Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 189 of 322
Found at i:62020657 original size:19 final size:18
Alignment explanation
Indices: 62020633--62020677 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
62020623 TGCTGCAAAT
62020633 AATATATAATGTAAATGAA
1 AATATAT-ATGTAAATGAA
* *
62020652 AATATATGTGTATATGAA
1 AATATATATGTAAATGAA
62020670 AAGTATAT
1 AA-TATAT
62020678 TCGACCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (18 bp):
AATATATATGTAAATGAA
Found at i:62020668 original size:18 final size:19
Alignment explanation
Indices: 62020642--62020677 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62020632 TAATATATAA
62020642 TGTAAATGAAAA-TATATG
1 TGTAAATGAAAAGTATATG
*
62020660 TGTATATGAAAAGTATAT
1 TGTAAATGAAAAGTATAT
62020678 TCGACCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
TGTAAATGAAAAGTATATG
Found at i:62024913 original size:45 final size:45
Alignment explanation
Indices: 62024853--62025150 Score: 221
Period size: 45 Copynumber: 6.9 Consensus size: 45
62024843 TAGGACTCCG
* * *
62024853 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGTATCGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * *
62024898 ATATGTGATTTCGTGTAAGACCATGTCTAGAATGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * * * *
62024943 ATATATGGTTACGTGTAAGACCATGTCTGGGACATCGACAT---T
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
62024985 GTAT-TGA-TTCGTGTAAGATCC-TCTCTGGGACTTTTGCATCGAT
1 ATATGTGATTTCGTGTAAGA-CCATGTCTGGGACGTTGGCATCGAT
* * * ** *
62025028 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATCAGCCTCG--
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
*
62025071 -TAT-TGA-TTCGTGTAAGACC-TGTTTGGGACAG-TGGCATCG--
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT
** * * *
62025110 ATATGTGATAGCATGTAAGACCATGTTTGGGACATTGGCAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
62025151 TGTTCGATAT
Statistics
Matches: 198, Mismatches: 42, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
39 14 0.07
40 38 0.19
41 9 0.05
42 17 0.09
43 20 0.10
44 4 0.02
45 96 0.48
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:62025029 original size:85 final size:84
Alignment explanation
Indices: 62024933--62025113 Score: 265
Period size: 85 Copynumber: 2.1 Consensus size: 84
62024923 TCTAGAATGT
*
62024933 TGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACATC-GACATTGTATTGATTCGT
1 TGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACATCAG-CATCGTATTGATTCGT
**
62024997 GTAAGATCCTCTCTGGGACTT
65 GTAAGA-CCTCTCTGGGACAG
* * *
62025018 TTGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCAGCCTCGTATTGATTCGTG
1 TGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACATCAGCATCGTATTGATTCGTG
* *
62025083 TAAGACCTGTTTGGGACAG
66 TAAGACCTCTCTGGGACAG
62025102 TGGCATCGATAT
1 TGGCATCGATAT
62025114 GTGATAGCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 21 0.24
85 64 0.74
86 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (84 bp):
TGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACATCAGCATCGTATTGATTCGTG
TAAGACCTCTCTGGGACAG
Found at i:62033828 original size:30 final size:30
Alignment explanation
Indices: 62033788--62033866 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
62033778 GCAGTGGTTT
*
62033788 TCACATGGCCTAGACACACGCCCGTGTCCC
1 TCACACGGCCTAGACACACGCCCGTGTCCC
62033818 TCACACGGCCTAGACACACGCCCGTGTCCC
1 TCACACGGCCTAGACACACGCCCGTGTCCC
*
62033848 TCACACGACCTAGACACAC
1 TCACACGGCCTAGACACAC
62033867 CCAAGTTGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.24, C:0.44, G:0.18, T:0.14
Consensus pattern (30 bp):
TCACACGGCCTAGACACACGCCCGTGTCCC
Found at i:62034939 original size:56 final size:53
Alignment explanation
Indices: 62034820--62034976 Score: 145
Period size: 56 Copynumber: 2.8 Consensus size: 53
62034810 CATGACATAG
* * *
62034820 CATGCCTCTCAACAGGGCTACATATGAGCACCCAGACCTAGCATGCATCACATTAC
1 CATGCCTCTCAACAGGGCTACATA--AGC-TCCAGACCTAGCATGTACCACATTAC
* *
62034876 CACGCCTCTCAATAGGGCTACATAAGCTTCCAGACCTAGCATGTACCACATAATTA-
1 CATGCCTCTCAACAGGGCTACATAAGC-TCCAGACCTAGCATGTACCAC---ATTAC
* * * * *
62034932 CATGCCTCTTAACGGGGCTACACAAGCTCCTGGACCTAGCGTGTA
1 CATGCCTCTCAACAGGGCTACATAAGCTCC-AGACCTAGCATGTA
62034977 TCATGTCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
54 21 0.25
55 3 0.04
56 56 0.67
57 4 0.05
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (53 bp):
CATGCCTCTCAACAGGGCTACATAAGCTCCAGACCTAGCATGTACCACATTAC
Found at i:62037628 original size:54 final size:54
Alignment explanation
Indices: 62037570--62037816 Score: 232
Period size: 52 Copynumber: 4.6 Consensus size: 54
62037560 CAGACAGGGT
* * *
62037570 CTTACTCGTACATATATCAAAATCACATATTGATGCCAACGTATGAAACTTGGA
1 CTTACTCGCACATATATCAAAATCACATATTGATGCCAACGTATTAAACGTGGA
* * * * **
62037624 CTTACTCGCACACAAATATCGAAATTACAT-TTGATGCCAACGTCTTAAACGTTCA
1 CTTACTCG--CACATATATCAAAATCACATATTGATGCCAACGTATTAAACGTGGA
* * *
62037679 CTTACTCACACATATATCAGAATCATATATCT-ATGCCAACGTATTAAACGTGGA
1 CTTACTCGCACATATATCAAAATCACATAT-TGATGCCAACGTATTAAACGTGGA
*** * * * *
62037733 CTTACTCG--CATATATTGGAATCACATATCGTTGGCAACGTATTAAACGTGGT
1 CTTACTCGCACATATATCAAAATCACATATTGATGCCAACGTATTAAACGTGGA
* *
62037785 CTTACTCACACACATATATCAAAGTCACATAT
1 CTTACT--CGCACATATATCAAAATCACATAT
62037817 CGCTGCCACA
Statistics
Matches: 153, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
52 42 0.27
53 15 0.10
54 36 0.24
55 28 0.18
56 32 0.21
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (54 bp):
CTTACTCGCACATATATCAAAATCACATATTGATGCCAACGTATTAAACGTGGA
Found at i:62037661 original size:55 final size:54
Alignment explanation
Indices: 62037583--62037742 Score: 157
Period size: 55 Copynumber: 2.9 Consensus size: 54
62037573 ACTCGTACAT
* *
62037583 ATATCAAAATCACATATTGATGCCAACGTATGAAACTTGGACTTACTCGCACACAA
1 ATATC-AAATTACAT-TTGATGCCAACGTATTAAACTTGGACTTACTCGCACACAA
* * *
62037639 ATATCGAAATTACATTTGATGCCAACGTCTTAAACGTT-CACTTACT--CACACAT
1 ATATC-AAATTACATTTGATGCCAACGTATTAAAC-TTGGACTTACTCGCACACAA
* * *
62037692 ATATCAGAATCATATATCT-ATGCCAACGTATTAAACGTGGACTTACTCGCA
1 ATATCA-AAT--TACATTTGATGCCAACGTATTAAACTTGGACTTACTCGCA
62037743 TATATTGGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
52 1 0.01
53 15 0.17
54 23 0.27
55 30 0.35
56 17 0.20
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (54 bp):
ATATCAAATTACATTTGATGCCAACGTATTAAACTTGGACTTACTCGCACACAA
Found at i:62038514 original size:42 final size:42
Alignment explanation
Indices: 62038467--62038550 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
62038457 GGAGTAAGGA
*
62038467 ATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGTTGGAT
1 ATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGTCGGAT
62038509 ATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGTCGGAT
1 ATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGTCGGAT
62038551 TCATCATCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
ATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGTCGGAT
Found at i:62039741 original size:17 final size:17
Alignment explanation
Indices: 62039719--62039762 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
62039709 CATGGCTTAT
*
62039719 TATTATTTTATGACATA
1 TATTATTTTATAACATA
*
62039736 TATTATATTATAACATA
1 TATTATTTTATAACATA
*
62039753 TATTAATTTA
1 TATTATTTTA
62039763 ATGTTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTATTTTATAACATA
Found at i:62041678 original size:43 final size:43
Alignment explanation
Indices: 62041578--62041692 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
62041568 GTTTATTTGA
* * * *
62041578 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTTCT
1 AAAAACGCAGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
62041621 AAAAACCCCA-CTAAAGATTACGACCTTTAGCGGCTCTTTTCCC
1 AAAAA-CGCAGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
*
62041664 AAAAACGCAGCTAAAAATCATGACCTTTA
1 AAAAACGCAGCTAAAGATCATGACCTTTA
62041693 AAAAAATTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 3 0.05
43 53 0.91
44 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
AAAAACGCAGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
Found at i:62042894 original size:15 final size:16
Alignment explanation
Indices: 62042869--62042899 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
62042859 TCTCTCTTGC
62042869 TTTTAAATCATATATA
1 TTTTAAATCATATATA
62042885 TTTT-AATCATATATA
1 TTTTAAATCATATATA
62042900 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAATCATATATA
Found at i:62046183 original size:40 final size:40
Alignment explanation
Indices: 62046087--62046266 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
62046077 TATTCGGATG
62046087 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
62046130 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
62046170 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
62046210 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
62046250 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
62046267 AAAGATACTT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
39 11 0.09
40 81 0.65
41 2 0.02
43 31 0.25
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:62057381 original size:20 final size:20
Alignment explanation
Indices: 62057356--62057407 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
62057346 GTGTAGTCAC
62057356 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
62057376 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
62057396 ACACACCCGTGT
1 ACACACCCGTGT
62057408 CCTCAGCCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGG
Found at i:62061700 original size:42 final size:42
Alignment explanation
Indices: 62061653--62061773 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
62061643 CACATAGTGC
* *
62061653 CATATCAATGCCATGTCCTAGATATGGTCTGACATGAGATCT
1 CATATCAATGCCATGTCCTAGATATGGTCTGACACGAAATCT
* *
62061695 CATATCAATGCCAATAG--CTCAGCTATGGTCTTACACGAAATCT
1 CATATCAATGCC-AT-GTCCT-AGATATGGTCTGACACGAAATCT
* * * *
62061738 CATATCGATGCCATATCCCAGATATGGTCTTACACG
1 CATATCAATGCCATGTCCTAGATATGGTCTGACACG
62061774 TAACCTCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
42 32 0.48
43 33 0.50
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATGTCCTAGATATGGTCTGACACGAAATCT
Found at i:62061738 original size:43 final size:42
Alignment explanation
Indices: 62061653--62061773 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
62061643 CACATAGTGC
* * * *
62061653 CATATCAATGCCAT-GTCCTAGATATGGTCTGACATGAGATCT
1 CATATCAATGCCATAG-CCCAGATATGGTCTTACACGAAATCT
* *
62061695 CATATCAATGCCAATAGCTCAGCTATGGTCTTACACGAAATCT
1 CATATCAATGCC-ATAGCCCAGATATGGTCTTACACGAAATCT
* *
62061738 CATATCGATGCCATATCCCAGATATGGTCTTACACG
1 CATATCAATGCCATAGCCCAGATATGGTCTTACACG
62061774 TAACCTCAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.49
43 33 0.49
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATAGCCCAGATATGGTCTTACACGAAATCT
Found at i:62066135 original size:40 final size:40
Alignment explanation
Indices: 62066032--62066217 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
62066022 TTGAATGATG
* * * * *
62066032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
62066072 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62066112 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62066152 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
62066193 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
62066218 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62066223 original size:40 final size:40
Alignment explanation
Indices: 62066032--62066250 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
62066022 TTGAATGATG
* * * * * *
62066032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
** * *
62066072 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
62066112 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
62066152 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* * * *
62066193 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAA
* *
62066232 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62066251 TACGTGATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 16 0.10
40 127 0.83
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:62075891 original size:40 final size:41
Alignment explanation
Indices: 62075795--62075899 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
62075785 TGAATGATGT
*
62075795 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
62075835 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
62075875 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62075900 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:62083707 original size:278 final size:278
Alignment explanation
Indices: 62083210--62083755 Score: 1011
Period size: 278 Copynumber: 2.0 Consensus size: 278
62083200 CTTGAGTAAA
62083210 AGAGCTTAAATTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGT
1 AGAGCTTAAATTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGT
62083275 GGCTATTGAGCCGAAATTGCAAGAATGATAAGTGTCTTGTGTTTGAGTTTTGCTAACAAAAATGA
66 GGCTATTGAGCCGAAATTGCAAGAATGATAAGTGTCTTGTGTTTGAGTTTTGCTAACAAAAATGA
62083340 AATACGAACGTGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGT
131 AATACGAACGTGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGT
* * *
62083405 CCCCAACGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTACT
196 CCCCAACGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTACGAGTTACT
62083470 AAATCCGGGTTAAGTCCC
261 AAATCCGGGTTAAGTCCC
62083488 AGAGCTTAAATTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGT
1 AGAGCTTAAATTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGT
**
62083553 GGCTATTGAGCCGAAATTGCAAGAATGATAAGTGTCTTGTGTTTGAGTTTTGCTAATGAAAATGA
66 GGCTATTGAGCCGAAATTGCAAGAATGATAAGTGTCTTGTGTTTGAGTTTTGCTAACAAAAATGA
* *
62083618 AATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGT
131 AATACGAACGTGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGT
* *
62083683 CCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTACGAGTTACT
196 CCCCAACGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTACGAGTTACT
62083748 AAATCCGG
261 AAATCCGG
62083756 ACTGAGATCC
Statistics
Matches: 259, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
278 259 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (278 bp):
AGAGCTTAAATTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGT
GGCTATTGAGCCGAAATTGCAAGAATGATAAGTGTCTTGTGTTTGAGTTTTGCTAACAAAAATGA
AATACGAACGTGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGT
CCCCAACGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTTGTACGAGTTACT
AAATCCGGGTTAAGTCCC
Found at i:62083903 original size:40 final size:40
Alignment explanation
Indices: 62083671--62083896 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
62083661 TTGAATGATG
* * * *
62083671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
62083711 TCCAGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62083751 TCCGGACTGAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62083791 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62083831 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
62083872 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62083897 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 156 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62083914 original size:80 final size:80
Alignment explanation
Indices: 62083724--62083927 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
62083714 AGACTAAGAT
** *
62083724 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTGAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTA
*
62083789 AATCCGGGTTAAGTC
66 AATCCGGGCTAAGTC
*
62083804 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
* *
62083868 ATAA-CTGGGCTATGTC
65 A-AATCCGGGCTAAGTC
* *
62083884 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ATTCCGAA
1 CCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGA-TCCGAA
62083928 TGTACGTGAT
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
79 14 0.13
80 93 0.85
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTA
AATCCGGGCTAAGTC
Found at i:62095254 original size:22 final size:22
Alignment explanation
Indices: 62095201--62095244 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
62095191 GAAAATGACC
* *
62095201 AAAATTAGTCAAAATTTATTAT
1 AAAATTAATTAAAATTTATTAT
62095223 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTTATTAT
62095245 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATTAATTAAAATTTATTAT
Found at i:62100560 original size:46 final size:46
Alignment explanation
Indices: 62100481--62100611 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 46
62100471 CGAGTCATGG
*
62100481 TCGGTAAGCTCTTACTGAGCTGATAAATAGTAAGC-CTATTGAGCTGGAAA
1 TCGGTAAGCTC-TAATGAGCTG--AAATAGTAAGCTCTATTGAGCT-G-AA
*
62100531 T-GGTAAGCTCTAATGAGCTGAAATAGTAAGCTCTTTTGAGCTGAA
1 TCGGTAAGCTCTAATGAGCTGAAATAGTAAGCTCTATTGAGCTGAA
* *
62100576 TCGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTA
1 TCGGTAAGCTCTAATGAGCTGAAATAGTAAGCTCTA
62100612 ACGAGCTGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
45 3 0.04
46 43 0.58
47 9 0.12
48 9 0.12
49 9 0.12
50 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGTAAGCTCTAATGAGCTGAAATAGTAAGCTCTATTGAGCTGAA
Found at i:62100617 original size:23 final size:23
Alignment explanation
Indices: 62100484--62100619 Score: 132
Period size: 23 Copynumber: 5.8 Consensus size: 23
62100474 GTCATGGTCG
*
62100484 GTAAGCTCTTACTGAGCTGATAAATA
1 GTAAGCTC-TAATGAGCTG--AAATA
* *
62100510 GTAAGC-CTATTGAGCTGGAAATG
1 GTAAGCTCTAATGAGCT-GAAATA
62100533 GTAAGCTCTAATGAGCTGAAATA
1 GTAAGCTCTAATGAGCTGAAATA
** *
62100556 GTAAGCTCTTTTGAGCTG-AATCG
1 GTAAGCTCTAATGAGCTGAAAT-A
* *
62100579 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTAATGAGCTGAAATA
*
62100602 GTAAGCTCTAACGAGCTG
1 GTAAGCTCTAATGAGCTG
62100620 TGGTGAGTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.03
23 62 0.67
24 19 0.21
25 2 0.02
26 6 0.07
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTAATGAGCTGAAATA
Found at i:62103412 original size:16 final size:16
Alignment explanation
Indices: 62103393--62103423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62103383 CTTCTTCACT
62103393 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
62103409 TACTTACTTACTTAA
1 TACTCACTTACTTAA
62103424 TCAAATTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:62103429 original size:20 final size:20
Alignment explanation
Indices: 62103390--62103429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62103380 AAACTTCTTC
* *
62103390 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
62103410 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
62103430 TATTAATACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:62105264 original size:173 final size:173
Alignment explanation
Indices: 62104975--62105320 Score: 647
Period size: 173 Copynumber: 2.0 Consensus size: 173
62104965 AGCCTGGTTA
* * *
62104975 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCGTTGGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGG
62105040 GACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCACATTCGTAT
66 GACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCACATTCGTAT
62105105 TTCGTTTTCGTTGGCAAAACTCAAACACAAGACACTTATCATT
131 TTCGTTTTCGTTGGCAAAACTCAAACACAAGACACTTATCATT
* *
62105148 TAGTAACTTGTACAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGG
62105213 GACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCACATTCGTAT
66 GACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCACATTCGTAT
62105278 TTCGTTTTCGTTGGCAAAACTCAAACACAAGACACTTATCATT
131 TTCGTTTTCGTTGGCAAAACTCAAACACAAGACACTTATCATT
62105321 CTTGCAATTT
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 168 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (173 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCACATTCGTAT
TTCGTTTTCGTTGGCAAAACTCAAACACAAGACACTTATCATT
Found at i:62107457 original size:10 final size:10
Alignment explanation
Indices: 62107444--62107483 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
62107434 CATATATGAA
62107444 CATATCATGG
1 CATATCATGG
*
62107454 CATATCATATG
1 CATATCAT-GG
62107465 CATATCATGG
1 CATATCATGG
62107475 CATATCATG
1 CATATCATG
62107484 TACAAACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:62117301 original size:31 final size:31
Alignment explanation
Indices: 62117266--62117332 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
62117256 CAATCCTAGT
62117266 GGACTATCTATTT-TGTGTTTACTGTCCCAAC
1 GGACTATCT-TTTCTGTGTTTACTGTCCCAAC
* *
62117297 GGACTATCTTTTCTGTGTTTATTGTCCCAGC
1 GGACTATCTTTTCTGTGTTTACTGTCCCAAC
62117328 GGACT
1 GGACT
62117333 TTCTCTGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (31 bp):
GGACTATCTTTTCTGTGTTTACTGTCCCAAC
Found at i:62128472 original size:39 final size:39
Alignment explanation
Indices: 62128418--62128495 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
62128408 TCATAGGAAA
62128418 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
1 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
*
62128457 ACAACCTCATCTCTATCAACTCATCTAATTGTAACATCC
1 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
62128496 TTCTCTCATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (39 bp):
ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
Found at i:62131491 original size:40 final size:40
Alignment explanation
Indices: 62131447--62131523 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
62131437 GATAATTGGC
*
62131447 ACTTCCTTATCTACTTCAAAATCT-AGAATAATGAAATCAG
1 ACTTCCTTATCTACTTCAAAAT-TGAAAATAATGAAATCAG
*
62131487 ACTTCCTTATCTGCTTCAAAATTGAAAATAATGAAAT
1 ACTTCCTTATCTACTTCAAAATTGAAAATAATGAAAT
62131524 TAGTAGGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (40 bp):
ACTTCCTTATCTACTTCAAAATTGAAAATAATGAAATCAG
Found at i:62140358 original size:39 final size:39
Alignment explanation
Indices: 62140268--62140563 Score: 373
Period size: 39 Copynumber: 7.6 Consensus size: 39
62140258 ACAAAGCAAG
* *
62140268 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* * *
62140308 CGGGACTTTAGCCTGAATATAATACCAGCACGGATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
62140348 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
62140387 CGGGACTTAGCCCGGATATAATACC-GATACGAATTCCGT
1 CGGGACTTAGCCCGGATATAATACCAG-CACGAATGCCTT
* *
62140426 CTGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
62140465 TGGGACTTAGCCCGGATATAATACCAGCATGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
62140504 CGGGACTTAGCCCGGATATAACACCAGCACAAATG-CTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
62140542 CGGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
62140564 TCTCCATTAT
Statistics
Matches: 225, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
38 24 0.11
39 180 0.80
40 21 0.09
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:62146193 original size:39 final size:39
Alignment explanation
Indices: 62146129--62146425 Score: 341
Period size: 39 Copynumber: 7.6 Consensus size: 39
62146119 ACAAAGCATG
*
62146129 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGT-CTA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAAGTCCTT
*
62146169 CGGGACTTTAGCCCGGATATAATACCAGCACGAA-TGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACAAAGT-CCTT
* * *
62146209 CGGGACTTAGCCCGGATATAACACCAACACAAA-TGCCTC
1 CGGGACTTAGCCCGGATATAATACCAGCACAAAGT-CCTT
* * *
62146248 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAAGTCCTT
* *
62146287 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAAGTCCTT
* * * *
62146326 TGGAACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAAGTCCTT
* *
62146365 CGGGACTTAGCCCGGATATAACACCAACACAAA-TGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAAGT-CCTT
* * *
62146404 CGAGACTTAACCCGTATATAAT
1 CGGGACTTAGCCCGGATATAAT
62146426 TCTCCATTAT
Statistics
Matches: 230, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 210 0.91
40 18 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAAGTCCTT
Found at i:62146224 original size:78 final size:77
Alignment explanation
Indices: 62146129--62146425 Score: 378
Period size: 78 Copynumber: 3.8 Consensus size: 77
62146119 ACAAAGCATG
* *
62146129 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGTCTACGGGACTTTAGCCCGGATATAATAC
1 CGGGAC-TT-AGCCCGGATATAACACCAACACAAAGTCTACGGGAC-TTAGCCCGGATATAATAC
*
62146194 CAGCACGAATGCCTT
63 CAGCACGAATTCCTT
* *
62146209 CGGGACTTAGCCCGGATATAACACCAACACAAATGCCTCCGGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAACACCAACACAAA-GTCTACGGGACTTAGCCCGGATATAATACCA
*
62146274 GTACGAATTCCTT
65 GCACGAATTCCTT
* * * * ** *
62146287 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTTTGGAACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAACACCAACACAAAGT-CTACGGGACTTAGCCCGGATATAATACCA
62146352 GCACGAATTCCTT
65 GCACGAATTCCTT
* * * * *
62146365 CGGGACTTAGCCCGGATATAACACCAACACAAATGCCTTCGAGACTTAACCCGTATATAAT
1 CGGGACTTAGCCCGGATATAACACCAACACAAA-GTCTACGGGACTTAGCCCGGATATAAT
62146426 TCTCCATTAT
Statistics
Matches: 189, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
78 172 0.91
79 11 0.06
80 6 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (77 bp):
CGGGACTTAGCCCGGATATAACACCAACACAAAGTCTACGGGACTTAGCCCGGATATAATACCAG
CACGAATTCCTT
Found at i:62146345 original size:117 final size:117
Alignment explanation
Indices: 62146129--62146425 Score: 398
Period size: 117 Copynumber: 2.5 Consensus size: 117
62146119 ACAAAGCATG
* *
62146129 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGT-CTACGGGACTTTAGCCCGGATATAATA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAATTCCTTCGGGAC-TTAGCCCGGATATAATA
*
62146193 CCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAACACAAATGCCTC
63 CCAGCACGAATGCCTTCGGAACTTAGCCCGGATATAACACCAACACAAATGCCTC
* *
62146248 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTTCGGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAATACCA
* * * * * * *
62146313 GCACGAATTCCTTTGGAACTTAGCCCGGATATAATACCAGCACGAATTCCTT
66 GCACGAATGCCTTCGGAACTTAGCCCGGATATAACACCAACACAAATGCCTC
* * * * * *
62146365 CGGGACTTAGCCCGGATATAACACCAACACAAATGCCTTCGAGACTTAACCCGTATATAAT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAAT
62146426 TCTCCATTAT
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
117 141 0.90
118 10 0.06
119 6 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAATACCA
GCACGAATGCCTTCGGAACTTAGCCCGGATATAACACCAACACAAATGCCTC
Found at i:62157413 original size:27 final size:27
Alignment explanation
Indices: 62157383--62157581 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
62157373 ATTACTGAAA
* *
62157383 TACCCTCAATTTGTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
62157410 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
62157437 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
62157464 TACGCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
62157491 TACCCTTGATTTATAGAATTATC-GTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
62157517 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
62157544 TACCCTC-AGTTTATAAAATTACCGTTT
1 TACCCTCGA-TTTATAGAATTACCATTT
*
62157571 TACCCTAGATT
1 TACCCTCGATT
62157582 GTGAAATTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 22 0.15
27 123 0.84
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:62157564 original size:80 final size:81
Alignment explanation
Indices: 62157383--62157581 Score: 285
Period size: 80 Copynumber: 2.5 Consensus size: 81
62157373 ATTACTGAAA
* * *
62157383 TACCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATT
1 TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGATT
*
62157448 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
* * * *
62157464 TACGCT-TGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTT-ACCCTCGAT
1 TACCCTCAG-TTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGAT
62157527 TTACAAAATTACCATTT
65 TTACAAAATTACCATTT
* *
62157544 TACCCTCAGTTTATAAAATTACCGTTTTACCCTAGATT
1 TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATT
62157582 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 56 0.54
81 48 0.46
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGATT
TACAAAATTACCATTT
Found at i:62157616 original size:27 final size:27
Alignment explanation
Indices: 62157585--62157709 Score: 112
Period size: 27 Copynumber: 4.6 Consensus size: 27
62157575 CTAGATTGTG
*
62157585 AAATTACTAAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
62157612 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
62157639 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * *
62157666 AAATTATCGAAATACCCTCAATTTA--TA
1 AAATTACCAAAATACCC-CTA-GTAGGTA
62157693 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
62157710 TTAATTTACA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 77 0.93
28 5 0.06
29 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:62157651 original size:54 final size:53
Alignment explanation
Indices: 62157571--62157709 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 53
62157561 ATTACCGTTT
* * * *
62157571 TACCCTAGATTGTGAAATTACTAAAATACCCCT-GTAGGATAGAATTACCAAAA
1 TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAA
** * *
62157624 TACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 TA-CCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
* *
62157678 TACCCTCAATTTATAAAATTACCAAAATACCC
1 TACCCT-AGTTTGTAAAATTACCAAAATACCC
62157710 TTAATTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 6 0.08
54 64 0.88
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (53 bp):
TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
Found at i:62157710 original size:27 final size:28
Alignment explanation
Indices: 62157613--62157738 Score: 145
Period size: 27 Copynumber: 4.6 Consensus size: 28
62157603 TGTAGGATAG
* *
62157613 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAATTTATAA
* *
62157640 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAATTTATAA
* *
62157667 AATTATCGAAATACCCTC-AATTTATAA
1 AATTACCAAAATACCCTCTAATTTATAA
*
62157694 AATTACCAAAATACCCT-TAATTTACAA
1 AATTACCAAAATACCCTCTAATTTATAA
62157721 AATTA-CAGAAATACCCTC
1 AATTACCA-AAATACCCTC
62157739 GAATAGAACT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.02
27 85 0.97
28 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (28 bp):
AATTACCAAAATACCCTCTAATTTATAA
Found at i:62158425 original size:20 final size:20
Alignment explanation
Indices: 62158400--62158446 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
62158390 GATTTGATAT
62158400 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
62158420 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62158440 ACATGAT
1 ACATGAT
62158447 GTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62158601 original size:24 final size:25
Alignment explanation
Indices: 62158519--62158601 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
62158509 TAGTTTACCG
62158519 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
62158544 AAAAGGGCTTTTTCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
62158569 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
62158592 AAAAGAGGCT
1 AAAAG-GGCT
62158602 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 31 0.60
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:62163192 original size:27 final size:27
Alignment explanation
Indices: 62163135--62163192 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
62163125 ACAGTCATAC
* *
62163135 ATCACATAAGGGCATAATAGTCATTTT
1 ATCACATAAGGGCATAATAGTCATGTG
62163162 ATCACAT-AGGAGCATAATAGTCATGTG
1 ATCACATAAGG-GCATAATAGTCATGTG
62163189 ATCA
1 ATCA
62163193 ATTAGAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACATAAGGGCATAATAGTCATGTG
Found at i:62172314 original size:39 final size:39
Alignment explanation
Indices: 62172271--62172424 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 39
62172261 CTTCGGAATT
**
62172271 TAACCAGATATAGCT-ACTCGTTCAAATGCCTTCGGGACA
1 TAACCAGATATAG-TAACTCGCACAAATGCCTTCGGGACA
* * *
62172310 TAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACT
1 TAA-CCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
* * * *
62172350 TAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CT
1 TAA-CCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
* * *
62172389 TAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGG
1 TA-ACCAGATA-TAGTAACTCGCACAAATGCCTTCGG
62172425 ATCTTAGTCC
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.36
40 63 0.64
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TAACCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
Found at i:62172396 original size:79 final size:80
Alignment explanation
Indices: 62172295--62172477 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
62172285 TACTCGTTCA
* * *
62172295 AATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62172358 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
62172375 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
62172439 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
62172454 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62172478 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:62172477 original size:40 final size:40
Alignment explanation
Indices: 62172293--62172477 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
62172283 GCTACTCGTT
* * *
62172293 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62172333 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62172373 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
62172412 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62172453 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62172478 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 80 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62180493 original size:79 final size:81
Alignment explanation
Indices: 62180384--62180566 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
62180374 TACTCGTTCA
* * *
62180384 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCCTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
* *
62180448 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
62180464 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
* *
62180527 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
62180543 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62180567 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 60 0.68
80 28 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:62180566 original size:40 final size:40
Alignment explanation
Indices: 62180363--62180566 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
62180353 CGGAATTTAA
** *
62180363 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62180403 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGCCTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62180443 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62180482 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
62180522 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62180562 CCGGA
1 CCGGA
62180567 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62181196 original size:51 final size:51
Alignment explanation
Indices: 62181120--62181220 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
62181110 TATTTCCCCT
*
62181120 TAGTCGAATTATCTAAGTCAAGCTAAAGCCATCAATCGGCTACCTATGGCC
1 TAGTCGAATTATCTAAGTCAAGCTAAAGCCATCAATAGGCTACCTATGGCC
62181171 TAGTCGAATTATCTAAGTCAAGCTAAAGCCATCAATAGGCTACCTATGGC
1 TAGTCGAATTATCTAAGTCAAGCTAAAGCCATCAATAGGCTACCTATGGC
62181221 TGAACATACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTCGAATTATCTAAGTCAAGCTAAAGCCATCAATAGGCTACCTATGGCC
Found at i:62182923 original size:27 final size:26
Alignment explanation
Indices: 62182879--62182930 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62182869 CTTGCTGCAA
*
62182879 TCTGGTGGCCTCGCCACATATACCTGT
1 TCTGGTGACCTCGCCACA-ATACCTGT
* *
62182906 TCTGGTGACTTCGTCACAATACCTG
1 TCTGGTGACCTCGCCACAATACCTG
62182931 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATACCTGT
Found at i:62189795 original size:10 final size:10
Alignment explanation
Indices: 62189780--62189810 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
62189770 CGTGGTAGAT
62189780 ATCGTCATCA
1 ATCGTCATCA
62189790 ATCGTCATCA
1 ATCGTCATCA
62189800 ATCGTCATCA
1 ATCGTCATCA
62189810 A
1 A
62189811 CCAGGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (10 bp):
ATCGTCATCA
Found at i:62192892 original size:27 final size:27
Alignment explanation
Indices: 62192857--62192956 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
62192847 TTAGTTTACC
* * *
62192857 AAATTACCAAAATACCCC-CGCTTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
62192884 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
62192911 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
62192938 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
62192957 GATTTATGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:62192922 original size:54 final size:54
Alignment explanation
Indices: 62192857--62192981 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
62192847 TTAGTTTACC
* *
62192857 AAATTACCAAAATACCCC-CGCTTAGCAAAATTACCAAAATACCCCT-AGTTTGTG
1 AAATTACCAAAATACCCCTAG-TTAGCAAAATTACCAAAATACCCCTGA-TTTATG
* *
62192911 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCCTAGTTAGCAAAATTACCAAAATACCCCTGATTTATG
**
62192965 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
62192982 TCGACCTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTAGCAAAATTACCAAAATACCCCTGATTTATG
Found at i:62192968 original size:27 final size:27
Alignment explanation
Indices: 62192848--62192981 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
62192838 TAGAATACTT
**
62192848 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
* *
62192875 -CGCTTA-GCAAAATTACCAAAATACCCC
1 TAGTTTATG--AAATTACCAAAATACCCC
*
62192902 TAGTTTGTGAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
* *
62192929 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
**
62192956 T-GATTTATGAAATTACTGAAATACCC
1 TAG-TTTATGAAATTACCAAAATACCC
62192982 TCGACCTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
26 5 0.05
27 82 0.90
28 3 0.03
29 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (27 bp):
TAGTTTATGAAATTACCAAAATACCCC
Found at i:62192994 original size:54 final size:54
Alignment explanation
Indices: 62192848--62193008 Score: 148
Period size: 54 Copynumber: 3.0 Consensus size: 54
62192838 TAGAATACTT
** * * *
62192848 TAGTTTACCAAATTACCAAAATACCCC-CGCTTAGCAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCCGAGCCTA-TAAAATTACCAAAATACCCC
* * ** *
62192902 TAGTTTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCCGAGCCTATAAAATTACCAAAATACCCC
** **
62192956 T-GATTTATGAAATTACTGAAATACCCTCGA-CCTATAAAATTACTGAAATACCC
1 TAG-TTTATGAAATTACCAAAATACCC-CGAGCCTATAAAATTACCAAAATACCC
62193009 TCGACTTGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 82 0.93
55 5 0.06
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (54 bp):
TAGTTTATGAAATTACCAAAATACCCCGAGCCTATAAAATTACCAAAATACCCC
Found at i:62193038 original size:27 final size:26
Alignment explanation
Indices: 62192857--62193053 Score: 105
Period size: 27 Copynumber: 7.3 Consensus size: 26
62192847 TTAGTTTACC
* *
62192857 AAATTACCAAAATACCCCCG-CTTAGCA
1 AAATTACC-AAATACCCTCGACTTA-TA
* * * *
62192884 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACC-AAATACCCTCGA-CTTATA
* * *
62192911 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACC-AAATACCCTCGA-CTTATA
* *
62192938 AAATTACCAAAATACCC-CTGATTTATG
1 AAATTACC-AAATACCCTC-GACTTATA
* *
62192965 AAATTACTGAAATACCCTCGACCTATA
1 AAATTAC-CAAATACCCTCGACTTATA
* *
62192992 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCTCGACTTATA
* * *
62193019 AAATTACCAAAGTACTCTCGATTTACA
1 AAATTACCAAA-TACCCTCGACTTATA
62193046 AAATTACC
1 AAATTACC
62193054 GTTTTACCCT
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.03
27 136 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGACTTATA
Found at i:62193042 original size:81 final size:81
Alignment explanation
Indices: 62192933--62193089 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
62192923 TACCCCTAGT
** * * *
62192933 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACTGAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAACCTACAAAATTA
62192998 CTGAAATACCCTCGAC
66 CTGAAATACCCTCGAC
* * *** **
62193014 TTGTAAAATTACCAAAGTA-CTCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACCGAAATACCCTCAACCTACAAAATT
62193078 ACTGAAATACCC
65 ACTGAAATACCC
62193090 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
80 3 0.05
81 60 0.95
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAACCTACAAAATTA
CTGAAATACCCTCGAC
Found at i:62193088 original size:27 final size:27
Alignment explanation
Indices: 62192965--62193089 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
62192955 CTGATTTATG
* *
62192965 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
**
62192992 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
62193019 AAATTAC-CAAAGTACTCTCGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* *** * *
62193046 AAATTACCGTTTTACCCTCAATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
62193073 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
62193090 CTGTAGGGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:62193104 original size:27 final size:27
Alignment explanation
Indices: 62193074--62193143 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
62193064 CAATTTACAA
*
62193074 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGAGTAG
* *
62193101 AATTATTGAAATACCACTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGAGTAG
*
62193128 AATTACCGAAATACCC
1 AATTACTGAAATACCC
62193144 TTTGTAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGAGTAG
Found at i:62194547 original size:40 final size:40
Alignment explanation
Indices: 62194503--62195484 Score: 1787
Period size: 40 Copynumber: 24.6 Consensus size: 40
62194493 TCCTCGTTCG
* * *
62194503 AATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACA
62194543 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194583 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194623 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194663 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194703 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194743 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194783 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194823 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194863 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194903 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194943 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62194983 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195023 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195063 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195103 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195143 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195183 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195223 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195263 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195303 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
62195343 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
* * *
62195383 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
** * *
62195422 AATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCACA
*
62195462 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62195485 CAGCATTCAA
Statistics
Matches: 924, Mismatches: 12, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
38 2 0.00
39 49 0.05
40 864 0.94
41 9 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
Found at i:62204223 original size:28 final size:28
Alignment explanation
Indices: 62204182--62204283 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
62204172 GGCCCCTTTT
* *
62204182 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCA
62204210 GGCCCAATCACATTCATATGGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCA
* * *
62204238 GGCCCAATAACTTTCATATTGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCA
62204266 GGCCCAATCACATTCATA
1 GGCCCAATCACATTCATA
62204284 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCA
Found at i:62204518 original size:16 final size:16
Alignment explanation
Indices: 62204494--62204530 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62204484 GTAGCCAAAC
*
62204494 TTTCGGCTTTTCGACA
1 TTTCAGCTTTTCGACA
*
62204510 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
62204526 TTTCA
1 TTTCA
62204531 TGATTTGCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:62211264 original size:40 final size:40
Alignment explanation
Indices: 62211177--62211397 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
62211167 TATTCGGATG
* *
62211177 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
62211216 ATATCCGGGCTAGGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* *
62211256 ATACCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTT-ACT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
* *
62211296 ATATCCGGGCTAAGTCCCGAAGG-ATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-GTTGTGCTATTGACT
* * * * *
62211336 ATATCTGGGCTAAGACCAGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
62211376 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62211398 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
39 39 0.25
40 111 0.72
41 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:62211313 original size:80 final size:79
Alignment explanation
Indices: 62211181--62211397 Score: 276
Period size: 80 Copynumber: 2.7 Consensus size: 79
62211171 CGGATGATAT
* * * * *
62211181 CCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAGGTCCCGAAGGCA-GTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG-ATGTTG
*
62211245 TGCTATTGACTATAC
65 TGCTAGTGACTATAC
*
62211260 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGATTTTG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGATGTTG
*
62211325 TGCTAGTGACTATAT
65 TGCTAGTGACTATAC
* * * * *
62211340 CTGGGCTAAGACCAGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
62211398 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 36 0.30
80 86 0.70
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGATGTTGT
GCTAGTGACTATAC
Found at i:62219230 original size:40 final size:40
Alignment explanation
Indices: 62219141--62219361 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
62219131 TATTCGGATG
* *
62219141 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
**
62219180 ATATTTGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* *
62219220 ATACCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
* ** *
62219260 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
62219300 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
62219340 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62219362 TACTACGTTT
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.26
40 111 0.71
41 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:62219283 original size:80 final size:79
Alignment explanation
Indices: 62219145--62219361 Score: 285
Period size: 80 Copynumber: 2.7 Consensus size: 79
62219135 CGGATGATAT
* * * **
62219145 CCGGGCTAAGTCCCGAAGGCATGGTGCTAG-TGACTATATTTGGGCTAAGTCCCGAAGGCAGTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCAGTTG
*
62219209 TGCTATTGACTATAC
65 TGCTAGTGACTATAC
* **
62219224 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCAAAGGCTTTTG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAGTTG
*
62219289 TGCTAGTGACTATAT
65 TGCTAGTGACTATAC
* *
62219304 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
62219362 TACTACGTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 34 0.28
80 86 0.70
81 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAGTTGT
GCTAGTGACTATAC
Found at i:62221319 original size:48 final size:48
Alignment explanation
Indices: 62221262--62221388 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
62221252 GATGCTGATT
* * * *
62221262 CCATATCCCAGATATGGTCTTACACTAGCAT-ACGTATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGC-TCACATATCAACGCCGATG
* * *
62221310 CCATGTCCCAGACATAGTCTTATACTGGCTCTCATATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
* *
62221358 CCATGTCCCAGACATATTCTTACACAAGCTC
1 CCATGTCCCAGACATAGTCTTACACTAGCTC
62221389 TCATTAGCCG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
Found at i:62221389 original size:48 final size:48
Alignment explanation
Indices: 62221296--62221392 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
62221286 CTAGCATACG
* **
62221296 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTATACTGGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
*
62221344 TATCAACGCCGATGCCATGTCCCAGACATATTCTTACACAAGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
62221392 T
1 T
62221393 TAGCCGTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (48 bp):
TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
Found at i:62227519 original size:40 final size:40
Alignment explanation
Indices: 62227475--62227698 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
62227465 AAGTGAATAT
* * * * **
62227475 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
62227515 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
62227555 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
62227595 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
62227635 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
62227674 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
62227699 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:62227573 original size:80 final size:80
Alignment explanation
Indices: 62227436--62227698 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
62227426 TTGAATGCTG
* * * * *
62227436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
62227498 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
62227516 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
62227581 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
62227596 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
62227660 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
62227675 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62227699 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:62227650 original size:120 final size:120
Alignment explanation
Indices: 62227436--62227698 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
62227426 TTGAATGCTG
* * *
62227436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
62227500 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
62227556 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
62227618 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
62227675 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62227699 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:62229817 original size:48 final size:48
Alignment explanation
Indices: 62229760--62229886 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
62229750 GATGCTGATT
* * * *
62229760 CCATATCCCAGATATGGTCTTACACTAGCAT-ACGTATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGC-TCACATATCAACGCCGATG
* * *
62229808 CCATGTCCCAGACATAGTCTTATACTGGCTCTCATATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
* *
62229856 CCATGTCCCAGACATATTCTTACACAAGCTC
1 CCATGTCCCAGACATAGTCTTACACTAGCTC
62229887 TCATTAGCCG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
Found at i:62229887 original size:48 final size:48
Alignment explanation
Indices: 62229794--62229890 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
62229784 CTAGCATACG
* **
62229794 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTATACTGGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
*
62229842 TATCAACGCCGATGCCATGTCCCAGACATATTCTTACACAAGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
62229890 T
1 T
62229891 TAGCCGTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (48 bp):
TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
Found at i:62235937 original size:18 final size:19
Alignment explanation
Indices: 62235900--62235937 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62235890 TGAACACAAG
62235900 GACACGCCCATGTGCCTTA
1 GACACGCCCATGTGCCTTA
*
62235919 GACACGCCCGTGT-CCTTA
1 GACACGCCCATGTGCCTTA
62235937 G
1 G
62235938 GCCGTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.21
Consensus pattern (19 bp):
GACACGCCCATGTGCCTTA
Found at i:62237375 original size:42 final size:42
Alignment explanation
Indices: 62237329--62237413 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
62237319 GGGGCCCCGC
* * * *
62237329 ATCAATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT
1 ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
* *
62237371 ATCAACGCCATATCCCAGATATCGTCTTACATGAAATCACAT
1 ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
62237413 A
1 A
62237414 CCGATGCTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (42 bp):
ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
Found at i:62241319 original size:41 final size:41
Alignment explanation
Indices: 62241204--62241353 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
62241194 CGCTGACTCA
* * * *
62241204 AAAAGCCCTTTGAGACCAAACTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
62241245 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
62241285 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
62241326 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
62241354 TAAACCCCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:62248934 original size:67 final size:67
Alignment explanation
Indices: 62248857--62248990 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
62248847 GATCATAAGA
* * *
62248857 ACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTTGCAACAAAATCACAAATTCACTACAA
1 ACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAA
62248922 GC
66 GC
62248924 ACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAA
1 ACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAA
62248989 GC
66 GC
62248991 TGTCTTCCTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (67 bp):
ACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAA
GC
Found at i:62249142 original size:114 final size:114
Alignment explanation
Indices: 62248942--62249168 Score: 427
Period size: 114 Copynumber: 2.0 Consensus size: 114
62248932 AGCATCTCAT
62248942 TAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAAGCTGTCTTCCTGAGCAAC
1 TAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAAGCTGTCTTCCTGAGCAAC
62249007 AGTCACTAAATTATTTATAACTGGAGATAAGAAACTCCAAATCAAGTGC
66 AGTCACTAAATTATTTATAACTGGAGATAAGAAACTCCAAATCAAGTGC
* *
62249056 TAACAAGTTTTAACCATGTTCGCAACAAAATCACAAATTCACTACAAGCTGTCTTCCTGAGCAAC
1 TAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAAGCTGTCTTCCTGAGCAAC
*
62249121 AGTCACTAAATTATTTATAACTGGTGATAAGAAACTCCAAATCAAGTG
66 AGTCACTAAATTATTTATAACTGGAGATAAGAAACTCCAAATCAAGTG
62249169 TTGTTAATTT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 110 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (114 bp):
TAACAAGCTTTAACCAAGTTCGCAACAAAATCACAAATTCACTACAAGCTGTCTTCCTGAGCAAC
AGTCACTAAATTATTTATAACTGGAGATAAGAAACTCCAAATCAAGTGC
Found at i:62249690 original size:41 final size:40
Alignment explanation
Indices: 62249596--62249732 Score: 215
Period size: 39 Copynumber: 3.5 Consensus size: 40
62249586 CGGGACTTTA
* * *
62249596 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGC-CT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
*
62249635 AGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTCT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC-TCT
62249676 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCT-T
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
62249715 AGCCCGGATATAACACCA
1 AGCCCGGATATAACACCA
62249733 AATCATATAA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 52 0.57
40 1 0.01
41 38 0.42
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (40 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
Found at i:62251741 original size:19 final size:19
Alignment explanation
Indices: 62251717--62251757 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
62251707 GTTATAATAT
*
62251717 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
62251736 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
62251755 TAA
1 TAA
62251758 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:62252166 original size:5 final size:6
Alignment explanation
Indices: 62252151--62252176 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62252141 TTATCAACAA
62252151 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
62252177 TTTCTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:62255025 original size:68 final size:68
Alignment explanation
Indices: 62254916--62255062 Score: 276
Period size: 68 Copynumber: 2.2 Consensus size: 68
62254906 CCAAATATTG
* *
62254916 AAATCACTAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTTGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
62254981 ACA
66 ACA
62254984 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
62255049 ACA
66 ACA
62255052 AAATCACAAAT
1 AAATCACAAAT
62255063 TCACTACAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (68 bp):
AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
ACA
Found at i:62255960 original size:40 final size:39
Alignment explanation
Indices: 62255910--62256032 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 39
62255900 CAAATCCAAT
*
62255910 CACCACCACAAA-GCATGCGGGACTTTAAGCCCGAATATAA
1 CACCAGCACAAATGCATGCGGGAC-TT-AGCCCGAATATAA
* * * * *
62255950 TACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
* * * * *
62255989 CACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
62256028 CACCA
1 CACCA
62256033 ACTCATATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 54 0.73
40 12 0.16
41 8 0.11
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (39 bp):
CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
Found at i:62255981 original size:39 final size:39
Alignment explanation
Indices: 62255937--62256032 Score: 165
Period size: 39 Copynumber: 2.5 Consensus size: 39
62255927 CGGGACTTTA
* *
62255937 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
*
62255976 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
62256015 AGCCCGGATATAACACCA
1 AGCCCGGATATAACACCA
62256033 ACTCATATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
Found at i:62258041 original size:19 final size:19
Alignment explanation
Indices: 62258017--62258057 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
62258007 GTTATAATAT
*
62258017 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
62258036 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
62258055 TAA
1 TAA
62258058 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:62258719 original size:25 final size:25
Alignment explanation
Indices: 62258662--62258713 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
62258652 TATTGACGTA
* * *
62258662 ATAATA-AATTATTTTATTTATATT
1 ATAATACAATTAATTTATTTAAATC
62258686 ATAATACAATTAATTTATTTAAATC
1 ATAATACAATTAATTTATTTAAATC
62258711 ATA
1 ATA
62258714 TAACAAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATACAATTAATTTATTTAAATC
Found at i:62267916 original size:38 final size:40
Alignment explanation
Indices: 62267842--62267926 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 40
62267832 AAATTATTCG
* *
62267842 TATTAAAAACACTACCATAAATATAATAAATGTTTTATTA
1 TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
* * *
62267882 TATTAAAAACA-TA-AATAAAAATAATAATTTTTTTATTG
1 TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
62267920 TATTAAA
1 TATTAAA
62267927 TATAATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 27 0.68
39 2 0.05
40 11 0.28
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (40 bp):
TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
Found at i:62273870 original size:46 final size:46
Alignment explanation
Indices: 62273800--62274165 Score: 540
Period size: 46 Copynumber: 8.0 Consensus size: 46
62273790 TTTGACATGA
* * * * *
62273800 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTC-GTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG-GT
*** *
62273846 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *
62273892 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62273938 TGCCATGGTATCTTTCAACCATGGTCTGT-CACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCT-TACACATTTCATATCAGGT
* *
62273984 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62274030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
62274076 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62274122 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
62274166 AGAGCACACT
Statistics
Matches: 301, Mismatches: 15, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.02
46 295 0.98
47 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:62273882 original size:21 final size:21
Alignment explanation
Indices: 62273858--62273929 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
62273848 CCATGGTATC
62273858 TTTCAACCATGGTCTTGTTCA
1 TTTCAACCATGGTCTTGTTCA
* * * *
62273879 TTTCATATCACGTTGCCATGGTATC-
1 TTTCA-A-C-CATGGTC-TTGT-TCA
62273904 TTTCAACCATGGTCTTGTTCA
1 TTTCAACCATGGTCTTGTTCA
62273925 TTTCA
1 TTTCA
62273930 TATCACGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 5 0.14
23 2 0.05
24 5 0.14
25 8 0.22
26 2 0.05
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
TTTCAACCATGGTCTTGTTCA
Found at i:62276337 original size:18 final size:20
Alignment explanation
Indices: 62276322--62276358 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62276312 TAATAATAAA
*
62276322 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
62276342 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
62276359 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:62277057 original size:106 final size:105
Alignment explanation
Indices: 62276896--62277113 Score: 314
Period size: 106 Copynumber: 2.1 Consensus size: 105
62276886 TTTGGTTGAA
*
62276896 TTGATTGTAAGCTTATATATATACATACATACATGATGTGCAACCATCTCTTGTGTGATGTGGTT
1 TTGATTGTAAGCTTATATATATACATACATACATGATGTGCAACCATCTCTTGTGTGATATGGTT
62276961 TATAAATGCTT-GTAAATGGTTGAATGTGGCTTAATGGTT
66 TATAAATGCTTGGTAAATGGTTGAATGTGGCTTAATGGTT
* ** ** * ** *
62277000 TTGAGTTGTAAGCTTATATCTATTTATGTATGCATGCATGTGCAATTATCTTTTGTGTGATATGG
1 TTGA-TTGTAAGCTTATATATATACATACATACATG-ATGTGCAACCATCTCTTGTGTGATATGG
62277065 TTTATAAATGCTTGGTAAATGGTTGAATGTGGCTTAATGGTT
64 TTTATAAATGCTTGGTAAATGGTTGAATGTGGCTTAATGGTT
62277107 TT-ATTGT
1 TTGATTGT
62277114 TAAATGGTTA
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
104 4 0.04
105 29 0.29
106 38 0.38
107 30 0.30
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.44
Consensus pattern (105 bp):
TTGATTGTAAGCTTATATATATACATACATACATGATGTGCAACCATCTCTTGTGTGATATGGTT
TATAAATGCTTGGTAAATGGTTGAATGTGGCTTAATGGTT
Found at i:62280385 original size:40 final size:40
Alignment explanation
Indices: 62280278--62280414 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
62280268 CGGTTATTTG
* * *
62280278 TGGCACTTAGTGTGCGATAC-AACATAGTTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGAA-ATAGCTTCGGCTATATA
62280318 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
* * * * * *
62280358 TGGCATTTAGTGTGTGATTTGAGATAGCTTTGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
** *
62280398 CAGTACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
62280415 GATATCGAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
Found at i:62280481 original size:28 final size:28
Alignment explanation
Indices: 62280402--62280471 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
62280392 TATGTACAGT
* * *
62280402 ACTTAGTGTGCGAGATATCGAATGTGGC
1 ACTTAGTGTGCGAGATATCGAGTATGAC
62280430 ACTTAGTGTGCGAGATATCGAGTATGAC
1 ACTTAGTGTGCGAGATATCGAGTATGAC
62280458 ACTTAGTGTGCGAG
1 ACTTAGTGTGCGAG
62280472 GCATTGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATCGAGTATGAC
Found at i:62287189 original size:46 final size:46
Alignment explanation
Indices: 62287012--62287190 Score: 173
Period size: 46 Copynumber: 3.9 Consensus size: 46
62287002 TGTAACTCAC
* * *
62287012 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATG-TTCGCAT
* * * * **
62287058 ACATATCA-CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATA--AGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
* * * * *
62287105 CCATAAGTGGACTCAGACTCAACTCAACGAGTTTGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
* *
62287151 CCATAAGTGAACTCGGACTCAACTCAATAAGTTCGGATGT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGT
62287191 CCAAATATCC
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 72 0.68
47 32 0.30
48 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
Found at i:62308832 original size:24 final size:24
Alignment explanation
Indices: 62308804--62308864 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
62308794 AACCGAATTT
* * *
62308804 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
62308828 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
62308852 GCACACATAGTGC
1 GCACACATAGTGC
62308865 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:62313645 original size:46 final size:46
Alignment explanation
Indices: 62313595--62313770 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62313585 TGGTTGAGCA
62313595 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62313641 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62313686 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62313734 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62313771 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62313751 original size:93 final size:93
Alignment explanation
Indices: 62313592--62313762 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
62313582 GGATGGTTGA
* *
62313592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62313657 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
62313685 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62313750 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62313763 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62316749 original size:15 final size:15
Alignment explanation
Indices: 62316710--62316789 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62316700 GTATCTTGGG
*
62316710 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
62316725 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
62316740 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
62316755 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
62316770 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62316784 TTTCTT
1 TTTCTT
62316790 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62316779 original size:30 final size:30
Alignment explanation
Indices: 62316701--62316788 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
62316691 CATAGTATCG
* * *
62316701 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
62316731 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
62316761 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
62316789 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:62319231 original size:46 final size:46
Alignment explanation
Indices: 62319181--62319356 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
62319171 TGTTTGGGCA
62319181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
62319227 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62319272 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
62319320 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62319357 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 62 0.56
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62319336 original size:93 final size:93
Alignment explanation
Indices: 62319177--62319348 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
62319167 AGGATGTTTG
*
62319177 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
62319242 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
62319270 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
62319334 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
62319349 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:62326124 original size:39 final size:39
Alignment explanation
Indices: 62326080--62326161 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
62326070 AATTATGTTA
*
62326080 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
*
62326119 CCAGCACGAAGCCTGCAGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
62326158 CCAG
1 CCAG
62326162 TGTCTTGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
Found at i:62331132 original size:19 final size:19
Alignment explanation
Indices: 62331108--62331147 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
62331098 GTTCCTCACT
62331108 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
62331127 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
62331146 AT
1 AT
62331148 CTCAACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACATCAAATCATTCTGC
Found at i:62333788 original size:19 final size:17
Alignment explanation
Indices: 62333764--62333802 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
62333754 AATCGGCTTT
62333764 TCTTTTCCCTTTGCTAAGC
1 TCTTTT-CCTTTGC-AAGC
*
62333783 TCTTTTGCTTTGCAAGC
1 TCTTTTCCTTTGCAAGC
62333800 TCT
1 TCT
62333803 GTCTACTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.10, C:0.28, G:0.13, T:0.49
Consensus pattern (17 bp):
TCTTTTCCTTTGCAAGC
Found at i:62336348 original size:24 final size:23
Alignment explanation
Indices: 62336270--62336350 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
62336260 AAGCTCCCCA
*
62336270 GAGCTGAAAGACAGTAAGCTCTATATT
1 GAGCTG-AA-ACAGTAAGCTCT-TA-C
* *
62336297 GAGCTGAAATAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCTTAC
* *
62336320 AAGCTGAGAACAGTAAGCGCTTAC
1 GAGCTGA-AACAGTAAGCTCTTAC
62336344 GAGCTGA
1 GAGCTGA
62336351 TATATCGTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
23 6 0.13
24 20 0.44
25 11 0.24
26 2 0.04
27 6 0.13
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:62354123 original size:19 final size:21
Alignment explanation
Indices: 62354101--62354148 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
62354091 GAATTTTTAT
62354101 AAATATTT-TAATTTT-TTGA
1 AAATATTTATAATTTTGTTGA
*
62354120 AAATTATTTATATTTTTGTTGA
1 AAA-TATTTATAATTTTGTTGA
62354142 AAGATAT
1 AA-ATAT
62354149 CAACTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 6 0.25
22 9 0.38
23 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
AAATATTTATAATTTTGTTGA
Found at i:62354127 original size:20 final size:22
Alignment explanation
Indices: 62354104--62354143 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62354094 TTTTTATAAA
62354104 TATTT-TAATTTT-TTGAAAAT
1 TATTTATAATTTTGTTGAAAAT
*
62354124 TATTTATATTTTTGTTGAAA
1 TATTTATAATTTTGTTGAAA
62354144 GATATCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTTATAATTTTGTTGAAAAT
Found at i:62360005 original size:19 final size:20
Alignment explanation
Indices: 62359960--62359997 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62359950 TTAAAATTAT
*
62359960 GTAAATTAATATTTTTTATA
1 GTAAATTAATATTTTTAATA
62359980 GT-AATTAATATTTTTAAT
1 GTAAATTAATATTTTTAAT
62359998 TTAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
GTAAATTAATATTTTTAATA
Found at i:62368296 original size:21 final size:22
Alignment explanation
Indices: 62368253--62368307 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
62368243 TGTATGTTGA
62368253 ATATA-TTAAAAATGCTTTAATT
1 ATATATTTAAAAAT-CTTTAATT
62368275 AT-TATTTAAAAAT-TTTATATT
1 ATATATTTAAAAATCTTTA-ATT
62368296 ATAATATTTAAA
1 AT-ATATTTAAA
62368308 TTGATAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 10 0.34
23 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATATTTAAAAATCTTTAATT
Found at i:62368303 original size:23 final size:23
Alignment explanation
Indices: 62368252--62368307 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
62368242 TTGTATGTTG
62368252 AATATATTAAAAATGCTTTAATTAT
1 AATAT-TTAAAAAT-CTTTAATTAT
62368277 --TATTTAAAAAT-TTTATATTAT
1 AATATTTAAAAATCTTTA-ATTAT
62368298 AATATTTAAA
1 AATATTTAAA
62368308 TTGATAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 8 0.29
23 11 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
AATATTTAAAAATCTTTAATTAT
Found at i:62372361 original size:11 final size:11
Alignment explanation
Indices: 62372345--62372378 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
62372335 CAGTTATAGG
62372345 AAAAAAAAGAA
1 AAAAAAAAGAA
62372356 AAAAAAAAG-A
1 AAAAAAAAGAA
*
62372366 AAAGAAAAGAA
1 AAAAAAAAGAA
62372377 AA
1 AA
62372379 GAGAAAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:62372385 original size:6 final size:5
Alignment explanation
Indices: 62372344--62372385 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
62372334 TCAGTTATAG
*
62372344 GAAAA -AAAA GAAAAA AAAAA GAAAA GAAAA GAAAA GAGAAA G
1 GAAAA GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA GA-AAA G
62372386 GGAAAATTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.12
5 20 0.62
6 8 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:62372385 original size:16 final size:16
Alignment explanation
Indices: 62372345--62372384 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
62372335 CAGTTATAGG
62372345 AAAA-AAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
62372360 AAAAGAAAAGAAAAGAA
1 AAAAGAAAAGAAAA-AA
*
62372377 AAGAGAAA
1 AAAAGAAA
62372385 GGGAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAA
Found at i:62375182 original size:18 final size:17
Alignment explanation
Indices: 62375161--62375194 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62375151 TGAGTTTGTC
*
62375161 TTTAAGTGACCAGTTCTT
1 TTTAAGTAACCA-TTCTT
62375179 TTTAAGTAACCATTCT
1 TTTAAGTAACCATTCT
62375195 AAAATGCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTAAGTAACCATTCTT
Found at i:62378967 original size:25 final size:25
Alignment explanation
Indices: 62378934--62379017 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
62378924 ATATATACAA
62378934 AATATATAAATATTTTTAAAAAATAT
1 AATA-ATAAATATTTTTAAAAAATAT
* *
62378960 AATAAT-AA-ATTTATAAAATATAT
1 AATAATAAATATTTTTAAAAAATAT
*
62378983 AAAAATAAATATTTTTAAAAAATAT
1 AATAATAAATATTTTTAAAAAATAT
62379008 AATAATAAAT
1 AATAATAAAT
62379018 TTAAATTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 18 0.36
24 4 0.08
25 24 0.48
26 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAATAAATATTTTTAAAAAATAT
Found at i:62378976 original size:23 final size:23
Alignment explanation
Indices: 62378922--62379020 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
62378912 AAAAATTTTA
* *
62378922 AAATATATACAAAATAT-ATAA-
1 AAATTTATAAAAAATATAATAAT
* *
62378943 ATATTTTTAAAAAATATAATAAT
1 AAATTTATAAAAAATATAATAAT
* *
62378966 AAATTTATAAAATATATAAAAAT
1 AAATTTATAAAAAATATAATAAT
*
62378989 AAATATTTTTAAAAAATATAATAAT
1 -AA-ATTTATAAAAAATATAATAAT
62379014 AAATTTA
1 AAATTTA
62379021 AATTTATATA
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 13 0.21
22 4 0.06
23 23 0.37
24 4 0.06
25 18 0.29
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTATAAAAAATATAATAAT
Found at i:62379188 original size:21 final size:22
Alignment explanation
Indices: 62379149--62379190 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
62379139 TTTTGAGTAG
* *
62379149 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
62379171 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
62379191 GAGAGATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:62379322 original size:24 final size:25
Alignment explanation
Indices: 62379295--62379346 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
62379285 GCTATAAGCA
62379295 AAACACACCGTTT-AAGTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
* * **
62379319 AAACTCCCCGTTTCATTTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
62379344 AAA
1 AAA
62379347 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.29
Consensus pattern (25 bp):
AAACACACCGTTTCAAGTAATCCCT
Found at i:62379345 original size:25 final size:26
Alignment explanation
Indices: 62379311--62379364 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
62379301 ACCGTTTAAG
62379311 TAATCCCT-AAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
62379336 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
62379362 TAA
1 TAA
62379365 ACTAGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTCATT
Done.