Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 172 of 235
Found at i:58393797 original size:9 final size:9
Alignment explanation
Indices: 58393783--58393815 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
58393773 ATTTGAGTTG
58393783 ACTCGAATA
1 ACTCGAATA
*
58393792 ACTCGATTA
1 ACTCGAATA
58393801 ACTCGAATA
1 ACTCGAATA
58393810 ACTCGA
1 ACTCGA
58393816 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:58393806 original size:18 final size:18
Alignment explanation
Indices: 58393783--58393817 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
58393773 ATTTGAGTTG
58393783 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
58393801 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
58393818 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:58394155 original size:20 final size:20
Alignment explanation
Indices: 58394130--58394180 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
58394120 GAAGCAAAGC
*
58394130 ACACGCCTGTGCGCTTAGTG
1 ACACGCCCGTGCGCTTAGTG
*
58394150 ACACGCCCGTGTGCTTAGTG
1 ACACGCCCGTGCGCTTAGTG
*
58394170 ACACACCCGTG
1 ACACGCCCGTG
58394181 TTGAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (20 bp):
ACACGCCCGTGCGCTTAGTG
Found at i:58394262 original size:13 final size:13
Alignment explanation
Indices: 58394244--58394268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58394234 CCAAGCACAC
58394244 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
58394257 GCCCGTGTCCCT
1 GCCCGTGTCCCT
58394269 CACACAGCCC
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:58397020 original size:49 final size:49
Alignment explanation
Indices: 58396938--58397302 Score: 616
Period size: 49 Copynumber: 7.6 Consensus size: 49
58396928 TTAAACCCAT
*
58396938 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58396985 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58397034 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58397083 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58397132 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58397181 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
58397230 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58397277 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
58397303 TCCCGAAGGG
Statistics
Matches: 305, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 60 0.20
48 1 0.00
49 244 0.80
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:58400745 original size:20 final size:21
Alignment explanation
Indices: 58400722--58400760 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58400712 CCCTTGAAAC
58400722 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
58400742 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
58400761 ATCACTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:58402116 original size:46 final size:46
Alignment explanation
Indices: 58402046--58402221 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
58402036 TGTCCATTGT
* *
58402046 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * * * **
58402092 AACGCCGATGCATGTCCTAGACATGTCTTACA-TGGCAAAAAT-ATCTC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGC---TCTCATCTC
** * *
58402139 GAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* *
58402185 GTGGCCGAAGCATGTCCCAGACATGTCTTACACTAGC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
58402222 ACATATATCA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 4 0.04
46 64 0.62
47 31 0.30
48 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
Found at i:58402160 original size:93 final size:93
Alignment explanation
Indices: 58402046--58402216 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
58402036 TGTCCATTGT
* * * * *
58402046 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAACGCCGATGCATGTCCTA
1 GAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGAAGCATGTCCCA
58402111 GACATGTCTTACATGGCAAAAATATCTC
66 GACATGTCTTACATGGCAAAAATATCTC
****
58402139 GAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTGTGGCCGAAGCATGTCCCA
1 GAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGAAGCATGTCCCA
58402204 GACATGTCTTACA
66 GACATGTCTTACA
58402217 CTAGCACATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (93 bp):
GAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGAAGCATGTCCCA
GACATGTCTTACATGGCAAAAATATCTC
Found at i:58406041 original size:12 final size:12
Alignment explanation
Indices: 58406024--58406049 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58406014 TCACACTTAG
58406024 GGTGTTTATATA
1 GGTGTTTATATA
58406036 GGTGTTTATATA
1 GGTGTTTATATA
58406048 GG
1 GG
58406050 CTTTGGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (12 bp):
GGTGTTTATATA
Found at i:58407363 original size:40 final size:40
Alignment explanation
Indices: 58407308--58407471 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
58407298 ATAAGTTGAN
* *
58407308 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
58407348 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
58407388 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
58407428 TCCGGGCTAAGTCCCGAAGGTATTCGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
58407468 TCCG
1 TCCG
58407472 ATTCAATCCC
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
39 2 0.02
40 115 0.98
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:58415113 original size:49 final size:49
Alignment explanation
Indices: 58415008--58415136 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
58414998 CTTCGGGACT
* * * *
58415008 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
58415055 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
58415104 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
58415137 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:58419141 original size:8 final size:8
Alignment explanation
Indices: 58419128--58419152 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58419118 CAACAATAAC
58419128 GGGTTAAT
1 GGGTTAAT
58419136 GGGTTAAT
1 GGGTTAAT
58419144 GGGTTAAT
1 GGGTTAAT
58419152 G
1 G
58419153 ATGAGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (8 bp):
GGGTTAAT
Found at i:58420150 original size:24 final size:26
Alignment explanation
Indices: 58420123--58420180 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
58420113 AATTGAAGTG
*
58420123 AAAATAAAAATCAAA-AGAAA-AAGA
1 AAAATAAAAATAAAATAGAAATAAGA
58420147 AAAAT-AAAATAAAATAGAAATAAGA
1 AAAATAAAAATAAAATAGAAATAAGA
58420172 AAAA-AAAAA
1 AAAATAAAAA
58420181 GATTCAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (26 bp):
AAAATAAAAATAAAATAGAAATAAGA
Found at i:58420165 original size:18 final size:18
Alignment explanation
Indices: 58420123--58420166 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
58420113 AATTGAAGTG
*
58420123 AAAATAAAAATCAAAAGA
1 AAAAGAAAAATCAAAAGA
*
58420141 AAAAGAAAAAT-AAAATA
1 AAAAGAAAAATCAAAAGA
58420158 AAATAGAAA
1 AAA-AGAAA
58420167 TAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAATCAAAAGA
Found at i:58423773 original size:24 final size:26
Alignment explanation
Indices: 58423746--58423803 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
58423736 AATTGAAGTG
*
58423746 AAAATAAAAATCAAA-AGAAA-AAGA
1 AAAATAAAAATAAAATAGAAAGAAGA
58423770 AAAAT-AAAATAAAATAGAAAGAAGA
1 AAAATAAAAATAAAATAGAAAGAAGA
58423795 AAAA-AAAAA
1 AAAATAAAAA
58423804 GATTCAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (26 bp):
AAAATAAAAATAAAATAGAAAGAAGA
Found at i:58423788 original size:18 final size:18
Alignment explanation
Indices: 58423746--58423789 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
58423736 AATTGAAGTG
*
58423746 AAAATAAAAATCAAAAGA
1 AAAAGAAAAATCAAAAGA
*
58423764 AAAAGAAAAAT-AAAATA
1 AAAAGAAAAATCAAAAGA
58423781 AAATAGAAA
1 AAA-AGAAA
58423790 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAATCAAAAGA
Found at i:58429284 original size:793 final size:793
Alignment explanation
Indices: 58427758--58429344 Score: 3147
Period size: 793 Copynumber: 2.0 Consensus size: 793
58427748 ACAAAAGAAG
58427758 AGATATCATTACGTAATTTAGCCGTTTTAGCCGGTGGAAAATATTTTAGTAAAAATTTCTCAGTC
1 AGATATCATTACGTAATTTAGCCGTTTTAGCCGGTGGAAAATATTTTAGTAAAAATTTCTCAGTC
58427823 ATTTGTTCCCAAGTAGAGATAGACCCTCGTGGTAACGAGTTCAACCACTGTTTAGCTTTGTTTCT
66 ATTTGTTCCCAAGTAGAGATAGACCCTCGTGGTAACGAGTTCAACCACTGTTTAGCTTTGTTTCT
58427888 CAGTGAAAAGGGAAATAACCGAAGACAAATTGCATCATCAGAAATGCCATTGATTTTGAATGTAT
131 CAGTGAAAAGGGAAATAACCGAAGACAAATTGCATCATCAGAAATGCCATTGATTTTGAATGTAT
58427953 CGCAAAATTCAAGAAAATTCGCCAAGTGCGTGTTGGGATCCTCATCCTGTAAACCATCAAACTGA
196 CGCAAAATTCAAGAAAATTCGCCAAGTGCGTGTTGGGATCCTCATCCTGTAAACCATCAAACTGA
58428018 ACAAACTACTGTATCATCTTAATTATGTTAGGTTTTAGTTTGAAATTATTCGTGGCAATAGCAGG
261 ACAAACTACTGTATCATCTTAATTATGTTAGGTTTTAGTTTGAAATTATTCGTGGCAATAGCAGG
58428083 TCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGTATAGTCATACATAAAACGTGGAG
326 TCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGTATAGTCATACATAAAACGTGGAG
58428148 CAGGATTTTGATTAGCTGCAATTGCAGGAGGTAGCTGATTGCCTTGGTTTTCGGCATCTCTTCGG
391 CAGGATTTTGATTAGCTGCAATTGCAGGAGGTAGCTGATTGCCTTGGTTTTCGGCATCTCTTCGG
58428213 TTGGGGTTTGAGTATCGTCTTCTCGCTCGTTCTCTTTGTATCGTAAACTACGCCTTATTTCTCTT
456 TTGGGGTTTGAGTATCGTCTTCTCGCTCGTTCTCTTTGTATCGTAAACTACGCCTTATTTCTCTT
58428278 TGATTTCTACGAACTGTGCGATCGATTTCTTCGTCAAAAAGTAGTGGTCCTGATGGGTTTCTTCT
521 TGATTTCTACGAACTGTGCGATCGATTTCTTCGTCAAAAAGTAGTGGTCCTGATGGGTTTCTTCT
58428343 AGTCATAAACTATAAAAACTTGCCAAGAGAGAGAAAAAGTGAATTAATAAATAATAAAATAAAAT
586 AGTCATAAACTATAAAAACTTGCCAAGAGAGAGAAAAAGTGAATTAATAAATAATAAAATAAAAT
58428408 AAAATTACAAGAAAAATAAATGGCTAAAGTAATAAAAATTTAGTGTTCCTAATATTTTAGTTCCC
651 AAAATTACAAGAAAAATAAATGGCTAAAGTAATAAAAATTTAGTGTTCCTAATATTTTAGTTCCC
58428473 CGGCAACGGCGCCAAAAACTTGATCGCGTGATTCGTTACAAGTAATAAGTATTTATAATGAAGAT
716 CGGCAACGGCGCCAAAAACTTGATCGCGTGATTCGTTACAAGTAATAAGTATTTATAATGAAGAT
58428538 TAAACCTAGACTT
781 TAAACCTAGACTT
58428551 AGATATCATTACGTAATTTAGCCGTTTTAGCCGGTGGAAAATATTTTAGTAAAAATTTCTCAGTC
1 AGATATCATTACGTAATTTAGCCGTTTTAGCCGGTGGAAAATATTTTAGTAAAAATTTCTCAGTC
58428616 ATTTGTTCCCAAGTAGAGATAGACCCTCGTGGTAACGAGTTCAACCACTGTTTAGCTTTGTTTCT
66 ATTTGTTCCCAAGTAGAGATAGACCCTCGTGGTAACGAGTTCAACCACTGTTTAGCTTTGTTTCT
*
58428681 CAGTGAAAAGGGAAATAACCGAAGACAAGTTGCATCATCAGAAATGCCATTGATTTTGAATGTAT
131 CAGTGAAAAGGGAAATAACCGAAGACAAATTGCATCATCAGAAATGCCATTGATTTTGAATGTAT
* *
58428746 CGCAAAGTTCAAGGAAATTCGCCAAGTGCGTGTTGGGATCCTCATCCTGTAAACCATCAAACTGA
196 CGCAAAATTCAAGAAAATTCGCCAAGTGCGTGTTGGGATCCTCATCCTGTAAACCATCAAACTGA
58428811 ACAAACTACTGTATCATCTTAATTATGTTAGGTTTTAGTTTGAAATTATTCGTGGCAATAGCAGG
261 ACAAACTACTGTATCATCTTAATTATGTTAGGTTTTAGTTTGAAATTATTCGTGGCAATAGCAGG
58428876 TCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGTATAGTCATACATAAAACGTGGAG
326 TCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGTATAGTCATACATAAAACGTGGAG
58428941 CAGGATTTTGATTAGCTGCAATTGCAGGAGGTAGCTGATTGCCTTGGTTTTCGGCATCTCTTCGG
391 CAGGATTTTGATTAGCTGCAATTGCAGGAGGTAGCTGATTGCCTTGGTTTTCGGCATCTCTTCGG
58429006 TTGGGGTTTGAGTATCGTCTTCTCGCTCGTTCTCTTTGTATCGTAAACTACGCCTTATTTCTCTT
456 TTGGGGTTTGAGTATCGTCTTCTCGCTCGTTCTCTTTGTATCGTAAACTACGCCTTATTTCTCTT
58429071 TGATTTCTACGAACTGTGCGATCGATTTCTTCGTCAAAAAGTAGTGGTCCTGATGGGTTTCTTCT
521 TGATTTCTACGAACTGTGCGATCGATTTCTTCGTCAAAAAGTAGTGGTCCTGATGGGTTTCTTCT
58429136 AGTCATAAACTATAAAAACTTGCCAAGAGAGAGAAAAAGTGAATTAATAAATAATAAAATAAAAT
586 AGTCATAAACTATAAAAACTTGCCAAGAGAGAGAAAAAGTGAATTAATAAATAATAAAATAAAAT
58429201 AAAATTACAAGAAAAATAAATGGCTAAAGTAATAAAAATTTAGTGTTCCTAATATTTTAGTTCCC
651 AAAATTACAAGAAAAATAAATGGCTAAAGTAATAAAAATTTAGTGTTCCTAATATTTTAGTTCCC
58429266 CGGCAACGGCGCCAAAAACTTGATCGCGTGATTCGTTACAAGTAATAAGTATTTATAATGAAGAT
716 CGGCAACGGCGCCAAAAACTTGATCGCGTGATTCGTTACAAGTAATAAGTATTTATAATGAAGAT
58429331 TAAACCTAGACTT
781 TAAACCTAGACTT
58429344 A
1 A
58429345 CTATTATCAC
Statistics
Matches: 791, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
793 791 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (793 bp):
AGATATCATTACGTAATTTAGCCGTTTTAGCCGGTGGAAAATATTTTAGTAAAAATTTCTCAGTC
ATTTGTTCCCAAGTAGAGATAGACCCTCGTGGTAACGAGTTCAACCACTGTTTAGCTTTGTTTCT
CAGTGAAAAGGGAAATAACCGAAGACAAATTGCATCATCAGAAATGCCATTGATTTTGAATGTAT
CGCAAAATTCAAGAAAATTCGCCAAGTGCGTGTTGGGATCCTCATCCTGTAAACCATCAAACTGA
ACAAACTACTGTATCATCTTAATTATGTTAGGTTTTAGTTTGAAATTATTCGTGGCAATAGCAGG
TCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGTATAGTCATACATAAAACGTGGAG
CAGGATTTTGATTAGCTGCAATTGCAGGAGGTAGCTGATTGCCTTGGTTTTCGGCATCTCTTCGG
TTGGGGTTTGAGTATCGTCTTCTCGCTCGTTCTCTTTGTATCGTAAACTACGCCTTATTTCTCTT
TGATTTCTACGAACTGTGCGATCGATTTCTTCGTCAAAAAGTAGTGGTCCTGATGGGTTTCTTCT
AGTCATAAACTATAAAAACTTGCCAAGAGAGAGAAAAAGTGAATTAATAAATAATAAAATAAAAT
AAAATTACAAGAAAAATAAATGGCTAAAGTAATAAAAATTTAGTGTTCCTAATATTTTAGTTCCC
CGGCAACGGCGCCAAAAACTTGATCGCGTGATTCGTTACAAGTAATAAGTATTTATAATGAAGAT
TAAACCTAGACTT
Found at i:58429508 original size:13 final size:13
Alignment explanation
Indices: 58429486--58429518 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58429476 AAGGGTTTGT
58429486 TTAT-TAAACTAA
1 TTATCTAAACTAA
58429498 TTATCTAAACTAA
1 TTATCTAAACTAA
*
58429511 TTAACTAA
1 TTATCTAA
58429519 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:58434025 original size:21 final size:21
Alignment explanation
Indices: 58433994--58434049 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
58433984 CCCTTGAAAC
58433994 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
58434014 AGGGCAACACG-CCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
58434034 AGGCCAACACGCCCGT
1 AGGGCAACACGCCCGT
58434050 CTGATCACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.23, C:0.32, G:0.36, T:0.09
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:58435422 original size:94 final size:94
Alignment explanation
Indices: 58435324--58435537 Score: 212
Period size: 94 Copynumber: 2.3 Consensus size: 94
58435314 AAGCTGACGC
* ****** * *
58435324 CATGTCCCAGACAGGTCTTATACTAGCTTGTCCATCGCGAGGTTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
58435389 TTACACTAGCTCTCGTCTCAAAGCCGATG
66 TTACACTAGCTCTCGTCTCAAAGCCGATG
* * * * * *
58435418 CATGTCCTAGACATGTCTTACACTGGAAAAAATATCTCGAGGCTAATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
* * **** * *
58435483 TTACACTAGCTCTCATATTGTGGTCGAAG
66 TTACACTAGCTCTCGTCTCAAAGCCGATG
*
58435512 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACAGGTCTTACACTAG
58435538 CACACATATC
Statistics
Matches: 95, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGTCTCAAAGCCGATG
Found at i:58439069 original size:46 final size:46
Alignment explanation
Indices: 58439019--58439191 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
58439009 TGGTTGAGCA
58439019 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58439065 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58439110 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58439158 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58439192 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58439175 original size:93 final size:93
Alignment explanation
Indices: 58439016--58439186 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
58439006 GGATGGTTGA
* *
58439016 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58439081 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
58439109 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58439174 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58439187 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58452102 original size:25 final size:25
Alignment explanation
Indices: 58452074--58452155 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
58452064 CCATAGCTCA
*
58452074 TATGAGCTTCTCGATTTACAGCTTG
1 TATGAGCTTCTCGATTCACAGCTTG
* *
58452099 TATGAGCTTCCCGATTCACAGCTCG
1 TATGAGCTTCTCGATTCACAGCTTG
* *
58452124 TGA-GAGCATACT-GATTCATAGCTTG
1 T-ATGAGC-TTCTCGATTCACAGCTTG
58452149 TATGAGC
1 TATGAGC
58452156 ATACATGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 43 0.91
26 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
TATGAGCTTCTCGATTCACAGCTTG
Found at i:58462032 original size:43 final size:43
Alignment explanation
Indices: 58461874--58462033 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 43
58461864 ATAGGATTCT
* *
58461874 GATATTTGATTTCGTGTAAGACCACGTCTGGGAT-GTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGATAG-TGGCATC
* * * * * * * *
58461917 GAT-TTGAGATTTACGTGTAAGACTATGTTTAGGACATTGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGATAGTGGCATC
*
58461961 G-TATTTGA-TATCATGTAAGACTC-TGTCTGGGATAGTGGCATC
1 GATATTTGATTA-CATGTAAGAC-CACGTCTGGGATAGTGGCATC
*
58462003 GATATTTGATTACATGTAAGGCCACGTCTGG
1 GATATTTGATTACATGTAAGACCACGTCTGG
58462034 ATGTTGGCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 30 0.33
44 31 0.34
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGATAGTGGCATC
Found at i:58462042 original size:42 final size:43
Alignment explanation
Indices: 58461874--58462043 Score: 145
Period size: 42 Copynumber: 4.0 Consensus size: 43
58461864 ATAGGATTCT
* *
58461874 GATATTTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATC
* * * * * * **
58461917 GAT-TTGAGATTTACGTGTAAGACTATGTTTAGGACATTGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGATGTTGGCATC
*
58461961 G-TATTTGA-TATCATGTAAGACTC-TGTCTGGGATAG-TGGCATC
1 GATATTTGATTA-CATGTAAGAC-CACGTCTGGGAT-GTTGGCATC
*
58462003 GATATTTGATTACATGTAAGGCCACGTCT-GGATGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
58462044 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 21
0.72 0.12 0.15
Matches are distributed among these distances:
41 3 0.03
42 37 0.37
43 28 0.28
44 32 0.32
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATC
Found at i:58463372 original size:39 final size:39
Alignment explanation
Indices: 58463328--58463405 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
58463318 TTTGTATGTA
58463328 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
1 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
58463367 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
1 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
58463406 GTCTTGTTGA
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:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (39 bp):
CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
Found at i:58468454 original size:13 final size:13
Alignment explanation
Indices: 58468436--58468460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58468426 AATTGATATC
58468436 TGTGAAAATTTTG
1 TGTGAAAATTTTG
58468449 TGTGAAAATTTT
1 TGTGAAAATTTT
58468461 ATCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:58470783 original size:19 final size:20
Alignment explanation
Indices: 58470748--58470786 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
58470738 GTGTTATCAT
*
58470748 AATTTCATAGGCATAACTTA
1 AATTTCATAGACATAACTTA
58470768 AATTTC-TAGACATAACTTA
1 AATTTCATAGACATAACTTA
58470787 CACATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (20 bp):
AATTTCATAGACATAACTTA
Found at i:58471397 original size:19 final size:20
Alignment explanation
Indices: 58471358--58471397 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
58471348 TTACAATAAT
* *
58471358 TAAACATAAAGATTCATACA
1 TAAACATAAACATTCAAACA
58471378 TAAACA-AAACATTCAAACA
1 TAAACATAAACATTCAAACA
58471397 T
1 T
58471398 GATATATCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (20 bp):
TAAACATAAACATTCAAACA
Found at i:58488062 original size:18 final size:18
Alignment explanation
Indices: 58488041--58488077 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58488031 TCCATGTAAG
*
58488041 ACCACATCAATATGTGGC
1 ACCACATCAAGATGTGGC
58488059 ACCACATCAAGATGTGGC
1 ACCACATCAAGATGTGGC
58488077 A
1 A
58488078 TTGGCACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (18 bp):
ACCACATCAAGATGTGGC
Found at i:58488144 original size:47 final size:47
Alignment explanation
Indices: 58488089--58488206 Score: 209
Period size: 47 Copynumber: 2.5 Consensus size: 47
58488079 TGGCACTGAA
58488089 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
*
58488136 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTTGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* *
58488183 ATAAGGATATCATGTAAGACCATG
1 ACAAGGATACCATGTAAGACCATG
58488207 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
Found at i:58488314 original size:55 final size:54
Alignment explanation
Indices: 58488185--58488381 Score: 238
Period size: 54 Copynumber: 3.6 Consensus size: 54
58488175 TTTGTAAGAT
* * * * *
58488185 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTTATAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
58488239 AAGGAAATCATGTAAGACCATGACAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* *
58488294 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTC-ATCAA-GC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTAT-AAGGC
* *
58488347 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
58488382 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 43 0.35
55 43 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:58488411 original size:108 final size:109
Alignment explanation
Indices: 58488193--58488411 Score: 282
Period size: 108 Copynumber: 2.0 Consensus size: 109
58488183 ATAAGGATAT
* * * *
58488193 CATGTAAGACCATGCCAAGGCATGGCATTTATAAGTTTTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGCAAGGAAACCACGTAAGACC
* * * * *
58488258 ATGACAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGACAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* *
58488302 CATGTAAGACCATGCCAAGGCATGGCATTGATGAG-TTCATCAA-GCAAGGATACCACGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCAT-AAGGCAAGGAAACCACGTAAGAC
* *
58488365 CATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
65 CATGACAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
58488410 CA
1 CA
58488412 AGCAATCCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
107 11 0.12
108 49 0.52
109 35 0.37
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGCAAGGAAACCACGTAAGACC
ATGACAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:58502398 original size:17 final size:18
Alignment explanation
Indices: 58502364--58502399 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58502354 AGCTTCTATA
58502364 CTTACTTTTTGTCGATAT
1 CTTACTTTTTGTCGATAT
58502382 CTTACTTTTTGTC-ATAT
1 CTTACTTTTTGTCGATAT
58502399 C
1 C
58502400 GAAGCTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.56
Consensus pattern (18 bp):
CTTACTTTTTGTCGATAT
Found at i:58513192 original size:28 final size:28
Alignment explanation
Indices: 58513160--58513217 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
58513150 ATCAAGACAG
*
58513160 GTATGATCGTTTAGGGCACAAATACGTA
1 GTATGATCGTTTAGGGCACAAACACGTA
58513188 GTATGATCGTTTAGGGCACAAACACGTA
1 GTATGATCGTTTAGGGCACAAACACGTA
58513216 GT
1 GT
58513218 GCCTTGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
GTATGATCGTTTAGGGCACAAACACGTA
Found at i:58520316 original size:13 final size:15
Alignment explanation
Indices: 58520283--58520319 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
58520273 TCTCTGCTTG
58520283 CACACACGGACATGC
1 CACACACGGACATGC
*
58520298 CACACATGGACATGC
1 CACACACGGACATGC
58520313 CACACAC
1 CACACAC
58520320 CCGTGTGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.41, G:0.16, T:0.08
Consensus pattern (15 bp):
CACACACGGACATGC
Found at i:58522756 original size:48 final size:48
Alignment explanation
Indices: 58522667--58522839 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 48
58522657 CAAGATAGGG
* * * * *
58522667 TGCCAATGCCATA-CCCATATATGGTCTTCCATGGGACCACATAACGA
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATCACATAACGA
* * * *
58522714 TGCCAATGCCATGTCCCAGACATTGTCTTATATGGGATCACATAACGA
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATCACATAACGA
* **
58522762 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATCACATGTC-A
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATCACATAACGA
* * *
58522809 CTGCCGAAGCCATATCCTAGATATGGTCTTA
1 -TGCCAAAGCCATATCCCAGACATGGTCTTA
58522840 TATTGGAGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
47 13 0.12
48 94 0.88
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (48 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATCACATAACGA
Found at i:58524357 original size:40 final size:39
Alignment explanation
Indices: 58524259--58524521 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
58524249 TCCTCGTTCA
* * * *
58524259 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
58524298 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
58524337 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
58524377 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
58524417 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
58524457 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
58524498 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58524522 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:58524481 original size:120 final size:119
Alignment explanation
Indices: 58524259--58524521 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
58524249 TCCTCGTTCA
* * *
58524259 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
58524324 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
58524377 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
58524442 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
58524498 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58524522 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:58524530 original size:41 final size:41
Alignment explanation
Indices: 58524453--58524530 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58524443 TTTGTATCTC
* * *
58524453 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58524494 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58524531 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58532252 original size:39 final size:40
Alignment explanation
Indices: 58532207--58532378 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
58532197 GCTCCTCGTT
* * *
58532207 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
58532247 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
58532286 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
58532326 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
58532366 CAAATGCCTTCGG
1 CAAATGCCTTCGG
58532379 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:58532307 original size:40 final size:39
Alignment explanation
Indices: 58532209--58532431 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
58532199 TCCTCGTTCA
* * * *
58532209 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
58532248 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
58532287 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
58532327 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
58532367 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
58532408 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58532432 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:58532391 original size:80 final size:79
Alignment explanation
Indices: 58532207--58532431 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
58532197 GCTCCTCGTT
* * * * *
58532207 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
58532271 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
58532286 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
58532351 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
58532366 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
58532430 GA
63 GA
58532432 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:58532440 original size:41 final size:41
Alignment explanation
Indices: 58532363--58532440 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58532353 TTTGTATCTC
* * *
58532363 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58532404 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58532441 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58539030 original size:48 final size:48
Alignment explanation
Indices: 58538786--58539059 Score: 197
Period size: 48 Copynumber: 5.8 Consensus size: 48
58538776 CAAGATAGGG
* * * * * *
58538786 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGACCACATGATGA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATAA
* * *
58538834 GGCCAATGCCATGTCCCAGTCATGGTCTTACATGGGATCACA-AAT-A
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATAA
* * * * * * *
58538880 T--CGAAGCCGATAG-CCCA-ACTATGGCCTTACACGACG-TCTCATTATGA
1 TGCCAAAGCC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATAATAA
* * * *
58538927 TGCCAATGCCATGTCCCAAACACGGTCGTACATGGGATCACATAATAA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATAA
* * *
58538975 TGACAAAGCCATGTCCCAGACATGGTCTTACATGGTATCACAT-GTCACA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAT-A-A
* * *
58539024 -GCCAAAGCCATATCCCAGATATGGTCTTATATGGGA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
58539060 GTTCATCCAC
Statistics
Matches: 176, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 6 0.03
45 21 0.12
46 5 0.03
47 7 0.04
48 129 0.73
49 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (48 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATAA
Found at i:58555016 original size:40 final size:40
Alignment explanation
Indices: 58554972--58555233 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
58554962 GCTCCTCGTT
* *
58554972 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
58555012 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58555052 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58555091 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58555130 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
58555169 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
58555210 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58555234 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:58561176 original size:16 final size:16
Alignment explanation
Indices: 58561155--58561187 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58561145 AGGGGCCCGA
58561155 CATTAGCTCCGGCCAC
1 CATTAGCTCCGGCCAC
58561171 CATTAGCTCCGGCCAC
1 CATTAGCTCCGGCCAC
58561187 C
1 C
58561188 CTTTCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (16 bp):
CATTAGCTCCGGCCAC
Found at i:58566616 original size:39 final size:40
Alignment explanation
Indices: 58566443--58566623 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
58566433 TTGAATGCTG
* * *
58566443 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTATAA
*
58566483 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-T-TAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTATAA
* * *
58566522 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-AA
1 -TCCGGGCTAAGTCCCGAAGG-CATTGTGCGAGTTACTATAA
* **
58566563 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
*
58566603 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
58566624 CTTGAACGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 35 0.30
40 71 0.60
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
Found at i:58574395 original size:40 final size:39
Alignment explanation
Indices: 58574364--58574573 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
58574354 GGACTAAGAT
* *
58574364 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
58574404 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
58574444 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
58574484 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
58574524 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
58574563 CCGAAGGCATT
1 CCGAAGGCATT
58574574 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:58574527 original size:120 final size:120
Alignment explanation
Indices: 58574311--58574573 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
58574301 TTGAATGCTG
* *
58574311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
58574375 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
58574431 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
58574494 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
58574550 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58574574 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:58574593 original size:79 final size:80
Alignment explanation
Indices: 58574312--58574608 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
58574302 TGAATGCTGT
* ** * * * **
58574312 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
58574375 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
58574392 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
58574456 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
58574472 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
58574536 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
58574551 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
58574609 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:58579477 original size:13 final size:13
Alignment explanation
Indices: 58579459--58579483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58579449 TGTGGGTTCA
58579459 CACGGCCGTGTCG
1 CACGGCCGTGTCG
58579472 CACGGCCGTGTC
1 CACGGCCGTGTC
58579484 TAGCTTCATT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:58579603 original size:55 final size:55
Alignment explanation
Indices: 58579543--58579656 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 55
58579533 GTTAATTTAA
* * *
58579543 CAGGTTCAACCACGGGTGTTTCACACGGGCGTGTTGAACGCCCGTGTTGTTTTGG
1 CAGGTTCAACCACGGGTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGTTTTGG
* * * * *
58579598 CAGGTTCACCCACGGTTCTTCCACACGGGTGTGTCGCACGCCTGTGTTGTTTTGG
1 CAGGTTCAACCACGGGTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGTTTTGG
58579653 CAGG
1 CAGG
58579657 CTTGACCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.29
Consensus pattern (55 bp):
CAGGTTCAACCACGGGTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGTTTTGG
Found at i:58589213 original size:19 final size:18
Alignment explanation
Indices: 58589151--58589221 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
58589141 ATCCTCCTTT
58589151 TTTTATTTTTTTATTATTTA
1 TTTTA-TTTTTTATT-TTTA
*
58589171 CTCTTA-TTTTTA-TTTTA
1 -TTTTATTTTTTATTTTTA
*
58589188 TTTTATTTTTTATTTTTC
1 TTTTATTTTTTATTTTTA
*
58589206 TATTTATTTTTAATTT
1 T-TTTATTTTTTATTT
58589222 CATTATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.09
17 10 0.23
18 6 0.14
19 19 0.44
21 4 0.09
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTTATTTTTA
Found at i:58589231 original size:36 final size:36
Alignment explanation
Indices: 58589153--58589232 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
58589143 CCTCCTTTTT
*
58589153 TTAT-TTTTTTATTATTTACTCTTATTTTTATTTTA
1 TTATATTTTTTATTATTTACTCTTATTTTTATTTCA
* *
58589188 TTTTATTTTTTATT-TTT-CTATTTATTTTTAATTTCA
1 TTATATTTTTTATTATTTACT-CTTATTTTT-ATTTCA
58589224 TTATATTTT
1 TTATATTTT
58589233 ATTTTGAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 2 0.05
35 14 0.37
36 22 0.58
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (36 bp):
TTATATTTTTTATTATTTACTCTTATTTTTATTTCA
Found at i:58591370 original size:129 final size:129
Alignment explanation
Indices: 58591140--58591389 Score: 421
Period size: 129 Copynumber: 1.9 Consensus size: 129
58591130 CGAGAAGATG
* * *
58591140 ACACGACCTAAGTCTTGCCACACGAGCATCTCACAGACCCATGGCCTTCGGGGGTGTCGACCAAG
1 ACACGACCTAAGCCTTGCCACACGAGCATCTCACAGACCCATGGCATTCGAGGGTGTCGACCAAG
*
58591205 GTTTTCACGATTCACACGGCCTGGCCATTGAGCCCACATGGCCGTGTGCAATTCAAAATATCGA
66 GTTTTCACGATTCACACGGCCTGGCCATTGAGCCCACACGGCCGTGTGCAATTCAAAATATCGA
* *
58591269 ACACGGCCTAAGCCTTGCCACACGAGCATCTCACACG-CCCGTGGCATTCGAGGGTGTCGACCAA
1 ACACGACCTAAGCCTTGCCACACGAGCATCTCACA-GACCCATGGCATTCGAGGGTGTCGACCAA
*
58591333 GGTTTTCACGATTCACACGGCCTGGCCATTGAGCCCACACGGCTGTGTGCAATTCAA
65 GGTTTTCACGATTCACACGGCCTGGCCATTGAGCCCACACGGCCGTGTGCAATTCAA
58591390 CGGATCAAAC
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
129 112 0.99
130 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (129 bp):
ACACGACCTAAGCCTTGCCACACGAGCATCTCACAGACCCATGGCATTCGAGGGTGTCGACCAAG
GTTTTCACGATTCACACGGCCTGGCCATTGAGCCCACACGGCCGTGTGCAATTCAAAATATCGA
Found at i:58594328 original size:46 final size:48
Alignment explanation
Indices: 58594256--58594358 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
58594246 GACAGGACAG
* * *
58594256 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
* *
58594302 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
58594350 GACAGGAAT
1 GACAGGAAT
58594359 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 25 0.50
47 1 0.02
48 24 0.48
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
Found at i:58594358 original size:48 final size:46
Alignment explanation
Indices: 58594256--58594394 Score: 143
Period size: 46 Copynumber: 3.0 Consensus size: 46
58594246 GACAGGACAG
* * *
58594256 GACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGA
* *
58594302 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATA-T-CAGATATATGGCATTGGA
* ** * * * * *
58594350 GACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATGGCATTGG
58594395 CAGGATATTG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 38 0.49
47 2 0.03
48 37 0.48
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGA
Found at i:58601710 original size:16 final size:16
Alignment explanation
Indices: 58601689--58601721 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58601679 GGTTGAACCC
58601689 TAGGAATGTTAGGATA
1 TAGGAATGTTAGGATA
58601705 TAGGAATGTTAGGATA
1 TAGGAATGTTAGGATA
58601721 T
1 T
58601722 TGGGGTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (16 bp):
TAGGAATGTTAGGATA
Found at i:58602443 original size:40 final size:40
Alignment explanation
Indices: 58602372--58602560 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
58602362 TTGACTAGTT
* * *
58602372 CCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTC
58602412 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
58602452 CCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
58602492 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
58602532 CCGAAGGTATTCGAGCGAG-TAGCTATATC
1 CCGAAGGCATTTGTGCGAGTTA-CTATATC
58602561 NTATATATGT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 135 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:58602613 original size:47 final size:47
Alignment explanation
Indices: 58602562--58602717 Score: 240
Period size: 47 Copynumber: 3.3 Consensus size: 47
58602552 AGCTATATCN
* **
58602562 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
58602609 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
58602656 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
58602703 TATAAATGTGATAAG
1 TATATATGTGATAAG
58602718 TCCCGAAGGG
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:58610707 original size:82 final size:81
Alignment explanation
Indices: 58610591--58610746 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
58610581 AAATTGTACA
* * * *
58610591 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
58610655 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58610672 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
58610737 TGCGAGTTGA
65 TGCGAATTGA
58610747 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58610714 original size:55 final size:52
Alignment explanation
Indices: 58610590--58610743 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
58610580 TAAATTGTAC
* *
58610590 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
58610643 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
58610698 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
58610744 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:58610748 original size:27 final size:27
Alignment explanation
Indices: 58610591--58610746 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
58610581 AAATTGTACA
*
58610591 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
58610618 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
58610645 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
58610672 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
58610700 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
58610727 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
58610747 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:58610757 original size:27 final size:27
Alignment explanation
Indices: 58610583--58610767 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
58610573 GCGGGATTAA
*
58610583 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
58610610 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
58610637 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
58610664 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
58610692 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
58610719 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
58610746 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
58610768 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:58610758 original size:82 final size:81
Alignment explanation
Indices: 58610583--58610767 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
58610573 GCGGGATTAA
* * * *
58610583 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
58610648 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
58610664 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
58610728 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
58610746 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
58610768 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:58624840 original size:39 final size:39
Alignment explanation
Indices: 58624796--58624873 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
58624786 ATAACTGAAA
58624796 ATCAGAATAATCAGCTACCTTCTATAGTTGCCACAAATC
1 ATCAGAATAATCAGCTACCTTCTATAGTTGCCACAAATC
** * *
58624835 ATCAGAATAATCAGCTAGTTTTTGTAGTTGCCACAAATC
1 ATCAGAATAATCAGCTACCTTCTATAGTTGCCACAAATC
58624874 CTTCTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (39 bp):
ATCAGAATAATCAGCTACCTTCTATAGTTGCCACAAATC
Found at i:58635666 original size:38 final size:38
Alignment explanation
Indices: 58635608--58635685 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
58635598 TTCGTGATAA
* * **
58635608 TTCGATAACATCCGATGTAAGTTTTATGTGTTTAAACG
1 TTCGATAACATCCGAGGTAAGTTTTAAGTAATTAAACG
*
58635646 TTCGATAACATCTGAGGTAAGTTTTAAGTAATTAAACG
1 TTCGATAACATCCGAGGTAAGTTTTAAGTAATTAAACG
58635684 TT
1 TT
58635686 GAGTAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (38 bp):
TTCGATAACATCCGAGGTAAGTTTTAAGTAATTAAACG
Found at i:58636646 original size:47 final size:47
Alignment explanation
Indices: 58636595--58637562 Score: 1731
Period size: 47 Copynumber: 20.5 Consensus size: 47
58636585 TTAGGATTCT
* * **
58636595 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTCATAAGGCCTAATGGCCG
* *
58636642 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTCATAAGGCCTAATGGCCG
* *
58636691 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCT--AATGGCCG
58636740 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58636787 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58636834 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58636881 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58636928 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58636975 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637022 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637069 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637116 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637163 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637210 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637257 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637304 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637351 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637398 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
58637445 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
* * * * * * *
58637492 ATGTGATGAATGTGAAAGTGTATATATCTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
* *
58637539 ACGTGATGGATGTGAAAGTGTATA
1 ATGTGATGAATGTGAAAGTGTATA
58637563 AAGGTGATAA
Statistics
Matches: 901, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 809 0.90
49 91 0.10
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCG
Found at i:58637742 original size:37 final size:37
Alignment explanation
Indices: 58637692--58637807 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
58637682 CCGAGCTCTA
58637692 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
**
58637729 AAGACCCGATGACTACGTGTGGGGATTTCATCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
58637766 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
58637803 AAGAC
1 AAGAC
58637808 TTCGTAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:58646530 original size:5 final size:6
Alignment explanation
Indices: 58646491--58646548 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
58646481 TTTTATATTC
** * * *
58646491 TTTTAT TTTTAT TTTTCC TATTAGT TTTTAT TTTTAT TTTTCT ATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
*
58646540 TTGTAT TTT
1 TTTTAT TTT
58646549 CCTAGACTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
6 35 0.90
7 4 0.10
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:58654195 original size:28 final size:29
Alignment explanation
Indices: 58654161--58654215 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
58654151 ATATAAAATT
* *
58654161 TGTAATTTAT-TAAAATAATTTTATTTCA
1 TGTAATTAATGTAAAATAATATTATTTCA
58654189 TGTAATTAATGTAAAATAATATTATTT
1 TGTAATTAATGTAAAATAATATTATTT
58654216 AAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (29 bp):
TGTAATTAATGTAAAATAATATTATTTCA
Found at i:58654223 original size:29 final size:28
Alignment explanation
Indices: 58654163--58654223 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
58654153 ATAAAATTTG
* * * **
58654163 TAATTTATTAAAATAATTTTATTTCATG
1 TAATTAATTAAAATAATATTATTTAAAA
58654191 TAATTAATGTAAAATAATATTATTTAAAA
1 TAATTAAT-TAAAATAATATTATTTAAAA
58654220 TAAT
1 TAAT
58654224 AAATAATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TAATTAATTAAAATAATATTATTTAAAA
Found at i:58655645 original size:19 final size:17
Alignment explanation
Indices: 58655609--58655642 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
58655599 TAAATTGGAA
58655609 ATGAAAATAATTAAAAG
1 ATGAAAATAATTAAAAG
58655626 ATGATAAATAATTAAAA
1 ATGA-AAATAATTAAAA
58655643 AGAGATTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
ATGAAAATAATTAAAAG
Found at i:58658391 original size:13 final size:13
Alignment explanation
Indices: 58658373--58658397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58658363 TAAACCGATC
58658373 ACATGATAAACAG
1 ACATGATAAACAG
58658386 ACATGATAAACA
1 ACATGATAAACA
58658398 TGTCGTTAGC
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
ACATGATAAACAG
Found at i:58658461 original size:34 final size:33
Alignment explanation
Indices: 58658408--58658514 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 33
58658398 TGTCGTTAGC
*
58658408 TACTAAATTGATTTGATTAAAGCATATTATTTGA
1 TACTAAATTGA-TTAATTAAAGCATATTATTTGA
* *
58658442 TACTGAATTGATCTAATTAAAGCATATTATTTGG
1 TACTAAATTGAT-TAATTAAAGCATATTATTTGA
* ** * *
58658476 TACTTAATTGATTTTTTATAAGCATATTAATTGC
1 TACTAAATTGATTAATTA-AAGCATATTATTTGA
58658510 TACTA
1 TACTA
58658515 TTTCGATATG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
33 5 0.08
34 57 0.92
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (33 bp):
TACTAAATTGATTAATTAAAGCATATTATTTGA
Found at i:58658669 original size:22 final size:22
Alignment explanation
Indices: 58658644--58658685 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58658634 GGTATATCCA
*
58658644 CACCATTGGAGTAGTTTATCTG
1 CACCATTGGAGCAGTTTATCTG
* *
58658666 CACCGTTTGAGCAGTTTATC
1 CACCATTGGAGCAGTTTATC
58658686 CACACTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (22 bp):
CACCATTGGAGCAGTTTATCTG
Found at i:58658767 original size:62 final size:63
Alignment explanation
Indices: 58658692--58658839 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 63
58658682 TATCCACACT
*
58658692 ATTGAGTGATTTATCCACACCATATTA-ACAACTTTTATCTGCAAACCCATTGTGCATTCA-AA
1 ATTGAGTGGTTTATCCACACCATATTAGA-AACTTTTATCTGCAAACCCATTGTGCATTCATAA
* * *
58658754 ATTGAGTGGTTTATCTATA-CAGTATTAGAAACTTTTATCTGCAAACCCATTTTGCATTCATAA
1 ATTGAGTGGTTTATCCACACCA-TATTAGAAACTTTTATCTGCAAACCCATTGTGCATTCATAA
**
58658817 CCT-AGTGGTTTATCCACACCATA
1 ATTGAGTGGTTTATCCACACCATA
58658840 CAAGTAGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
61 2 0.03
62 66 0.89
63 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (63 bp):
ATTGAGTGGTTTATCCACACCATATTAGAAACTTTTATCTGCAAACCCATTGTGCATTCATAA
Found at i:58662303 original size:20 final size:19
Alignment explanation
Indices: 58662280--58662344 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
58662270 AGTGGTATAC
*
58662280 TTTCATAATTTATGATATTT
1 TTTCATAATTT-TGGTATTT
*
58662300 TTTCATAATATTGGTATATT
1 TTTCATAATTTTGGTAT-TT
58662320 TTT-ATAATTTTTGGTATTT
1 TTTCATAA-TTTTGGTATTT
58662339 TTTCAT
1 TTTCAT
58662345 TTTTTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTCATAATTTTGGTATTT
Found at i:58662709 original size:20 final size:20
Alignment explanation
Indices: 58662670--58662894 Score: 105
Period size: 20 Copynumber: 11.6 Consensus size: 20
58662660 TTCCTCAAAT
** *
58662670 TTTTTAGTATTCCCTTATAA
1 TTTTTAGTATTTTCTCATAA
58662690 TTTTTAGTATTTTCTCATAA
1 TTTTTAGTATTTTCTCATAA
* * * *
58662710 TTTCTGGTA-TTACAACAT-A
1 TTTTTAGTATTTTC-TCATAA
* * **
58662729 TTTTTTGTA-CTTCT--TTT
1 TTTTTAGTATTTTCTCATAA
*
58662746 TTTTTA-TA-TTCCTTCATAA
1 TTTTTAGTATTTTC-TCATAA
* *
58662765 CTTTTTTGTACTTTCTCATAAA
1 -TTTTTAGTATTTTCTCAT-AA
*
58662787 TTTTT-GTATTCTCTCATAA
1 TTTTTAGTATTTTCTCATAA
* *
58662806 TTTTTGGTAATTTCT-A-AA
1 TTTTTAGTATTTTCTCATAA
58662824 TTTTTAGTATTTTCTCATAA
1 TTTTTAGTATTTTCTCATAA
* ** *
58662844 TTTTTTGTATTCCCTCAT-G
1 TTTTTAGTATTTTCTCATAA
* *
58662863 TTTTTGGTACTTTT-TCTTAA
1 TTTTTAGTA-TTTTCTCATAA
*
58662883 TTTTTGGTATTT
1 TTTTTAGTATTT
58662895 GTGTAACACC
Statistics
Matches: 156, Mismatches: 35, Indels: 29
0.71 0.16 0.13
Matches are distributed among these distances:
16 5 0.03
17 6 0.04
18 15 0.10
19 37 0.24
20 77 0.49
21 11 0.07
22 5 0.03
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTTAGTATTTTCTCATAA
Found at i:58662838 original size:58 final size:58
Alignment explanation
Indices: 58662766--58662894 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
58662756 CCTTCATAAC
* * *
58662766 TTTTTTGTACTTTCTCATAAATTTTTGTATTCTCTCATAATTTTTGGTA-ATTTCTAAA
1 TTTTTAGTATTTTCTCATAAATTTTTGTATTCCCTCAT-ATTTTTGGTACATTTCTAAA
* * * *
58662824 TTTTTAGTATTTTCTCATAATTTTTTGTATTCCCTCATGTTTTTGGTACTTTTTCTTAA
1 TTTTTAGTATTTTCTCATAAATTTTTGTATTCCCTCATATTTTTGGTAC-ATTTCTAAA
*
58662883 TTTTTGGTATTT
1 TTTTTAGTATTT
58662895 GTGTAACACC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 9 0.15
58 34 0.56
59 18 0.30
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (58 bp):
TTTTTAGTATTTTCTCATAAATTTTTGTATTCCCTCATATTTTTGGTACATTTCTAAA
Found at i:58668567 original size:33 final size:33
Alignment explanation
Indices: 58668525--58668590 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
58668515 GTCCATTCAG
58668525 ATCACTAGACTCAATTCAAATTATCTTATCATT
1 ATCACTAGACTCAATTCAAATTATCTTATCATT
* **
58668558 ATCACTAGACTTAATTTGAATTATCTTATCATT
1 ATCACTAGACTCAATTCAAATTATCTTATCATT
58668591 CTTACACCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (33 bp):
ATCACTAGACTCAATTCAAATTATCTTATCATT
Found at i:58671225 original size:43 final size:43
Alignment explanation
Indices: 58671107--58671765 Score: 924
Period size: 43 Copynumber: 15.6 Consensus size: 43
58671097 CAAGCACCAA
58671107 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
** *
58671149 GGTGCCGATGGT-CTAGAGGCTCTCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
58671191 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
** *
58671233 GGTGCCGATGGT-CTAGAGGCTCTCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
58671275 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
** *
58671317 GGTGCCGATGGT-CTAGAGGCTCTCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
58671359 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
** *
58671401 GGTGCCGATGGT-CTAGAGGCTCTCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
58671443 GGTGCCGATGGTGCCCGAGGCTCTCGCACGACCAGGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * *
58671486 GGTGCCGATGGTGGCCGAGGTTCCCGCACGACCAGGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * * *
58671529 GTTGCCGATGGTGCCCGAGGATCCCGCATGACCAGGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
**
58671572 ATTGCCGATGGT-CCCGAGGCTCCCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * * * *
58671614 GTTGCCGATGGTGTCCGA-GCTTCCGTACGACCAGGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
58671656 GTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * * *
58671699 GTTGCCGATGGTGGCCGAGGCTCCTGCACGACCAGGGGCCTAG
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
58671742 GTTGCCGATGGTGTCCGAGGCTCC
1 GGTGCCGATGGTGCCCGAGGCTCC
58671766 TGCATATCCA
Statistics
Matches: 557, Mismatches: 50, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
41 104 0.19
42 172 0.31
43 281 0.50
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.15
Consensus pattern (43 bp):
GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
Found at i:58671248 original size:84 final size:84
Alignment explanation
Indices: 58671107--58671753 Score: 992
Period size: 84 Copynumber: 7.6 Consensus size: 84
58671097 CAAGCACCAA
58671107 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
58671172 CGCACGACCAAGGGCCTAG
66 CGCACGACCAAGGGCCTAG
58671191 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
58671256 CGCACGACCAAGGGCCTAG
66 CGCACGACCAAGGGCCTAG
58671275 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
58671340 CGCACGACCAAGGGCCTAG
66 CGCACGACCAAGGGCCTAG
58671359 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
58671424 CGCACGACCAAGGGCCTAG
66 CGCACGACCAAGGGCCTAG
* * * *
58671443 GGTGCCGATGGTGCCCGAGGCTCTCGCACGACCAGGGGCCTAGGGTGCCGATGGTGGC-CGAGGT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GGTGCCGATGGT--CTAGAGGC
* *
58671507 TCCCGCACGACCAGGGGCCTAG
63 TCTCGCACGACCAAGGGCCTAG
* * * * * **
58671529 GTTGCCGATGGTGCCCGAGGATCCCGCATGACCAGGGGCCTAGATTGCCGATGGTCCCGAGGCTC
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-GTGCCGATGGTCTAGAGGCTC
*
58671594 CCGCACGACCAAGGGCCTAG
65 TCGCACGACCAAGGGCCTAG
* * * * * **
58671614 GTTGCCGATGGTGTCCGA-GCTTCCGTACGACCAGGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGT-CTAGAGGCT
58671678 CTCGCACGACCAAGGGCCTAG
64 CTCGCACGACCAAGGGCCTAG
* * * *
58671699 GTTGCCGATGGTGGCCGAGGCTCCTGCACGACCAGGGGCCTAGGTTGCCGATGGT
1 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGT
58671754 GTCCGAGGCT
Statistics
Matches: 531, Mismatches: 24, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
84 323 0.61
85 102 0.19
86 105 0.20
87 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.36, T:0.15
Consensus pattern (84 bp):
GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTCTAGAGGCTCT
CGCACGACCAAGGGCCTAG
Found at i:58671829 original size:86 final size:86
Alignment explanation
Indices: 58671095--58671816 Score: 559
Period size: 84 Copynumber: 8.5 Consensus size: 86
58671085 CTAAGCACAA
* * * * *
58671095 ACCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGG-TGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACC-AGCGGCCTAGGTTGCCGA
**
58671157 TGGT-CTAGAGGCTCTCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * * * *
58671178 ACCAAGGGCCTAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGG-TGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACC-AGCGGCCTAGGTTGCCGA
**
58671241 TGGT-CTAGAGGCTCTCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * * * *
58671262 ACCAAGGGCCTAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGG-TGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACC-AGCGGCCTAGGTTGCCGA
**
58671325 TGGT-CTAGAGGCTCTCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * * * *
58671346 ACCAAGGGCCTAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGG-TGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACC-AGCGGCCTAGGTTGCCGA
**
58671409 TGGT-CTAGAGGCTCTCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * * * * *
58671430 ACCAAGGGCCTAGGGTGCCGATGGTGCCCGAGGCT-CTCGCACGACCAGGGGCCTAGGGTGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCT-GCACCACCAGCGGCCTAGGTTGCCGA
* * *
58671494 TGGTGGCCGAGGTTCCCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * * * * ** * *
58671516 ACCAGGGGCCTAGGTTGCCGATGGTGCCCGAGGATCCCGCATGACCAGGGGCCTAGATTGCCGAT
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACCAGCGGCCTAGGTTGCCGAT
*
58671581 GGT-CCCGAGGCTCCCGCACG
66 GGTGCCCGAGGCTCTCGCACG
* * * * * * *
58671601 ACCAAGGGCCTAGGTTGCCGATGGTGTCCGA-GCTTCC-GTACGACCAGGGGCCTAGGTTGCCGA
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGC-TCCTGCACCACCAGCGGCCTAGGTTGCCGA
58671664 TGGTGCCCGAGGCTCTCGCACG
65 TGGTGCCCGAGGCTCTCGCACG
* * * * *
58671686 ACCAAGGGCCTAGGTTGCCGATGGTGGCCGAGGCTCCTGCACGACCAGGGGCCTAGGTTGCCGAT
1 ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACCAGCGGCCTAGGTTGCCGAT
* *
58671751 GGTGTCCGAGGCTC-CTGCA-T
66 GGTGCCCGAGGCTCTC-GCACG
*
58671771 ATCCAAGGCACCAAGG-TGCCGATGCT-GCTCGAGGCTCTTGCACCAC
1 A-CCAAGG-ACCAAGGTTGCCGATGCTGGC-CGAGGCTCCTGCACCAC
58671817 TGACGTCCTA
Statistics
Matches: 591, Mismatches: 34, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
83 14 0.02
84 316 0.53
85 110 0.19
86 145 0.25
87 6 0.01
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.16
Consensus pattern (86 bp):
ACCAAGGACCAAGGTTGCCGATGCTGGCCGAGGCTCCTGCACCACCAGCGGCCTAGGTTGCCGAT
GGTGCCCGAGGCTCTCGCACG
Found at i:58672594 original size:58 final size:59
Alignment explanation
Indices: 58672504--58672624 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
58672494 GGGAGGGACA
* *
58672504 GGGACGATTCATTCATTGTTGGGTACCGAACATGCAACGGTATCTGAATTCTAGC-TTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCTGAATTCTACCTTTT
* * *
58672562 GGGACGGTTCATTCATTATTGGGTACTGAACATGTAACGGTATCTGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCTGAATTCTACCTTTT
58672621 GGGA
1 GGGA
58672625 TTGGGGAGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 50 0.88
59 7 0.12
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCTGAATTCTACCTTTT
Found at i:58672712 original size:24 final size:24
Alignment explanation
Indices: 58672659--58672712 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58672649 TTTGTATATC
* *
58672659 CCGGGATGGATCACCGGATCATCG
1 CCGGGATGGATCACCGGAGCACCG
* **
58672683 CTGGGATGGATCGTCGGAGCACCG
1 CCGGGATGGATCACCGGAGCACCG
58672707 CCGGGA
1 CCGGGA
58672713 ACCTAACCGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.39, T:0.15
Consensus pattern (24 bp):
CCGGGATGGATCACCGGAGCACCG
Found at i:58680658 original size:43 final size:42
Alignment explanation
Indices: 58680491--58681439 Score: 483
Period size: 43 Copynumber: 22.0 Consensus size: 42
58680481 TTTCTTTAGT
* * ** * * *
58680491 CCGCACATCCGAGGCACCAGGGTGCCCCTGCTGCTCGAGGCAC
1 CCGCACATCCAAGG-ACCAAGGTGCCGATGGTGCCCGAGGCTC
* * * * * *
58680534 CCGCACATCCAACGTCCTAGGTTGCCTATGGTGTCTGAGGCTC
1 CCGCACATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58680577 CCGCACATCCAAGCACCAAGGTGCCAATGCTGCTCGAGGCTC
1 CCGCACATCCAAGGACCAAGGTGCCGATGGTGCCCGAGGCTC
*
58680619 CCGCACATCCGAGGCACCAAGGTGCCGATGGTGCCCGAGGCTC
1 CCGCACATCCAAGG-ACCAAGGTGCCGATGGTGCCCGAGGCTC
* * * * *
58680662 CCGCACGA-CCAAGGGCCTAGGTTACCAATGGTGCCCGAGACTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * * * * *
58680705 CGGTACGA-CCAAGGGCCTAGGTTACCGATGGTGTCTGAGGTTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* *
58680748 CCGCACATCCAAGCACCAAGGTGCCGATGGTGTCCGAGGCTC
1 CCGCACATCCAAGGACCAAGGTGCCGATGGTGCCCGAGGCTC
* * * * *
58680790 CTGCACGA-CCAAGGGCCTAGGTTACCGATGGTGTCCC-AAGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTG-CCCGAGGCTC
* *
58680833 CCGCACATCCAAGCACCAAGGTACCGATGGTGCCCGAGGCTC
1 CCGCACATCCAAGGACCAAGGTGCCGATGGTGCCCGAGGCTC
* * *
58680875 CCGCACGA-CCAAGGGCCTAGGTGCCAATGGT-CCCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGGTGCCGATGGTGCCCGAGGCTC
* * * *
58680916 TCGCACGA-CCAAGGGCCTAGGGTGCCGGGTTGCCGATGGTGCTCGAGGCTC
1 CCGCAC-ATCCAAGGACC-A-------AGG-TGCCGATGGTGCCCGAGGCTC
* * * * * *
58680967 CCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58681010 CTGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCTCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * * *
58681053 CCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58681096 CTGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCTCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * * *
58681139 CCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58681182 CTGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCTCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * * *
58681225 CCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58681268 TCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCTCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * * *
58681311 CCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * *
58681354 CTGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTC
1 CCGCAC-ATCCAAGGACCAAGG-TGCCGATGGTGCCCGAGGCTC
* * * * *
58681397 CTGCATATCCAAGGCCCCAAGGTGCCGATGCTGCTCGAGGCTC
1 CCGCACATCCAAGG-ACCAAGGTGCCGATGGTGCCCGAGGCTC
58681440 TTGCACCACT
Statistics
Matches: 747, Mismatches: 136, Indels: 46
0.80 0.15 0.05
Matches are distributed among these distances:
41 29 0.04
42 113 0.15
43 561 0.75
44 8 0.01
49 2 0.00
50 9 0.01
51 25 0.03
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.17
Consensus pattern (42 bp):
CCGCACATCCAAGGACCAAGGTGCCGATGGTGCCCGAGGCTC
Found at i:58680750 original size:86 final size:86
Alignment explanation
Indices: 58680522--58681397 Score: 979
Period size: 86 Copynumber: 10.2 Consensus size: 86
58680512 GTGCCCCTGC
* * * * * * * **
58680522 TGCTCGAGGCACCCGCAC-ATCCAACGTCCTAGGTTGCCTATGGTGTCTGAGGCTCCCGCAC-AT
1 TGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGA-
** * * *
58680585 CCAAGCACCAAGG-TGCCAATGC
64 CCAAGGGCCTAGGTTGCCGATGG
* * * * * * *
58680607 TGCTCGAGGCTCCCGCAC-ATCCGAGGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA
1 TGCTCGAGGCTCCCGCACGA-CCAAGG-GCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGA
* *
58680670 CCAAGGGCCTAGGTTACCAATGG
64 CCAAGGGCCTAGGTTGCCGATGG
* * * * ** * * ** *
58680693 TGCCCGAGACTCCGGTACGACCAAGGGCCTAGGTTACCGATGGTGTCTGAGGTTCCCGCAC-ATC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGA-C
** *
58680757 CAAGCACCAAGG-TGCCGATGG
65 CAAGGGCCTAGGTTGCCGATGG
* ** * *
58680778 TG-TCCGAGGCTCCTGCACGACCAAGGGCCTAGGTTACCGATGGTGTCCCAA-GCTCCCGCAC-A
1 TGCT-CGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTG-GCCAAGGCTCCCGCACGA
** * *
58680840 TCCAAGCACCAAGG-TACCGATGG
64 -CCAAGGGCCTAGGTTGCCGATGG
* * * * * * *
58680863 TGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCAATGGT-CCCGAGGCTCTCGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58680926 AAGGGCCTAGGGTGCCGGGTTGCCGATGG
66 AAGGGCCTA--------GGTTGCCGATGG
*
58680955 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCTGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58681020 AAGGGCCTAGGTTGCCGATGG
66 AAGGGCCTAGGTTGCCGATGG
*
58681041 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCTGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58681106 AAGGGCCTAGGTTGCCGATGG
66 AAGGGCCTAGGTTGCCGATGG
*
58681127 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCTGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58681192 AAGGGCCTAGGTTGCCGATGG
66 AAGGGCCTAGGTTGCCGATGG
*
58681213 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCTCGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58681278 AAGGGCCTAGGTTGCCGATGG
66 AAGGGCCTAGGTTGCCGATGG
*
58681299 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCTGCACGACC
1 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
58681364 AAGGGCCTAGGTTGCCGATGG
66 AAGGGCCTAGGTTGCCGATGG
58681385 TG-TCCGAGGCTCC
1 TGCT-CGAGGCTCC
58681398 TGCATATCCA
Statistics
Matches: 708, Mismatches: 60, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
82 4 0.01
83 17 0.02
84 9 0.01
85 173 0.24
86 430 0.61
87 1 0.00
91 2 0.00
92 40 0.06
93 7 0.01
94 25 0.04
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (86 bp):
TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGTCGATTGTGGCCAAGGCTCCCGCACGACC
AAGGGCCTAGGTTGCCGATGG
Found at i:58681703 original size:35 final size:35
Alignment explanation
Indices: 58681664--58681735 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
58681654 CATCTCCAGA
*
58681664 GCTTGGCAAATAGGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATAGGG-AAGGAGATCTTCAAAGATAT
*
58681699 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATAGGGAAGGAGATCTTCAAAGATAT
58681734 GC
1 GC
58681736 GATCTTAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (35 bp):
GCTTGGCAAATAGGGAAGGAGATCTTCAAAGATAT
Found at i:58686930 original size:35 final size:35
Alignment explanation
Indices: 58686891--58686960 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
58686881 CATCTCCGAA
*
58686891 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
58686926 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
58686961 ACGATCTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:58698980 original size:19 final size:19
Alignment explanation
Indices: 58698951--58698987 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58698941 GTTCTTGTCG
58698951 AAATAAAAAGAAG-AAGAA
1 AAATAAAAAGAAGCAAGAA
58698969 AAATAGAAAAGAAGCAAGA
1 AAATA-AAAAGAAGCAAGA
58698988 CATTCGGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (19 bp):
AAATAAAAAGAAGCAAGAA
Found at i:58699725 original size:34 final size:34
Alignment explanation
Indices: 58699660--58699731 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
58699650 ACATAATTAT
* **
58699660 ATATGTATAGTTTGGTATAATTGAAAGTGAATAC
1 ATATGTATAGTTTGATATAACCGAAAGTGAATAC
* *
58699694 ATATGTATGGTTTGATATAACCG-AAGATGAATAT
1 ATATGTATAGTTTGATATAACCGAAAG-TGAATAC
58699728 ATAT
1 ATAT
58699732 ATACATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 3 0.09
34 29 0.91
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (34 bp):
ATATGTATAGTTTGATATAACCGAAAGTGAATAC
Found at i:58706413 original size:23 final size:23
Alignment explanation
Indices: 58706316--58706415 Score: 76
Period size: 23 Copynumber: 4.3 Consensus size: 23
58706306 AGCTCCTCCT
*
58706316 GAGCTGATAACAGTAAGCTCTAAT
1 GAGCTGA-AACAGTAAGCTCTAAC
* *
58706340 GAGCTGAAACTGCAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTA-AC
* ** * *
58706363 GAGCTGGAATTGTAAGCTCCAAT
1 GAGCTGAAACAGTAAGCTCTAAC
* * *
58706386 TAGCTTAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTAAC
58706409 GAGCTGA
1 GAGCTGA
58706416 TATATCGGTA
Statistics
Matches: 57, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
22 1 0.02
23 48 0.84
24 8 0.14
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTAAC
Found at i:58712830 original size:47 final size:47
Alignment explanation
Indices: 58712758--58712852 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
58712748 ATCCATTCCC
* * * *
58712758 AGAATTATGTCAAATTCATCGAAAGGTAAAAGCATCAA-ATCAGCAGG
1 AGAATCATATCAAATTCATCAAAAGGCAAAAGCAT-AAGATCAGCAGG
*
58712805 AGAATCATATCAAATTCATTAAAAGGCAAAAGCATAAGATCAGCAGG
1 AGAATCATATCAAATTCATCAAAAGGCAAAAGCATAAGATCAGCAGG
58712852 A
1 A
58712853 AAATAGATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 2 0.05
47 40 0.95
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (47 bp):
AGAATCATATCAAATTCATCAAAAGGCAAAAGCATAAGATCAGCAGG
Found at i:58715651 original size:40 final size:39
Alignment explanation
Indices: 58715593--58715764 Score: 191
Period size: 40 Copynumber: 4.3 Consensus size: 39
58715583 ACAGGTTTTT
* * *
58715593 AACCCGGATTCCATTCCAGCACGAAGCCTACGGGTCTTTA
1 AACCCGGATACAATTCCAGCA-GAAGCCTGCGGGTCTTTA
* * *
58715633 AACTCGGATACAATTCCAGCATATAGCCTGCGGGTCTTGA
1 AACCCGGATACAATTCCAGCAGA-AGCCTGCGGGTCTTTA
* *
58715673 AACCCGGATACAATTCCAGCATATAGCCTGCAGGTCTTTA
1 AACCCGGATACAATTCCAGCAGA-AGCCTGCGGGTCTTTA
* * *
58715713 AATCCGGATACCATTCCAGCATAAAGCCTGCGGGTCTTTA
1 AACCCGGATACAATTCCAGCA-GAAGCCTGCGGGTCTTTA
* *
58715753 AGCCTGGATACA
1 AACCCGGATACA
58715765 CACATCAAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 111 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AACCCGGATACAATTCCAGCAGAAGCCTGCGGGTCTTTA
Found at i:58715689 original size:80 final size:80
Alignment explanation
Indices: 58715593--58715764 Score: 222
Period size: 80 Copynumber: 2.1 Consensus size: 80
58715583 ACAGGTTTTT
* * *
58715593 AACCCGGATTCCATTCCAGCACGA-AGCCTACGGGTCTTTAAA-CTCGGATACAATTCCAGCATA
1 AACCCGGATACAATTCCAGCA-GATAGCCTACAGGTCTTTAAATC-CGGATACAATTCCAGCATA
*
58715656 TAGCCTGCGGGTCTTGA
64 AAGCCTGCGGGTCTTGA
* * *
58715673 AACCCGGATACAATTCCAGCATATAGCCTGCAGGTCTTTAAATCCGGATACCATTCCAGCATAAA
1 AACCCGGATACAATTCCAGCAGATAGCCTACAGGTCTTTAAATCCGGATACAATTCCAGCATAAA
*
58715738 GCCTGCGGGTCTTTA
66 GCCTGCGGGTCTTGA
* *
58715753 AGCCTGGATACA
1 AACCCGGATACA
58715765 CACATCAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 78 0.98
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AACCCGGATACAATTCCAGCAGATAGCCTACAGGTCTTTAAATCCGGATACAATTCCAGCATAAA
GCCTGCGGGTCTTGA
Found at i:58718696 original size:85 final size:85
Alignment explanation
Indices: 58718548--58718707 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
58718538 CATAAACAAG
* * * * * *
58718548 TACAATGTCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCTCAGACA
1 TACAATGTCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTATGTCCCAGACA
*
58718613 GGGTCTTACATGAAATCAGA
66 CGGTCTTACATGAAATCAGA
* * *
58718633 TACAATGTCGATGTCCCAGACATGGTTTTAGACGTAAATCTC-A-ATCGAGGCCTATGTCCCAGA
1 TACAATGTCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTATGTCCCAGA
58718696 CACGGTCTTACA
64 CACGGTCTTACA
58718708 CGATGTCTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (85 bp):
TACAATGTCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTATGTCCCAGACA
CGGTCTTACATGAAATCAGA
Found at i:58722003 original size:26 final size:26
Alignment explanation
Indices: 58721972--58722029 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
58721962 TATGGAGTTT
*
58721972 GCCACAGTGGCATTT-TTTCATATTAC
1 GCCACAGAGGC-TTTCTTTCATATTAC
*
58721998 GCCACAGAGGCTTTCTTTCATATTAT
1 GCCACAGAGGCTTTCTTTCATATTAC
58722024 GCCACA
1 GCCACA
58722030 AAGACTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (26 bp):
GCCACAGAGGCTTTCTTTCATATTAC
Found at i:58723335 original size:37 final size:37
Alignment explanation
Indices: 58723292--58723365 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
58723282 AGTACTTTAT
58723292 TTTGATTAAAATAATCATATAATTTGTAGGGAATTAA
1 TTTGATTAAAATAATCATATAATTTGTAGGGAATTAA
58723329 TTTGATTAAAATAATCATATAATTTGTAGGGAATTAA
1 TTTGATTAAAATAATCATATAATTTGTAGGGAATTAA
58723366 CCCGTGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTGATTAAAATAATCATATAATTTGTAGGGAATTAA
Found at i:58724539 original size:7 final size:7
Alignment explanation
Indices: 58724527--58724554 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
58724517 TTCATTTTGT
58724527 GGGTTTA
1 GGGTTTA
58724534 GGGTTTA
1 GGGTTTA
58724541 GGGTTTA
1 GGGTTTA
58724548 GGGTTTA
1 GGGTTTA
58724555 AAGTTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:58729216 original size:43 final size:42
Alignment explanation
Indices: 58729060--58729217 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
58729050 TATGTGTTCT
*
58729060 CATGTAAGACCATGTCTGGGACGTTGGCATCA-ACTTATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCATA-TT-TGA-TTA
* * * ** * *
58729104 CGTGTAAGACCATGTCTGGGACATCAGCATC-TATTTTATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
58729145 CATGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTA
*
58729188 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
58729218 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
41 26 0.28
42 3 0.03
43 35 0.38
44 29 0.31
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
Found at i:58734072 original size:40 final size:40
Alignment explanation
Indices: 58733994--58734574 Score: 1065
Period size: 40 Copynumber: 14.6 Consensus size: 40
58733984 ACCCAAGTAT
* * *
58733994 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
* * * **
58734033 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734073 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734113 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734153 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734193 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734233 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734273 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734313 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734353 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734393 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734433 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
* *
58734473 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734513 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
58734553 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58734575 CATCCGAATA
Statistics
Matches: 525, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 11 0.02
40 514 0.98
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
Found at i:58742649 original size:40 final size:40
Alignment explanation
Indices: 58742571--58742794 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
58742561 ACCCAAGTAT
* *
58742571 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
58742610 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
58742650 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
58742690 CTTCGGGACTTAGCCAGGTTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
58742733 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
58742773 CTTCGGGACTTAACTCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58742795 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:58742756 original size:83 final size:80
Alignment explanation
Indices: 58742571--58742784 Score: 281
Period size: 83 Copynumber: 2.6 Consensus size: 80
58742561 ACCCAAGTAT
* * * *
58742571 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATAG
**
58742634 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
58742650 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCAGGTTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATAGT
58742714 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
58742733 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTA
58742785 ACTCGGATAT
Statistics
Matches: 120, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
79 13 0.11
80 48 0.40
81 1 0.01
83 58 0.48
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCAGGATATAGT
CACTAGCACAAATGC
Found at i:58745193 original size:56 final size:56
Alignment explanation
Indices: 58745107--58745217 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
58745097 CTTGTAGAAT
58745107 ATGAGTTGGTATGATTTGGTTTGACAAAATATGCTGTTGTAAATATGTTAAGTGTA
1 ATGAGTTGGTATGATTTGGTTTGACAAAATATGCTGTTGTAAATATGTTAAGTGTA
* *
58745163 ATGAGTTGGTATGATTTGGTTTGACAAAATATGTTGTTGTAAATATGTTGAGTGT
1 ATGAGTTGGTATGATTTGGTTTGACAAAATATGCTGTTGTAAATATGTTAAGTGT
58745218 GGATAATGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (56 bp):
ATGAGTTGGTATGATTTGGTTTGACAAAATATGCTGTTGTAAATATGTTAAGTGTA
Found at i:58745424 original size:27 final size:27
Alignment explanation
Indices: 58745393--58745453 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
58745383 TGTCTAGTTA
58745393 GTGTGTGATGCATGGCTTGCCCCATGG
1 GTGTGTGATGCATGGCTTGCCCCATGG
58745420 GTGTGTGATGCATGGCTTGCCCCATGG
1 GTGTGTGATGCATGGCTTGCCCCATGG
58745447 GTGTGTG
1 GTGTGTG
58745454 TGATTCGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.20, G:0.39, T:0.31
Consensus pattern (27 bp):
GTGTGTGATGCATGGCTTGCCCCATGG
Found at i:58751294 original size:46 final size:46
Alignment explanation
Indices: 58751227--58751402 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
58751217 TATTTGGGCA
58751227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
58751273 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* * *
58751320 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
58751366 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58751403 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 36 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58751382 original size:93 final size:93
Alignment explanation
Indices: 58751223--58751394 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
58751213 GGGATATTTG
* *
58751223 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
58751288 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
58751316 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
58751380 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
58751395 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:58752808 original size:38 final size:38
Alignment explanation
Indices: 58752757--58752832 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
58752747 CAATTTTTCG
*
58752757 GTGGAAGAGGAAAGAGTGTAAAAGATGAAACCTTTTGT
1 GTGGAAGAGGAAAGAGTGAAAAAGATGAAACCTTTTGT
*
58752795 GTGGAAGATGAAAGAGTGAAAAAGATGAAACCTTTTGT
1 GTGGAAGAGGAAAGAGTGAAAAAGATGAAACCTTTTGT
58752833 TGTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.24
Consensus pattern (38 bp):
GTGGAAGAGGAAAGAGTGAAAAAGATGAAACCTTTTGT
Found at i:58761390 original size:18 final size:19
Alignment explanation
Indices: 58761356--58761395 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
58761346 ATGCACTGGC
* *
58761356 AATCAAATCTGAAGTCCCT
1 AATCAAATCTCAAGTCCAT
58761375 AATCAAAT-TCAAGTCCAT
1 AATCAAATCTCAAGTCCAT
58761393 AAT
1 AAT
58761396 GCCCTGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (19 bp):
AATCAAATCTCAAGTCCAT
Found at i:58764278 original size:15 final size:15
Alignment explanation
Indices: 58764260--58764292 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
58764250 ATATAGAACA
58764260 CTTCAATGGAATATG
1 CTTCAATGGAATATG
58764275 CTTCAATGGAATATG
1 CTTCAATGGAATATG
58764290 CTT
1 CTT
58764293 TGCCTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (15 bp):
CTTCAATGGAATATG
Found at i:58772084 original size:511 final size:510
Alignment explanation
Indices: 58771089--58772091 Score: 1169
Period size: 511 Copynumber: 2.0 Consensus size: 510
58771079 AACAAAGCTT
* * * *
58771089 GCGATACAATGTAACTAGTACTGTTAAATCCCAACTATACGAACGGGCAACTTATAAATCAGATA
1 GCGATACAATGTAACTAGTACTGCTAAACCCCAACTATACGAACAGGCAACTTATAAATCAAATA
* *
58771154 ATAAGGGCAAATACATCAAGTGGACTTTGTTGTTCTTTGAAACTAGCATAAGTACACCCATTATC
66 ATAAGGGCAAATACATCAAGTGGACCTTGTTGTTCTTTGAAACTAGCATAAGTACACCCACTATC
* * * *
58771219 ATATCCATTATATGCTCGAGTTGCTCAAATAACCTCTCGTTCAGTGGTAGTACTCGATAAATACT
131 ATATCCATTATATGCTCGAGTCGCTCAAATAACCTCCCGTTCAGTGGCAATACTCGATAAATACT
* * * * * *
58771284 CGAAATTTGTCCTTAACCATAAAAATCTTAAACTCTTAAATTTTTCACCACCATCATCGAGCTAC
196 CAAAATTCGTCCTTAACCATAAAAATCTTAAACTCATAAATTTTCCACCACCATCATCAAGCGAC
* *
58771349 CGTCCTAGTAAGTCATAGTAAAGAACTGCTGGTTCAGACATTATACTTACACCCATGACCACACT
261 CGTCCTAGTAAGTCATAGCAAAGAACTGCGGGTTCAGACATTATACTTACACCCATGACCACACT
* * ** * * * *
58771414 ACTATCAATTAGGAGCCTGAGTTGCAATGCAACATCTTCTAGAATGATGGAGCACTCCCCACACA
326 ACCATCAATTAGGAACCCAAGTTGCAATGCAACATCTTCTAAAATAATGAAGCACACCCCACACA
* * *
58771479 GCAAATGATATTTGTGAGTCGTCGAGCTTCAGCGCTCGACCATAGCTGAAATCAAGTCGTACTTC
391 GCAAATGAAATGTGTGAGTCGTCGAGCTTCAGCGCTCGACCATAGCTGAAATCAAGCCGTACTTC
* *
58771544 AAGTCAAATGTGCGGATCATTATAGCTAATTCAAATCCAAACACTTTGTAATCTC
456 AAGTCAAATGTGCGGACCATTACAGCTAATTCAAATCCAAACACTTTGTAATCTC
* * * * *
58771599 GCGATATAATGTAGCTAGTATTGCTAAGCCCCAACTATACGAACAGGC-ATTGTATAAATCAAAT
1 GCGATACAATGTAACTAGTACTGCTAAACCCCAACTATACGAACAGGCAACT-TATAAATCAAAT
* * * * * * * * *
58771663 GATAGGGGCAAGTACATCAAGTGGACCTTGTTGTTGTTTGCATCTGGTATGAGTACA-CCACCTA
65 AATAAGGGCAAATACATCAAGTGGACCTTGTTGTTCTTTGAAACTAGCATAAGTACACCCA-CTA
* * * * * *
58771727 TCATATGCATTATATATGCTCGAG-CGGTGCAAATTACCTCCCATTTC-GTGGCAATTCTCGGTA
129 TCATATCCA-T-TATATGCTCGAGTCGCT-CAAATAACCTCCC-GTTCAGTGGCAATACTCGATA
* * * *
58771790 AATACTCAAAATTCG-CATTTAACCATGAAAATCTTGAACTCATAAA-TTTCCGCCACCATCATC
190 AATACTCAAAATTCGTC-CTTAACCATAAAAATCTTAAACTCATAAATTTTCCACCACCATCATC
*** ** * * * *
58771853 AAGCGAGTTTCCTAGTAAGTCATAGCAAAG-GGTCGCGGGTTCAGACATTGTACTTGCACTCGTG
254 AAGCGACCGTCCTAGTAAGTCATAGCAAAGAACT-GCGGGTTCAGACATTATACTTACACCCATG
* ** * * * *
58771917 ACCGCACTACCATTGATTGGGAACCCAAGTTGTAGTGTAACATCTT-TCAAAATAATGAAGCACA
318 ACCACACTACCATCAATTAGGAACCCAAGTTGCAATGCAACATCTTCT-AAAATAATGAAGCACA
** * *
58771981 CCCCACATGGCAAATGAAATGTGTGAGTCTTCGGGCTTCAGCGCTCGACCATAG-TCGAAATCAA
382 CCCCACACAGCAAATGAAATGTGTGAGTCGTCGAGCTTCAGCGCTCGACCATAGCT-GAAATCAA
*
58772045 GCCGTACTTCAAGTCAAATGTGCGGACCATTACAGCTAATTCGAATC
446 GCCGTACTTCAAGTCAAATGTGCGGACCATTACAGCTAATTCAAATC
58772092 TAAATGCCTC
Statistics
Matches: 407, Mismatches: 76, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
509 5 0.01
510 112 0.28
511 214 0.53
512 73 0.18
513 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (510 bp):
GCGATACAATGTAACTAGTACTGCTAAACCCCAACTATACGAACAGGCAACTTATAAATCAAATA
ATAAGGGCAAATACATCAAGTGGACCTTGTTGTTCTTTGAAACTAGCATAAGTACACCCACTATC
ATATCCATTATATGCTCGAGTCGCTCAAATAACCTCCCGTTCAGTGGCAATACTCGATAAATACT
CAAAATTCGTCCTTAACCATAAAAATCTTAAACTCATAAATTTTCCACCACCATCATCAAGCGAC
CGTCCTAGTAAGTCATAGCAAAGAACTGCGGGTTCAGACATTATACTTACACCCATGACCACACT
ACCATCAATTAGGAACCCAAGTTGCAATGCAACATCTTCTAAAATAATGAAGCACACCCCACACA
GCAAATGAAATGTGTGAGTCGTCGAGCTTCAGCGCTCGACCATAGCTGAAATCAAGCCGTACTTC
AAGTCAAATGTGCGGACCATTACAGCTAATTCAAATCCAAACACTTTGTAATCTC
Found at i:58773725 original size:20 final size:20
Alignment explanation
Indices: 58773688--58773725 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58773678 CTCTCTATTC
*
58773688 TTTAAAAATATTGGTTTTTT
1 TTTAAAAATATTGATTTTTT
58773708 TTTAAAACATATT-ATTTT
1 TTTAAAA-ATATTGATTTT
58773726 ATAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTAAAAATATTGATTTTTT
Found at i:58776434 original size:21 final size:21
Alignment explanation
Indices: 58776410--58776449 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58776400 AATTATTTTT
58776410 TTCAAAATAAAAATACTGAAA
1 TTCAAAATAAAAATACTGAAA
* * *
58776431 TTCAATATAATATTACTGA
1 TTCAAAATAAAAATACTGA
58776450 TGTTATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
TTCAAAATAAAAATACTGAAA
Found at i:58777865 original size:29 final size:29
Alignment explanation
Indices: 58777833--58777921 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
58777823 TTAATAAGTG
*
58777833 AATA-AAGTGAAAATATGAAACGAAAATAA
1 AATAGAAGTG-AAATATGAAATGAAAATAA
* *
58777862 AATATGAAGTG-AATTTGAAATGAAACTAA
1 AATA-GAAGTGAAATATGAAATGAAAATAA
* *
58777891 AATATGAAATGAAATATGCAATGAAAATAA
1 AATA-GAAGTGAAATATGAAATGAAAATAA
58777921 A
1 A
58777922 GTATAAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 29 0.58
30 16 0.32
31 5 0.10
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.22
Consensus pattern (29 bp):
AATAGAAGTGAAATATGAAATGAAAATAA
Found at i:58777929 original size:29 final size:30
Alignment explanation
Indices: 58777843--58777940 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 30
58777833 AATAAAGTGA
* *
58777843 AAATATGAAACGAAAATAAAATATGAAGTG
1 AAATATGAAATGAAAATAAAATATGAAATG
* *
58777873 -AATTTGAAATGAAACTAAAATATGAAATG
1 AAATATGAAATGAAAATAAAATATGAAATG
* * *
58777902 AAATATGCAATGAAAATAAAGTAT-AAATT
1 AAATATGAAATGAAAATAAAATATGAAATG
58777931 AAA-ATGAAAT
1 AAATATGAAAT
58777941 AAATTACAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 6 0.11
29 32 0.56
30 19 0.33
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.24
Consensus pattern (30 bp):
AAATATGAAATGAAAATAAAATATGAAATG
Found at i:58777944 original size:15 final size:15
Alignment explanation
Indices: 58777924--58778014 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
58777914 AAAATAAAGT
58777924 ATAAATTAAAATGAA
1 ATAAATTAAAATGAA
*
58777939 ATAAATTACAATGAGA
1 ATAAATTAAAATGA-A
* *
58777955 CAAAAATTAATATGAA
1 -ATAAATTAAAATGAA
*
58777971 AAAAACTTAAAAT---
1 ATAAA-TTAAAATGAA
*
58777984 A-AAATGGAAAATGAA
1 ATAAAT-TAAAATGAA
*
58777999 ATAAATTTAAATGAA
1 ATAAATTAAAATGAA
58778014 A
1 A
58778015 AAAAACAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
11 1 0.02
12 8 0.13
13 1 0.02
15 27 0.45
16 12 0.20
17 11 0.18
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (15 bp):
ATAAATTAAAATGAA
Found at i:58778080 original size:12 final size:12
Alignment explanation
Indices: 58778027--58778098 Score: 64
Period size: 13 Copynumber: 6.1 Consensus size: 12
58778017 AAACAAATTT
58778027 AATT-AAAT-AA
1 AATTGAAATGAA
58778037 AATATGAAATGAA
1 AAT-TGAAATGAA
58778050 AA-TGAAATG-A
1 AATTGAAATGAA
*
58778060 ATTTAGAAATGAA
1 AATT-GAAATGAA
58778073 AATTGAAAATTG-A
1 AATTG-AAA-TGAA
58778086 AATTGAAATGAA
1 AATTGAAATGAA
58778098 A
1 A
58778099 GAAGAAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
10 5 0.10
11 11 0.22
12 16 0.31
13 17 0.33
14 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (12 bp):
AATTGAAATGAA
Found at i:58778105 original size:37 final size:35
Alignment explanation
Indices: 58778031--58778105 Score: 80
Period size: 37 Copynumber: 2.1 Consensus size: 35
58778021 AAATTTAATT
***
58778031 AAATAAAATATGAAATGAAAATGAAATGAATTTAG
1 AAATAAAATATGAAATGAAAATGAAATGAAAGAAG
*
58778066 AAATGAAAAT-TGAAAATTGAAATTGAAATGAAAGAAG
1 AAAT-AAAATATG-AAA-TGAAAATGAAATGAAAGAAG
58778103 AAA
1 AAA
58778106 AATTTGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
35 6 0.18
36 8 0.24
37 19 0.58
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (35 bp):
AAATAAAATATGAAATGAAAATGAAATGAAAGAAG
Done.