Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 18 of 230
Found at i:5015865 original size:4 final size:4
Alignment explanation
Indices: 5015856--5015896 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
5015846 CTTGTTTATG
5015856 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
5015897 AATGTTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:5017924 original size:20 final size:21
Alignment explanation
Indices: 5017896--5017943 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
5017886 TAATAATAAT
*
5017896 ACATGATAAAAGAAT-TAAAA
1 ACATAATAAAAGAATGTAAAA
*
5017916 ACATAATAAAATAATGTAAAA
1 ACATAATAAAAGAATGTAAAA
*
5017937 AAATAAT
1 ACATAAT
5017944 TATACAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (21 bp):
ACATAATAAAAGAATGTAAAA
Found at i:5019886 original size:22 final size:23
Alignment explanation
Indices: 5019845--5019887 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5019835 CAATAGTACT
*
5019845 AACATAATTTAAATTCAATTATA
1 AACATAATTAAAATTCAATTATA
*
5019868 AACATAA-TAAAATTGAATTA
1 AACATAATTAAAATTCAATTA
5019888 ACAAATAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (23 bp):
AACATAATTAAAATTCAATTATA
Found at i:5021760 original size:13 final size:13
Alignment explanation
Indices: 5021742--5021771 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5021732 AGCCCAAACT
5021742 CAATTACCCAACC
1 CAATTACCCAACC
5021755 CAATTACCCAACC
1 CAATTACCCAACC
5021768 CAAT
1 CAAT
5021772 AAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:5021926 original size:9 final size:9
Alignment explanation
Indices: 5021914--5021979 Score: 80
Period size: 9 Copynumber: 7.2 Consensus size: 9
5021904 ATAAAAAAAT
5021914 TTCGGGTAA
1 TTCGGGTAA
*
5021923 TTCGGGTATTT
1 TTCGGGTA--A
5021934 TTC-GGTAA
1 TTCGGGTAA
*
5021942 TTCGGTTAA
1 TTCGGGTAA
*
5021951 TTCGGTTAA
1 TTCGGGTAA
5021960 TTCGGGTAA
1 TTCGGGTAA
5021969 TTCGGGTAA
1 TTCGGGTAA
5021978 TT
1 TT
5021980 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:5027278 original size:73 final size:73
Alignment explanation
Indices: 5027201--5027374 Score: 195
Period size: 73 Copynumber: 2.4 Consensus size: 73
5027191 ACCGTTTATC
* * * * * *
5027201 GAGCTTTTGGGGATTTAGCGGTGTTTTTAAAGAAGCGCCACTAATAATCCTAAGCCAAACGGTGC
1 GAGCTTTTGGGGATTTAGCGGCGTTTCTAAAAAAGCGCCACTAAAAAACCTAAGCCAAACGGCGC
*
5027266 CGTTTCCT
66 CATTTCCT
* *** * *
5027274 GAGCTTTTTGGGATTTAGCGGCGTTTCTAAAAAAGCGCTGGTAAAAAACCTAAGCCTAACGGCGT
1 GAGCTTTTGGGGATTTAGCGGCGTTTCTAAAAAAGCGCCACTAAAAAACCTAAGCCAAACGGCGC
*
5027339 CATTTTCT
66 CATTTCCT
* *
5027347 GAGCTTTCGTGGATTTAGCGGCGCTTTC
1 GAGCTTTTGGGGATTTAGCGGCG-TTTC
5027375 GTTTTCTCAG
Statistics
Matches: 83, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
73 79 0.95
74 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (73 bp):
GAGCTTTTGGGGATTTAGCGGCGTTTCTAAAAAAGCGCCACTAAAAAACCTAAGCCAAACGGCGC
CATTTCCT
Found at i:5027629 original size:114 final size:115
Alignment explanation
Indices: 5027429--5027683 Score: 415
Period size: 114 Copynumber: 2.2 Consensus size: 115
5027419 AAAAATATAC
* * * * *
5027429 GCCCAATGGCACCGTTTTCTGAGC-TTTCAGGAATTTAGCGGCGTTTTTACTAAAGCGCCGCTAA
1 GCCCAACGGCACCGTTTTCTGAACTTTTAAGGAATTTAGCAGCATTTTTACTAAAGCGCCGCTAA
5027493 TGCTAAGGGCTTTAACGGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAA
66 TGCTAAGGGCTTTAACGGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAA
* *
5027543 GCCCAACGGCACTGTTTTTTGAACTTTTAAGG-ATTTAGCAGCATTTTTACTAAAGCGCCGCTAA
1 GCCCAACGGCACCGTTTTCTGAACTTTTAAGGAATTTAGCAGCATTTTTACTAAAGCGCCGCTAA
* *
5027607 TGCTAAGGGCTTTAGCGGCGTTTTGAAAAAAGCGCTGCAATAAATCCTAA
66 TGCTAAGGGCTTTAACGGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAA
5027657 GCCCAACGGCACCGTTTTCTGAACTTT
1 GCCCAACGGCACCGTTTTCTGAACTTT
5027684 CGGGGGATTT
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
114 123 0.95
115 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (115 bp):
GCCCAACGGCACCGTTTTCTGAACTTTTAAGGAATTTAGCAGCATTTTTACTAAAGCGCCGCTAA
TGCTAAGGGCTTTAACGGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAA
Found at i:5027745 original size:114 final size:112
Alignment explanation
Indices: 5027429--5027840 Score: 396
Period size: 114 Copynumber: 3.6 Consensus size: 112
5027419 AAAAATATAC
* * * * *
5027429 GCCCAATGGCACCGTTTTCTGAGCTTTCAGGAATTTAGCGGCGTTTTTACTAAAGCGCCGCTAAT
1 GCCCAACGGCACCGTTTTCTGAACTTTTAGGGATTTAGCGGCGTTTTTACGAAAGCGCCGCTAAT
* *
5027494 GCTAAGGGCTTTAACGGCGTTTTGAAAAAAGCGCCGCAATAAATCCTAA
66 GCT-A-GGCTTTAGCGGCGTTTTGAAAAAAGCGCTGCAATAAATCCTAA
* * * * * *
5027543 GCCCAACGGCACTGTTTTTTGAACTTTTAAGGATTTAGCAGCATTTTTACTAAAGCGCCGCTAAT
1 GCCCAACGGCACCGTTTTCTGAACTTTTAGGGATTTAGCGGCGTTTTTACGAAAGCGCCGCTAAT
5027608 GCTAAGGGCTTTAGCGGCGTTTTGAAAAAAGCGCTGCAATAAATCCTAA
66 GCT-A-GGCTTTAGCGGCGTTTTGAAAAAAGCGCTGCAATAAATCCTAA
** *
5027657 GCCCAACGGCACCGTTTTCTGAACTTTCGGGGGATTTAGCGGCGTTTTTTAAGAAAGCGCCGCTA
1 GCCCAACGGCACCGTTTTCTGAACTTT-TAGGGATTTAGCGGCG-TTTTTACGAAAGCGCCGCTA
* ** * * ** ** * **
5027722 ATTCT-TCCTTTAGTGGCATTTTTGGGAAAA-CGCCGTAAAAAAAAAAACTAA
64 ATGCTAGGCTTTAGCGGC-GTTTTGAAAAAAGCG-C-T-GCAATAAATCCTAA
* * * * * * * *
5027773 GTCCAACGGTACAGTTTTCGGAGCTTTTGGGGATTTAGCGGCGTTTTTAGGGAAGCGCCGCTAAT
1 GCCCAACGGCACCGTTTTCTGAACTTTTAGGGATTTAGCGGCGTTTTTACGAAAGCGCCGCTAAT
5027838 GCT
66 GCT
5027841 CATGGATTTA
Statistics
Matches: 251, Mismatches: 41, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
113 11 0.04
114 160 0.64
115 27 0.11
116 53 0.21
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (112 bp):
GCCCAACGGCACCGTTTTCTGAACTTTTAGGGATTTAGCGGCGTTTTTACGAAAGCGCCGCTAAT
GCTAGGCTTTAGCGGCGTTTTGAAAAAAGCGCTGCAATAAATCCTAA
Found at i:5028243 original size:21 final size:21
Alignment explanation
Indices: 5028182--5028243 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
5028172 ATCATTTTAT
* **
5028182 TTTAGGTTTTAGGGTTTAAAA
1 TTTAGGATTTAGGGTTTATGA
* ** *
5028203 TTTAAGATTTAATGTCTATGA
1 TTTAGGATTTAGGGTTTATGA
*
5028224 TTTAGGGTTTAGGGTTTATG
1 TTTAGGATTTAGGGTTTATG
5028244 GTATACTGTT
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (21 bp):
TTTAGGATTTAGGGTTTATGA
Found at i:5028539 original size:28 final size:28
Alignment explanation
Indices: 5028499--5028552 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
5028489 TGGGGTTTAC
*
5028499 GGTTTAGAGTTTA-GAGTTTTAGGTTTGG
1 GGTTTAGAGTTTATGA-TTTAAGGTTTGG
5028527 GGTTTAG-GATTTATGATTTAAGGTTT
1 GGTTTAGAG-TTTATGATTTAAGGTTT
5028553 ATGGTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.04
28 20 0.87
29 2 0.09
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.48
Consensus pattern (28 bp):
GGTTTAGAGTTTATGATTTAAGGTTTGG
Found at i:5029215 original size:114 final size:115
Alignment explanation
Indices: 5029014--5029224 Score: 334
Period size: 114 Copynumber: 1.8 Consensus size: 115
5029004 TTCTTGATAC
* * *
5029014 ATTACCGGCATTTTGTGAAGAAACGCCGCAAATTTCCTTTAACTATAACAAAGACGGTGCCGTTT
1 ATTACCGGCATTTTGCGAAGAAACGCCGCAAATTTCCTTTAACTAGAACAAAGACGGTGACGTTT
5029079 TGTTGTTTTCTTTTAGTGGCGCATTTTAAAAATGCCGCTAAAGGTGATGT
66 TGTTGTTTTCTTTTAGTGGCGCATTTTAAAAATGCCGCTAAAGGTGATGT
* * * * *
5029129 ATTACTGGCGTTTTGCGAATAAACGCCGCAAATTTCCTTTAAGT-GAACAAAGATGGTGACGTTT
1 ATTACCGGCATTTTGCGAAGAAACGCCGCAAATTTCCTTTAACTAGAACAAAGACGGTGACGTTT
*
5029193 TTTTGTTTTCTTTTAGTGGCGCATTTTAAAAA
66 TGTTGTTTTCTTTTAGTGGCGCATTTTAAAAA
5029225 CGCCAGAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 48 0.55
115 39 0.45
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (115 bp):
ATTACCGGCATTTTGCGAAGAAACGCCGCAAATTTCCTTTAACTAGAACAAAGACGGTGACGTTT
TGTTGTTTTCTTTTAGTGGCGCATTTTAAAAATGCCGCTAAAGGTGATGT
Found at i:5033436 original size:21 final size:21
Alignment explanation
Indices: 5033372--5033439 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
5033362 CTGCAACTTA
* * * *
5033372 AAGCAAAGGCCGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
* * *
5033393 AAGTAGAGGCTGTAGCAAAAG
1 AAGCAGAGGCTGCAGCAAGAG
*
5033414 AAGCAGAGGCTGCAGCTAGAG
1 AAGCAGAGGCTGCAGCAAGAG
5033435 AAGCA
1 AAGCA
5033440 ACGAGAGAAG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.37, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:5033911 original size:42 final size:42
Alignment explanation
Indices: 5033859--5034053 Score: 241
Period size: 42 Copynumber: 4.7 Consensus size: 42
5033849 AGCGCCGTGA
*
5033859 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCACT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCGCT
* * *
5033901 AAAGAACAAGATCTTTAGCGGCATTTTTCTCCATGCGCTGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCGCT
* * *
5033943 AAAGAACAAGATCTTTAGCGGCGTTTTTATTTAAGCGCCGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCGCT
* * * *
5033985 AAAGAACATGATCTTTAGCGGCATTTTT-TT-GTAGCGCTGCT
1 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCAT-GCGCCGCT
* * *
5034026 AAAGAACATGACCTTTATCGGCGTTTTT
1 AAAGAACAAGATCTTTAGCGGCGTTTTT
5034054 TTTGCAAACG
Statistics
Matches: 134, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 34 0.25
42 100 0.75
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCGCT
Found at i:5034066 original size:84 final size:84
Alignment explanation
Indices: 5033859--5034067 Score: 287
Period size: 84 Copynumber: 2.5 Consensus size: 84
5033849 AGCGCCGTGA
* * *
5033859 AAAGAACAAGATCTTTAGCGGCGTTTTTCTTCATGCGCCACTAAAGAACAAGATCTTTAGCGGCA
1 AAAGAACAAGATCTTTAGCGGCGTTTTTTTTCAAGCGCCGCTAAAGAACAAGATCTTTAGCGGCA
5033924 TTTTTCTCCATGCGCTGCT
66 TTTTTCTCCATGCGCTGCT
*
5033943 AAAGAACAAGATCTTTAGCGGCGTTTTTATTT-AAGCGCCGCTAAAGAACATGATCTTTAGCGGC
1 AAAGAACAAGATCTTTAGCGGCGTTTTT-TTTCAAGCGCCGCTAAAGAACAAGATCTTTAGCGGC
* **
5034007 ATTTTTTTGTA-GCGCTGCT
65 ATTTTTCTCCATGCGCTGCT
* * * *
5034026 AAAGAACATGACCTTTATCGGCGTTTTTTTTGCAAACGCCGC
1 AAAGAACAAGATCTTTAGCGGCGTTTTTTTT-CAAGCGCCGC
5034068 AAACGTTAGC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
82 3 0.03
83 33 0.30
84 73 0.66
85 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (84 bp):
AAAGAACAAGATCTTTAGCGGCGTTTTTTTTCAAGCGCCGCTAAAGAACAAGATCTTTAGCGGCA
TTTTTCTCCATGCGCTGCT
Found at i:5034185 original size:21 final size:21
Alignment explanation
Indices: 5034141--5034185 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5034131 TTTAGTGGCG
* **
5034141 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAAC
5034162 CTAAAAAACGCCGCTAAAAAC
1 CTAAAAAACGCCGCTAAAAAC
5034183 CTA
1 CTA
5034186 TTCTGGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.29, G:0.16, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAAC
Found at i:5043069 original size:25 final size:25
Alignment explanation
Indices: 5043012--5043080 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
5043002 TATTTTAAGT
*
5043012 GTTTTCAGTATAGT-CTATCTATAGTA
1 GTTTT-AGTATA-TACTATCTATAGCA
**
5043038 GCATTAGTATATACTATCTATAGCA
1 GTTTTAGTATATACTATCTATAGCA
* *
5043063 GTTTTAGGATATATTATC
1 GTTTTAGTATATACTATC
5043081 AAAGACAGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 1 0.03
25 31 0.89
26 3 0.09
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (25 bp):
GTTTTAGTATATACTATCTATAGCA
Found at i:5044631 original size:16 final size:16
Alignment explanation
Indices: 5044610--5044642 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5044600 GAATAAAATC
5044610 AAAATAAGTA-ATATAT
1 AAAATAA-TATATATAT
5044626 AAAATAATATATATAT
1 AAAATAATATATATAT
5044642 A
1 A
5044643 TGTTAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATAATATATATAT
Found at i:5053116 original size:23 final size:22
Alignment explanation
Indices: 5053083--5053132 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
5053073 ATATTAAGTT
5053083 TACATATAAATATGTAA-AATAA
1 TACATATAAATATG-AATAATAA
*
5053105 TACATAATAAATTTGAATAATAA
1 TACAT-ATAAATATGAATAATAA
5053128 TACAT
1 TACAT
5053133 GAAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
TACATATAAATATGAATAATAA
Found at i:5053185 original size:24 final size:24
Alignment explanation
Indices: 5053100--5053189 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 24
5053090 AAATATGTAA
* * *
5053100 AATAATACATAATAAATTT-GAAT
1 AATAATATATGATAAATTTAAAAT
* *
5053123 AATAATACATGA-AAACTTAAAAT
1 AATAATATATGATAAATTTAAAAT
5053146 AAT--TATATGATAAATTTAAAAT
1 AATAATATATGATAAATTTAAAAT
*
5053168 AATAATATGTGATAAATTTAAA
1 AATAATATATGATAAATTTAAA
5053190 CAAAATTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 6 0.11
22 18 0.32
23 17 0.30
24 16 0.28
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (24 bp):
AATAATATATGATAAATTTAAAAT
Found at i:5054910 original size:143 final size:143
Alignment explanation
Indices: 5054661--5055786 Score: 1491
Period size: 143 Copynumber: 7.9 Consensus size: 143
5054651 AATCTACCCT
* * * *
5054661 ACTGCAACGCCAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCTGCTGTAACTTTAGGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * * * * *
5054726 AGGCTGATGGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTCACCATAACTTGTACC
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
* *
5054791 TTTAATCTATTCT
131 TTTAATCTGTTCC
** *
5054804 ACTGCAACGCCAGAAAAATAAGATTCGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAGGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * * *
5054869 AGGCTGGTGGCTTCAATCTGTTCCACTACAACCTT-AGGAAGATAAGATCCGCCATAATTTGTAG
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAA-CTTCAGGAAGATAAGATTCGCCATAATTTGTAG
5054933 CTTTAATCTGTTCC
130 CTTTAATCTGTTCC
** * * * * * * *
5054947 ACTGCAAAACCAGGAAAATAAGATTTGTTGTCTTAAGTTTGCTCCACTGCAACTTCAGAGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * *
5055012 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTGCCATAATTTGTAAC
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
5055077 TTTAATCTGTTCC
131 TTTAATCTGTTCC
* * * * * * * * * *
5055090 ATTGCAACGTCAGGGAAATAAGAATCGTTGTCTTCAGCCTGTTCCGTTACAACTTTATGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* *
5055155 AGGCTGTTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGC
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
*
5055220 TTTAATCTATTCC
131 TTTAATCTGTTCC
** * * *
5055233 ACTATAATGCCAGGGAAA-ATAGATTCGCTGTCTTCAGTCTGCTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACGCCAGGGAAATA-AGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGAT
* *
5055297 AATGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATAATTTGTAG
65 AAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAG
*
5055362 CTTTAATCTGTTTC
130 CTTTAATCTGTTCC
* * * * *
5055376 ACTACAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTACTCTGCTACAACTTCAGGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * *
5055441 AGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAATATAAGATTTGCCATAATTTGTAGC
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
*
5055506 TTTAATTTGTTCC
131 TTTAATCTGTTCC
* * * * * *
5055519 ACTGCAACGCCAGAGAAATAAGATTCGCTATCTTCAGTCTTCTCCGTTGCACCTTTAGGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * *
5055584 AGGCTGATGGCTTCAATCTGTTCCACTACAACTTCAGGAAGACAAGATTCGCCATAATTTGTAGC
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
*
5055649 TTTAATCTGTTTC
131 TTTAATCTGTTCC
** * * * * *
5055662 ACTATAACGCTAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATA
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * *
5055727 AGGCTGATGGCTTCAATCTACTCCACTGTAACTTCAGGAAGATAAGATTCACCATAATTT
66 AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTT
5055787 ATAATCCATC
Statistics
Matches: 852, Mismatches: 127, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
142 4 0.00
143 844 0.99
144 4 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
ACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
AGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGC
TTTAATCTGTTCC
Found at i:5060135 original size:831 final size:830
Alignment explanation
Indices: 5056954--5060265 Score: 5279
Period size: 829 Copynumber: 4.0 Consensus size: 830
5056944 CCCTTTTCAG
* * * * *
5056954 GTTTTCAACTCAAATCCCTTTTGGTCTTAAGGCGCCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
1 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
*** * *
5057019 TTTTACTTTTTTCATTTATTTTTTTAAACTCAAAGTGCCCTTTGCGGGTTTTCA-CTTGGTC-TT
66 TTTTACTTTTTTCATTTATTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTTT
* * * * * *
5057082 TTTTTAAGGACTCAAGGAACCCTTTACGGGTTTTTCACCTTGGT-CCTTCTCTTTCTTCAGGCAA
131 TTTTTAAGGACTCAAGGTACCCTTTGCGGG-CTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGA
* * * *
5057146 AATATTTCTTGACTGAATTTGAGTTTACAGGATTAGGCAAGTTTTAACCATCCAACTCACTCAAG
195 AGTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAG
* * * *
5057211 AT-AATGCTCCTTCAGAAAATGTCTTCTTGACGACATAAGGTCCTTCTCA-TTTGACATTCATTT
260 ATCAATGCTCCTCCAGAAAAGGCCTTCTTGACGACATAAAGTCCTTCTCAGTTTGACATTCATTT
* * * *
5057274 CCCTCTAAAATATTTTTGTAGAGGAAAGATCTTTTTCAACACCAAGTCCCTATCGTGGAATTCTC
325 CCCTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
* * * * * *
5057339 TAGGATGAACCTTTTTGTTGTAGGCTCGCATCATTCGTTTCTGGTACACTTGATCGTGATGAATA
390 TAGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTACACGTGATCGTGATGAATA
* * * * *
5057404 GCTTTTAGCTTTTTTCTTTCTATCA-AGTTCAATTGATCATATCGAGATTGGATCCATTCGACCT
455 ACTTTTAGCCTTTTTCTTTCTATCAGA-TTCAACTGATCATATCGAGATTGGATCTATTCGGCCT
* ** * * * *
5057468 CATCCATATTTAATTCAGCTAATACCTGGAGAGAAGGGATTTCAACATCAATAAGTAAAACTACC
519 CATCCATCTTTAATTCAGCTAATACCCAGAGAGAAGAGATTTCAACTTCAATGAGTAAAACTGCC
* * * *
5057533 TCTATCCCGTAAACCAGGGAAACATGTGTTGCCACGGTAGAAGTCCTGGTAGATGTTCGATAAGC
584 TCCATCCCGTAAACCAGAGAAAAATGTGTTGCCAC-GTAGAAGTCCTGATAGATGTTCGATAAGC
* * * * *
5057598 AAGGAGATCAAATGGTAATTTCTCATGCTAGTCATTGTAAGTTTCAGTCATTTTTCCCACAATTT
648 AATGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCACAATTT
* * * * *
5057663 TCTTGATATTTTTGTTGGCCGCCTCCAATGCACCATTTATTTTTGGGTAATACGGTGACAATTTA
713 TCTTGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTA
* *
5057728 TAGTGTCTGATTTTGAATTGATTATAGACCTCAGCTATTGTACTATTGTTTAA
778 TAGTGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTACTATTGTTTAA
* * * *
5057781 GTTTTCAACTCAAATCCATTTTGGTTTCAAGGCGCCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
1 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
* *
5057846 TTTTACTTTTTTC----ATTTTTTTAAACTCAAAACACCCTTTACGGTTTTTTACCTTAGTCTTT
66 TTTTACTTTTTTCATTTATTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTTT
* * *
5057907 TCTTTAAGGACTCAAGGTAACCTTTGCGGGTTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGAA
131 TTTTTAAGGACTCAAGGTACCCTTTGCGGGCTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGAA
5057972 GTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAGA
196 GTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAGA
*
5058037 TCAATGCTCCTACAGAAAAGGCCTTCTTGACGACAT-AAGCTCCTTCTCAGTTTGACATTCATTT
261 TCAATGCTCCTCCAGAAAAGGCCTTCTTGACGACATAAAG-TCCTTCTCAGTTTGACATTCATTT
* * *
5058101 CCCTCTAAAATCTTTTTCTAGAAGGAATATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
325 CCCTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
* *
5058166 TGGGACGAATCTTTTTGTTATAGGCTCGCATCATTCGTTTTTGGTACACGTGATCGTGATGAATA
390 TAGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTACACGTGATCGTGATGAATA
5058231 ACTTTTAGCCTTTTTCTTTCTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
455 ACTTTTAGCCTTTTTCTTTCTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
* *
5058296 ATCCATCTTTAATTTAGCTAATACCCAGAGAGAAGATATTTCAACTTCAATGAGTAAAACTGCCT
520 ATCCATCTTTAATTCAGCTAATACCCAGAGAGAAGAGATTTCAACTTCAATGAGTAAAACTGCCT
* *
5058361 CCATCCCGTAAACTAGAGAAAAATGTGTTGCCACGTAGAAGTCCTGATAGATGTTCGATAAGGAA
585 CCATCCCGTAAACCAGAGAAAAATGTGTTGCCACGTAGAAGTCCTGATAGATGTTCGATAAGCAA
*
5058426 TGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTACCCA-ATATTTT
650 TGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCACA-ATTTT
*
5058490 CTTGATATTTTTGTTGGCCGCTTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTAT
714 CTTGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTAT
* *
5058555 AGTGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTATTGTTGTTTAA
779 AGTGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTACTATTGTTTAA
5058607 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
1 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
5058672 TTTTACTTTTTTCATTTATTTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTT
66 TTTTACTTTTTTCATTTA-TTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTT
*
5058737 TTTTTTAAGGACTCAAGGTGCCCTTTGCGGGC--TCACCTTGGTCCCTTCTCCTTCTTTAGGCGA
130 TTTTTTAAGGACTCAAGGTACCCTTTGCGGGCTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGA
5058800 AGTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAG
195 AGTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAG
* *
5058865 ATCAATGCTCCTCTAGAAAAGGCCTTCTTGACGACATAAAGTCCTTCTCAGTTTGGCATTCATTT
260 ATCAATGCTCCTCCAGAAAAGGCCTTCTTGACGACATAAAGTCCTTCTCAGTTTGACATTCATTT
*
5058930 CCCTCTAAAATCTTTTTGTAGAGGGAAGACCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
325 CCCTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
*
5058995 TAGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTGCACGTGATCGTGATGAATA
390 TAGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTACACGTGATCGTGATGAATA
*
5059060 ACTTTTAGCCTTTTTCTTTTTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
455 ACTTTTAGCCTTTTTCTTTCTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
* *
5059125 ATCCATCTTTAATTTAGCTAATACCCAGAGAGAAGATATTTCAACTTCAATGAGTAAAACTGCCT
520 ATCCATCTTTAATTCAGCTAATACCCAGAGAGAAGAGATTTCAACTTCAATGAGTAAAACTGCCT
* *
5059190 CCATCCCGTAAACTAGAGAAAAATGTGTTGCCACGTAGAAGTCCTGATAGATGTTCGATAAGGAA
585 CCATCCCGTAAACCAGAGAAAAATGTGTTGCCACGTAGAAGTCCTGATAGATGTTCGATAAGCAA
5059255 TGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCA-ATATTTT
650 TGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCACA-ATTTT
* *
5059319 CTTGATATTTTTGTTGGCCGCTTCCAACGTACCATTCATTTCTAGGCAATACGGTGACAATTTAT
714 CTTGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTAT
* * *
5059384 AGTGTCTAATTTTGAATTGATTACAGACCTCAGCTATCGTATTGTTGTTTAA
779 AGTGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTACTATTGTTTAA
5059436 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
1 GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
* *
5059501 TTTTACTTTTTTAATTTATTTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTTGTCTT
66 TTTTACTTTTTTCATTTA-TTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTT
* *
5059566 TTTTTTAAGGACTCAAGGTGCCCTTTGCGGGCTTTCATCTTGGTCCCTTCTCCTTCTTTAGGCGA
130 TTTTTTAAGGACTCAAGGTACCCTTTGCGGGCTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGA
5059631 AGTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAG
195 AGTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAG
* * * *
5059696 ATCAATGCTCCTCCAGAAAAGGCCTTCTTGATGACATAAAATTCTTCTCAGTTTGGCATTCATTT
260 ATCAATGCTCCTCCAGAAAAGGCCTTCTTGACGACATAAAGTCCTTCTCAGTTTGACATTCATTT
* *
5059761 CACTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTATC
325 CCCTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTC
*
5059826 TGGGACGAATCTTTTTGTTATAGGCTCGCATCATT-ATTTTTGGTACACGTGATCGTGATGAATA
390 TAGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTACACGTGATCGTGATGAATA
*
5059890 ACTTTTAGCCTTTTTCTTTCTATCAGGTTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
455 ACTTTTAGCCTTTTTCTTTCTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTC
* * *
5059955 ATCCATCTTTAATTCAGCTAATTCCCAAAGAGAAGAGATTTCAACTTCAATGAGTAAAATTGCCT
520 ATCCATCTTTAATTCAGCTAATACCCAGAGAGAAGAGATTTCAACTTCAATGAGTAAAACTGCCT
* * *
5060020 CTATCCCGTAAACCAGAGAAAAAGGTGTTGCCACGGTAAAAGTCCTGATAGATGTTCGATAAGCA
585 CCATCCCGTAAACCAGAGAAAAATGTGTTGCCAC-GTAGAAGTCCTGATAGATGTTCGATAAGCA
* * *
5060085 ATGAGATCAAATGGTAATTTCTCATGCCTGTCCTTGTAAGTTTCAGTCATTTTTCCCACAATTTT
649 ATGACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCACAATTTT
* * *
5060150 CTTGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTGGGCAATACTGTGACAAGTTAT
714 CTTGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTAT
* * * *
5060215 AGTGTTTGATTTTGAATTAATTATAGATCTCAGCTATCGTACTATTGTTTA
779 AGTGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTACTATTGTTTA
5060266 GGTTCAATGC
Statistics
Matches: 2330, Mismatches: 137, Indels: 32
0.93 0.05 0.01
Matches are distributed among these distances:
823 31 0.01
824 19 0.01
825 111 0.05
826 306 0.13
827 350 0.15
828 1 0.00
829 809 0.35
830 186 0.08
831 516 0.22
832 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (830 bp):
GTTTTCAAATCAAATCCATTTTGGTCTCAAAGCACCCTTTGTGGGTTTTCACCTTGGCCTCTCCA
TTTTACTTTTTTCATTTATTTTTTTAAACTCAAAACACCCTTTGCGGGTTTTTACCTTAGTCTTT
TTTTTAAGGACTCAAGGTACCCTTTGCGGGCTTTCACCTTGGTCCCTTCTCCTTCTTTAGGCGAA
GTATTTCTTGACTGAATCTGAGTTTACAGGATTAGGCAAGTTTTTACCATCCAACTCACTTAAGA
TCAATGCTCCTCCAGAAAAGGCCTTCTTGACGACATAAAGTCCTTCTCAGTTTGACATTCATTTC
CCTCTAAAATCTTTTTGTAGAGGGAAGATCTTTTTCAACACCAGGTCCCCATCGTGGAATTCTCT
AGGACGAATCTTTTTGTTATAGGCTCGCATCATTCATTTTTGGTACACGTGATCGTGATGAATAA
CTTTTAGCCTTTTTCTTTCTATCAGATTCAACTGATCATATCGAGATTGGATCTATTCGGCCTCA
TCCATCTTTAATTCAGCTAATACCCAGAGAGAAGAGATTTCAACTTCAATGAGTAAAACTGCCTC
CATCCCGTAAACCAGAGAAAAATGTGTTGCCACGTAGAAGTCCTGATAGATGTTCGATAAGCAAT
GACATCAAATGGTAATTTCTCATGCCAGTCCTTGCAAGTTTCAGTCATTTTTCCCACAATTTTCT
TGATATTTTTGTTGGCCGCCTCCAACGCACCATTCATTTCTAGGCAATACGGTGACAATTTATAG
TGTCTGATTTTGAATTGATTACAGACCTCAGCTATCGTACTATTGTTTAA
Found at i:5060629 original size:22 final size:22
Alignment explanation
Indices: 5060577--5060637 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
5060567 TCATTTTTCT
* * *
5060577 TTTCCTTTTCTTTTTCCTTCTC
1 TTTCCTTTTCTTTTTTCATCAC
*
5060599 ATTCCTTTTCTTTTTTCATCAC
1 TTTCCTTTTCTTTTTTCATCAC
*
5060621 TTTCATTTTCATTTTTT
1 TTTCCTTTTC-TTTTTT
5060638 TTGAAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTCCTTTTCTTTTTTCATCAC
Found at i:5067063 original size:9 final size:9
Alignment explanation
Indices: 5067049--5067079 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5067039 GTTAAATGAA
5067049 TCGAGTTAT
1 TCGAGTTAT
*
5067058 TCGAGTTAA
1 TCGAGTTAT
5067067 TCGAGTTAT
1 TCGAGTTAT
5067076 TCGA
1 TCGA
5067080 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:5067150 original size:9 final size:9
Alignment explanation
Indices: 5067133--5067169 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
5067123 TGAGTTTTCG
5067133 AATTCGAAT
1 AATTCGAAT
*
5067142 AACTCGAAT
1 AATTCGAAT
5067151 AATTCGAAT
1 AATTCGAAT
5067160 AATTCGAAT
1 AATTCGAAT
5067169 A
1 A
5067170 TCAAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:5068182 original size:5 final size:5
Alignment explanation
Indices: 5068172--5068197 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5068162 CTCGAAAATT
5068172 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
5068198 CGAATGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:5070521 original size:45 final size:45
Alignment explanation
Indices: 5070432--5070521 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
5070422 TACTATGTGA
* *
5070432 ACCGAACATCATTGATTAATAAGGTGGTTGCTCTGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTCTGTGATGATTCC
* * *
5070477 ACCGGACATCATTGATTAATAAAGTGGTTGCTCTGTTATTATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTCTGTGATGATTCC
5070522 GAAGTGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTCTGTGATGATTCC
Found at i:5070623 original size:38 final size:37
Alignment explanation
Indices: 5070579--5070651 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
5070569 ATGTACGGAA
5070579 TTGAATTGAATAT-CGACTTAGAAA-TGAAAAAGTGAATT
1 TTGAATTGAAT-TGCGA-TT-GAAAGTGAAAAAGTGAATT
*
5070617 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAA
5070652 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 15 0.47
38 13 0.41
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAATT
Found at i:5076675 original size:23 final size:23
Alignment explanation
Indices: 5076649--5076724 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
5076639 ATAAGTGCCT
5076649 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5076672 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5076695 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5076718 CACTGAT
1 CACTGAT
5076725 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:5082127 original size:45 final size:43
Alignment explanation
Indices: 5081937--5082409 Score: 266
Period size: 45 Copynumber: 10.6 Consensus size: 43
5081927 ATTTTAAACC
* * * *
5081937 GCTCCACTACAACTTCAGGGAGATAAGGTT-TGAT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGT-ATCTTCAATCT
* * *
5081978 GCTCTACTGTAACTTCAGAGAGATAAGATATGTAGCTCGTCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGTA-----TCTTCAATCT
* * * * *
5082027 GCTCTACTGCAACTTTAGAGAGATAAGATTGATTTATCTTTAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG---TATCTTCAATCT
* *
5082073 ACTGCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TATCTTCAATCT
* * * **
5082118 GCCCCACTGCAACTTTAGGGGGATAAGATTAGTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAATCT
* * * * *
5082162 GATCTACTGCAACTTCAAGAAGATAAGATTG-AT-TT-AACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCT
* * * *
5082202 GCTCCACTGCAACTTCAAGGAGATAAGGTT-TGAT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGT-ATCTTCAATCT
* **
5082243 GCTCTACTGCAACTTCAGATAGATAAGATATGTTATTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-----TAT--CTTCAATCT
* * *
5082294 GTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTCCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TATCTTCAATCT
* * *
5082339 GCTCTATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA-CTT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATC-T
* * *
5082383 GC-CTCACTACAACTTTAGGGAGGTAAG
1 GCTC-CACTGCAACTTCAGGGAGATAAG
5082410 GTTTGCTATG
Statistics
Matches: 333, Mismatches: 69, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
40 30 0.09
41 56 0.17
42 3 0.01
43 4 0.01
44 63 0.19
45 69 0.21
46 31 0.09
47 9 0.03
48 4 0.01
49 31 0.09
50 1 0.00
51 31 0.09
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCT
Found at i:5082172 original size:44 final size:45
Alignment explanation
Indices: 5082077--5082409 Score: 135
Period size: 44 Copynumber: 7.5 Consensus size: 45
5082067 TAGTCTACTG
* *
5082077 CACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCCC
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATCTGACC
* * * *
5082122 CACTGCAACTTTAGGGGGATAAGA-TTAG-TGGCTTCAATCTGATC
1 CACTGCAACTTCAGGGAGATAAGACTT-GCTAGCTTCAATCTGACC
* * * * *
5082166 TACTGCAACTTCAAGAAGATAAGA-TTG--A--TTTAACCTG-CTC
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATCTGAC-C
* ** * *
5082206 CACTGCAACTTCAAGGAGATAAGGTTTGATA---T-GATCTG-CTC
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATCTGAC-C
* ** * **
5082247 TACTGCAACTTCAGATAGATAAGA-TATGTTATTTATAGCTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGACT-TG------CTAGCTTCAATCTGACC
* * * *
5082298 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTCCAATCTG-CTC
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATCTGAC-C
* * *
5082343 TATTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAA-CTTG-CC
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATC-TGACC
* * *
5082386 TCACTACAACTTTAGGGAGGTAAG
1 -CACTGCAACTTCAGGGAGATAAG
5082410 GTTTGCTATG
Statistics
Matches: 221, Mismatches: 46, Indels: 43
0.71 0.15 0.14
Matches are distributed among these distances:
40 30 0.14
41 31 0.14
42 1 0.00
43 4 0.02
44 63 0.29
45 59 0.27
47 3 0.01
50 1 0.00
51 28 0.13
52 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAATCTGACC
Found at i:5082220 original size:40 final size:40
Alignment explanation
Indices: 5082167--5082271 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 40
5082157 AATCTGATCT
*
5082167 ACTGCAACTTCAAGAAGATAAGATTGATTTAACCTGCTCC
1 ACTGCAACTTCAAGAAGATAAGATTGATATAACCTGCTCC
* * * * *
5082207 ACTGCAACTTCAAGGAGATAAGGTTTGATATGATCTGCTCT
1 ACTGCAACTTCAAGAAGATAA-GATTGATATAACCTGCTCC
5082248 ACTGCAACTTC-AGATAGATAAGAT
1 ACTGCAACTTCAAGA-AGATAAGAT
5082272 ATGTTATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 24 0.44
41 31 0.56
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (40 bp):
ACTGCAACTTCAAGAAGATAAGATTGATATAACCTGCTCC
Found at i:5082252 original size:41 final size:40
Alignment explanation
Indices: 5082157--5082271 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
5082147 TAGTGGCTTC
* *
5082157 AATCTGATCTACTGCAACTTCAAGAAGATAAGATTGATTT
1 AATCTGCTCTACTGCAACTTCAAGAAGATAAGATTGATAT
* * * *
5082197 AACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGATAT
1 AATCTGCTCTACTGCAACTTCAAGAAGATAA-GATTGATAT
*
5082238 GATCTGCTCTACTGCAACTTC-AGATAGATAAGAT
1 AATCTGCTCTACTGCAACTTCAAGA-AGATAAGAT
5082272 ATGTTATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 31 0.50
41 31 0.50
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (40 bp):
AATCTGCTCTACTGCAACTTCAAGAAGATAAGATTGATAT
Found at i:5083042 original size:45 final size:46
Alignment explanation
Indices: 5082971--5083061 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
5082961 GCTCGAAATG
*
5082971 AATAAATAAATCAAGATAGCAAATTTTG-CTAGAATAC-AAAATGAA
1 AATAAATAAATCAAGATAGCAAATTTTGTC-AAAATACAAAAATGAA
* * **
5083016 AATAAATTAATCAAGATGGCGTATTTTGTCAAAATACAAAAATGAA
1 AATAAATAAATCAAGATAGCAAATTTTGTCAAAATACAAAAATGAA
5083062 TAAGATGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 30 0.77
46 9 0.23
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (46 bp):
AATAAATAAATCAAGATAGCAAATTTTGTCAAAATACAAAAATGAA
Found at i:5084334 original size:17 final size:17
Alignment explanation
Indices: 5084314--5084347 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5084304 ATAATAATAA
*
5084314 AAAATATATATATGTAT
1 AAAATATATACATGTAT
5084331 AAAATATATACATGTAT
1 AAAATATATACATGTAT
5084348 TTACAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (17 bp):
AAAATATATACATGTAT
Found at i:5084390 original size:25 final size:25
Alignment explanation
Indices: 5084360--5084415 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
5084350 ACAAAAGTTT
* * *
5084360 AAAAATATATGCATATATTATATAA
1 AAAAATATATACATATACTACATAA
* *
5084385 AAAAATGTATATATATACTACATAA
1 AAAAATATATACATATACTACATAA
5084410 AAAAAT
1 AAAAAT
5084416 GTGTGTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAAATATATACATATACTACATAA
Found at i:5084441 original size:3 final size:3
Alignment explanation
Indices: 5084433--5084471 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
5084423 TAAATATAGA
*
5084433 AAT AAT AAT AAT AAT GAT AAT AAAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
5084472 GATACAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5084452 original size:12 final size:12
Alignment explanation
Indices: 5084437--5084475 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
5084427 TATAGAAATA
5084437 ATAATAATAATG
1 ATAATAATAATG
5084449 ATAATAAATAAT-
1 ATAAT-AATAATG
5084461 ATAATAATAATG
1 ATAATAATAATG
5084473 ATA
1 ATA
5084476 CAATGACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
13 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:5084452 original size:15 final size:14
Alignment explanation
Indices: 5084434--5084471 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
5084424 AAATATAGAA
5084434 ATAATAATAATAAT
1 ATAATAATAATAAT
5084448 GATAAT-A-AATAAT
1 -ATAATAATAATAAT
5084461 ATAATAATAAT
1 ATAATAATAAT
5084472 GATACAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 7 0.33
14 4 0.19
15 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:5088802 original size:24 final size:24
Alignment explanation
Indices: 5088768--5088817 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5088758 TGTGGAATTT
*
5088768 AATGCACATG-ATGCAATGAAATGC
1 AATGCAAATGAATGCAATG-AATGC
*
5088792 AATGCAAATGAATGGAATGAATGC
1 AATGCAAATGAATGCAATGAATGC
5088816 AA
1 AA
5088818 AAAGAGGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (24 bp):
AATGCAAATGAATGCAATGAATGC
Found at i:5089863 original size:22 final size:22
Alignment explanation
Indices: 5089844--5089895 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
5089834 AATGGCTAAG
* *
5089844 AGCCATAAACAGCATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
5089866 AGCTATAAACAGAATGGCTACA
1 AGCCATAAACAGAATAGCTACA
5089888 AGCCATAA
1 AGCCATAA
5089896 GTACAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:5089987 original size:32 final size:32
Alignment explanation
Indices: 5089887--5090088 Score: 185
Period size: 32 Copynumber: 6.4 Consensus size: 32
5089877 GAATGGCTAC
* * * * *
5089887 AAGCCATAAGT-ACAGTAATATGATTGGCTCA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* * * * **
5089918 AAGCAATCAGTAGCAGTGATATGATCGTTACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* *
5089950 TAGCCATCAGTAACGGTAATATGATCGACCCA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* * * *
5089982 AAGCCATCAATAACGGTAACATAAT-TAGCACA
1 AAGCCATCAGTAACGGTAATATGATCGA-CACA
* *
5090014 AAGCCATCAATAACGGTAATATGATTGACACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
*
5090046 AAGCCATCAGTAACGGTAATATGATC-AGACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
*
5090077 AAGCCATTAGTA
1 AAGCCATCAGTA
5090089 GCATCACAGC
Statistics
Matches: 139, Mismatches: 29, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
31 25 0.18
32 113 0.81
33 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGACACA
Found at i:5090264 original size:11 final size:11
Alignment explanation
Indices: 5090248--5090338 Score: 65
Period size: 11 Copynumber: 7.7 Consensus size: 11
5090238 AATCAGTCGT
*
5090248 ACAAATCACAC
1 ACAAATCACAG
*
5090259 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
5090272 ACCAATCACAG
1 ACAAATCACAG
*
5090283 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
5090296 ACCAATCACAG
1 ACAAATCACAG
*
5090307 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
5090320 ACCAATCACAG
1 ACAAATCACAG
5090331 ACAAATCA
1 ACAAATCA
5090339 ACCATTTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
11 35 0.56
13 27 0.44
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:5090278 original size:24 final size:24
Alignment explanation
Indices: 5090238--5090367 Score: 179
Period size: 24 Copynumber: 5.4 Consensus size: 24
5090228 CCATGCTCAG
* * *
5090238 AATCAGTCGTACAAATCACACACA
1 AATCAGTCATACCAATCACAGACA
5090262 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACCAATCACAGACA
5090286 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACCAATCACAGACA
5090310 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACCAATCACAGACA
** ***
5090334 AATCAACCATTTAAATCACAGACA
1 AATCAGTCATACCAATCACAGACA
*
5090358 AATTAGTCAT
1 AATCAGTCAT
5090368 TTACATTACG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 95 1.00
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (24 bp):
AATCAGTCATACCAATCACAGACA
Found at i:5090588 original size:27 final size:27
Alignment explanation
Indices: 5090533--5090593 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
5090523 ACCCTCTAGA
*
5090533 GGCATTATAGTCATTATACCCCACTGG
1 GGCATTATAGTCATTATACCCCACAGG
* *
5090560 GGCATTATAGTCATTTTACCCTACAGG
1 GGCATTATAGTCATTATACCCCACAGG
*
5090587 GGTATTA
1 GGCATTA
5090594 CGATTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGCATTATAGTCATTATACCCCACAGG
Found at i:5094906 original size:25 final size:25
Alignment explanation
Indices: 5094849--5094917 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
5094839 TATTTTAAGT
** **
5094849 GTTTTCAGTATAGCCTATCTATAGTA
1 GTTTT-AGTATATACTATCTATAACA
*
5094875 GTATTAGTATATACTATCTATAACA
1 GTTTTAGTATATACTATCTATAACA
*
5094900 GTTTTAGGATATACTATC
1 GTTTTAGTATATACTATC
5094918 AAAGACAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (25 bp):
GTTTTAGTATATACTATCTATAACA
Found at i:5096732 original size:23 final size:22
Alignment explanation
Indices: 5096699--5096748 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
5096689 ATATTAAGTT
*
5096699 TACATATAAATATGTAGAATAA
1 TACATATAAATATGAAGAATAA
* *
5096721 TACATAATAAATTTGAATAATAA
1 TACAT-ATAAATATGAAGAATAA
5096744 TACAT
1 TACAT
5096749 GAAAACTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
TACATATAAATATGAAGAATAA
Found at i:5096802 original size:24 final size:22
Alignment explanation
Indices: 5096727--5096805 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
5096717 ATAATACATA
*
5096727 ATAAATTTGAATAATAAT-ACATG
1 ATAAATTT-AA-AATAATAATATG
* * *
5096750 A-AAACTTCAAATAATTATATG
1 ATAAATTTAAAATAATAATATG
5096771 ATAAATTTAAAATAATAATATGAG
1 ATAAATTTAAAATAATAATAT--G
5096795 ATAAATTTAAA
1 ATAAATTTAAA
5096806 CAAAATTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.13
21 6 0.13
22 21 0.46
23 1 0.02
24 12 0.26
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAATTTAAAATAATAATATG
Found at i:5098668 original size:143 final size:143
Alignment explanation
Indices: 5098270--5098672 Score: 495
Period size: 143 Copynumber: 2.8 Consensus size: 143
5098260 CTACTGCAAT
* **
5098270 GCCAAGGAAATAAGATTC-ACTGTCTTCAGTCTGCTCCGCTGTAACTTTATAGAGATAAGGCTGA
1 GCCAAGGAAATAAGATTCGA-TGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGA
* *
5098334 TGATTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATAACTTGTAGCTTTAATC
65 TGGTTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATC
* *
5098399 TATTCCACTGCAAT
130 TATTCCACTACAAC
* * * * * * *
5098413 GCCAGGGAAATAAGATTCGCTGTCCTCAGTTTGTTCCGCTGCAACTTCAGGGAGATAAGACTGAT
1 GCCAAGGAAATAAGATTCGATGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGAT
* * ** * *
5098478 GGCTTT-AATCTGTTCCATTACAAATTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATC
66 GG-TTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATC
* *
5098542 TGTTCCACTATAAC
130 TATTCCACTACAAC
* * ** *
5098556 GCTAAGGAAATAAGATTCGATATCTTCAGAGTGCTCCACTGTAACTTCAGGGAGATAAGGCTGAT
1 GCCAAGGAAATAAGATTCGATGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGAT
* * **
5098621 GGTTTCAATCTACTCCACTGTAACTTCAAGAAGATAATATTTACCATAATTT
66 GGTTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATAATTT
5098673 ATAATCCATC
Statistics
Matches: 214, Mismatches: 43, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
142 3 0.01
143 208 0.97
144 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (143 bp):
GCCAAGGAAATAAGATTCGATGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGAT
GGTTTCAATCTGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCT
ATTCCACTACAAC
Found at i:5101096 original size:17 final size:18
Alignment explanation
Indices: 5101058--5101095 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5101048 ATCATTTTCA
5101058 TTTTCATTTTCTTAATTT
1 TTTTCATTTTCTTAATTT
*
5101076 TTTTTATTTT-TT-ATTT
1 TTTTCATTTTCTTAATTT
5101092 TTTT
1 TTTT
5101096 TGAAACTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCATTTTCTTAATTT
Found at i:5104384 original size:18 final size:18
Alignment explanation
Indices: 5104361--5104413 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
5104351 AATCGTGTCG
5104361 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* ***
5104379 TTCATTTACAAATTTTTA
1 TTCATTTTCAAAACATTA
*
5104397 TTCAATTTCAAAACATT
1 TTCATTTTCAAAACATT
5104414 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:5110630 original size:18 final size:18
Alignment explanation
Indices: 5110599--5110655 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
5110589 ATTATTTTAT
*
5110599 ATATAAATAGATTAAAAAA
1 ATAT-AATAAATTAAAAAA
* *
5110618 ATATAATAAATTAAATAT
1 ATATAATAAATTAAAAAA
*
5110636 AT-TAAAAAATTAAAATAA
1 ATATAATAAATTAAAA-AA
5110654 AT
1 AT
5110656 GTTTATCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 11 0.35
18 16 0.52
19 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
ATATAATAAATTAAAAAA
Found at i:5110640 original size:27 final size:27
Alignment explanation
Indices: 5110602--5110655 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
5110592 ATTTTATATA
*
5110602 TAAATAGATTAAAAAAATATAATAAAT
1 TAAATAGATTAAAAAAATAAAATAAAT
* *
5110629 TAAATATATTAAAAAATTAAAATAAAT
1 TAAATAGATTAAAAAAATAAAATAAAT
5110656 GTTTATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAATAGATTAAAAAAATAAAATAAAT
Found at i:5117787 original size:13 final size:13
Alignment explanation
Indices: 5117771--5117796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5117761 TTCATTCTTG
5117771 AAGTGTAAAATGA
1 AAGTGTAAAATGA
5117784 AAGTGTAAAATGA
1 AAGTGTAAAATGA
5117797 CGCAAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
AAGTGTAAAATGA
Found at i:5120188 original size:24 final size:25
Alignment explanation
Indices: 5120161--5120213 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
5120151 GGATCTTTTG
* *
5120161 TGAAATTTAATGCACATG-ATGCAA
1 TGAAATGTAATGCAAATGAATGCAA
*
5120185 TGAAATGTAATGCAAATGAATGGAA
1 TGAAATGTAATGCAAATGAATGCAA
5120210 TGAA
1 TGAA
5120214 TGCAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (25 bp):
TGAAATGTAATGCAAATGAATGCAA
Found at i:5121109 original size:30 final size:30
Alignment explanation
Indices: 5121055--5121137 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
5121045 ATATAGTAGT
* * *
5121055 AGTGTGTGGCCATATCCTAATACAGTAACAG
1 AGTGTG-GGCCTTATCCCAATACAGTAACAA
* *
5121086 AGTGTGGGCCTTAGCCCAATACAGTGACAA
1 AGTGTGGGCCTTATCCCAATACAGTAACAA
5121116 AGTGTGGGCCTTATCCCAATAC
1 AGTGTGGGCCTTATCCCAATAC
5121138 TATAACTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 40 0.87
31 6 0.13
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (30 bp):
AGTGTGGGCCTTATCCCAATACAGTAACAA
Found at i:5131439 original size:22 final size:21
Alignment explanation
Indices: 5131388--5131449 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
5131378 CAGTAATCAA
5131388 AATGGCTAAGAGCCATAAACAG
1 AATGGCTAA-AGCCATAAACAG
* * * *
5131410 CATAGCTATAAGCTATAAATAG
1 AATGGCTA-AAGCCATAAACAG
5131432 AATGGCTACAAGCCATAA
1 AATGGCTA-AAGCCATAA
5131450 GTACAGTAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (21 bp):
AATGGCTAAAGCCATAAACAG
Found at i:5131526 original size:32 final size:32
Alignment explanation
Indices: 5131441--5131643 Score: 203
Period size: 32 Copynumber: 6.4 Consensus size: 32
5131431 GAATGGCTAC
* * * *
5131441 AAGCCATAAGT-ACAGTAATATGATTGGCTCA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * * *
5131472 AA-CCAATTAGTAGCAGTGATATGACCGGCACA
1 AAGCC-ATCAGTAACGGTAATATGATCGGCACA
*
5131504 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
** * *
5131536 AAGTAATTAGTAACGGTAATATGATCAGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * * *
5131568 ATGCCACCAATAAAGGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
5131600 AAGCCATCAGTAACGGTAATATGATCAGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
5131632 AAGCCATCAGTA
1 AAGCCATCAGTA
5131644 GCATCGCAGC
Statistics
Matches: 137, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
30 2 0.01
31 7 0.05
32 126 0.92
33 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:5131807 original size:13 final size:13
Alignment explanation
Indices: 5131791--5131832 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
5131781 CCATGCTCAG
5131791 AATCAGTCATACA
1 AATCAGTCATACA
*
5131804 AATCA--CAGACA
1 AATCAGTCATACA
*
5131815 AATCAGTCATACC
1 AATCAGTCATACA
5131828 AATCA
1 AATCA
5131833 CAGACAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (13 bp):
AATCAGTCATACA
Found at i:5131817 original size:11 final size:11
Alignment explanation
Indices: 5131801--5131843 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
5131791 AATCAGTCAT
5131801 ACAAATCACAG
1 ACAAATCACAG
*
5131812 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
5131825 ACCAATCACAG
1 ACAAATCACAG
5131836 ACAAATCA
1 ACAAATCA
5131844 ACCATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.28, G:0.07, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:5131818 original size:24 final size:24
Alignment explanation
Indices: 5131791--5131872 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
5131781 CCATGCTCAG
5131791 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
5131815 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** **
5131839 AATCAACCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
5131863 AATTAGTCAT
1 AATCAGTCAT
5131873 TTACATCACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:5131873 original size:24 final size:24
Alignment explanation
Indices: 5131803--5131900 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
5131793 TCAGTCATAC
* **
5131803 AAATCACAGACAAATCAGTCATAC
1 AAATCACAGACAAATCAATCATTT
* *
5131827 CAATCACAGACAAATCAACCATTT
1 AAATCACAGACAAATCAATCATTT
* *
5131851 AAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAATCATTT
*
5131875 ACATCAC-GAACAAATCAATCATTT
1 AAATCACAG-ACAAATCAATCATTT
5131899 AA
1 AA
5131901 CCTCGATGGG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 1 0.02
24 59 0.98
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.22
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:5131881 original size:48 final size:48
Alignment explanation
Indices: 5131803--5131900 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 48
5131793 TCAGTCATAC
5131803 AAATCACAGACAAATCAGTCATACCAATCAC-AGACAAATCAACCATTT
1 AAATCACAGACAAATCAGTCATACCAATCACGA-ACAAATCAACCATTT
* *
5131851 AAATCACAGACAAATTAGTCATTTA-C-ATCACGAACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCA--TACCAATCACGAACAAATCAACCATTT
5131899 AA
1 AA
5131901 CCTCGATGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
48 41 0.91
49 2 0.04
50 2 0.04
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.22
Consensus pattern (48 bp):
AAATCACAGACAAATCAGTCATACCAATCACGAACAAATCAACCATTT
Found at i:5132031 original size:27 final size:27
Alignment explanation
Indices: 5132001--5132063 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
5131991 CATCATGGTT
* * *
5132001 ATTTTACCTTACAGGGGTATTTCGATC
1 ATTTTACCCTACAGAGGTATTACGATC
*
5132028 ATTTTACCCTACAGAGGTATTACGGTC
1 ATTTTACCCTACAGAGGTATTACGATC
*
5132055 ATTATACCC
1 ATTTTACCC
5132064 CACTGGGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTACCCTACAGAGGTATTACGATC
Found at i:5136481 original size:25 final size:25
Alignment explanation
Indices: 5136453--5136524 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
5136443 CACTATTTTA
5136453 AGTA-TTTTCAATATAGT-CTATCTAT
1 AGTAGTTTT-AATATA-TACTATCTAT
* *
5136478 AGTAGTATTATTATATACTATCTAT
1 AGTAGTTTTAATATATACTATCTAT
**
5136503 AGTAGTTTTAGGATATACTATC
1 AGTAGTTTTAATATATACTATC
5136525 AAAGACAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.90
26 3 0.08
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (25 bp):
AGTAGTTTTAATATATACTATCTAT
Found at i:5137766 original size:23 final size:22
Alignment explanation
Indices: 5137733--5137782 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
5137723 ATATTAAGTT
5137733 TACATATAAATATGTAA-AATAA
1 TACATATAAATATG-AATAATAA
*
5137755 TACATAATAAATTTGAATAATAA
1 TACAT-ATAAATATGAATAATAA
5137778 TACAT
1 TACAT
5137783 GGAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
TACATATAAATATGAATAATAA
Found at i:5137835 original size:24 final size:22
Alignment explanation
Indices: 5137738--5137839 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 22
5137728 AAGTTTACAT
* *
5137738 ATAAATATGTAAAATAA-TACATA
1 ATAAAT-T-TAAAATAATTATATG
*
5137761 ATAAATTTGAATAATAA-TACATG
1 ATAAATTT-AA-AATAATTATATG
* *
5137784 -GAAACTTAAAATAATTATATG
1 ATAAATTTAAAATAATTATATG
*
5137805 ATAAATTTAAAATAATAATATGTG
1 ATAAATTTAAAATAAT--TATATG
5137829 ATAAATTTAAA
1 ATAAATTTAAA
5137840 CAAAATTCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.08
21 8 0.12
22 21 0.32
23 16 0.24
24 16 0.24
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (22 bp):
ATAAATTTAAAATAATTATATG
Found at i:5140715 original size:3 final size:3
Alignment explanation
Indices: 5140709--5140745 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5140699 ACGAAATAAT
5140709 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
5140746 TAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:5142704 original size:100 final size:100
Alignment explanation
Indices: 5142541--5142932 Score: 529
Period size: 100 Copynumber: 3.9 Consensus size: 100
5142531 TTTGTTTAAC
* * ** * * *
5142541 TGCAATGTCGGGGAAACAAAATTTGCCGTCGTAGCTTCAATCTGTTCCACTACACCACTAGGGAA
1 TGCAATGTCAGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAA
* *
5142606 GCAAGATTCACCGTTGTGGCTTCAATATTTTAAAT
66 GTAAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
* * *
5142641 TGCATTGTCAGGGAAACAAGATTCGCCATCGT-GACTTCAATCTATTCCACTACACCGCCAGGGA
1 TGCAATGTCAGGGAAACAAGATTCACCGTCGTAG-CTTCAATCTATTCCACTACACCGCCAGGGA
*
5142705 AGTAAGATTCATCGTTGTGGCTTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
* * * *
5142741 TGCAATGTCAAGGAAACAAGATTCACCGTCGT-GACTTCAATTTGTTCCACTACACTGCCAGGGA
1 TGCAATGTCAGGGAAACAAGATTCACCGTCGTAG-CTTCAATCTATTCCACTACACCGCCAGGGA
** * *
5142805 AGTAAGATTCACTATTGTGGCTTCAATCTATT-AAC
65 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
* * *
5142840 TGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCCAGGGAA
1 TGCAATGTCAGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAA
5142905 GTAAGATTCACCGTTGTGGCTTCAATCT
66 GTAAGATTCACCGTTGTGGCTTCAATCT
5142933 ATTCCACTAT
Statistics
Matches: 260, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
99 87 0.33
100 173 0.67
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (100 bp):
TGCAATGTCAGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAA
GTAAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
Found at i:5142943 original size:50 final size:50
Alignment explanation
Indices: 5142574--5142941 Score: 315
Period size: 50 Copynumber: 7.4 Consensus size: 50
5142564 TGCCGTCGTA
* ** *
5142574 GCTTCAATCTGTTCCACTACACCACTAGGGAAGCAAGATTCACCGTTGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* * ** * * * * * * * *
5142624 GCTTCAATATTTTAAATTGCATTGTCAGGGAAACAAGATTCGCCATCGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* * * *
5142674 ACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCATCGTTGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* ** * * * * * * *
5142724 GCTTCAATCTTTTAAATTGCAATGTCAAGGAAACAAGATTCACCGTCGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* * * * **
5142774 ACTTCAATTTGTTCCACTACACTGCCAGGGAAGTAAGATTCACTATTGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* * * * * * * *
5142824 GCTTCAATCTATT-AACTGCAATGTCGGGGAAACAAGATTCACCGTCGTA
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
* *
5142873 GCTTCAATCTATTCCACTATACTGCCAGGGAAGTAAGATTCACCGTTGTG
1 GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
5142923 GCTTCAATCTATTCCACTA
1 GCTTCAATCTATTCCACTA
5142942 TAATGTCAAA
Statistics
Matches: 233, Mismatches: 84, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
49 38 0.16
50 195 0.84
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTATTCCACTACACTGCCAGGGAAGCAAGATTCACCGTTGTG
Found at i:5142949 original size:199 final size:200
Alignment explanation
Indices: 5142538--5142950 Score: 526
Period size: 199 Copynumber: 2.1 Consensus size: 200
5142528 CAATTTGTTT
* ** ** *
5142538 AACTGCAATGTCGGGGAAACAAAATTTGCCGTCGTAGCTTCAATCTGTTCCACTACACCACTAGG
1 AACTACAATGTCAAGGAAACAAAATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCACCAGG
* * * * *
5142603 GAAGCAAGATTCACCGTTGTGGCTTCAATATTTTAAATTGCATTGTCAGGGAAACAAGATTCGCC
66 GAAGCAAGATTCACCATTGTGGCTTCAATATATTAAACTGCAATGTCAGGGAAACAAGATTCACC
*
5142668 ATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCATCGTTGTGGCTTCAATC
131 ATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATC
*
5142733 TTTTA
196 TATTA
* * * * **
5142738 AATTGCAATGTCAAGGAAACAAGATTCACCGTCGT-GACTTCAATTTGTTCCACTACACTGCCAG
1 AACTACAATGTCAAGGAAACAAAATTCACCGTCGTAG-CTTCAATCTGTTCCACTACACCACCAG
* * * *
5142802 GGAAGTAAGATTCACTATTGTGGCTTCAATCTATT-AACTGCAATGTCGGGGAAACAAGATTCAC
65 GGAAGCAAGATTCACCATTGTGGCTTCAATATATTAAACTGCAATGTCAGGGAAACAAGATTCAC
* * *
5142866 CGTCGT-AGCTTCAATCTATTCCACTATACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAA
130 CATCGTGA-CTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAA
*
5142930 TCTATTC
194 TCTATTA
* *
5142937 CACTATAATGTCAA
1 AACTACAATGTCAA
5142951 AGAGATAGGA
Statistics
Matches: 182, Mismatches: 29, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
198 1 0.01
199 99 0.54
200 82 0.45
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (200 bp):
AACTACAATGTCAAGGAAACAAAATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCACCAGG
GAAGCAAGATTCACCATTGTGGCTTCAATATATTAAACTGCAATGTCAGGGAAACAAGATTCACC
ATCGTGACTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATC
TATTA
Found at i:5143183 original size:45 final size:45
Alignment explanation
Indices: 5143134--5143529 Score: 359
Period size: 45 Copynumber: 8.8 Consensus size: 45
5143124 AAGACTGGTG
* * * * *
5143134 TCTTCGATCTACTTCACTGTCAGTACATGAAGGCAAAATCTGCTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
*** *
5143179 TCTTCGATCTACTTTGTTGCCAATACAGGATA-ACAAGATCTGATA
1 TCTTCGATCTACTTCACTGCCAATACAGGA-AGACAAGATCTGCTA
* * *
5143224 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * *
5143269 TATTTGATCTACTTCGCTGCCAATACAGAAAGACAAGATATGTTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
5143314 TCTTCGATCGACTTCACTACCAATATAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
5143359 TCTTTGATCTACTTCACTGCCAGTACAGGAAGATAAGATCTGTTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *
5143404 TCTCCAATCTATTTCGA-TGTCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTC-ACTGCCAATACAGGAAGACAAGATCTGCTA
* * * *** * * *
5143449 TCTTCAACCTACTCCACTGCTTCT-CAGGGAGATAAGA-CTGGTA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
* * *
5143492 TCTTTGATCTACTTCGCTGCCAATACAGGAAAACAAGA
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA
5143530 CCTACTATTT
Statistics
Matches: 278, Mismatches: 68, Indels: 11
0.78 0.19 0.03
Matches are distributed among these distances:
43 21 0.08
44 23 0.08
45 232 0.83
46 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:5145714 original size:16 final size:16
Alignment explanation
Indices: 5145679--5145718 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
5145669 TTTATTTTCC
*
5145679 TTTTTTGATTTTTTTA
1 TTTTTTGATTCTTTTA
5145695 TTTTTTGATCTCTTTT-
1 TTTTTTGAT-TCTTTTA
5145711 TTTTTTGA
1 TTTTTTGA
5145719 AACTCATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTTGATTCTTTTA
Found at i:5149851 original size:4 final size:4
Alignment explanation
Indices: 5149842--5149944 Score: 206
Period size: 4 Copynumber: 25.8 Consensus size: 4
5149832 GCAAAAAAGA
5149842 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5149890 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5149938 TATG TAT
1 TATG TAT
5149945 ACGAAAATTA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5151789 original size:98 final size:98
Alignment explanation
Indices: 5151635--5151830 Score: 270
Period size: 98 Copynumber: 2.0 Consensus size: 98
5151625 CCGCTGTAAT
* *
5151635 TTCAGAGAGATAAGGCTAGTGACTTCAATCTGTTCCACTACAACCTCAGGATGATAAGATCCGCC
1 TTCAGAGAGATAAGGCTAGTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCGCC
* *
5151700 ATAATTTGTAGCTTTAATCTGTTCCATTGCAAC
66 ATAATTTGTAACTTTAATCTGTTCCACTGCAAC
** * * *
5151733 TTCAGAGAGATAAGGCTGACG-G-CTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCG
1 TTCAGAGAGATAAGGCT-A-GTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCG
*
5151796 CCATTATTTGTAACTTTAATCTGTTCCACTGCAAC
64 CCATAATTTGTAACTTTAATCTGTTCCACTGCAAC
5151831 GCCAGGGAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
98 83 0.97
99 2 0.02
100 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (98 bp):
TTCAGAGAGATAAGGCTAGTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCGCC
ATAATTTGTAACTTTAATCTGTTCCACTGCAAC
Found at i:5151945 original size:241 final size:241
Alignment explanation
Indices: 5151515--5151966 Score: 676
Period size: 241 Copynumber: 1.9 Consensus size: 241
5151505 TATGACAGGT
* *
5151515 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAACTTGTAGCTTTAATTTATT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAACTTGTAACTTTAATCTATT
* * *
5151580 CCACTGCAATGCCGTGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGTAATTTCAGAGAGA
66 CCACTGCAACGCCGTGGAAATAAGATTCGCTGTCTTAAGTCTGCTCCGCTGCAATTTCAGAGAGA
* * *
5151645 TAAGGCTAGTGACTTCAATCTGTTCCACTACAACCTCAGGATGATAAGATCCGCCATAATTTGTA
131 TAAGGCTAGTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCACCATAATTTGTA
5151710 GCTTTAATCTGTTCCATTGCAACTTCAGAGAGATAAGGCTGACGGC
196 GCTTTAATCTGTTCCATTGCAACTTCAGAGAGATAAGGCTGACGGC
* * * * * *
5151756 TTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCCATTATTTGTAACTTTAATCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAACTTGTAACTTTAATCTATT
*
5151821 CCACTGCAACGCCAG-GGAAATAAGAATT-GCTGTCTTAAGTCTGCTCCGCTGCAACTTT-AGGG
66 CCACTGCAACGCC-GTGGAAATAAG-ATTCGCTGTCTTAAGTCTGCTCCGCTGCAA-TTTCAGAG
* * * * *
5151883 AGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCCACCATAATTT
128 AGATAAGGCTAGTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCACCATAATTT
5151948 GTAGCTTTAATCTGTTCCA
193 GTAGCTTTAATCTGTTCCA
5151967 CTACAATGCT
Statistics
Matches: 188, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
241 181 0.96
242 7 0.04
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (241 bp):
TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAACTTGTAACTTTAATCTATT
CCACTGCAACGCCGTGGAAATAAGATTCGCTGTCTTAAGTCTGCTCCGCTGCAATTTCAGAGAGA
TAAGGCTAGTGACTTCAATCTGCTCCACTACAACCTCAGGAAGATAAGATCCACCATAATTTGTA
GCTTTAATCTGTTCCATTGCAACTTCAGAGAGATAAGGCTGACGGC
Found at i:5151996 original size:143 final size:143
Alignment explanation
Indices: 5151727--5152518 Score: 1005
Period size: 143 Copynumber: 5.5 Consensus size: 143
5151717 TCTGTTCCAT
* * *
5151727 TGCAACTTCAGAGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGA
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
* * *
5151792 TTCGCCATTATTTGTAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAATT-GCTGTCT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAG-ATTCGCTGTCT
*
5151856 TAAGTCTGCTCCGC
130 TCAGTCTGCTCCGC
* * * *
5151870 TGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGA
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
* * * * *
5151935 TCCACCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCTAGGGAAAGAAGATTCGCTGTCTT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGTCTT
*
5152000 CAGTCTGCTCTGC
131 CAGTCTGCTCCGC
* * ** * * *
5152013 TGTAACTTCAGGGAAATAA-GCTGACAGATTCAATCTACTCCACCGCAACTTTAGGAAGATAAGA
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
* * * * * *
5152077 TTTGCCATAATTTGTAGTTTTAATTTGTTTCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGTCTT
5152142 CAGTCTGCTCCGC
131 CAGTCTGCTCCGC
* * * * * **
5152155 TACATCTTCAGGGAGATAAGGCTGGTGGTTTTAATCTGCTCCACTGCAA-TGCCAGGAAGATAAG
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACT-TTAGGAAGATAAG
* * * * *
5152219 ATTTGCCATAATTTGTTGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
65 ATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGTCT
* *
5152284 TTAGTTTGCTCCGC
130 TCAGTCTGCTCCGC
* * * *
5152298 TGTAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGTTCCACTACAACTTTAAGAAGATAAGA
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
* * * * *
5152363 TTCGCCATAATTTGTAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGCTATATT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGTCTT
* *
5152428 CAGTCTGTTCCAC
131 CAGTCTGCTCCGC
* * * * *
5152441 TGTAACTTCAGGGAGATAAGGCTGATGGCATCAATCTACTCCACTGTAAATTTAGGAAGATAAGA
1 TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
5152506 TTCGCCATAATTT
66 TTCGCCATAATTT
5152519 ATAATACAGC
Statistics
Matches: 552, Mismatches: 93, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
142 122 0.22
143 429 0.78
144 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
TGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA
TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGTCTT
CAGTCTGCTCCGC
Found at i:5152113 original size:285 final size:285
Alignment explanation
Indices: 5151730--5152518 Score: 1051
Period size: 285 Copynumber: 2.8 Consensus size: 285
5151720 GTTCCATTGC
* *
5151730 AACTTCAGAGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTC
1 AACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTC
* * *
5151795 GCCATTATTTGTAACTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAATT-GCTGTCTTAA
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAG-ATTCGCTGTCTTCA
* *
5151859 GTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCA
130 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA-TTCA
* * ** * *
5151924 GGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTACAATGCTAGGGAAAGAAGA
194 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACCAAGGAAAGAAGA
* *
5151989 TTCGCTGTCTTCAGTCTGCTCTGCTGT
259 TTCGATGTCTTCAGTCTGCTCCGCTGT
* * * * * *
5152016 AACTTCAGGGAAATAA-GCTGACAGATTCAATCTACTCCACCGCAACTTTAGGAAGATAAGATTT
1 AACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTC
* * * *
5152080 GCCATAATTTGTAGTTTTAATTTGTTTCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAG
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAG
* * * * *
5152145 TCTGCTCCGCTACATCTTCAGGGAGATAAGGCTGGTGGTTTTAATCTGCTCCACTGCAATGCCAG
131 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAAT-TCAG
* * *
5152210 GAAGATAAGATTTGCCATAATTTGTTGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGAT
195 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACCAAGGAAAGAAGAT
* *
5152275 TCGATGTCTTTAGTTTGCTCCGCTGT
260 TCGATGTCTTCAGTCTGCTCCGCTGT
* * * *
5152301 AACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGTTCCACTACAACTTTAAGAAGATAAGATTC
1 AACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTC
* * * * * *
5152366 GCCATAATTTGTAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGCTATATTCAG
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAG
* * * * * * * *
5152431 TCTGTTCCACTGTAACTTCAGGGAGATAAGGCTGATGGCATCAATCTACTCCACTGTAAATTTAG
131 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTG-CAATTCAG
5152496 GAAGATAAGATTCGCCATAATTT
195 GAAGATAAGATTCGCCATAATTT
5152519 ATAATACAGC
Statistics
Matches: 430, Mismatches: 69, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
284 4 0.01
285 245 0.57
286 178 0.41
287 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (285 bp):
AACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTC
GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAG
TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATTCAGG
AAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACCAAGGAAAGAAGATT
CGATGTCTTCAGTCTGCTCCGCTGT
Found at i:5154652 original size:45 final size:43
Alignment explanation
Indices: 5154593--5154677 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 43
5154583 TTTTCATTTA
*
5154593 TTTTTTTAAACTCAAAGCACCCTTTGCGGGTTTTTACCTTAGT
1 TTTTTTTAAACTCAAAGCACCCTTTGCGGGTTTTCACCTTAGT
* **
5154636 TTTTTTTAAGGACTCAAGGTGCCCTTTGCGGGTTTTCACCTT
1 TTTTTTTAA--ACTCAAAGCACCCTTTGCGGGTTTTCACCTT
5154678 GGTCCCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 9 0.25
45 27 0.75
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (43 bp):
TTTTTTTAAACTCAAAGCACCCTTTGCGGGTTTTCACCTTAGT
Found at i:5155654 original size:12 final size:11
Alignment explanation
Indices: 5155643--5155684 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
5155633 GGCCTCTCCT
5155643 TTTTCTTTTCC
1 TTTTCTTTTCC
5155654 TTTTCTTTTTCC
1 TTTTC-TTTTCC
*
5155666 TTCTC-TTTCC
1 TTTTCTTTTCC
5155676 TTTTCTTTT
1 TTTTCTTTT
5155685 TTCACCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 8 0.30
12 10 0.37
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:5155677 original size:22 final size:21
Alignment explanation
Indices: 5155645--5155685 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
5155635 CCTCTCCTTT
5155645 TTCTTTTCCTTTTCTTTTTCC
1 TTCTTTTCCTTTTCTTTTTCC
5155666 TTCTCTTTCCTTTTCTTTTT
1 TTCT-TTTCCTTTTCTTTTT
5155686 TCACCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTCTTTTCCTTTTCTTTTTCC
Found at i:5155696 original size:22 final size:21
Alignment explanation
Indices: 5155647--5155702 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
5155637 TCTCCTTTTT
**
5155647 CTTTTCCTTTTCTTTTTCCTT
1 CTTTTCCTTTTCTTTTTCCAC
*
5155668 CTCTTTCCTTTTCTTTTTTCAC
1 CT-TTTCCTTTTCTTTTTCCAC
*
5155690 CATTTTCATTTTC
1 C-TTTTCCTTTTC
5155703 ATTATTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTTTCCTTTTCTTTTTCCAC
Found at i:5160504 original size:102 final size:102
Alignment explanation
Indices: 5160398--5160602 Score: 320
Period size: 102 Copynumber: 2.0 Consensus size: 102
5160388 CCTTTTTCTC
* *
5160398 ATTTTTTTACTTTTTTTTGTATACTAGTGCCTGCCATTGACACGAAAAAAGTAAAAAAAATTCCA
1 ATTTTTTTACTTTTTTTCGTATACTAGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAATTCCA
* *
5160463 ATAAAGGTGGTGTCGACCATTGGCAGGCCACCACCAA
66 ATAAAGGTGGTGCCGACCATTGGCAGGCCAACACCAA
** * * *
5160500 ATTTTTTTTGTTTTTTTCGTATACTGGTTCTTGCCATTAACACGAAAAAAGTAAAAAAAATTCCA
1 ATTTTTTTACTTTTTTTCGTATACTAGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAATTCCA
*
5160565 ATAAAGGTGGTGCCGGCCATTGGCAGGCCAACACCAA
66 ATAAAGGTGGTGCCGACCATTGGCAGGCCAACACCAA
5160602 A
1 A
5160603 AAGAAATATA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (102 bp):
ATTTTTTTACTTTTTTTCGTATACTAGTGCCTGCCATTAACACGAAAAAAGTAAAAAAAATTCCA
ATAAAGGTGGTGCCGACCATTGGCAGGCCAACACCAA
Found at i:5162793 original size:113 final size:114
Alignment explanation
Indices: 5162527--5162796 Score: 348
Period size: 112 Copynumber: 2.4 Consensus size: 114
5162517 GGTATTGGTC
* * * * * * * *
5162527 TGTCAATGACCAGTACCAGAATATGAAAAAAGTAAAAAAAAATTCTTTTTTTTTGGTGGTGGCCT
1 TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAATTATATTTTTTGGGTGGTGGCCT
* * * *
5162592 GCCAGTGGCTGACACCACCTTTATTGGAATTTTTTTTTTACTTTTTTGG
66 GCCAATGGCCGACACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCG
* * *
5162641 TGTCAATGGCAAGCACCAGTATACGAAAGAAGTAGAAAAATA-TATATTTTTTGGGTGGT-GCCT
1 TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAATTATATTTTTTGGGTGGTGGCC-
* *
5162704 TGCCAATTGCCGGCACCACCTTTATTGGAA-TTTTTTTTAACTTTTTTCG
65 TGCCAATGGCCGACACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCG
*
5162753 TGTCAATGGCAGGCACCAGTATACGAAAAAAGTAAAAAAAAATT
1 TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAATT
5162797 GAAAAAGGTG
Statistics
Matches: 133, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
112 58 0.44
113 41 0.31
114 34 0.26
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (114 bp):
TGTCAATGGCAAGCACCAGTATACGAAAAAAGTAAAAAAAAATTATATTTTTTGGGTGGTGGCCT
GCCAATGGCCGACACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCG
Found at i:5162833 original size:112 final size:113
Alignment explanation
Indices: 5162604--5162832 Score: 283
Period size: 112 Copynumber: 2.1 Consensus size: 113
5162594 CAGTGGCTGA
* *
5162604 CACCACCTTTATTGGAATTTTTTTTTTACTTTTTTGGTGTCAATGGCAAGCACCAGTATACGAAA
1 CACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCGTGTCAATGGCAAGCACCAGTATACGAAA
* ***** * *
5162669 GAAGTAGAAAAATATATATTTTTTGGGTGGTGCCTTGCCAATTGCCGG
66 AAAGTAGAAAAATATATATTAAAAAGGTGGTGCCTGGCCAATTGCAGG
*
5162717 CACCACCTTTATTGGAA-TTTTTTTTAACTTTTTTCGTGTCAATGGCAGGCACCAGTATACGAAA
1 CACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCGTGTCAATGGCAAGCACCAGTATACGAAA
5162781 AAAGTA-AAAAA-A-A-ATTGAAAAAGGTGGTGCC-GGCC-ATTGGCAGG
66 AAAGTAGAAAAATATATATT-AAAAAGGTGGTGCCTGGCCAATT-GCAGG
5162825 CCACCACC
1 -CACCACC
5162833 AAAAAAAAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
107 3 0.03
108 10 0.10
109 17 0.17
110 1 0.01
111 5 0.05
112 49 0.48
113 17 0.17
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (113 bp):
CACCACCTTTATTGGAATTTTTTTTTAACTTTTTTCGTGTCAATGGCAAGCACCAGTATACGAAA
AAAGTAGAAAAATATATATTAAAAAGGTGGTGCCTGGCCAATTGCAGG
Found at i:5163048 original size:92 final size:89
Alignment explanation
Indices: 5162945--5163111 Score: 246
Period size: 92 Copynumber: 1.8 Consensus size: 89
5162935 CCATCTTTTT
* *
5162945 CCAAATTTTTTTTATT-TTTTTCGTATATTGGTGCCTGCAATTGAAACGAAAAAAGTAAAAAAAA
1 CCAAATTTTTTTT-TTATTTTT-GTATATTGGTGCCTACAATTGAAACAAAAAAAGT--AAAAAA
5163009 AATTCCAATAAAGAAATGCCAGCCACCA
62 AATTCCAATAAAGAAATGCCAGCCACCA
* *
5163037 CCAAATTTTTTTTTTGATTTTTGTATATTGGTGCCTACCATTGACACAAAAAAAGTAAAAAAAAT
1 CCAAATTTTTTTTTT-ATTTTTGTATATTGGTGCCTACAATTGAAACAAAAAAAGTAAAAAAAAT
5163102 TCCAATAAAG
65 TCCAATAAAG
5163112 GTGGTGCCGG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
90 19 0.28
91 2 0.03
92 43 0.62
93 5 0.07
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (89 bp):
CCAAATTTTTTTTTTATTTTTGTATATTGGTGCCTACAATTGAAACAAAAAAAGTAAAAAAAATT
CCAATAAAGAAATGCCAGCCACCA
Found at i:5169484 original size:41 final size:41
Alignment explanation
Indices: 5169439--5169542 Score: 165
Period size: 41 Copynumber: 2.5 Consensus size: 41
5169429 GACTTTAAGT
*
5169439 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAAC
* *
5169480 CTAGCAGGCTAAGTGCCGGTGCTTGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAAC
5169521 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
5169543 ATATGTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 57 0.98
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAAC
Found at i:5174452 original size:27 final size:27
Alignment explanation
Indices: 5174416--5174567 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 27
5174406 GAACAAAAAG
5174416 GGGGTTGCTAAGTGCTGATTCCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
*
5174443 GGGGTTGCTAAGTGCTGATTCCCCAATTCATT
1 GGGGTTGCTAAGTGCTGATTCCCC----CA-A
*
5174475 GGTGGTTGCTAAGTG-TCGATTCCACC--
1 GG-GGTTGCTAAGTGCT-GATTCCCCCAA
** *
5174501 -GTATT-TTAAGTG-TGA-------AA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
5174518 GGGGTTGCTAAGTGCTGATTCCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
5174545 GGGGTTGCTAAGTGCTGATTCCC
1 GGGGTTGCTAAGTGCTGATTCCC
5174568 TGATTCATTG
Statistics
Matches: 98, Mismatches: 8, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
18 3 0.03
19 6 0.06
20 3 0.03
22 2 0.02
23 7 0.07
24 2 0.02
25 1 0.01
27 49 0.50
29 1 0.01
31 2 0.02
32 3 0.03
33 19 0.19
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:5174487 original size:33 final size:33
Alignment explanation
Indices: 5174418--5174774 Score: 204
Period size: 33 Copynumber: 10.4 Consensus size: 33
5174408 ACAAAAAGGG
*
5174418 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
5174445 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
* * *
5174478 GGTTGCTAAGTG-TCGATTCCACCGTATTTTAAGTGTGAAAGG
1 GGTTGCTAAGTGCT-GATTCC-CC--A-ATTCA-T-TG---GT
*
5174520 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
**
5174547 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
**
5174580 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
* * *
5174613 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC--A-ATT-CAT-TG---GT
5174655 GGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGT
1 GGTTGCTAAGTGCTGATTCCCC-AATTCATTGGT
* *
5174688 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCA-A--TT-CAT-TG---GT
*
5174730 GGTTGCTAAGTGCTGATTCCCCGAA-TCACTGGT
1 GGTTGCTAAGTGCTGATTCCCC-AATTCATTGGT
5174763 GGTTGCTAAGTG
1 GGTTGCTAAGTG
5174775 ATGAATCCAC
Statistics
Matches: 265, Mismatches: 22, Indels: 80
0.72 0.06 0.22
Matches are distributed among these distances:
27 43 0.16
28 1 0.00
31 5 0.02
32 5 0.02
33 106 0.40
34 7 0.03
36 5 0.02
37 9 0.03
38 7 0.03
39 6 0.02
40 1 0.00
41 7 0.03
42 62 0.23
43 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
Found at i:5174598 original size:102 final size:102
Alignment explanation
Indices: 5174416--5174599 Score: 334
Period size: 102 Copynumber: 1.8 Consensus size: 102
5174406 GAACAAAAAG
5174416 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGT
5174481 TGCTAAGTGTCGATTCCACCGTATTTTAAGTGTGAAA
66 TGCTAAGTGTCGATTCCACCGTATTTTAAGTGTGAAA
**
5174518 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGT
5174583 TGCTAAGTG-CTGATTCC
66 TGCTAAGTGTC-GATTCC
5174600 CTGATTCATT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
101 1 0.01
102 78 0.99
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGT
TGCTAAGTGTCGATTCCACCGTATTTTAAGTGTGAAA
Found at i:5174672 original size:42 final size:41
Alignment explanation
Indices: 5174613--5174749 Score: 173
Period size: 42 Copynumber: 3.5 Consensus size: 41
5174603 ATTCATTGGT
5174613 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTT-AATGTGAAAGG
* *
5174655 GGTTGCTAAGTGCTGATTCC-CCGAATC---AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAATGTGAAAGG
*
5174688 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTT-AATGTGAAAGG
5174730 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
5174750 CCGAATCACT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
33 21 0.26
34 5 0.06
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
41 6 0.07
42 41 0.51
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAATGTGAAAGG
Found at i:5174703 original size:75 final size:75
Alignment explanation
Indices: 5174580--5174786 Score: 351
Period size: 75 Copynumber: 2.8 Consensus size: 75
5174570 ATTCATTGGT
* *
5174580 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
5174645 ATGTGAAAGG
66 ATGTGAAAGG
* *
5174655 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTGA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
5174720 ATGTGAAAGG
66 ATGTGAAAGG
* * *
5174730 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGATGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
5174787 ACAACGGATA
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 124 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
ATGTGAAAGG
Found at i:5182075 original size:33 final size:33
Alignment explanation
Indices: 5182006--5182193 Score: 132
Period size: 27 Copynumber: 5.8 Consensus size: 33
5181996 ATAAAAAGGG
*
5182006 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
5182033 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
5182066 GGTTCCTAAGTGCTGATTCCACCGTATTTTAAGTGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TTCA-T-T---GGT
5182108 GGTTGCTAAGTGCTGATTCTCCC-A---A--GG-
1 GGTTGCTAAGTGCTGATTC-CCCGATTCATTGGT
*
5182135 GGTTGCTAAGTGCTGTTTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
5182168 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
5182194 AACGGATAAT
Statistics
Matches: 129, Mismatches: 8, Indels: 41
0.72 0.04 0.23
Matches are distributed among these distances:
26 3 0.02
27 41 0.32
28 2 0.02
30 1 0.01
31 2 0.02
32 4 0.03
33 37 0.29
34 8 0.06
35 2 0.02
37 3 0.02
38 1 0.01
39 1 0.01
40 1 0.01
42 22 0.17
43 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:5182177 original size:102 final size:102
Alignment explanation
Indices: 5182001--5182191 Score: 346
Period size: 102 Copynumber: 1.9 Consensus size: 102
5181991 ATTGAATAAA
5182001 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
5182066 GGTTCCTAAGTGCTGATTCCACCGTATTTTAAGTGTG
66 GGTTCCTAAGTGCTGAATCCACCGTATTTTAAGTGTG
* *
5182103 AAGGGGGTTGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGTTTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
5182168 GGTTGCTAAGTGCTGAATCCACCG
66 GGTTCCTAAGTGCTGAATCCACCG
5182192 ATAACGGATA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
GGTTCCTAAGTGCTGAATCCACCGTATTTTAAGTGTG
Found at i:5188783 original size:43 final size:44
Alignment explanation
Indices: 5188732--5189023 Score: 407
Period size: 43 Copynumber: 6.8 Consensus size: 44
5188722 GCAAAAAATT
* *
5188732 CCGCTAAAGACGCTGACCTTTAGCAGCGCTTTTTC-CACAAACG
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
* *
5188775 CCGTTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAATG
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
* *
5188819 CCGCTAAAGACCCTAACCTTTAGCGGCGC-TTTTCTCTCAAACG
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
* * * *
5188862 CCACTAAAGACCCTGACCTTTAGCAGCGCTTTTCCT-ACAAACA
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
* * *
5188905 CTGCTAAAGACCCTGACCTTTAGGGGTGCTTTTTCT-ACAAACG
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
*
5188948 CCGCTAAAGACCCTGACCTTTAGCGGCGC-TTTTCTCTCAAACG
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
*
5188991 CCGCTAAAGACCCTGA-CTTTAGCGCCGCTTTTT
1 CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTT
5189024 TAAAAAAATG
Statistics
Matches: 219, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
42 17 0.08
43 163 0.74
44 39 0.18
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (44 bp):
CCGCTAAAGACCCTGACCTTTAGCGGCGCTTTTTCTCACAAACG
Found at i:5190345 original size:27 final size:27
Alignment explanation
Indices: 5190303--5190444 Score: 106
Period size: 27 Copynumber: 5.3 Consensus size: 27
5190293 CTCTAATATT
5190303 GGTAAAATAATCGTAATGCCCCTGTAA
1 GGTAAAATAATCGTAATGCCCCTGTAA
* **
5190330 GGTAAAATAATTGTAATGCCCCTGTGG
1 GGTAAAATAATCGTAATGCCCCTGTAA
* * * * * * *
5190357 GGTATAATGATCATAGTGCCTCTATAG
1 GGTAAAATAATCGTAATGCCCCTGTAA
* * * *
5190384 GGTAAAATGACCGAAATACCCCTGTAA
1 GGTAAAATAATCGTAATGCCCCTGTAA
* * * *
5190411 GGTAAAATGACCATGATGCCCCTGT-A
1 GGTAAAATAATCGTAATGCCCCTGTAA
*
5190437 GGCAAAAT
1 GGTAAAAT
5190445 GACTATAATA
Statistics
Matches: 90, Mismatches: 25, Indels: 1
0.78 0.22 0.01
Matches are distributed among these distances:
26 8 0.09
27 82 0.91
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATAATCGTAATGCCCCTGTAA
Found at i:5190474 original size:27 final size:27
Alignment explanation
Indices: 5190384--5190484 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
5190374 GCCTCTATAG
*
5190384 GGTAAAATGACCGA-AATACCCCTGTAA
1 GGTAAAATGACC-ATAATACCCCTGTTA
* *
5190411 GGTAAAATGACCATGATGCCCCTG-TA
1 GGTAAAATGACCATAATACCCCTGTTA
* * *
5190437 GGCAAAATGACTATAATACCTCTGTTA
1 GGTAAAATGACCATAATACCCCTGTTA
*
5190464 GGTAAACTGACCGAT-ATACCC
1 GGTAAAATGACC-ATAATACCC
5190485 TCAAAGGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
26 21 0.36
27 36 0.61
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCATAATACCCCTGTTA
Found at i:5191223 original size:29 final size:30
Alignment explanation
Indices: 5191065--5191290 Score: 350
Period size: 30 Copynumber: 7.6 Consensus size: 30
5191055 CTTACTTGCA
*
5191065 CCACACTCTGTTACTATATTGGGCTAAGGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
*
5191095 CCACACTCTGTTACTGTATTGGGTTAAGGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
* *
5191125 CCACACTCTATTACTGTATTGGGCTAAAGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
* *
5191155 CCACACTCTGTTATTGTATTAGGCTAAGGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
5191185 CCACACTCTGTTACTGTATTGGGCT-AGGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
5191214 CCACACTCTGTTACTGTATTGGGCT-AGGC
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
*
5191243 CCACACTCTGTTACTGTATTGGGCTATGG-
1 CCACACTCTGTTACTGTATTGGGCTAAGGC
* *
5191272 CCACACACTGCTACTGTAT
1 CCACACTCTGTTACTGTAT
5191291 AAGGCATAGG
Statistics
Matches: 181, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
29 75 0.41
30 106 0.59
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (30 bp):
CCACACTCTGTTACTGTATTGGGCTAAGGC
Found at i:5192135 original size:24 final size:25
Alignment explanation
Indices: 5192098--5192150 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
5192088 TCTTTTTGCA
* * *
5192098 TTCATTTCATTCATTTGCATTACAT
1 TTCATTGCATTCATGTGCATTAAAT
5192123 TTCATTGCA-TCATGTGCATTAAAT
1 TTCATTGCATTCATGTGCATTAAAT
5192147 TTCA
1 TTCA
5192151 CAAAAGATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (25 bp):
TTCATTGCATTCATGTGCATTAAAT
Found at i:5195272 original size:9 final size:9
Alignment explanation
Indices: 5195258--5195307 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
5195248 AAAATGCTTT
5195258 AAAAAAAAG
1 AAAAAAAAG
5195267 AAAAAAAAG
1 AAAAAAAAG
5195276 AAAAAAGAA-
1 AAAAAA-AAG
*
5195285 AAATAAAAG
1 AAAAAAAAG
**
5195294 ACGAAAAAG
1 AAAAAAAAG
5195303 AAAAA
1 AAAAA
5195308 TGAGAGGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 2 0.06
9 29 0.88
10 2 0.06
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5195292 original size:20 final size:20
Alignment explanation
Indices: 5195261--5195308 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
5195251 ATGCTTTAAA
5195261 AAAAAG-AAAA-AAAAG-A-
1 AAAAAGAAAAATAAAAGAAG
*
5195277 AAAAAGAAAAATAAAAGACG
1 AAAAAGAAAAATAAAAGAAG
5195297 AAAAAGAAAAAT
1 AAAAAGAAAAAT
5195309 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 6 0.22
17 4 0.15
18 5 0.19
20 12 0.44
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAATAAAAGAAG
Found at i:5196341 original size:45 final size:45
Alignment explanation
Indices: 5196224--5196356 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
5196214 TTAAAGTTGT
* * *
5196224 ATAGCAAACCTTATTTCCCTAAAGTTGCAGTGGAGCA-AGTTGAAG
1 ATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAGCAGA-TTGAAG
* * * *
5196269 TTA-CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGGAG
1 ATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAAG
* *
5196313 ATAGCAAATCTTATTTCCCTGAACTTGCAATGGAACAGATTGAA
1 ATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAA
5196357 ACTATAAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 38 0.52
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
ATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAAG
Found at i:5196430 original size:41 final size:40
Alignment explanation
Indices: 5196373--5196475 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 40
5196363 AATAACATAT
* * *
5196373 CTTATCTATCTAAAGTTGCAGTAGAGAAAATTATATCAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGAAAATTAAATC-AAC
* * ** *
5196414 CTTATCTC-CTTGAAGTTGCAGTGGAGCAGGTTAAATCAAT
1 CTTATCTCTC-TGAAGTTGCAGTAGAGAAAATTAAATCAAC
5196454 CTTATCTCTCTGAAGTTGCAGT
1 CTTATCTCTCTGAAGTTGCAGT
5196476 GGATCAGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 23 0.44
41 29 0.56
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (40 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGAAAATTAAATCAAC
Found at i:5196604 original size:90 final size:88
Alignment explanation
Indices: 5196445--5196615 Score: 200
Period size: 90 Copynumber: 1.9 Consensus size: 88
5196435 TGGAGCAGGT
* * * *
5196445 TAAATCAATCTTATCTCTCTGAAGTTGCAGTGGATCAGATTGAAGCCACTAATTTTATCCCCCTG
1 TAAATCAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGCCACTAA--TTATCCCCCTA
* *
5196510 AAGTTGCAGTGGAGCAGACTACAGA
64 AAGTTACAGTAGAGCAGACTACAGA
** * *
5196535 TAAATCAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGACGGGCTACA-TATCTCTCT
1 TAAATCAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAG-C-CACTA-ATTATCCCCCT
5196599 AAAGTTACAGTAGAGCA
63 AAAGTTACAGTAGAGCA
5196616 AATCATATCA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
90 63 0.93
91 1 0.01
92 3 0.04
93 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (88 bp):
TAAATCAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGCCACTAATTATCCCCCTAAA
GTTACAGTAGAGCAGACTACAGA
Found at i:5198706 original size:21 final size:21
Alignment explanation
Indices: 5198664--5198706 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5198654 TATTATTCAT
* * *
5198664 TTTGTTTTTTTTTTTAGCTCG
1 TTTGTTTTATTCTTTAGATCG
*
5198685 TTTGTTTTATTCTTTATATCG
1 TTTGTTTTATTCTTTAGATCG
5198706 T
1 T
5198707 CATTCATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTGTTTTATTCTTTAGATCG
Found at i:5205241 original size:22 final size:20
Alignment explanation
Indices: 5205209--5205272 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
5205199 AAAATATTTC
5205209 AAAAAATGAAAATGAAAATGATG
1 AAAAAA-GAAAATGAAAA-GA-G
*
5205232 AAAAAAGAAAA-GGAAAGAG
1 AAAAAAGAAAATGAAAAGAG
*
5205251 AAGAAA-AAAATGAAAAGA-
1 AAAAAAGAAAATGAAAAGAG
5205269 AAAA
1 AAAA
5205273 GGAGAGACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 7 0.19
19 12 0.33
20 2 0.06
21 4 0.11
22 5 0.14
23 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (20 bp):
AAAAAAGAAAATGAAAAGAG
Found at i:5207944 original size:22 final size:22
Alignment explanation
Indices: 5207916--5207957 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
5207906 ATTACAGTGG
5207916 GAGGAAAATGGTTCAAATTTGA
1 GAGGAAAATGGTTCAAATTTGA
5207938 GAGGAAAATGGTTCAAATTT
1 GAGGAAAATGGTTCAAATTT
5207958 TATGTCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (22 bp):
GAGGAAAATGGTTCAAATTTGA
Found at i:5209443 original size:143 final size:143
Alignment explanation
Indices: 5208308--5209431 Score: 1451
Period size: 143 Copynumber: 7.9 Consensus size: 143
5208298 CATGGATTAT
* * *
5208308 AAATTATAGCGAATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCCATCAGCCTTATCT
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
* * * * * * * * *
5208373 CCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTGAATGTTATTTCCCTAACGTTACAGTAGAAC
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
5208438 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * *
5208451 AAATTATGGCGAATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCATCAGCCTTACCT
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
* * * * * * *
5208516 CCCTGAAGTTGCAACGGAGCAAACTGAATACAGCAAATCTTATTTCCCTGGCGTTACAGTGGAAC
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
*
5208581 ATATTAAAGCTAC
131 AGATTAAAGCTAC
* * * *
5208594 AAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGTCTTATCT
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
* * * * **
5208659 CCCTAAAGCTGCAGCAGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAATAAAAC
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
5208724 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * * *
5208737 AAATTATGGCAAATCTTATCTTCCTAAAGTTGTAGTGGAGCAGATTGAAGCCGTCA-ACTTAATC
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTT-ATC
* * * *
5208801 TTCCTAAAGTTACAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGTGTTGTAGTGGAA
65 TCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAA
5208866 CAGATTAAAGCTAC
130 CAGATTAAAGCTAC
* * * * * *
5208880 AAATTATGGCAGAA-CTTATCTTCATGAAGTTGCAGTGTAGTATATTGAAGCCACCAGTCTTATC
1 AAATTATGGC-GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATC
* * ** * * **
5208944 TCCCTGAAGTTGCTGTAGAGCAGACTGAAGATAGCGATTCTTATTTCCCCGGCGTTGCAGTGGAA
65 TCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAA
*
5209009 CAGATTAAAGTTAC
130 CAGATTAAAGCTAC
* *
5209023 AAATTATGGCGAATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTGAAGCCATCAGCCTTATCT
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
* * * * *
5209088 CTCTGAAGTTGCAGCGGAGCAGACTTAAGACAGCGAATCTTATTTTCCTGGCGTTGCAGTGGAAC
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
5209153 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * * * * *
5209166 AAATTATGGCGGATCTTATCTTCCTGAGGTTGTAGTGGAACAGATTGAAGCCACCAGTCTTATCC
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
** * * *
5209231 CCCTAAAGTTGCAATGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGCATTGCAGTGGAAT
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
5209296 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * * * *
5209309 AAGTTATGTCGAATCTTATCTTCTTGAAGTTGTAATGGAGCAGATTGAAACCATCAGCCTTATCT
1 AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
* * *
5209374 CCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTAGCGTTGCA
66 CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCA
5209432 ATAGGGTAGA
Statistics
Matches: 849, Mismatches: 128, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
142 6 0.01
143 838 0.99
144 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (143 bp):
AAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCT
CCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAAC
AGATTAAAGCTAC
Found at i:5210712 original size:22 final size:23
Alignment explanation
Indices: 5210665--5210715 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
5210655 ATGAATTTTG
*
5210665 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT-ACATATAATTAT
*
5210689 TTTAAATTTAT-CTTATAATTAT
1 TTTAAATTTATACATATAATTAT
5210711 TTTAA
1 TTTAA
5210716 TTTTTCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.56
24 11 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAATTTATACATATAATTAT
Found at i:5210740 original size:23 final size:23
Alignment explanation
Indices: 5210665--5210754 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
5210655 ATGAATTTTG
* **
5210665 TTTAAATTTATCACATATTATTA
1 TTTAAATTTTTCATGTATTATTA
* *
5210688 TTTTAAATTTATC-T-TATAATTA
1 -TTTAAATTTTTCATGTATTATTA
*
5210710 TTTTAATTTTTCATGTATTATTA
1 TTTAAATTTTTCATGTATTATTA
*
5210733 TTCAAATTTATT-ATGTATTATT
1 TTTAAATTT-TTCATGTATTATT
5210755 TTATATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.18
22 8 0.14
23 24 0.43
24 14 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTAAATTTTTCATGTATTATTA
Found at i:5210764 original size:23 final size:22
Alignment explanation
Indices: 5210683--5210771 Score: 73
Period size: 22 Copynumber: 4.1 Consensus size: 22
5210673 TATCACATAT
5210683 TATTATTTTAA-ATTTATCTTAT-
1 TATTATTTTAATATTTA--TTATG
* *
5210705 AATTATTTTAAT-TTT-TCATG
1 TATTATTTTAATATTTATTATG
5210725 TATTATTATTCAA-ATTTATTATG
1 TATTATT-TT-AATATTTATTATG
5210748 TATTATTTTATATATTTA-TATG
1 TATTATTTTA-ATATTTATTATG
5210770 TA
1 TA
5210772 AACTTAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 3 0.05
22 27 0.49
23 16 0.29
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TATTATTTTAATATTTATTATG
Found at i:5210766 original size:20 final size:19
Alignment explanation
Indices: 5210706--5210771 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 19
5210696 TTATCTTATA
5210706 ATTATTTTAATTTTTCATGT
1 ATTATTTTAATTTTT-ATGT
5210726 ATTATTATTCAAATTTATTATGT
1 ATTATT-TT--AATTT-TTATGT
5210749 ATTATTTTATATATTTATATGT
1 ATTATTTTA-AT-TTT-TATGT
5210771 A
1 A
5210772 AACTTAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 7 0.18
21 5 0.13
22 10 0.26
23 15 0.38
24 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTATTTTAATTTTTATGT
Found at i:5212644 original size:25 final size:26
Alignment explanation
Indices: 5212627--5212695 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
5212617 AACTATCTTT
*
5212627 GATAGTATATCCTAAAACT-GCTATA
1 GATAGTATATACTAAAACTAGCTATA
5212652 GATAGTATATACTAAAACTA-CTATA
1 GATAGTATATACTAAAACTAGCTATA
5212677 GATAG-ACTATACTGAAAAC
1 GATAGTA-TATACT-AAAAC
5212696 ACTTAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 1 0.03
25 34 0.85
26 5 0.12
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (26 bp):
GATAGTATATACTAAAACTAGCTATA
Found at i:5221282 original size:14 final size:14
Alignment explanation
Indices: 5221263--5221294 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5221253 CCTTGCCTTA
5221263 ACCAAAGAAAATCC
1 ACCAAAGAAAATCC
5221277 ACCAAAGAAAATCC
1 ACCAAAGAAAATCC
5221291 ACCA
1 ACCA
5221295 GCGGCTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.31, G:0.06, T:0.06
Consensus pattern (14 bp):
ACCAAAGAAAATCC
Found at i:5235445 original size:23 final size:23
Alignment explanation
Indices: 5235403--5235463 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
5235393 AAAGCACATA
* ** *
5235403 AATGGGAAGCTTATCCGAGTTAT
1 AATGGGAAGCTCATAAGAGTCAT
5235426 AATGGGAAGCTCATAAGAGTCAT
1 AATGGGAAGCTCATAAGAGTCAT
* *
5235449 ATTCAGGAAGCTCAT
1 AAT-GGGAAGCTCAT
5235464 GTGAGCTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (23 bp):
AATGGGAAGCTCATAAGAGTCAT
Found at i:5239050 original size:12 final size:13
Alignment explanation
Indices: 5239030--5239061 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
5239020 ATGAAACGAA
5239030 TTAAAAAAATCTT
1 TTAAAAAAATCTT
5239043 TTAAAAAAATCTT
1 TTAAAAAAATCTT
5239056 TTAAAA
1 TTAAAA
5239062 TTACATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAAAATCTT
Found at i:5239443 original size:24 final size:24
Alignment explanation
Indices: 5239317--5239590 Score: 151
Period size: 24 Copynumber: 11.7 Consensus size: 24
5239307 TGAATAGAGC
* *
5239317 AATTTACAATAAACAATATA-GAATA
1 AATTTAAAAT-AATAATATATG-ATA
** * *
5239342 AATTCGAAATAATAATACATAATA
1 AATTTAAAATAATAATATATGATA
*
5239366 AATTT-AAA-AAT--TTTGATGATA
1 AATTTAAAATAATAATAT-ATGATA
* * ** *
5239387 ATTTTAAAATAATAGTACGTAATA
1 AATTTAAAATAATAATATATGATA
* **
5239411 CATCCAAAATAATAATATATGATA
1 AATTTAAAATAATAATATATGATA
*
5239435 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
*
5239456 AATTTAAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** *
5239480 AATTT-AAATAATGTTA-ATGATG
1 AATTTAAAATAATAATATATGATA
5239502 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
**
5239525 AA-TTACAAATAATAATGCATGATA
1 AATTTA-AAATAATAATATATGATA
* * **
5239549 AATCTAAGATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* *
5239573 AATTAAACAATATTAATA
1 AATTTAA-AATAATAATA
5239591 ATAAAACTAA
Statistics
Matches: 186, Mismatches: 46, Indels: 34
0.70 0.17 0.13
Matches are distributed among these distances:
20 1 0.01
21 20 0.11
22 29 0.16
23 46 0.25
24 72 0.39
25 18 0.10
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:5239480 original size:45 final size:47
Alignment explanation
Indices: 5239416--5239605 Score: 169
Period size: 45 Copynumber: 4.1 Consensus size: 47
5239406 TAATACATCC
* *
5239416 AAAAT-AATAATATATGATAAATTTAAA-AATATTAATGATAAATTT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATCT
* * *
5239461 AAAATAAAT-ATACATGATAAATTTAAATAATGTTAATGATGAATTT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATCT
* * **
5239507 AAAAT-AATAATA-TTGATAAATTACAAATAATAATGCATGATAAATCT
1 AAAATAAATAATACATGATAAATT-TAAATAAT-ATTAATGATAAATCT
* * ** * * *
5239554 AAGAT-AATAATATACAATAAA-TTAAACAATATTAATAATAAAACT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATCT
5239599 AAAATAA
1 AAAATAA
5239606 TATTAAGTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
45 49 0.42
46 41 0.35
47 22 0.19
48 5 0.04
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (47 bp):
AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATCT
Found at i:5239535 original size:114 final size:114
Alignment explanation
Indices: 5239339--5239551 Score: 254
Period size: 114 Copynumber: 1.9 Consensus size: 114
5239329 ACAATATAGA
* * * *
5239339 ATAAATTCGAAATAATAATACATAATAAATTTAAAAATTTTGATGATAATTTTAAAATAATAGTA
1 ATAAATTCAAAATAATAATACATAATAAATTTAAAAATGTTAATGATAATTTTAAAATAATAATA
* * *
5239404 CGTAATACATCCAAAATAATAATATATGATAAATTTAAAAATATTAATG
66 CGTAATAAATACAAAATAATAATACATGATAAATTTAAAAATATTAATG
* *
5239453 ATAAATTTAAAATAA-ATATACATGATAAATTTAAATAATGTTAATGATGAA-TTTAAAATAATA
1 ATAAATTCAAAATAATA-ATACATAATAAATTTAAA-AATGTTAATGAT-AATTTTAAAATAATA
* * *
5239516 ATA-TTGATAAATTAC-AAATAATAATGCATGATAAAT
63 ATACGTAATAAA-TACAAAATAATAATACATGATAAAT
5239552 CTAAGATAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
113 1 0.01
114 54 0.65
115 26 0.31
116 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (114 bp):
ATAAATTCAAAATAATAATACATAATAAATTTAAAAATGTTAATGATAATTTTAAAATAATAATA
CGTAATAAATACAAAATAATAATACATGATAAATTTAAAAATATTAATG
Found at i:5239606 original size:69 final size:68
Alignment explanation
Indices: 5239339--5239608 Score: 197
Period size: 69 Copynumber: 3.9 Consensus size: 68
5239329 ACAATATAGA
* * * * * * ** *
5239339 ATAAATTCGAAATAATAATACATAATAAATTTAAAAATTTTGATGATAATTTTAAAATAATA-GT
1 ATAAA-TCTAAATAATAATATATGATAAA-TTAAAAATATTAATAATAAAATTAAAATAATATAT
* *
5239403 ACGTA
64 ACATG
* * * *
5239408 ATACATCCAAAATAATAATATATGATAAATTTAAAAATATTAATGATAAATTTAAAATAA-ATAT
1 ATAAAT-CTAAATAATAATATATGATAAA-TTAAAAATATTAATAATAAAATTAAAATAATATAT
5239472 ACATG
64 ACATG
* ** * * * *
5239477 ATAAATTTAAATAATGTTA-ATGATGAATTTAAAATAATAATATTGATAAATTACAAATAATA-A
1 ATAAATCTAAATAATAATATATGATAAATTAAAAATATTAATAAT-A-AAATTA-AAATAATATA
*
5239540 TGCATG
63 TACATG
** *
5239546 ATAAATCTAAGATAATAATATACAATAAATTAAACAATATTAATAATAAAACTAAAATAATAT
1 ATAAATCTAA-ATAATAATATATGATAAATTAAA-AATATTAATAATAAAATTAAAATAATAT
5239609 TAAGTTTGAA
Statistics
Matches: 159, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
66 13 0.08
67 8 0.05
68 16 0.10
69 89 0.56
70 13 0.08
71 10 0.06
72 10 0.06
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (68 bp):
ATAAATCTAAATAATAATATATGATAAATTAAAAATATTAATAATAAAATTAAAATAATATATAC
ATG
Found at i:5241643 original size:18 final size:18
Alignment explanation
Indices: 5241620--5241656 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5241610 TGGTTTTGTG
5241620 TATGAATTTGTGGAAGCT
1 TATGAATTTGTGGAAGCT
5241638 TATGAATTTGTGGAAGCT
1 TATGAATTTGTGGAAGCT
5241656 T
1 T
5241657 TAATTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (18 bp):
TATGAATTTGTGGAAGCT
Done.