Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 467 of 770
Found at i:144082110 original size:97 final size:97
Alignment explanation
Indices: 144081944--144082308 Score: 260
Period size: 97 Copynumber: 4.0 Consensus size: 97
144081934 GCATGACCAA
* * *
144081944 GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCGCGCGACCAGGGGCCTAGGTTGCCAATGGTAC
1 GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCAATGGTAC
144082009 CCGAAGCTC-CGGCACGACCAAGGGCCTAGGTT
66 CCGAAGCTCTC-GCACGACCAAGGGCCTAGGTT
* * * * *
144082041 GGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACATGACCAAGGGCCTAGGTTATCC-ATGGTG
1 GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTT-GCCAATGGTA
* * *
144082105 CCCGAAGCTCTCGCGCGACTAGGGGCCTAGGTT
65 CCCGAAGCTCTCGCACGACCAAGGGCCTAGGTT
* * * * * **
144082138 --GCC---GATA---AT---GCCCGAAGCTCCCGCACTACCAA-GGCCTAGGTTGCCGATGGTGT
1 GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCAATGGTAC
* *
144082191 CCGAGGCTCCCGCACG----A---CC-A-G--
66 CCGAAGCTCTCGCACGACCAAGGGCCTAGGTT
* * * * * **
144082212 GGGCCTAGGTTGCCGATGGTG-CCGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTGG
1 GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCAATGGTAC
* * *
144082276 CCGAGGCTCCCGCACGACCAGGGGCCTAGGTT
66 CCGAAGCTCTCGCACGACCAAGGGCCTAGGTT
144082308 G
1 G
144082309 CCGATGGTGC
Statistics
Matches: 212, Mismatches: 30, Indels: 53
0.72 0.10 0.18
Matches are distributed among these distances:
76 4 0.02
77 1 0.00
78 2 0.01
79 2 0.01
82 2 0.01
84 20 0.09
85 66 0.31
86 19 0.09
89 2 0.01
92 4 0.02
93 1 0.00
94 1 0.00
95 3 0.01
96 1 0.00
97 81 0.38
98 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.16
Consensus pattern (97 bp):
GGGCCTAGGTTACCGATGGCGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCAATGGTAC
CCGAAGCTCTCGCACGACCAAGGGCCTAGGTT
Found at i:144084130 original size:54 final size:54
Alignment explanation
Indices: 144084045--144084152 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
144084035 GCGCGACCAG
* * **
144084045 GGGCCTAGGTTGCCGATGGTATCCGAAGCTCCGGCACGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTAGCCCAAGCTCCCACACGACCAAGGGCCTAGGTT
*
144084099 GGGCCTAGGTTGCCGATGGT-GCCCAAGGCTCCCACATGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTAGCCCAA-GCTCCCACACGACCAAGGGCCTAGGTT
144084153 ATCCACGGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 4 0.08
54 44 0.92
ACGTcount: A:0.19, C:0.29, G:0.34, T:0.19
Consensus pattern (54 bp):
GGGCCTAGGTTGCCGATGGTAGCCCAAGCTCCCACACGACCAAGGGCCTAGGTT
Found at i:144084168 original size:97 final size:96
Alignment explanation
Indices: 144084002--144084195 Score: 239
Period size: 97 Copynumber: 2.0 Consensus size: 96
144083992 GCATGACCAA
* * * * * *
144084002 GGGCCTAGGTTCCCGATGGTGCCCGAGGCTCCCGCGCGACCAGGGGCCTAGGTTGCCGATGGTAT
1 GGGCCTAGGTTCCCGATGGTGCCCAAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGACGGTAC
144084067 CCGAAGCTC-CGGCACGACCAAGGGCCTAGGTT
66 CCGAAGCTCTC-GCACGA-CAAGGGCCTAGGTT
* * * *
144084099 GGGCCTAGGTTGCCGATGGTGCCCAAGGCTCCCACATGACCAAGGGCCTAGGTTATCC-ACGGTG
1 GGGCCTAGGTTCCCGATGGTGCCCAAGGCTCCCACACGACCAAGGGCCTAGGTT-GCCGACGGTA
* *
144084163 CCCGAAGCTCTCGCGCGACTAGGGCCTAGGTT
65 CCCGAAGCTCTCGCACGACAAGGGCCTAGGTT
144084195 G
1 G
144084196 CCGATGATGC
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
96 14 0.17
97 66 0.80
98 3 0.04
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (96 bp):
GGGCCTAGGTTCCCGATGGTGCCCAAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGACGGTAC
CCGAAGCTCTCGCACGACAAGGGCCTAGGTT
Found at i:144085526 original size:53 final size:54
Alignment explanation
Indices: 144085422--144085528 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 54
144085412 GCGCGACCAG
**
144085422 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCGGCACGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
* * *
144085476 GGGCCTAGGTTGCCGATGGT-GCCGAGGCTCCCACATGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
144085529 ATCCATGGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 28 0.58
54 20 0.42
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (54 bp):
GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
Found at i:144087223 original size:54 final size:54
Alignment explanation
Indices: 144087138--144087245 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
144087128 GCGCGACCAG
**
144087138 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCGGCACGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
* * *
144087192 GGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACATGACCAAGGGCCTAGGTT
1 GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
144087246 ATCCATGGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.18, C:0.30, G:0.35, T:0.18
Consensus pattern (54 bp):
GGGCCTAGGTTGCCGATGGTACCCGAAGCTCCCACACGACCAAGGGCCTAGGTT
Found at i:144089426 original size:27 final size:26
Alignment explanation
Indices: 144089388--144089441 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
144089378 TCTCGCACGA
* *
144089388 CCAAGTGCCTAGGTTGACGATGGTGCC
1 CCAAGGGCCTAGGTTG-CAATGGTGCC
144089415 CCAAGGGCCTAGGTTGCAATGGTGCC
1 CCAAGGGCCTAGGTTGCAATGGTGCC
144089441 C
1 C
144089442 GAGGCTCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (26 bp):
CCAAGGGCCTAGGTTGCAATGGTGCC
Found at i:144091787 original size:39 final size:40
Alignment explanation
Indices: 144091733--144091948 Score: 307
Period size: 39 Copynumber: 5.5 Consensus size: 40
144091723 AAACCAAGTA
* * * *
144091733 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
144091772 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
144091812 CCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
144091851 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
144091891 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
144091930 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
144091949 TTATCATCCG
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 87 0.53
40 76 0.46
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:144091810 original size:40 final size:40
Alignment explanation
Indices: 144091766--144091952 Score: 308
Period size: 39 Copynumber: 4.7 Consensus size: 40
144091756 GCTACTTGCT
144091766 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
144091806 CAAATGCCTTCGGGACTTAG-CCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
144091845 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
144091885 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
144091924 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
144091953 CATCCGAATA
Statistics
Matches: 138, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
38 1 0.01
39 73 0.53
40 63 0.46
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:144091864 original size:79 final size:77
Alignment explanation
Indices: 144091733--144091952 Score: 307
Period size: 79 Copynumber: 2.8 Consensus size: 77
144091723 AAACCAAGTA
* * * *
144091733 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGG-TATAG-TACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
144091798 AACTCGCACAAATG
64 AACTCGCACAAATG
* *
144091812 CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGG-TATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
144091877 AACTCGCACAAATG
64 AACTCGCACAAATG
*
144091891 CCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAG-CCGGTA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
144091953 CATCCGAATA
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 7 0.05
79 121 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCGGTATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
CTCGCACAAATG
Found at i:144099776 original size:40 final size:40
Alignment explanation
Indices: 144099732--144099880 Score: 280
Period size: 40 Copynumber: 3.7 Consensus size: 40
144099722 GCTACTTGCT
*
144099732 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
144099772 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
144099812 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
144099852 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
144099881 CATCCGAATA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:144101738 original size:40 final size:40
Alignment explanation
Indices: 144101670--144101832 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
144101660 CGGGATTTAA
** *
144101670 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
144101709 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
144101749 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
144101789 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
144101829 CCGG
1 CCGG
144101833 GTATCATTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:144101792 original size:80 final size:79
Alignment explanation
Indices: 144101656--144101832 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 79
144101646 GAATCACGTA
* * * **
144101656 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
144101720 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** *
144101734 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
144101798 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
144101814 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
144101833 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 11 0.13
80 58 0.71
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATG
Found at i:144108589 original size:41 final size:41
Alignment explanation
Indices: 144108544--144108661 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
144108534 TGAAAGATAA
144108544 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
144108585 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
144108615 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
144108656 ATGTAG
1 ATGTAG
144108662 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:144108600 original size:71 final size:71
Alignment explanation
Indices: 144108512--144108675 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
144108502 GAGATGTATC
144108512 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
144108577 AGGACA
66 AGGACA
144108583 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
144108648 AGGACA
66 AGGACA
144108654 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
144108676 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:144111753 original size:80 final size:79
Alignment explanation
Indices: 144111593--144111769 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 79
144111583 GAATCACGTA
* * * **
144111593 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAAT
* *
144111657 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** * *
144111671 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGAATATA
* *
144111735 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
144111751 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
144111770 GTATCATTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 11 0.14
79 11 0.14
80 57 0.70
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAAT
AACTAGCACAAATG
Found at i:144111769 original size:40 final size:39
Alignment explanation
Indices: 144111607--144111769 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 39
144111597 CGGGATTTAA
* * *
144111607 CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
144111646 CCGAATTTGGTA-ACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATAT--AACACTAGCACAAATGCCTTCGGGTCTTAGC
* *
144111686 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
144111726 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
144111766 CCGG
1 CCGG
144111770 GTATCATTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 6 0.06
40 94 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:144120801 original size:2 final size:2
Alignment explanation
Indices: 144120794--144120821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
144120784 TCATCCACAA
144120794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144120822 GTAATTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:144121391 original size:5 final size:5
Alignment explanation
Indices: 144121381--144121448 Score: 136
Period size: 5 Copynumber: 13.6 Consensus size: 5
144121371 AAGAAATTGT
144121381 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
144121431 TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TAT
144121449 AAATAAGTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 63 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:144123240 original size:45 final size:45
Alignment explanation
Indices: 144123184--144123298 Score: 158
Period size: 45 Copynumber: 2.6 Consensus size: 45
144123174 CACTTATGTA
* **
144123184 TCGACTACTGTTACTGTTACTGTTACCAATTTGGCACTTTGTGTG
1 TCGAATACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTG
* * *
144123229 TCGAATACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTG
1 TCGAATACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTG
* *
144123274 TTGAATAATGTTACTGTTACTGTTA
1 TCGAATACTGTTACTGTTACTGTTA
144123299 TTGTTCCGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
TCGAATACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTG
Found at i:144123585 original size:53 final size:54
Alignment explanation
Indices: 144123515--144123669 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 54
144123505 TAATTGACTG
* * *
144123515 TTACTGAATAA-TAGATTGTTACTGAATAACTGAATATTACTGATAA-ATGATCA
1 TTACTGAATAACT-GATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
* * *
144123568 TTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTAATTA
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTG-ATAACATAATCA
* * * *
144123623 CTACTGAATATCTGATT-TTACTAAATAATTGACTATTACTAGATAAC
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACT-GATAAC
144123670 CGATCAATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 37 0.43
54 30 0.34
55 20 0.23
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (54 bp):
TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
Found at i:144123644 original size:89 final size:89
Alignment explanation
Indices: 144123468--144123637 Score: 207
Period size: 89 Copynumber: 1.9 Consensus size: 89
144123458 AAGGTATAAA
* * * * * * * *
144123468 ATAATTGATTATTTCTGAATAATTGACTGTTACCGAATAATTGACTGTTACTGAATAATAGATTG
1 ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAATAGATTA
*
144123533 TTACTGAATAACTGAATATTACTG
66 CTACTGAATAACTGAATATTACTG
* *
144123557 ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTA-AT
1 ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAA--TAGAT
*
144123621 TACTACTGAATATCTGA
64 TACTACTGAATAACTGA
144123638 TTTTACTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
89 49 0.73
90 16 0.24
91 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (89 bp):
ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAATAGATTA
CTACTGAATAACTGAATATTACTG
Found at i:144123757 original size:18 final size:18
Alignment explanation
Indices: 144123467--144123761 Score: 168
Period size: 18 Copynumber: 16.1 Consensus size: 18
144123457 AAAGGTATAA
* * *
144123467 AATAATTGATTATTTCTG
1 AATAACTGATTGTTACTG
* * *
144123485 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* *
144123503 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
144123521 AATAA-TAGATTGTTACTG
1 AATAACT-GATTGTTACTG
* *
144123539 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
144123557 -ATAAATGATCATTACTG
1 AATAACTGATTGTTACTG
*
144123574 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* * *
144123592 AATAAATGACTATTACTG
1 AATAACTGATTGTTACTG
* **
144123610 AATAACTTAATTACTACTG
1 AATAAC-TGATTGTTACTG
* *
144123629 AATATCTGATT-TTACTA
1 AATAACTGATTGTTACTG
* * *
144123646 AATAATTGACTATTACT-
1 AATAACTGATTGTTACTG
*
144123663 AGATAACCGATCAATTGATCGATACTG
1 A-ATAA-C--T-GATTG-T---TACTG
* * *
144123690 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
144123708 AATAACTGATTGTTACTG
1 AATAACTGATTGTTACTG
*
144123726 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
144123744 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
144123761 A
1 A
144123762 TTGTTAATGA
Statistics
Matches: 217, Mismatches: 45, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
17 32 0.15
18 152 0.70
19 15 0.07
21 2 0.01
22 4 0.02
23 2 0.01
25 1 0.00
26 8 0.04
27 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:144127016 original size:29 final size:29
Alignment explanation
Indices: 144126960--144127024 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
144126950 TACTCGATTT
* * * *
144126960 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACATAGTGCCATACCATTCAAGCC
* *
144126989 CGCACACATAGTGCCATACCCTTCAAGCT
1 CGCACACATAGTGCCATACCATTCAAGCC
144127018 CGCACAC
1 CGCACAC
144127025 CCAGTGCCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (29 bp):
CGCACACATAGTGCCATACCATTCAAGCC
Found at i:144127051 original size:29 final size:29
Alignment explanation
Indices: 144127027--144127120 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
144127017 TCGCACACCC
*
144127027 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
144127056 AGTGCCATATATTTCCAGGATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
144127085 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
144127114 AGTGCCA
1 AGTGCCA
144127121 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:144127052 original size:58 final size:58
Alignment explanation
Indices: 144126989--144127120 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
144126979 GATTTAAGCC
* * * *
144126989 CGCACACATAGTGCCATACCCTT-CAAGCTCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAAGAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * * **
144127047 TGCACACTTAGTGCCATATATTTCCAGGATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAAGATGCACACCCAGTGCCATATATTTCCAGCA
144127105 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
144127121 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 58 0.94
59 4 0.06
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAAGATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:144133585 original size:40 final size:39
Alignment explanation
Indices: 144133420--144133603 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
144133410 AAATTGAATG
* * *
144133420 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
144133460 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
144133500 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
144133540 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
144133579 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
144133604 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:144133628 original size:80 final size:81
Alignment explanation
Indices: 144133460--144133648 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
144133450 GCTGGAAATT
* * * *
144133460 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
144133525 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
144133541 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
144133604 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
144133620 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
144133649 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:144141701 original size:40 final size:39
Alignment explanation
Indices: 144141536--144141719 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
144141526 AAATTGAATG
* * *
144141536 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
144141576 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
144141616 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
144141656 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
144141695 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
144141720 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:144141744 original size:80 final size:81
Alignment explanation
Indices: 144141576--144141764 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
144141566 GCTGGAAATT
* * * *
144141576 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
144141641 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
144141657 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
144141720 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
144141736 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
144141765 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:144151734 original size:40 final size:40
Alignment explanation
Indices: 144151682--144151789 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
144151672 TATCACGATT
** *
144151682 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
144151722 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
144151762 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
144151790 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:144151749 original size:79 final size:80
Alignment explanation
Indices: 144151588--144151789 Score: 185
Period size: 79 Copynumber: 2.5 Consensus size: 80
144151578 CGGAGCTTAA
* * ** * * * *
144151588 CGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCACCAAGGC
1 CGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGC
144151653 CTACGGGACTTAACC
66 CTACGGGACTTAACC
* * * * * *
144151668 CGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGCACGAAT
1 CGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCGCACCAAG
* * *
144151730 GCCTTCGGGTCTTAGCC
64 GCCTACGGGACTTAACC
* * *
144151747 CGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
144151790 TTATAATTTC
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.61
80 35 0.36
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGC
CTACGGGACTTAACC
Found at i:144164501 original size:205 final size:205
Alignment explanation
Indices: 144164048--144164630 Score: 911
Period size: 205 Copynumber: 2.8 Consensus size: 205
144164038 TAGGTTGCAG
* *
144164048 CATAGTAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAATATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* *
144164113 CTTACAAGGAGTGAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
144164178 AAGATGATTTGGCATCTCTGTATTCTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
*
144164243 GGAGCAGATA
196 GCAGCAGATA
* *
144164253 CATAGCAAATCTCACC-TCTAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTC-AGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGT
*
144164317 GCTTACAAGGAGCGAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
65 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * * *
144164382 TAAGATGATTTGGCCTCTCTGTATTGTC-GAGAACAAATCGAAGTCTGGTATCTCCACTTCGATG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACG
144164446 GGCAGCAGATA
195 GGCAGCAGATA
* * *
144164457 CATAGCAGATCTCACCTTCAGATAATTT-CACTGAAGCAAGATCCAAGATGATTTGGCATTCTTG
1 CATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAG-AAGATCCAAGATGATTTGGCATCCTTG
* * * * * *
144164521 TGCTTAAAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTGATGATGAAGCAAAT
64 TGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
*
144164586 CTAAGATGATTTGGCATCTCTGTAATGTCAGAGAACAAATCGAAG
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
144164631 AAGCAGATTT
Statistics
Matches: 346, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
204 71 0.21
205 260 0.75
206 15 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
GCAGCAGATA
Found at i:144166720 original size:17 final size:16
Alignment explanation
Indices: 144166687--144166736 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
144166677 ATATATTTTA
144166687 TATTTTATATAATTAT
1 TATTTTATATAATTAT
144166703 TATTCTTATA-AATATAT
1 TATT-TTATATAAT-TAT
*
144166720 T-TTTTAT-TAGTTAT
1 TATTTTATATAATTAT
144166734 TAT
1 TAT
144166737 ATTTTAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 9 0.31
17 9 0.31
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTTATATAATTAT
Found at i:144167698 original size:15 final size:15
Alignment explanation
Indices: 144167678--144167710 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
144167668 TACGTAGGCC
144167678 AAAAC-AAATGATTTT
1 AAAACAAAATG-TTTT
144167693 AAAACAAAATGTTTT
1 AAAACAAAATGTTTT
144167708 AAA
1 AAA
144167711 GGTGATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAACAAAATGTTTT
Found at i:144171851 original size:15 final size:15
Alignment explanation
Indices: 144171831--144171860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
144171821 TATATACAAA
144171831 TATATATATATGTGT
1 TATATATATATGTGT
*
144171846 TATATATGTATGTGT
1 TATATATATATGTGT
144171861 AATTGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TATATATATATGTGT
Found at i:144172336 original size:24 final size:24
Alignment explanation
Indices: 144172300--144172373 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
144172290 GGGTCAACAT
* **
144172300 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAAATTTGAA
*
144172324 TGGCACTATGTGTGCAAAATTGAA
1 TGGCACTATGTGTGCAAATTTGAA
*
144172348 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCAAATTTGAA
144172372 TG
1 TG
144172374 TCAATACATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCAAATTTGAA
Found at i:144178692 original size:38 final size:39
Alignment explanation
Indices: 144178585--144178735 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
144178575 TATGGTAACC
* * * *
144178585 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
144178625 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
144178664 CGCACAATTGCCTTC-GGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
144178702 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
144178736 CTCGAACATT
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 38 0.37
39 49 0.47
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:144178713 original size:77 final size:79
Alignment explanation
Indices: 144178585--144178735 Score: 234
Period size: 77 Copynumber: 1.9 Consensus size: 79
144178575 TATGGTAACC
144178585 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
*
144178650 CGGGTATCATAGCT
66 CGGATATCATAGCT
* * * * *
144178664 CGCACAATTGCCTTC-GG-CTTAGCCCGGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
144178727 CGGATATCA
66 CGGATATCA
144178736 CTCGAACATT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 50 0.76
78 2 0.03
79 14 0.21
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:144185889 original size:40 final size:39
Alignment explanation
Indices: 144185845--144186023 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
144185835 GTTCAAAACA
* * ** * *
144185845 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
144185885 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
144185925 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
144185964 CCTTCGGGCTTAGCCCGGATATCAT---TCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
144186000 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
144186024 CTCGAACATT
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
36 35 0.27
39 53 0.41
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:144186013 original size:75 final size:78
Alignment explanation
Indices: 144185875--144186023 Score: 241
Period size: 75 Copynumber: 1.9 Consensus size: 78
144185865 TATGGTAACC
144185875 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATAT-ACAACTCGCACAATTGCCTTCGGGCTTAGCC
144185940 CGGATATCATAGCT
65 CGGATATCATAGCT
* * *
144185954 CGCACAATTGCCTTCGGG-CTTAGCCCGGATAT-C-ATTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATACAACTCGCACAATTGCCTTCGGGCTTAGCCC
144186016 GGATATCA
66 GGATATCA
144186024 CTCGAACATT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 36 0.54
76 1 0.01
78 13 0.19
79 17 0.25
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (78 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCATAGCT
Found at i:144188254 original size:12 final size:12
Alignment explanation
Indices: 144188230--144188270 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
144188220 TGTTAGAATA
144188230 CTTGGTCATTGAG
1 CTTGGT-ATTGAG
144188243 CTTGGTATTGAG
1 CTTGGTATTGAG
*
144188255 TTTGGTATTGAG
1 CTTGGTATTGAG
144188267 CTTG
1 CTTG
144188271 TACCTGGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.15, C:0.10, G:0.32, T:0.44
Consensus pattern (12 bp):
CTTGGTATTGAG
Found at i:144192905 original size:28 final size:28
Alignment explanation
Indices: 144192840--144192940 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
144192830 ATAGTGAATC
*
144192840 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
144192869 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
144192897 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
144192927 CGCACACTTAGTGC
1 CGCACACTTAGTGC
144192941 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:144200520 original size:22 final size:22
Alignment explanation
Indices: 144200492--144200535 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
144200482 GATTCGGCTC
*
144200492 TTGCACAT-ATGTATATATATGA
1 TTGCACATGATGCAT-TATATGA
144200514 TTGCACATGATGCATTATATGA
1 TTGCACATGATGCATTATATGA
144200536 CATATATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (22 bp):
TTGCACATGATGCATTATATGA
Found at i:144201315 original size:40 final size:40
Alignment explanation
Indices: 144201260--144201423 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
144201250 TGAATGATAC
* *
144201260 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
144201300 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
144201340 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
144201380 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
144201420 CCGG
1 CCGG
144201424 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:144209359 original size:40 final size:40
Alignment explanation
Indices: 144209304--144209467 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
144209294 TGAATGATAC
* *
144209304 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
144209344 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
144209384 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
144209424 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
144209464 CCGG
1 CCGG
144209468 TTAAATTGCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:144221987 original size:34 final size:35
Alignment explanation
Indices: 144221933--144222027 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 35
144221923 CGATATTTGT
** * *
144221933 GCCCAGCACTAGTCGGATAAATCGATGAATG-TGC
1 GCCCAGCACTAGTCAAATAAATCGACGAAAGTTGC
144221967 GCCCAGCACTAGTCAAATAAA-CTGACGAAAGTTGC
1 GCCCAGCACTAGTCAAATAAATC-GACGAAAGTTGC
* * *
144222002 GCCTAGCGCTAGTCAAATGAATCGAC
1 GCCCAGCACTAGTCAAATAAATCGAC
144222028 AATATTAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 1 0.02
34 25 0.49
35 24 0.47
36 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (35 bp):
GCCCAGCACTAGTCAAATAAATCGACGAAAGTTGC
Found at i:144222112 original size:37 final size:37
Alignment explanation
Indices: 144222071--144222143 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
144222061 CATATTTCAT
*
144222071 AACTCAATATCACATTCACTTCAATTATTTATTAATG
1 AACTCAATATCACATTCACTTCAATTATCTATTAATG
*
144222108 AACTCAGTATCACATTCACTTCAATTATCTATTAAT
1 AACTCAATATCACATTCACTTCAATTATCTATTAAT
144222144 CATTCATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.40
Consensus pattern (37 bp):
AACTCAATATCACATTCACTTCAATTATCTATTAATG
Found at i:144223277 original size:19 final size:18
Alignment explanation
Indices: 144223240--144223278 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
144223230 ATGTTTTTCC
*
144223240 TTTCTTTTATTTTAGTTA
1 TTTCTTTTATTTAAGTTA
*
144223258 TTTCTTATTATTTAATTTA
1 TTTCTT-TTATTTAAGTTA
144223277 TT
1 TT
144223279 AATATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTCTTTTATTTAAGTTA
Found at i:144232404 original size:40 final size:40
Alignment explanation
Indices: 144232334--144232551 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
144232324 AAGCCAGGTA
* * * *
144232334 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
144232373 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
144232413 CCTTCGTGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
144232453 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
144232493 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
144232533 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
144232552 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:144239629 original size:28 final size:29
Alignment explanation
Indices: 144239598--144239690 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
144239588 CCGCACACAC
* * *
144239598 AGTGCCATGCCCTTCGAGC-TGCACACTT
1 AGTGCCATACACTTCCAGCATGCACACTT
* *
144239626 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATGCACACTT
* * *
144239655 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATACACTTCCAGCATGCACACTT
144239684 AGTGCCA
1 AGTGCCA
144239691 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 14 0.24
29 44 0.76
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
AGTGCCATACACTTCCAGCATGCACACTT
Found at i:144239653 original size:29 final size:29
Alignment explanation
Indices: 144239617--144239690 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
144239607 CCCTTCGAGC
144239617 TGCACACTTAGTGCCATATATTTCCAGCA
1 TGCACACTTAGTGCCATATATTTCCAGCA
144239646 TGCACACTTAGTGCCATATATTTCCAGCA
1 TGCACACTTAGTGCCATATATTTCCAGCA
*
144239675 CGCACACTTAGTGCCA
1 TGCACACTTAGTGCCA
144239691 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TGCACACTTAGTGCCATATATTTCCAGCA
Found at i:144247489 original size:29 final size:29
Alignment explanation
Indices: 144247456--144247529 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
144247446 CCTTCGAGCT
144247456 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
144247485 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
144247514 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
144247530 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:144247490 original size:58 final size:58
Alignment explanation
Indices: 144247397--144247529 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
144247387 ATACTCGATT
* * * * *
144247397 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
144247455 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
144247513 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
144247530 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:144254436 original size:20 final size:20
Alignment explanation
Indices: 144254411--144254448 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
144254401 AATGGTCATG
*
144254411 GATGATTAAGAGTGACTTAA
1 GATGATTAAGAGTCACTTAA
*
144254431 GATGATTACGAGTCACTT
1 GATGATTAAGAGTCACTT
144254449 GTTGTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (20 bp):
GATGATTAAGAGTCACTTAA
Found at i:144256078 original size:37 final size:37
Alignment explanation
Indices: 144256037--144256109 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
144256027 CTTACCCAAA
*
144256037 CATAATCTCCACACGTAATCATCGGGTCTTACCCGGT
1 CATAATCTCCACACGTAATCATCGGGTCTCACCCGGT
*
144256074 CATAATCTCCACACGTAGTCATCGGGTCTCACCCGG
1 CATAATCTCCACACGTAATCATCGGGTCTCACCCGG
144256110 AACATATTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (37 bp):
CATAATCTCCACACGTAATCATCGGGTCTCACCCGGT
Found at i:144256266 original size:49 final size:49
Alignment explanation
Indices: 144256211--144256559 Score: 517
Period size: 49 Copynumber: 7.4 Consensus size: 49
144256201 TTTTACATTA
144256211 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
144256260 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
144256309 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
144256358 GCAATTAGGCCTCATCACATATACATACACTTTCACA-TCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
144256406 GCCATTAGG-----------ATACATACACTTTCACATTCA-CACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
144256443 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
144256492 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
144256541 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
144256560 CATATATGTA
Statistics
Matches: 280, Mismatches: 7, Indels: 26
0.89 0.02 0.08
Matches are distributed among these distances:
37 33 0.12
38 3 0.01
48 40 0.14
49 204 0.73
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:144256428 original size:37 final size:37
Alignment explanation
Indices: 144256378--144256451 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
144256368 CTCATCACAT
144256378 ATACATACACTTTCACA-TCACCACATCGGCCATTAGG
1 ATACATACACTTTCACATTCA-CACATCGGCCATTAGG
144256415 ATACATACACTTTCACATTCACACATCGGCCATTAGG
1 ATACATACACTTTCACATTCACACATCGGCCATTAGG
144256452 CCTCATCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 33 0.92
38 3 0.08
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.26
Consensus pattern (37 bp):
ATACATACACTTTCACATTCACACATCGGCCATTAGG
Found at i:144256457 original size:134 final size:135
Alignment explanation
Indices: 144256280--144256529 Score: 457
Period size: 134 Copynumber: 1.9 Consensus size: 135
144256270 CTTATCACAT
144256280 ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
1 ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
144256345 ATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCACATCACCACATCGGCCA
66 ATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCACATCACCACATCGGCCA
144256410 TTAGG
131 TTAGG
144256415 ATACATACACTTTCACATTCA-CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
1 ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
* * * *
144256479 ATTCATCGCATCGGCCATTAGGCCTTATCACATATACATACACTTTCACAT
66 ATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCACAT
144256530 TCATCGCATT
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
134 90 0.81
135 21 0.19
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (135 bp):
ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
ATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCACATCACCACATCGGCCA
TTAGG
Found at i:144256472 original size:85 final size:87
Alignment explanation
Indices: 144256329--144256500 Score: 303
Period size: 85 Copynumber: 2.0 Consensus size: 87
144256319 CTCATCACAT
144256329 ATACATACACTTTCACATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCAC
1 ATACATACACTTTCACATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCAC
144256394 A-TCACCACATCGGCCATTAGG
66 ATTCACCACATCGGCCATTAGG
*
144256415 ATACATACACTTTCACATTCA-CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
1 ATACATACACTTTCACATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCAC
* *
144256479 ATTCATCGCATCGGCCATTAGG
66 ATTCACCACATCGGCCATTAGG
144256501 CCTTATCACA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
85 43 0.52
86 39 0.48
ACGTcount: A:0.31, C:0.32, G:0.10, T:0.27
Consensus pattern (87 bp):
ATACATACACTTTCACATTCACCACATCGGCAATTAGGCCTCATCACATATACATACACTTTCAC
ATTCACCACATCGGCCATTAGG
Found at i:144259875 original size:29 final size:29
Alignment explanation
Indices: 144259839--144260059 Score: 417
Period size: 29 Copynumber: 7.7 Consensus size: 29
144259829 TGTTGAAAAA
* *
144259839 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144259868 CTCGCACACATAGTGCCTCGATTAC-GAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144259896 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144259925 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144259954 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144259983 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144260012 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
144260041 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
144260060 AATCATTCGC
Statistics
Matches: 189, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 28 0.15
29 161 0.85
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:144262207 original size:37 final size:37
Alignment explanation
Indices: 144262154--144262244 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
144262144 TATAAAAGAA
144262154 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
144262191 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
144262228 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
144262245 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:144262395 original size:49 final size:49
Alignment explanation
Indices: 144262340--144262651 Score: 527
Period size: 49 Copynumber: 6.4 Consensus size: 49
144262330 TTTTACATTA
144262340 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
144262389 GCCATTAGGCCTTATCACATATACATACACTTT-ACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
144262437 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
144262486 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
144262535 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
144262584 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
144262633 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
144262652 CATATATGTA
Statistics
Matches: 252, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 46 0.18
49 206 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:144272725 original size:23 final size:24
Alignment explanation
Indices: 144272675--144272728 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
144272665 GTTGGCTATG
*
144272675 GTCGTGGTCGAGAAGGACATGACG
1 GTCGTGGTCGAGAAGGACATGACA
*
144272699 GTCGTGGTCGAGAAGG-CATGGCA
1 GTCGTGGTCGAGAAGGACATGACA
144272722 GTCGTGG
1 GTCGTGG
144272729 AGAACCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.20, C:0.17, G:0.44, T:0.19
Consensus pattern (24 bp):
GTCGTGGTCGAGAAGGACATGACA
Found at i:144280868 original size:43 final size:43
Alignment explanation
Indices: 144280794--144280876 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
144280784 ATCGACATCG
* * *
144280794 TATTTGATTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCAA
1 TATTTGATTACATGTAAGACCCTATCGGGGAC-GTTGGCATCAA
144280837 TATTTGATTACATGTAAGACCAC-ATCGGGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-CTATCGGGGACGTTGGCAT
144280877 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTATCGGGGACGTTGGCATCAA
Found at i:144281727 original size:19 final size:19
Alignment explanation
Indices: 144281703--144281740 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
144281693 TGTATGATTT
144281703 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
144281722 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
144281741 AATATGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (19 bp):
GGATTTGAAATTGGTTGAA
Found at i:144287252 original size:28 final size:27
Alignment explanation
Indices: 144287189--144287258 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
144287179 ATAGTGAGTC
144287189 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
144287216 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
144287244 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
144287259 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:144290988 original size:85 final size:86
Alignment explanation
Indices: 144290886--144291051 Score: 289
Period size: 85 Copynumber: 1.9 Consensus size: 86
144290876 TTTATTGGAA
*
144290886 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCAGG
1 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCAGCTAAAGGTCAGG
144290950 GCTTTTAGCGGCGTTTGTGGG
66 GCTTTTAGCGGCGTTTGTGGG
* *
144290971 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCAGCTAAAGGTCAGG
1 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCAGCTAAAGGTCAGG
*
144291036 GCTTTTAGTGGCGTTT
66 GCTTTTAGCGGCGTTT
144291052 TTTTTACAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 40 0.53
86 36 0.47
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCAGCTAAAGGTCAGG
GCTTTTAGCGGCGTTTGTGGG
Found at i:144291071 original size:43 final size:43
Alignment explanation
Indices: 144290886--144291051 Score: 280
Period size: 43 Copynumber: 3.9 Consensus size: 43
144290876 TTTATTGGAA
* *
144290886 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GG
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
144290928 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
*
144290971 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
* *
144291014 AAAAGCGCAGCTAAAGGTCAGGGCTTTTAGTGGCGTTT
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTT
144291052 TTTTTACAAA
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 38 0.32
43 80 0.68
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
Found at i:144291157 original size:31 final size:31
Alignment explanation
Indices: 144291122--144291188 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
144291112 CTTCCTGCAT
*
144291122 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAATA
* * * *
144291153 TAAAATGCAGCCAAAAACAGCAAATTTAATA
1 TAAAATCCAACCAAAAACAACAAATATAATA
144291184 TAAAA
1 TAAAA
144291189 AAATACAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.19
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAATA
Found at i:144291473 original size:21 final size:21
Alignment explanation
Indices: 144291449--144291494 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
144291439 GCTCGTGCCT
*
144291449 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
144291470 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
144291491 CTGC
1 CTGC
144291495 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:144292845 original size:17 final size:18
Alignment explanation
Indices: 144292803--144292851 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
144292793 AGTTGAAAAG
144292803 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
144292822 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
144292839 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
144292852 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:144293734 original size:40 final size:40
Alignment explanation
Indices: 144293668--144293834 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
144293658 AAATTGAATG
* * *
144293668 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
144293707 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
144293747 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
144293787 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
144293827 ATATCCGG
1 ATATCCGG
144293835 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:144299218 original size:17 final size:17
Alignment explanation
Indices: 144299196--144299230 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
144299186 CCCCCAAACC
144299196 GATGGTCAATCCGAGCG
1 GATGGTCAATCCGAGCG
144299213 GATGGTCAATCCGAGCG
1 GATGGTCAATCCGAGCG
144299230 G
1 G
144299231 GTAATTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (17 bp):
GATGGTCAATCCGAGCG
Found at i:144301749 original size:40 final size:40
Alignment explanation
Indices: 144301683--144301849 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
144301673 AAATTGAATG
* * *
144301683 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
144301722 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
144301762 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
144301802 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
144301842 ATATCCGG
1 ATATCCGG
144301850 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:144304209 original size:40 final size:40
Alignment explanation
Indices: 144304150--144304290 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
144304140 AAATTGAATG
* * *
144304150 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
144304190 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
144304230 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAG-TATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
144304269 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
144304291 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
39 25 0.29
40 60 0.71
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:144304284 original size:39 final size:39
Alignment explanation
Indices: 144304189--144304316 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
144304179 TGCTGGAAAT
* * *
144304189 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
*
144304229 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-AT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
144304268 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
144304308 TATATCCGG
1 TATATCCGG
144304317 TTATATTCCG
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 34 0.44
40 43 0.55
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:144312201 original size:40 final size:40
Alignment explanation
Indices: 144312142--144312283 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
144312132 AAATTGAATG
* * *
144312142 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
144312182 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
144312222 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
144312262 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
144312284 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:144312284 original size:40 final size:39
Alignment explanation
Indices: 144312181--144312309 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
144312171 TGCTGGAAAT
* * *
144312181 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
144312221 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
144312261 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
144312301 TATATCCGG
1 TATATCCGG
144312310 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:144319130 original size:40 final size:39
Alignment explanation
Indices: 144319085--144319268 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
144319075 TACACATTCA
* *
144319085 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
144319125 AATGCCTTCGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
144319164 AAAGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
144319204 TATGCCGTCGGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
144319244 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTC-GGACTTAGCCCGGAT
144319269 ATCATTCGAA
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
39 33 0.28
40 78 0.66
41 8 0.07
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:144319261 original size:80 final size:79
Alignment explanation
Indices: 144319083--144319268 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 79
144319073 GCTACACATT
* *
144319083 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGACTTAACCCGG
* *
144319147 ATTTAGTAGCTCGCT
65 ATTTAGTAGCTAGCA
* * * **
144319162 CGAAAGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGTATGCCGTCGGATCTTATTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGA-CTTAACCC
144319225 GGATTTAGTCA-CTTAGCA
63 GGATTTAGT-AGC-TAGCA
144319243 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
144319269 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 38 0.42
80 41 0.46
81 8 0.09
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGACTTAACCCGGA
TTTAGTAGCTAGCA
Found at i:144321378 original size:40 final size:40
Alignment explanation
Indices: 144321323--144321587 Score: 363
Period size: 40 Copynumber: 6.6 Consensus size: 40
144321313 TATTCGGATG
*
144321323 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACT
* *
144321363 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * *
144321403 ATATCCGGGCGAAGTCCCGAAGGCATTTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* *
144321443 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCAAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTACT
*
144321486 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * *
144321526 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
*
144321566 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
144321588 TACTTGGGTT
Statistics
Matches: 203, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.07
40 152 0.75
41 1 0.00
43 36 0.18
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
Found at i:144321545 original size:123 final size:120
Alignment explanation
Indices: 144321323--144321587 Score: 381
Period size: 123 Copynumber: 2.2 Consensus size: 120
144321313 TATTCGGATG
* *
144321323 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTCCTATACCCGGGCTAAGTCCCGAAGGCA
* *
144321388 TTTGTGCTAGTGACAATATCCGGGCGAAGTCCCGAAGGCATTTCTGCTAG-TGACT
66 TTTGTGCTAGTGACAATATCCGGGCGAAGACCCGAAGGCATTTCTGCGAGTTG-CT
* *
144321443 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCAAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG--AG-AGTTCCTATACCCGGGCTAAGTCCCGAAG
* * * *
144321508 GCATTTGTGCTAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
63 GCATTTGTGCTAGTGACAATATCCGGGCGAAGACCCGAAGGCATTTCTGCGAGTTGCT
*
144321566 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
144321588 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
120 30 0.23
122 15 0.12
123 82 0.64
124 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTCCTATACCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACAATATCCGGGCGAAGACCCGAAGGCATTTCTGCGAGTTGCT
Found at i:144325172 original size:12 final size:12
Alignment explanation
Indices: 144325155--144325186 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
144325145 AATAGAAGAA
144325155 TTCCCAAATAGT
1 TTCCCAAATAGT
144325167 TTCCCAAATAGT
1 TTCCCAAATAGT
144325179 TTCCCAAA
1 TTCCCAAA
144325187 CTCTTAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (12 bp):
TTCCCAAATAGT
Found at i:144330748 original size:40 final size:40
Alignment explanation
Indices: 144330660--144330789 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
144330650 ATGCTGGAAA
** * *
144330660 TTATATCCGGGTTAAGACCCAAAGGCAATT-GTGCTAG-CGG
1 TTATATCCGGACTAAGACCCGAAGGC-ATTCGTGCAAGTC-G
* *
144330700 CTACATCCGGACTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGACTAAGACCCGAAGGCATTCGTGCAAGTCG
* * * *
144330740 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGACTAAGACCCGAAGGCATTCGTGCAAGTCG
144330780 TTATATCCGG
1 TTATATCCGG
144330790 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 71 0.95
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TTATATCCGGACTAAGACCCGAAGGCATTCGTGCAAGTCG
Found at i:144332652 original size:68 final size:64
Alignment explanation
Indices: 144332542--144332794 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
144332532 ATACAAATGG
** * * * *
144332542 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
144332605 ATTA
62 A-TA
* *
144332609 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
144332674 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
144332739 TA
63 TA
* * *
144332741 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
144332795 CGAACTATGG
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 23 0.15
67 33 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:144341967 original size:39 final size:39
Alignment explanation
Indices: 144341891--144342035 Score: 193
Period size: 39 Copynumber: 3.7 Consensus size: 39
144341881 GCTACTCGTT
*
144341891 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
*
144341931 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * *
144341970 CCAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* *
144342009 CAAATGCCTTCGGATCTTAGTCCGGAT
1 CAAATGCCTTCGG-GCTTAGCCCGGAT
144342036 ATAATCACTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 67 0.73
40 25 0.27
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:144348330 original size:93 final size:93
Alignment explanation
Indices: 144348218--144348388 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
144348208 GCCCATAAGT
* *
144348218 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
144348283 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
144348311 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
144348376 CGAGTTCGGATGC
66 CGAGTTCGGATGC
144348389 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:144348385 original size:46 final size:46
Alignment explanation
Indices: 144348210--144348385 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
144348200 TGTAACCCGC
* * *
144348210 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
144348256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
144348306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
144348349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
144348386 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:144350793 original size:30 final size:30
Alignment explanation
Indices: 144350749--144350837 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
144350739 CAAAGATAAC
144350749 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
144350778 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
144350808 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
144350838 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:144350797 original size:15 final size:15
Alignment explanation
Indices: 144350749--144350828 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
144350739 CAAAGATAAC
*
144350749 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
144350763 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
144350778 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
144350793 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
144350808 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
144350823 AAGAAA
1 AAGAAA
144350829 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:144350837 original size:15 final size:15
Alignment explanation
Indices: 144350760--144350837 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
144350750 AGAAAACCGA
144350760 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
144350775 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
144350789 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
144350804 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
144350820 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
144350835 ATA
1 ATA
144350838 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:144353841 original size:46 final size:46
Alignment explanation
Indices: 144353774--144353946 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
144353764 TGTAACCCGC
*
144353774 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
144353820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
144353870 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
144353911 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
144353947 ATGCCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:144353939 original size:91 final size:92
Alignment explanation
Indices: 144353782--144353951 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
144353772 GCCCATAAGT
*
144353782 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
144353847 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
144353875 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
144353939 GAGTTCGGATGCC
66 GAGTTCGGATGCC
144353952 AACCATCCTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:144357376 original size:40 final size:39
Alignment explanation
Indices: 144357230--144357376 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
144357220 ATAGCGACTC
* *
144357230 GCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTT
1 GCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
* *
144357270 GCACAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTC
1 GCACAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
* * * *
144357308 GCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTT
1 GCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT
*
144357348 AGCACAAAGCCTTCGGGACTTAGCCCGGA
1 -GCACAATGCCTTCGGGACTTAGCCCGGA
144357377 CATCATTCGA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
38 24 0.27
39 21 0.24
40 37 0.42
41 7 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
Found at i:144365323 original size:78 final size:80
Alignment explanation
Indices: 144365228--144365378 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
144365218 ATAGCGACTC
* * * *
144365228 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
144365290 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
144365306 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
144365371 AGCCCGGA
66 AGCCCGGA
144365379 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:144365378 original size:40 final size:39
Alignment explanation
Indices: 144365232--144365378 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
144365222 CGACTCACTC
* *
144365232 GCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTT
1 GCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
* *
144365272 GCACAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTC
1 GCACAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
* * * *
144365310 GCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTT
1 GCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT
*
144365350 AGCACAAAGCCTTCGGGACTTAGCCCGGA
1 -GCACAATGCCTTCGGGACTTAGCCCGGA
144365379 CATCATTCGA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
38 24 0.27
39 21 0.24
40 37 0.42
41 7 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTT
Found at i:144370735 original size:50 final size:48
Alignment explanation
Indices: 144370611--144370735 Score: 135
Period size: 48 Copynumber: 2.6 Consensus size: 48
144370601 AAGATGTGTG
* * * *
144370611 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCACCGGCACGAATAGAGGAGTC
* * * *
144370659 AGTGTAAGAGCATATTTGGGACATGGCACCGGCACGAATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCACCGGCACGAATA-GAG-GAGTC
*
144370708 TAGTGTAAGACCATGTCTGGGATATGGC
1 -AGTGTAAGACCATGTCTGGGACATGGC
144370736 GTCGACCTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
48 34 0.55
49 3 0.05
50 25 0.40
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCACCGGCACGAATAGAGGAGTC
Found at i:144373420 original size:28 final size:27
Alignment explanation
Indices: 144373376--144373484 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 27
144373366 CTGCACAATC
* *
144373376 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCCAT-CCG
* *
144373404 GATGTTTCGCACACTAAGTGCGATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
** *
144373432 GATACTTCGCACACTAAGTGCCATTTCG
1 GATGTTTCGCACACTAAGTGCCA-TCCG
*
144373460 GATGTTTCGCACACTAAGTGTCATC
1 GATGTTTCGCACACTAAGTGCCATC
144373485 ATCAATACTT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
27 5 0.08
28 59 0.89
29 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCCATCCG
Found at i:144373462 original size:56 final size:55
Alignment explanation
Indices: 144373384--144373534 Score: 173
Period size: 56 Copynumber: 2.7 Consensus size: 55
144373374 TCGATGTCTT
* * ** * *
144373384 GCACGCTAAGTGCTATACCGGATGTTTCGCACACTAAGTGCGATCCTCGATACTTC
1 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGC-ATCATCAATACTTC
144373440 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGTCATCATCAATACTTC
1 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTG-CATCATCAATACTTC
** *
144373496 ATACACT--GTGTCATTTCGGATGTCTT-GCACACTAAGTGC
1 GCACACTAAGTGCCATTTCGGATGT-TTCGCACACTAAGTGC
144373535 CGTTCGTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.01
54 27 0.32
55 2 0.02
56 53 0.63
57 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (55 bp):
GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCATCATCAATACTTC
Found at i:144379797 original size:30 final size:30
Alignment explanation
Indices: 144379763--144379823 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
144379753 TCCTTAACTC
144379763 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
144379793 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
144379823 A
1 A
144379824 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:144384071 original size:49 final size:49
Alignment explanation
Indices: 144383998--144384185 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
144383988 TGAGGTCACG
*
144383998 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
144384047 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
144384098 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
144384147 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
144384186 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 77 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:144384171 original size:100 final size:100
Alignment explanation
Indices: 144383993--144384180 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
144383983 TATTGTGAGG
*
144383993 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
144384058 AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
*
144384093 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
144384158 AAGTGCAGGCTACTATGTGTACC
66 AAGTGCAGACTACTATGCGTACC
144384181 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
Found at i:144388415 original size:40 final size:40
Alignment explanation
Indices: 144388351--144388442 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
144388341 ACTATGTTCA
*
144388351 GCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACA-AATG
1 GCACTAAGTGTGCGGTTTGAAATAGCTTCAGCTACATAA-G
* * *
144388391 GCACTAAGTGTGCGAG-TTGGAATAGCTTCAGCTATATGAG
1 GCACTAAGTGTGCG-GTTTGAAATAGCTTCAGCTACATAAG
144388431 GCACTAAGTGTG
1 GCACTAAGTGTG
144388443 TGATAACGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGGTTTGAAATAGCTTCAGCTACATAAG
Found at i:144397006 original size:29 final size:29
Alignment explanation
Indices: 144396974--144397104 Score: 181
Period size: 29 Copynumber: 4.5 Consensus size: 29
144396964 ATTTAAGCCC
* *** * *
144396974 GCACACATAGTGCCATACCCTTCGAGCTT
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
144397003 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
144397032 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
144397061 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
144397090 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
144397105 ATCTCGTCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:144404867 original size:29 final size:29
Alignment explanation
Indices: 144404843--144404936 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
144404833 TCGCACACCC
*
144404843 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
144404872 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
144404901 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
144404930 AGTGCCA
1 AGTGCCA
144404937 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:144404868 original size:58 final size:58
Alignment explanation
Indices: 144404806--144404936 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
144404796 ATTTAAGCCC
* * * *
144404806 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
144404864 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
144404922 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
144404937 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:144410605 original size:40 final size:40
Alignment explanation
Indices: 144410560--144410727 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
144410550 CGGAATATAA
144410560 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
144410600 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
144410640 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
144410680 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
144410720 CCGGATAT
1 CCGGATAT
144410728 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:144410710 original size:80 final size:80
Alignment explanation
Indices: 144410576--144410725 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
144410566 ATAACCACGT
* *
144410576 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
144410641 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
144410656 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
144410719 CCCGGAT
64 CCCGGAT
144410726 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:144418619 original size:40 final size:40
Alignment explanation
Indices: 144418574--144418741 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
144418564 CGGAATATAA
144418574 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
144418614 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
144418654 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
144418694 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
144418734 CCGGATAT
1 CCGGATAT
144418742 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:144418724 original size:80 final size:80
Alignment explanation
Indices: 144418590--144418739 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
144418580 ATAACCACGT
* *
144418590 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
144418655 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
144418670 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
144418733 CCCGGAT
64 CCCGGAT
144418740 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:144422960 original size:30 final size:30
Alignment explanation
Indices: 144422904--144422961 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
144422894 AAAAATCATG
* *
144422904 CTTTTACAAATTTGCATTTTTACCCCTAAC
1 CTTTCACAAATTTGCATATTTACCCCTAAC
*
144422934 CTTTCACATATTTGCA-ATTTAGCCCCTA
1 CTTTCACAAATTTGCATATTTA-CCCCTA
144422962 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (30 bp):
CTTTCACAAATTTGCATATTTACCCCTAAC
Found at i:144425476 original size:15 final size:14
Alignment explanation
Indices: 144425456--144425508 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
144425446 GACATGAAAA
144425456 CCAAGATAAAGAAGT
1 CCAAGATAAAGAA-T
*
144425471 CCAAGACAAAGAAAT
1 CCAAGATAAAG-AAT
144425486 CCAAGATAAAGCAAT
1 CCAAGATAAAG-AAT
144425501 CCAAGATA
1 CCAAGATA
144425509 CAATATCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 32 0.94
16 2 0.06
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (14 bp):
CCAAGATAAAGAAT
Found at i:144429277 original size:43 final size:43
Alignment explanation
Indices: 144429216--144429300 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
144429206 ATCTTATGTA
* *
144429216 TCGCATCCATTATGAACTCGAACCACTTAACGAGCTCAGATGG
1 TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGG
* * *
144429259 TCGCATCCATAATGAACTCGGACTACTCAACGAGCTCGGATG
1 TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGATG
144429301 CCACATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGG
Found at i:144441392 original size:50 final size:50
Alignment explanation
Indices: 144441317--144441555 Score: 277
Period size: 50 Copynumber: 4.8 Consensus size: 50
144441307 GTAAGATACT
* * *
144441317 GATGCCATGTCCTAGACTTGGTCTTACATTGGCTCTCATATATCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
*
144441367 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGAG-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCC
* * * * *
144441417 AATGCCATGTCTCAAACATGATCTTACACTAGCTCTCATATATCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
* * * * * *
144441467 GACGCCATGTCCCAGGCATGGTCTTACACTAGCTCTTAT-TAT-GATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
* * * *
144441515 GATGCCATGTTCGAAACATGGTCTTACACTGGCTCACATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT
144441556 TACCTTAGTA
Statistics
Matches: 159, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 35 0.22
49 5 0.03
50 118 0.74
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCC
Found at i:144445178 original size:28 final size:28
Alignment explanation
Indices: 144445115--144445184 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
144445105 AGTGAATCCA
* *
144445115 CACACTTAGTGCTATATATTTTCAGCTCG
1 CACACTTAGTGCTATAGA-TATCAGCTCG
144445144 CACACTTAGTGCTATAGA-ATCAAGCTCG
1 CACACTTAGTGCTATAGATATC-AGCTCG
144445172 CACACTTAGTGCT
1 CACACTTAGTGCT
144445185 GTACAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.50
29 17 0.45
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (28 bp):
CACACTTAGTGCTATAGATATCAGCTCG
Found at i:144450358 original size:40 final size:40
Alignment explanation
Indices: 144450292--144450442 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
144450282 AAATTGAATG
* *
144450292 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
144450331 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
144450371 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
144450411 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
144450443 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:144450456 original size:40 final size:40
Alignment explanation
Indices: 144450329--144450458 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
144450319 ATGCTGGAAA
* * *
144450329 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
144450369 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
144450409 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
144450449 TTATATCCGG
1 TTATATCCGG
144450459 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:144450457 original size:80 final size:79
Alignment explanation
Indices: 144450292--144450458 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
144450282 AAATTGAATG
*
144450292 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
144450357 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
144450371 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
144450434 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
144450451 ATATCCGG
1 ATATCCGG
144450459 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:144459332 original size:68 final size:67
Alignment explanation
Indices: 144459260--144459409 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
144459250 CATCATGTGT
* * * *
144459260 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
144459322 ATGTAG
62 ATGTAG
** * *
144459328 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
144459393 AG
66 AG
144459395 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
144459410 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:144459365 original size:64 final size:64
Alignment explanation
Indices: 144459284--144459467 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
144459274 AGACATTATG
* *
144459284 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
144459348 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
144459413 AA
63 AA
* * * *
144459415 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
144459468 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.