAA
58687938 ATGGGC
1 ATGGGC
58687944 AAGACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTATATTAAA
Found at i:58688106 original size:62 final size:61
Alignment explanation
Indices: 58687967--58688108 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 61
58687957 TCTCGACTTG
* * * * *
58687967 TAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAATATGCTCTGATATTG
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATACACTGAAATTC
* * *
58688028 TAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACT-AAATTC
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAATAT-ACACTGAAATTC
58688089 TGAATAGGGCTTA-GGCCCAG
1 T-AATAGGGC-TACGGCCCAG
58688109 TAAAGCTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 41 0.59
62 26 0.38
63 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATACACTGAAATTC
Found at i:58689733 original size:3 final size:3
Alignment explanation
Indices: 58689701--58689895 Score: 127
Period size: 3 Copynumber: 66.7 Consensus size: 3
58689691 TGTCTAACAC
* *
58689701 TAT TAT TTT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
58689746 TCA- TAT GTA- TAT TAT TA- TAT TAT TGT TAT TAT TAC TAT TAT CCT
1 T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** **
58689790 TAT TAT TAC TAT TAT TTT TAT TTT TAT TGC TAT TGC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
58689837 TAT TAT T-T TTT TAT TTT CTAT CAC CAT TAT CAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
58689882 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
58689896 GTAGTAGTAT
Statistics
Matches: 145, Mismatches: 37, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
2 15 0.10
3 125 0.86
4 5 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:58690014 original size:142 final size:140
Alignment explanation
Indices: 58689868--58690592 Score: 877
Period size: 142 Copynumber: 5.1 Consensus size: 140
58689858 CACCATTATC
* *
58689868 ATTATTA-TCATTATTATTATTATTATTAGTAGTAGTATATATTTTTTATTATATATGTATATGT
1 ATTATTACT-ATTATTATTATTATTATTAAT-GTAGTGTATA-TTTTTATTATATATGTATATGT
* *
58689932 AT-TCATATTTATACACAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCT
63 ATAT-ATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCT
58689996 TTTTGTATTTCAAT
127 TTTTGTATTTCAAT
* * *
58690010 ATTA-T--TATTATTATTATTA-TA-T-AT-TAGTGTACACTTTTATTATATACGTATATGTATA
1 ATTATTACTATTATTATTATTATTATTAATGTAGTGTATATTTTTATTATATATGTATATGTATA
* *
58690068 TATGTTTATATATAGTATTATTTTTT-ATTACTTTATTTTAATATTTATATTATATTTGCTTTTT
66 TATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT
*
58690132 GTATTTTAAT
131 GTATTTCAAT
* * *
58690142 ATTATTACTATTATCATTATTATTATTAATGTTAGTGTATATTTTTGTTATATGTGTATATGTAT
1 ATTATTACTATTATTATTATTATTATTAATG-TAGTGTATATTTTTATTATATATGTATATG--T
* *
58690207 ATATATATTTATATATAGTATTATTTTTT-ATTATTTTATTTTAATATTTATATTATATTTGCTT
63 ATATATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTT
* *
58690271 TTTTTATTTTAAT
128 TTTGTATTTCAAT
* * *
58690284 ATTATTACTATTATCATTATTATTATTAATGTTAGTGTATATTTTTGTTATATATGTATATATAA
1 ATTATTACTATTATTATTATTATTATTAATG-TAGTGTATATTTTTATTATATATGTATATGT-A
* *
58690349 GTATATATTTATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTTGGTT
64 -TATATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTT
*
58690413 TTTGTATTTCATT
128 TTTGTATTTCAAT
* * * *
58690426 ATTATTGCTAGTATTATTATTATTATTATTAT-TAGTGTA-AGTTTTTACTATATAGGTATATAT
1 ATTATTACTATTATTATTATTATTATTA--ATGTAGTGTATA-TTTTTATTATATA--TGTATAT
* *
58690489 GTATATATATTTATACATAGTATTA-TTTCTAATTACTTTATTTTAATATTGTTATTATGTTATA
61 GTATATATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATA-T-TT-TTA--TTATA
*
58690553 TTTGCTTTTTGTATTTCATT
121 TTTGCTTTTTGTATTTCAAT
* *
58690573 ATTATTGCTAGTATTATTAT
1 ATTATTACTATTATTATTAT
58690593 CCTTATCATC
Statistics
Matches: 520, Mismatches: 39, Indels: 43
0.86 0.06 0.07
Matches are distributed among these distances:
132 50 0.10
133 45 0.09
134 8 0.02
135 13 0.03
136 3 0.01
137 2 0.00
138 4 0.01
139 13 0.03
140 27 0.05
141 8 0.02
142 288 0.55
143 2 0.00
144 10 0.02
145 3 0.01
147 44 0.08
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (140 bp):
ATTATTACTATTATTATTATTATTATTAATGTAGTGTATATTTTTATTATATATGTATATGTATA
TATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT
GTATTTCAAT
Found at i:58690261 original size:32 final size:32
Alignment explanation
Indices: 58690225--58690286 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
58690215 TTATATATAG
* *
58690225 TATTATTTTTTATTATTTTATTTTAATATTTA
1 TATTATATTTGATTATTTTATTTTAATATTTA
* *
58690257 TATTATATTTGCTTTTTTTATTTTAATATT
1 TATTATATTTGATTATTTTATTTTAATATT
58690287 ATTACTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (32 bp):
TATTATATTTGATTATTTTATTTTAATATTTA
Found at i:58690377 original size:18 final size:18
Alignment explanation
Indices: 58690332--58690374 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
58690322 ATATTTTTGT
*
58690332 TATATATGTATATATAAG
1 TATATATTTATATATAAG
58690350 TATATATTTATATAT-AG
1 TATATATTTATATATAAG
58690367 TAT-TATTT
1 TATATATTT
58690375 TTAATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TATATATTTATATATAAG
Found at i:58695200 original size:7 final size:7
Alignment explanation
Indices: 58695188--58695218 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58695178 AGAAAGAGAA
58695188 AATTGGT
1 AATTGGT
58695195 AATTGGT
1 AATTGGT
58695202 AATTGGT
1 AATTGGT
*
58695209 AATTGTT
1 AATTGGT
58695216 AAT
1 AAT
58695219 GTTTATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (7 bp):
AATTGGT
Found at i:58695900 original size:19 final size:19
Alignment explanation
Indices: 58695868--58695906 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58695858 TTATTTTAAA
* *
58695868 TAAAATAGTGTTATATTAT
1 TAAAATACTATTATATTAT
*
58695887 TAAAATACTATTATTTTAT
1 TAAAATACTATTATATTAT
58695906 T
1 T
58695907 TTATTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAAATACTATTATATTAT
Found at i:58700209 original size:25 final size:25
Alignment explanation
Indices: 58700175--58700224 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58700165 AGTTCATCGT
58700175 GGTATTCATCAACAACATTTTGGTA
1 GGTATTCATCAACAACATTTTGGTA
58700200 GGTATTCATCAACAACATTTTGGTA
1 GGTATTCATCAACAACATTTTGGTA
58700225 TACTTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (25 bp):
GGTATTCATCAACAACATTTTGGTA
Found at i:58700528 original size:32 final size:32
Alignment explanation
Indices: 58700487--58700549 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
58700477 TTGTTTAGGG
58700487 ATTTTCACTTATCACAATTCATCTAACTAAGC
1 ATTTTCACTTATCACAATTCATCTAACTAAGC
58700519 ATTTTCACTTATCACAATTCATCTAACTAAG
1 ATTTTCACTTATCACAATTCATCTAACTAAG
58700550 TTGTTGCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTTTCACTTATCACAATTCATCTAACTAAGC
Found at i:58703743 original size:31 final size:31
Alignment explanation
Indices: 58703708--58703767 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
58703698 GCCATGTGTA
58703708 AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
1 AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
58703739 AGGCTGTGTGGGCCACATGGGTTGGCCAA
1 AGGCTGTGTGGGCCACATGGGTTGGCCAA
58703768 AGGTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.20, G:0.42, T:0.22
Consensus pattern (31 bp):
AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
Found at i:58706232 original size:85 final size:85
Alignment explanation
Indices: 58706112--58706503 Score: 631
Period size: 85 Copynumber: 4.6 Consensus size: 85
58706102 TAATGATCTA
* * * * *
58706112 AATTACATGTAAGACTATGCCTGGGGCATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTTTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
*
58706177 GGATAGAGGCAACGATACTG
66 GGACAGAGGCAACGATACTG
*
58706197 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACTCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
*
58706262 GGACAGAGGCAATGATACTG
66 GGACAGAGGCAACGATACTG
* **
58706282 AATTACGTGTAAGACCATGTTTGGGACATCAACATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
* *
58706347 GGACAGAGGCAACGGTATTG
66 GGACAGAGGCAACGATACTG
* *
58706367 AATTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATCTGTTTTCATAAAAGACCCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
58706432 GGACAGAGGCAACGATACTG
66 GGACAGAGGCAACGATACTG
*
58706452 AATTACGTGTAAGACCATGTCTGGGACAATCGGCATCGTATTTGTTTTCGTA
1 AATTACGTGTAAGACCATGTCTGGGAC-ATCGGCATCGTATCTGTTTTCGTA
58706504 TAAAACTGTA
Statistics
Matches: 281, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
85 260 0.93
86 21 0.07
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
GGACAGAGGCAACGATACTG
Found at i:58707461 original size:28 final size:27
Alignment explanation
Indices: 58707412--58707500 Score: 135
Period size: 28 Copynumber: 3.3 Consensus size: 27
58707402 AGCATGGCTG
* *
58707412 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
58707438 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
58707466 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
58707494 CCAGAAC
1 CCAGAAC
58707501 GCTTCCTCCA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 10 0.17
28 42 0.72
29 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:58708774 original size:18 final size:16
Alignment explanation
Indices: 58708727--58708776 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
58708717 GGCTATAGAG
58708727 GAAAAGAAGAAGAAGA
1 GAAAAGAAGAAGAAGA
*
58708743 GAAAATAGATGAAGAGAGGA
1 G-AAA-AGAAGAAGA-A-GA
58708763 GAAAAGAAGAAGAA
1 GAAAAGAAGAAGAA
58708777 AAAAGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.04
17 4 0.14
18 16 0.57
19 4 0.14
20 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAGA
Found at i:58710493 original size:12 final size:13
Alignment explanation
Indices: 58710476--58710507 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58710466 GCAAATGTTA
58710476 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
58710488 AGTTTTGATGCAT
1 AGTTTTGATGCAT
58710501 -GTTTTGA
1 AGTTTTGA
58710508 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:58714180 original size:37 final size:37
Alignment explanation
Indices: 58714137--58714213 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
58714127 AACTCTGAAG
58714137 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
1 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
*
58714174 TTAATTTCTTTCGTGTAAGATTGCTTTCTTGTGATAT
1 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
58714211 TTA
1 TTA
58714214 GAAGCAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (37 bp):
TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
Found at i:58714741 original size:21 final size:22
Alignment explanation
Indices: 58714702--58714752 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
58714692 AAATTATGAC
*
58714702 TTTAAAGATATATATTTTTATAT
1 TTTATAGATATATATTTTTA-AT
58714725 TTT-TAGATATA-ATTTTTAAT
1 TTTATAGATATATATTTTTAAT
58714745 TTTATAGA
1 TTTATAGA
58714753 ATTATTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 11 0.42
22 7 0.27
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTATAGATATATATTTTTAAT
Found at i:58715303 original size:20 final size:20
Alignment explanation
Indices: 58715260--58715305 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
58715250 AATGGTTATA
* *
58715260 TTTAAATATTTAAAATATAG
1 TTTATATATTTAAAATAAAG
*
58715280 TTTATATATTTAAAATAAAT
1 TTTATATATTTAAAATAAAG
58715300 TTTATA
1 TTTATA
58715306 AATAAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTATATATTTAAAATAAAG
Found at i:58715502 original size:10 final size:10
Alignment explanation
Indices: 58715487--58715516 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58715477 AAATGGATAT
58715487 TTTAATAATA
1 TTTAATAATA
58715497 TTTAATAATA
1 TTTAATAATA
*
58715507 TTTAAAAATA
1 TTTAATAATA
58715517 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAATAATA
Found at i:58724503 original size:15 final size:15
Alignment explanation
Indices: 58724479--58724510 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58724469 TATGCATGCA
*
58724479 AAATATAAAAGACAT
1 AAATACAAAAGACAT
58724494 AAATACAAAAGACAT
1 AAATACAAAAGACAT
58724509 AA
1 AA
58724511 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:58727655 original size:42 final size:43
Alignment explanation
Indices: 58727568--58727675 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
58727558 ACATCGATGT
* * * * ** *
58727568 CATATCCTAGATATGGTCTTATACGAAAATCTCATTTTGATGC
1 CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAACGC
* *
58727611 CATGTCCCAGACGTGGTCTTACACG-AAATCTCATATCAACGC
1 CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAACGC
*
58727653 CATATCCCAGATATGGTCTTACA
1 CATATCCCAGACATGGTCTTACA
58727676 TGATAACACA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 33 0.62
43 20 0.38
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAACGC
Found at i:58736701 original size:42 final size:42
Alignment explanation
Indices: 58736573--58736736 Score: 132
Period size: 42 Copynumber: 3.9 Consensus size: 42
58736563 TGCTATGTCT
* * ** *
58736573 CAGACGTGGTCTTGCATGGGATCTCACATCGATGCCATATCC
1 CAGACATGGTCTTACATGAAATCTCATATCGATGCCATATCC
* * * * * * *
58736615 TAGATATGGTCTTATACGAAAATCTCATTTCGATGCTATGTCC
1 CAGACATGGTCTTACATG-AAATCTCATATCGATGCCATATCC
* * *
58736658 CAGACGTGGTCTTACATGAAATCTCATATCAACGCCATATCC
1 CAGACATGGTCTTACATGAAATCTCATATCGATGCCATATCC
* * * *
58736700 CAAATATGGTCTTACATGATAA-CACATAACGATGCCA
1 CAGACATGGTCTTACATGA-AATCTCATATCGATGCCA
58736737 ATTCCATATC
Statistics
Matches: 91, Mismatches: 29, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
42 58 0.64
43 33 0.36
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
CAGACATGGTCTTACATGAAATCTCATATCGATGCCATATCC
Found at i:58737482 original size:10 final size:9
Alignment explanation
Indices: 58737455--58737480 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58737445 CTTCAAGGAT
58737455 ATCAAAAAC
1 ATCAAAAAC
58737464 ATCAAAAAC
1 ATCAAAAAC
58737473 ATCAAAAA
1 ATCAAAAA
58737481 ACTAACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (9 bp):
ATCAAAAAC
Found at i:58743771 original size:16 final size:18
Alignment explanation
Indices: 58743739--58743771 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
58743729 TTTTTGGACA
58743739 TTTTGGGACTGTTATTTG
1 TTTTGGGACTGTTATTTG
58743757 TTTT-GGACT-TTATTT
1 TTTTGGGACTGTTATTT
58743772 TTCGCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (18 bp):
TTTTGGGACTGTTATTTG
Found at i:58749684 original size:15 final size:14
Alignment explanation
Indices: 58749659--58749728 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 14
58749649 AGATTGAAGA
58749659 TTTAA-TAATAATAT
1 TTTAATTAATAAT-T
58749673 TTTAATTAATAATT
1 TTTAATTAATAATT
*
58749687 TTTAAATTAATTATT
1 TTT-AATTAATAATT
* *
58749702 CTT-ATTTATAA-T
1 TTTAATTAATAATT
*
58749714 TTTAATTAAAAATT
1 TTTAATTAATAATT
58749728 T
1 T
58749729 ATTTCAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
12 3 0.07
13 12 0.27
14 11 0.24
15 19 0.42
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATTAATAATT
Found at i:58752117 original size:19 final size:19
Alignment explanation
Indices: 58752093--58752131 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
58752083 TGAATCTCTT
58752093 CACTCTAACATTCATCCAC
1 CACTCTAACATTCATCCAC
58752112 CACTCTAACATTCATCCAC
1 CACTCTAACATTCATCCAC
58752131 C
1 C
58752132 TTCTCAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.26
Consensus pattern (19 bp):
CACTCTAACATTCATCCAC
Found at i:58757705 original size:13 final size:13
Alignment explanation
Indices: 58757687--58757712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58757677 CCTCTGTACG
58757687 CTCCACGTCGCCA
1 CTCCACGTCGCCA
58757700 CTCCACGTCGCCA
1 CTCCACGTCGCCA
58757713 TTCGTACCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (13 bp):
CTCCACGTCGCCA
Found at i:58770210 original size:12 final size:12
Alignment explanation
Indices: 58770188--58770216 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58770178 GAAAATTAGC
58770188 AAATT-AAAATA
1 AAATTAAAAATA
58770199 AAATTAAAAATA
1 AAATTAAAAATA
58770211 AAATTA
1 AAATTA
58770217 GATTGCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATA
Found at i:58771813 original size:20 final size:19
Alignment explanation
Indices: 58771782--58771832 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
58771772 TGCCTCTTTT
*
58771782 TGCATT-CATTTTATGCATC
1 TGCATTGCATTTTAT-CATA
58771801 TGCATTGCATTTTTATCATA
1 TGCATTGCA-TTTTATCATA
58771821 TGCATTGCATTT
1 TGCATTGCATTT
58771833 CACAAAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.31
20 14 0.48
21 6 0.21
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.49
Consensus pattern (19 bp):
TGCATTGCATTTTATCATA
Found at i:58776254 original size:44 final size:44
Alignment explanation
Indices: 58776145--58776275 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 44
58776135 TTGATGAATC
* * * *
58776145 CATAAATCTCATCCCTCTGAAGTAGCAAT-AGAGTAGATTGAAGT
1 CATAAATCTCATCTCACTGAAGTAGCAGTGA-AGCAGATTGAAGT
*
58776189 CATAAATCTCATCTCCCTGAAGTAGCAGTGAAGCAGATTGAAGT
1 CATAAATCTCATCTCACTGAAGTAGCAGTGAAGCAGATTGAAGT
* * * * * *
58776233 TATAGATCTTATCTCATTGAAGTTA-CAGTGTAGCAGATCGAAG
1 CATAAATCTCATCTCACTGAAG-TAGCAGTGAAGCAGATTGAAG
58776276 ACAGTGAATC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 71 0.96
45 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
CATAAATCTCATCTCACTGAAGTAGCAGTGAAGCAGATTGAAGT
Found at i:58776472 original size:143 final size:143
Alignment explanation
Indices: 58776272--58777079 Score: 935
Period size: 143 Copynumber: 5.7 Consensus size: 143
58776262 GTAGCAGATC
* * * * * * *
58776272 GAAGACAGTGAATCTTACTTCCCTGATGTTACAGTGAAACAGATTAAATCTACAAATTATGGCAG
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* *
58776337 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
*
58776402 AGCCGAGAAGACT
131 AGCGGAGAAGACT
* * * * * * * * *
58776415 GAAGATAGTGAATCTTATTTCTCTGAAGTTGTAGTGGAACAAATTGAAGTTATAAATTAAGGTAG
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* * *
58776480 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGC
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
*
58776545 AGCGGAGCAGACT
131 AGCGGAGAAGACT
* * *
58776558 TAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACAAATTATGG-TG
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* * * *
58776622 AATCTTATCTTCCTAAAGTTGCAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTGGAGTTG
66 -ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* *
58776687 CAGTGGAGCAGACT
130 CAGCGGAGAAGACT
* * * * *
58776701 GAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAATTGTGGCGG
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* * * * *
58776766 ATTTTATCTTCCTGAAGTTGCAATGGAGTAGATTGAAGCCACCAACCTTATCTCCCTGAACTTGC
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* *
58776831 AGCGGAGTAGATT
131 AGCGGAGAAGACT
* * * * * *
58776844 GAAGACAACGAATATTATTTCCCTGATGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCAA
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* * * *
58776909 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCTTGGAGTTGT
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
*
58776974 AGTGGAGCAA-ACT
131 AGCGGAG-AAGACT
* * * * * * * * * * *
58776987 GAATATAGTGAATCTCATTTCTCTAAAGTTGCAGTGGAGCAAATTAAAGCTACAAGTTA---CGG
1 GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
* *
58777049 ATCTTATC-TCTCTGAAGTAGCAGTAGAGCAG
66 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAG
58777080 GCCAAAGTCA
Statistics
Matches: 568, Mismatches: 93, Indels: 11
0.85 0.14 0.02
Matches are distributed among these distances:
139 2 0.00
140 27 0.05
142 1 0.00
143 536 0.94
144 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (143 bp):
GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCAG
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGCGGAGAAGACT
Found at i:58776545 original size:44 final size:44
Alignment explanation
Indices: 58776494--58776982 Score: 179
Period size: 44 Copynumber: 10.4 Consensus size: 44
58776484 TATCTTTCTA
*
58776494 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * ** *
58776538 AAGTTGCAGCGGAGCAGACTT-AAGACAGCGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGA-TTGAAGCCA-CCAGCCTTATCTCCCTG
* * ** * * *
58776583 AAGTTGTAGTGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA----G--CCTTATCTCCCTG
* *
58776637 AAGTTGCAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * ** * ** * *
58776681 GAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTCCCTG
* * * * * *
58776726 AAGTTGCAATGGAACAGATTGAAGCTACAAATTGTGGCGGATTTTATCTTCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCAC-CA-----GC----CTTATCTCCCTG
* * *
58776780 AAGTTGCAATGGAGTAGATTGAAGCCACCAACCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * * *** *
58776824 AACTTGCAGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTTATCTCCCTG
* ** * ** *
58776869 ATGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCAAATCTTATCTTCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA--GC----CTTATCTCCCTG
* *
58776923 AAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* *
58776967 GAGTTGTAGTGGAGCA
1 AAGTTGCAGTGGAGCA
58776983 AACTGAATAT
Statistics
Matches: 324, Mismatches: 86, Indels: 70
0.68 0.18 0.15
Matches are distributed among these distances:
44 112 0.35
45 101 0.31
46 1 0.00
47 1 0.00
48 6 0.02
49 1 0.00
50 5 0.02
52 2 0.01
53 1 0.00
54 94 0.29
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
Done.