Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 168 of 318
Found at i:53049122 original size:12 final size:12
Alignment explanation
Indices: 53049091--53049124 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
53049081 CTGGGTTTTT
*
53049091 AGACACGAGCGA
1 AGACACGGGCGA
53049103 AGACACGGGCGA
1 AGACACGGGCGA
53049115 AGACACGGGC
1 AGACACGGGC
53049125 TTGTCTAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.38, T:0.00
Consensus pattern (12 bp):
AGACACGGGCGA
Found at i:53056323 original size:14 final size:14
Alignment explanation
Indices: 53056292--53056332 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
53056282 TAAGTTCTTC
53056292 AAATT-ATTAA-TT
1 AAATTAATTAATTT
53056304 -AATTAATTAATTT
1 AAATTAATTAATTT
*
53056317 AAATTAAATAATTT
1 AAATTAATTAATTT
53056331 AA
1 AA
53056333 GTTTAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 2 0.08
14 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTAATTAATTT
Found at i:53056471 original size:9 final size:9
Alignment explanation
Indices: 53056456--53056507 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
53056446 TTGGGTTAAG
53056456 AAATTAATT
1 AAATTAATT
* *
53056465 TAATTAA-G
1 AAATTAATT
53056473 AAATTAATT
1 AAATTAATT
* *
53056482 TAGTTAATT
1 AAATTAATT
*
53056491 AAATTGATT
1 AAATTAATT
53056500 AAATTAAT
1 AAATTAAT
53056508 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (9 bp):
AAATTAATT
Found at i:53056471 original size:17 final size:17
Alignment explanation
Indices: 53056451--53056488 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
53056441 TAGAATTGGG
53056451 TTAAGAAATTAATTTAA
1 TTAAGAAATTAATTTAA
*
53056468 TTAAGAAATTAATTTAG
1 TTAAGAAATTAATTTAA
53056485 TTAA
1 TTAA
53056489 TTAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTAAGAAATTAATTTAA
Found at i:53057898 original size:26 final size:27
Alignment explanation
Indices: 53057847--53057900 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
53057837 ATCATTTAGA
53057847 AGACTTAGAAATTTTTTTCAAGGAAAC
1 AGACTTAGAAATTTTTTTCAAGGAAAC
* *
53057874 AGACTTAGAATTTTTTTTCAAGAAAAC
1 AGACTTAGAAATTTTTTTCAAGGAAAC
53057901 CTTTTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (27 bp):
AGACTTAGAAATTTTTTTCAAGGAAAC
Found at i:53059825 original size:24 final size:24
Alignment explanation
Indices: 53059798--53059860 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
53059788 ATTCAAGCCG
* *
53059798 GCACACATAGTGCCATTCAACTTC
1 GCACACATAGTGCCATTCAAATCC
53059822 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCAAATCC
*
53059846 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
53059861 ATATCGACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCCATTCAAATCC
Found at i:53062488 original size:33 final size:33
Alignment explanation
Indices: 53062444--53062596 Score: 119
Period size: 33 Copynumber: 4.6 Consensus size: 33
53062434 ATTTCCATGG
* *
53062444 CCCAACCATGGTCTTACATTCGTAGTGCCATAA
1 CCCAACTATGGTCTTACATTCATAGTGCCATAA
** * *
53062477 CCCAGTTATGGTCTTATCA-TCATAATGCCATAG
1 CCCAACTATGGTCTTA-CATTCATAGTGCCATAA
* ** * *
53062510 CCCAACTATGATCTTACTTATAGATATTGCCATAG
1 CCCAACTATGGTCTTAC--ATTCATAGTGCCATAA
* * * *
53062545 TCCAACCATGGTCTTACGTTCAAAGTGCCATAA
1 CCCAACTATGGTCTTACATTCATAGTGCCATAA
* *
53062578 CCCAGCTATGGTATTACAT
1 CCCAACTATGGTCTTACAT
53062597 ATAAACATTT
Statistics
Matches: 90, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
32 1 0.01
33 61 0.68
34 3 0.03
35 25 0.28
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
CCCAACTATGGTCTTACATTCATAGTGCCATAA
Found at i:53062559 original size:68 final size:69
Alignment explanation
Indices: 53062484--53062630 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 69
53062474 TAACCCAGTT
* * * * *
53062484 ATGGTCTTATC-ATCATAA-TGCCATAGCCCAACTATGATCTTACTTATAGATATTGCCATAGTC
1 ATGGTCTTATCGATCA-AAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTC
53062547 CAACC
65 CAACC
* * * * *
53062552 ATGGTCTTA-CGTTCAAAGTGCCATAACCCAGCTATGGTATTACATATAAACATTTCCATGGTCC
1 ATGGTCTTATCGATCAAAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTCC
53062616 AACC
66 AACC
53062620 ATGGTCTTATC
1 ATGGTCTTATC
53062631 CGTCAATTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
67 3 0.05
68 62 0.94
69 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (69 bp):
ATGGTCTTATCGATCAAAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTCC
AACC
Found at i:53082243 original size:12 final size:12
Alignment explanation
Indices: 53082226--53082259 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53082216 CTGGGTTTTT
**
53082226 AGACACGGGTGA
1 AGACACGGGCAA
53082238 AGACACGGGCAA
1 AGACACGGGCAA
53082250 AGACACGGGC
1 AGACACGGGC
53082260 GTGTCTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.38, T:0.03
Consensus pattern (12 bp):
AGACACGGGCAA
Found at i:53089981 original size:2 final size:2
Alignment explanation
Indices: 53089974--53089999 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53089964 TTTATCGCAT
53089974 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
53090000 AGCATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53091719 original size:9 final size:9
Alignment explanation
Indices: 53091704--53091755 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
53091694 TTGGGTTAAG
53091704 AAATTAATT
1 AAATTAATT
* *
53091713 TAATTAA-G
1 AAATTAATT
53091721 AAATTAATT
1 AAATTAATT
* *
53091730 TAGTTAATT
1 AAATTAATT
*
53091739 AAATTGATT
1 AAATTAATT
53091748 AAATTAAT
1 AAATTAAT
53091756 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (9 bp):
AAATTAATT
Found at i:53091721 original size:17 final size:17
Alignment explanation
Indices: 53091699--53091736 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
53091689 TTAGATTGGG
53091699 TTAAGAAATTAATTTAA
1 TTAAGAAATTAATTTAA
*
53091716 TTAAGAAATTAATTTAG
1 TTAAGAAATTAATTTAA
53091733 TTAA
1 TTAA
53091737 TTAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTAAGAAATTAATTTAA
Found at i:53093143 original size:26 final size:27
Alignment explanation
Indices: 53093092--53093145 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
53093082 ATCATTTAGA
*
53093092 AGACTTAGAAAATTTTTTCAAGGAAAC
1 AGACTCAGAAAATTTTTTCAAGGAAAC
* *
53093119 AGACTCAGAAATTTTTTTCAAGAAAAC
1 AGACTCAGAAAATTTTTTCAAGGAAAC
53093146 CCTGTTTTCA
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:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (27 bp):
AGACTCAGAAAATTTTTTCAAGGAAAC
Found at i:53096420 original size:27 final size:27
Alignment explanation
Indices: 53096382--53096439 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
53096372 CTCCCTCCTC
*
53096382 GGTTTTTTTTAATTTTGAT-AGGGTTAG
1 GGTTTTTTTTAATTTTG-TGAGGGTTAA
53096409 GGTTTTTTTTAATTTTGTGAGGGTTAA
1 GGTTTTTTTTAATTTTGTGAGGGTTAA
53096436 GGTT
1 GGTT
53096440 AAAGCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (27 bp):
GGTTTTTTTTAATTTTGTGAGGGTTAA
Found at i:53101840 original size:20 final size:21
Alignment explanation
Indices: 53101815--53101859 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
53101805 TCACTTAACA
*
53101815 AAACTTGTATAA-CTATCATC
1 AAACTTGTATAATCCATCATC
*
53101835 AAACTTTTATAATCCATCATC
1 AAACTTGTATAATCCATCATC
53101856 AAAC
1 AAAC
53101860 ATCAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (21 bp):
AAACTTGTATAATCCATCATC
Found at i:53110733 original size:545 final size:542
Alignment explanation
Indices: 53109706--53110789 Score: 1855
Period size: 545 Copynumber: 2.0 Consensus size: 542
53109696 TCAGTAACAA
*
53109706 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAAGGTGTGTCGGCTCATACGGTCTCAAA
53109771 CATTTATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAAAT
66 CATTTATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAAAT
**
53109836 AAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGATTTAATTG
131 AAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGACCTAATTG
53109901 CATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAA
196 CATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAA
* *
53109966 TTTTAGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACGACTATGTTACCAAACCATGTGG
261 TTTTAGGTTAAAACTATAATTTCTTATTTCTAGGGGACACACGACTATGTGACCAAACCATGTGG
* * *
53110031 GGAGCTCTGGGCTGTGTAGTTAGGCCTTGTAAGAGTCTAAGGTCGTGTGACATTCAAAATTTCAA
326 GGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTTCAA
* * * *
53110096 CCTACAAGGAAGAAATGATCGTGTGGCAGGCCGTGTGGGGGGTCTTAAGCCGTGTGAGAAGCGAA
391 CCTACAAGGAAGAAACGATCATGTGGCAGGCCATGCGGGGGGTCTTAAGCCGTGTGAGAAGCGAA
* *
53110161 AACCTAGGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTCATGCAATCCACATTGGCGGGCCAC
456 AACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTCATGCAATACACATTGG-GGGCCAC
* *
53110226 ACGCCCATATGGACTGGGCTATT
520 ACGCCCATACGGACTAGGCTATT
* *
53110249 AGTTCATGCTTTTCTATATTTAGATAGTCAATAATTTAAGGTGTGTCGGCTCATACGGTCTCCAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAAGGTGTGTCGGCTCATACGGTCTCAAA
* *
53110314 CATTTATATGTATATATATAAGAACATATATTATTCTTAATTCATGCTAACATTCATAATGGCAA
66 CATTTATA--TATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAA
53110379 ATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATC-AGAGACCTAA
129 ATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAG-GACCTAA
53110443 TTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATA
193 TTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATA
*
53110508 AAATTTTGGGTTAAAACTATAATTTCTTATTTCTAGGGGACACACGACTATGTGACCAAACCATG
258 AAATTTTAGGTTAAAACTATAATTTCTTATTTCTAGGGGACACACGACTATGTGACCAAACCATG
* * *
53110573 TGGGGAGCTTTGGGCTGTGTGGCTAGGCCTTGTAAGAGACTGAGGCCGTGTGACATTCAAAATTT
323 TGGGGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTT
* * *
53110638 CAACCTATAAGGAAGACACGGTCATGTGGCAGGCCATGCGGGGGGTCTTAAGCCGTGTGAGAAGC
388 CAACCTACAAGGAAGAAACGATCATGTGGCAGGCCATGCGGGGGGTCTTAAGCCGTGTGAGAAGC
* *
53110703 GAAAACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTTATGCAATACACATTGGTGGCC
453 GAAAACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTCATGCAATACACATTGGGGGCC
*
53110768 ACACGCCCGTACGGACTAGGCT
518 ACACGCCCATACGGACTAGGCT
53110790 GTTTTGATTT
Statistics
Matches: 508, Mismatches: 30, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
543 70 0.14
544 25 0.05
545 413 0.81
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (542 bp):
AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAAGGTGTGTCGGCTCATACGGTCTCAAA
CATTTATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAAAT
AAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGACCTAATTG
CATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAA
TTTTAGGTTAAAACTATAATTTCTTATTTCTAGGGGACACACGACTATGTGACCAAACCATGTGG
GGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTTCAA
CCTACAAGGAAGAAACGATCATGTGGCAGGCCATGCGGGGGGTCTTAAGCCGTGTGAGAAGCGAA
AACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTCATGCAATACACATTGGGGGCCACA
CGCCCATACGGACTAGGCTATT
Found at i:53120104 original size:17 final size:17
Alignment explanation
Indices: 53120084--53120122 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
53120074 AAAATAATAT
*
53120084 TATTTTACTAGATTTAA
1 TATTTTACTAAATTTAA
* *
53120101 TATTATATTAAATTTAA
1 TATTTTACTAAATTTAA
53120118 TATTT
1 TATTT
53120123 ATCTTAATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTACTAAATTTAA
Found at i:53120216 original size:62 final size:59
Alignment explanation
Indices: 53120143--53120261 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 59
53120133 TATTTTATTA
* * *
53120143 ATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAATTATTCTATTAATTTAATAAG
1 ATTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAAG
*
53120205 ATTTAATATTAAATTTAATCTGATATTTATCTTGATAAGTATTATATTAATTTAATA
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
53120262 TTAAAGTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.42
60 1 0.02
61 1 0.02
62 29 0.55
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.51
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAAG
Found at i:53128480 original size:54 final size:54
Alignment explanation
Indices: 53128410--53128519 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
53128400 ACAAGCTTCA
* * *
53128410 TACATCAATTAGGTACAGGAATGTTTTGTAGTGACTGATGCGAAGCTAGGCGCT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCACT
53128464 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCACT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCACT
53128518 TA
1 TA
53128520 GCTGACTGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (54 bp):
TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCACT
Found at i:53130708 original size:153 final size:153
Alignment explanation
Indices: 53130424--53130741 Score: 539
Period size: 153 Copynumber: 2.1 Consensus size: 153
53130414 CACGGCCAAG
* * * *
53130424 CACACCGGCATGTGTCCAGGCTGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGTCGT
1 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
53130489 GTAACTCATAGTTCATCAATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
66 GTAACTCATAGTTCATCAATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
53130554 TGTGGCCATGTTAGTGCAAGGTT
131 TGTGGCCATGTTAGTGCAAGGTT
*
53130577 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTGGGTGGCCGT
1 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
* **
53130642 GTAATTCATAGTTCATTTATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGAC-GT
66 GTAACTCATAGTTCATCAATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAG-CTGT
*
53130706 GTGTGGCCATGTTAGTGCAGGGTT
130 GTGTGGCCATGTTAGTGCAAGGTT
53130730 CACACGGGCATG
1 CACACGGGCATG
53130742 GGACACGAGC
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
153 154 0.99
154 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (153 bp):
CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
GTAACTCATAGTTCATCAATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
TGTGGCCATGTTAGTGCAAGGTT
Found at i:53131423 original size:16 final size:16
Alignment explanation
Indices: 53131387--53131427 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
53131377 CTGATCTGCA
* *
53131387 ATATATATATATGAAT
1 ATATGTATATATAAAT
53131403 -T-TGTATATATAAAT
1 ATATGTATATATAAAT
53131417 ATATGTATATA
1 ATATGTATATA
53131428 ATTGTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (16 bp):
ATATGTATATATAAAT
Found at i:53132866 original size:19 final size:19
Alignment explanation
Indices: 53132839--53132875 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53132829 TTTTCTTGAA
*
53132839 AAATTAATTTGGAAAATTT
1 AAATGAATTTGGAAAATTT
*
53132858 AAATGAATTTGGGAAATT
1 AAATGAATTTGGAAAATT
53132876 AGTTTTGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (19 bp):
AAATGAATTTGGAAAATTT
Found at i:53133350 original size:68 final size:66
Alignment explanation
Indices: 53133276--53133474 Score: 198
Period size: 68 Copynumber: 3.0 Consensus size: 66
53133266 ATTTTAATAG
* * *
53133276 ATTTAATATTAAATTTAATTTAATACTTATCTTAAT-ATTATTTTATTAATTTAATATGAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATAT-AAA-TG
53133340 ATT
64 ATT
* *
53133343 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-AT-AA
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATATAAA
53133405 --A--
62 TGATT
* * *
53133406 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAATG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA-T-AAATG
53133471 ATT
64 ATT
53133474 A
1 A
53133475 AGTTTAATCA
Statistics
Matches: 109, Mismatches: 9, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 28 0.26
63 2 0.02
64 2 0.02
65 1 0.01
66 1 0.01
67 2 0.02
68 30 0.28
69 1 0.01
70 4 0.04
71 3 0.03
72 14 0.13
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATAAATGAT
T
Found at i:53133469 original size:62 final size:62
Alignment explanation
Indices: 53133346--53133462 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
53133336 AGTGATTATC
* * *
53133346 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
*
53133408 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
53133463 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
Found at i:53134664 original size:82 final size:82
Alignment explanation
Indices: 53134519--53134682 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
53134509 TAGGCCACTT
* * *
53134519 GATTAAGTAAGACTAAAAATACATGGCAATACTCGAATAAGTTGATATGAGATATTATACTTATT
1 GATTAAGTAAGACTAAAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
53134584 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
* * * *
53134601 GATTAAGTAAGACTAGAAATAAATGGCAATGCTCGAATAAGTTGATATAATATATCATTCTTATT
1 GATTAAGTAAGACTAAAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
53134666 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
53134683 TCGAGATATC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (82 bp):
GATTAAGTAAGACTAAAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
TGTTTATTGTAGTTTAC
Found at i:53136431 original size:27 final size:29
Alignment explanation
Indices: 53136369--53136428 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
53136359 AGTTAAGAAG
53136369 AAGAAATTATTAAACTTTTCATACACACC
1 AAGAAATTATTAAACTTTTCATACACACC
53136398 AAGAAATTATTAAACTTTTCATACACACC
1 AAGAAATTATTAAACTTTTCATACACACC
53136427 AA
1 AA
53136429 AATGCTAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (29 bp):
AAGAAATTATTAAACTTTTCATACACACC
Found at i:53138925 original size:90 final size:90
Alignment explanation
Indices: 53138803--53138978 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 90
53138793 AAAAGAAAAA
* * * * * *
53138803 CAATTAAGCCTCTATTTTTTTTTTGCATTCAATTAGGTA-TTTAAATTTCAAAATGTATCAAAAA
1 CAATTAAGCCCCTACTTTTTTTTTGCACTCAATTAGGTACTTGAAATATCAAAATATATCAAAAA
53138867 -AGCCCTCAAACTTTTTTCAAAAAAGG
66 GA-CCCTCAAAC-TTTTTCAAAAAAGG
* *
53138893 CAATTAAGCCCCTACTTTTTTTTTGCACTCAATTTGGTACTTGAACTATCAAAATATATCAAAAA
1 CAATTAAGCCCCTACTTTTTTTTTGCACTCAATTAGGTACTTGAAATATCAAAATATATCAAAAA
*
53138958 GACCCTTAAACTTTTTCAAAA
66 GACCCTCAAACTTTTTCAAAA
53138979 TGTAATTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 45 0.60
91 29 0.39
92 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (90 bp):
CAATTAAGCCCCTACTTTTTTTTTGCACTCAATTAGGTACTTGAAATATCAAAATATATCAAAAA
GACCCTCAAACTTTTTCAAAAAAGG
Found at i:53139212 original size:19 final size:20
Alignment explanation
Indices: 53139189--53139272 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 20
53139179 ATAAAAATCA
*
53139189 ATAAAAGTTATAAAAAATAT
1 ATAAAAATTATAAAAAATAT
**
53139209 -TAAATTTTAATAAAAAATAT
1 ATAAAAATT-ATAAAAAATAT
* *
53139229 -TAAAAATTAGAAAAAAAAT
1 ATAAAAATTATAAAAAATAT
*
53139248 ATAAAAATCATAAAAAA-AT
1 ATAAAAATTATAAAAAATAT
53139267 ATAAAA
1 ATAAAA
53139273 GTGTAAACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
19 23 0.43
20 31 0.57
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATTATAAAAAATAT
Found at i:53139604 original size:19 final size:19
Alignment explanation
Indices: 53139580--53139663 Score: 100
Period size: 19 Copynumber: 4.4 Consensus size: 19
53139570 GTTAAAGGGC
53139580 ATTTTTTATGCA-TTTTATA
1 ATTTTTTATG-ATTTTTATA
53139599 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
** *
53139618 AAATTTTATAATTTTT-TA
1 ATTTTTTATGATTTTTATA
53139636 TATTTTATTATGATTTTTATA
1 -ATTTT-TTATGATTTTTATA
53139657 ATTTTTT
1 ATTTTTT
53139664 TCTAATTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
18 3 0.05
19 35 0.64
20 15 0.27
21 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:53139605 original size:10 final size:10
Alignment explanation
Indices: 53139592--53139663 Score: 78
Period size: 10 Copynumber: 7.4 Consensus size: 10
53139582 TTTTTATGCA
53139592 TTTTATAATT
1 TTTTATAATT
*
53139602 TTTTATGA-T
1 TTTTATAATT
**
53139611 TTTTATAAAA
1 TTTTATAATT
53139621 TTTTATAATT
1 TTTTATAATT
53139631 TTTTAT-ATT
1 TTTTATAATT
*
53139640 TTATTATGA-T
1 TT-TTATAATT
53139650 TTTTATAATT
1 TTTTATAATT
53139660 TTTT
1 TTTT
53139664 TCTAATTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 18 0.35
10 33 0.63
11 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:53139672 original size:10 final size:11
Alignment explanation
Indices: 53139592--53139672 Score: 52
Period size: 10 Copynumber: 8.1 Consensus size: 11
53139582 TTTTTATGCA
53139592 TTTTATAA-TT
1 TTTTATAATTT
*
53139602 TTTTATGA--T
1 TTTTATAATTT
**
53139611 TTTTATAA-AA
1 TTTTATAATTT
53139621 TTTTATAA-TT
1 TTTTATAATTT
53139631 TTTTAT-ATTT
1 TTTTATAATTT
* *
53139641 TATTATGA--T
1 TTTTATAATTT
53139650 TTTTATAATTT
1 TTTTATAATTT
*
53139661 TTTTCTAATTT
1 TTTTATAATTT
53139672 T
1 T
53139673 AATAAAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
9 16 0.28
10 28 0.49
11 13 0.23
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:53139716 original size:58 final size:59
Alignment explanation
Indices: 53139591--53139720 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 59
53139581 TTTTTTATGC
* * *
53139591 ATTTTATAA-TTTTTTATGATTTTTATAAAATTTTATAATTTTTTATATTTTATTATGA
1 ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAATTTTTTATATTTTATTATAA
* *
53139649 TTTTTATAATTTTTTTCTAATTTTAATAAAA-TTTA-AATATTTTTATATTTTTATTA-AA
1 ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAAT-TTTTTATA-TTTTATTATAA
*
53139707 ATTTAATAATTTTT
1 ATTTTATAATTTTT
53139721 ATAACTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 3 0.05
58 33 0.53
59 26 0.42
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (59 bp):
ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAATTTTTTATATTTTATTATAA
Found at i:53139721 original size:10 final size:9
Alignment explanation
Indices: 53139592--53139731 Score: 84
Period size: 9 Copynumber: 14.7 Consensus size: 9
53139582 TTTTTATGCA
53139592 TTTTATAATT
1 TTTTATAA-T
*
53139602 TTTTATGAT
1 TTTTATAAT
*
53139611 TTTTATAAAA
1 TTTTAT-AAT
53139621 TTTTATAATT
1 TTTTATAA-T
*
53139631 TTTTATATT
1 TTTTATAAT
*
53139640 TTATTATGAT
1 TT-TTATAAT
53139650 TTTTATAATTT
1 TTTTATAA--T
*
53139661 TTTTCTAAT
1 TTTTATAAT
* *
53139670 TTTAATAAA
1 TTTTATAAT
* *
53139679 ATTTAAATAT
1 TTTTATA-AT
53139689 TTTTAT-AT
1 TTTTATAAT
*
53139697 TTTTATTAAAA
1 TTTTA-T-AAT
*
53139708 TTTAATAAT
1 TTTTATAAT
*
53139717 TTTTATAAC
1 TTTTATAAT
53139726 TTTTAT
1 TTTTAT
53139732 TTGGTTTTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.07
9 44 0.45
10 34 0.35
11 13 0.13
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:53139730 original size:29 final size:28
Alignment explanation
Indices: 53139591--53139732 Score: 119
Period size: 28 Copynumber: 4.9 Consensus size: 28
53139581 TTTTTTATGC
*
53139591 ATTTTATAATTTTTTATGATTTT-TATAAA
1 ATTTTATAA-TTTTTATAATTTTAT-TAAA
*
53139620 ATTTTATAATTTTT-TATATTTTATTATGA
1 ATTTTATAATTTTTATA-ATTTTATTA-AA
* * *
53139649 TTTTTATAATTTTTTTCTAATTTTAATAAA
1 ATTTTATAA--TTTTTATAATTTTATTAAA
* *
53139679 A-TTTAAATATTTTTATATTTTTATTAAA
1 ATTTTATA-ATTTTTATAATTTTATTAAA
*
53139707 ATTTAATAATTTTTATAACTTTTATT
1 ATTTTATAATTTTTATAA-TTTTATT
53139733 TGGTTTTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
27 1 0.01
28 38 0.42
29 35 0.38
30 2 0.02
31 13 0.14
32 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
ATTTTATAATTTTTATAATTTTATTAAA
Found at i:53141111 original size:268 final size:268
Alignment explanation
Indices: 53140758--53141290 Score: 913
Period size: 268 Copynumber: 2.0 Consensus size: 268
53140748 AAGGGGTGAG
*
53140758 AATCCAACTCCTCGATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
* *
53140823 AAATCATTTTGAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGGATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
* * *
53140888 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCGTAGGTTCTCGATAGTGGAGTGGGTCAAATACG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
* * * * *
53140953 TAATTAGGTGGGTGAAAATAACCCAAAAATTCCTTAGAAACTCGACTAAAATCGCAAAACAAAGG
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
53141018 TTGTACAA
261 TTGTACAA
* * *
53141026 AATCCAACTCCTCCATCATAGTAGGCTTCTAGTTGGTCGCTATTTTCTGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
53141091 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
* *
53141156 GATTTGTGTGTTTTGTTTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
*
53141221 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAGAGA
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
53141286 TTGTA
261 TTGTA
53141291 TGAAATTGCC
Statistics
Matches: 248, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
268 248 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (268 bp):
AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
TTGTACAA
Found at i:53141653 original size:15 final size:15
Alignment explanation
Indices: 53141621--53141649 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53141611 ATTTTCTGTG
53141621 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
53141636 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
53141650 ATTTTGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:53146652 original size:33 final size:33
Alignment explanation
Indices: 53146615--53146682 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
53146605 AAAGAAACAT
* *
53146615 TGAATCAGTACTTGTTGTGTGCGAGTATCTGGA
1 TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
53146648 TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
1 TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
53146681 TG
1 TG
53146683 TGTTTCATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.34
Consensus pattern (33 bp):
TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
Found at i:53150266 original size:31 final size:31
Alignment explanation
Indices: 53150231--53150291 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
53150221 CTTGTCACTT
53150231 GTAGCCGAAGCTACCACTAT-TCACTGATCAG
1 GTAGCCGAAGCTACCACT-TCTCACTGATCAG
*
53150262 GTAGCCGGAGCTACCACTTCTCACTGATCA
1 GTAGCCGAAGCTACCACTTCTCACTGATCA
53150292 AATTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTCTCACTGATCAG
Found at i:53150431 original size:35 final size:35
Alignment explanation
Indices: 53150387--53150583 Score: 279
Period size: 35 Copynumber: 5.6 Consensus size: 35
53150377 TCCTCATTGA
*
53150387 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCGGTAT-GGAT
** * *
53150422 AATACCATACCTACGTTTCTTAACTCAGCATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
**
53150457 AATACCATACCTACGTTTCACAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
53150492 GATACCATACCTACGTTTCACAACTCGGTATAGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
53150527 GATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
53150562 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
53150584 CTTTGCCATA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
34 3 0.02
35 142 0.98
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGAT
Found at i:53163060 original size:23 final size:23
Alignment explanation
Indices: 53163017--53163061 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53163007 GAAAAGAACT
* *
53163017 GAAAAGAAATCTAAAGCCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
53163040 GAAAAGAAAACTGAAA-ACTAAA
1 GAAAAGAAAACT-AAAGACTAAA
53163062 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:53168557 original size:20 final size:20
Alignment explanation
Indices: 53168528--53168565 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53168518 CAATGCAATG
*
53168528 TATGTCTCGAGACTTGGCAA
1 TATGTCTCGAGACATGGCAA
*
53168548 TATGTTTCGAGACATGGC
1 TATGTCTCGAGACATGGC
53168566 TGAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATGTCTCGAGACATGGCAA
Found at i:53180159 original size:343 final size:343
Alignment explanation
Indices: 53179533--53180221 Score: 1306
Period size: 343 Copynumber: 2.0 Consensus size: 343
53179523 TGATCCAGAA
53179533 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
53179598 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
* *
53179663 ATGTTAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
131 ATGTCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
*
53179728 CCATCTACTTATTCTGAGCCATTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
* *
53179793 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAATCTAGTGAAGCTTCCTAAGGGTAAAAAGG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
53179858 TTGTTCATTGTAAATAAG
326 TTGTTCATTGTAAATAAG
* * *
53179876 TGTACAACAGAGTCTAGTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTTTTTACCATA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
53179941 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
53180006 ATGTCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
131 ATGTCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
53180071 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
53180136 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
53180201 TTGTTCATTGTAAATAAG
326 TTGTTCATTGTAAATAAG
53180219 TGT
1 TGT
53180222 TCAAGAAGAA
Statistics
Matches: 338, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 338 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (343 bp):
TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
ATGTCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
TTGTTCATTGTAAATAAG
Found at i:53180546 original size:21 final size:21
Alignment explanation
Indices: 53180516--53180558 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
53180506 TTCCTAAAAA
53180516 AGTCCATTTATGGC-CTGAAAC
1 AGTCCATTTATGGCTC-GAAAC
*
53180537 AGTCCCTTTATGGCTCGAAAC
1 AGTCCATTTATGGCTCGAAAC
53180558 A
1 A
53180559 ATCACCAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
AGTCCATTTATGGCTCGAAAC
Found at i:53187511 original size:16 final size:18
Alignment explanation
Indices: 53187472--53187513 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
53187462 AAAATTTATA
53187472 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
53187489 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
53187506 A-ATTTATA
1 ATATTTATA
53187514 ACATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:53191262 original size:21 final size:21
Alignment explanation
Indices: 53191208--53191276 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
53191198 AGAAAATTTT
*
53191208 AAAATTATTTAAAAAT-TA-T
1 AAAATTATTTAAAAATATAGA
**
53191227 AAAATTA-CGATAAAATATAGA
1 AAAATTATTTA-AAAATATAGA
53191248 AAAATTATTTAAAAATATAGA
1 AAAATTATTTAAAAATATAGA
*
53191269 AAGATTAT
1 AAAATTAT
53191277 AAATTTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.30
20 2 0.05
21 24 0.60
22 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAATTATTTAAAAATATAGA
Found at i:53191355 original size:10 final size:9
Alignment explanation
Indices: 53191342--53191431 Score: 51
Period size: 9 Copynumber: 9.6 Consensus size: 9
53191332 AAAATGATAA
53191342 AAAAATTAT
1 AAAAATTAT
*
53191351 TAAAATTCAT
1 AAAAATT-AT
*
53191361 AAAAAATCAT
1 -AAAAATTAT
*
53191371 AAAATTTAT
1 AAAAATTAT
53191380 -AAAATATATT
1 AAAAAT-TA-T
53191390 ACAAAA-TAT
1 A-AAAATTAT
*
53191399 AAGAA-TAT
1 AAAAATTAT
53191407 AGAAAATTATT
1 A-AAAATTA-T
*
53191418 TAAAATTAT
1 AAAAATTAT
53191427 AAAAA
1 AAAAA
53191432 AATGGGTCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 11 0.18
9 25 0.40
10 16 0.26
11 6 0.10
12 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:53191373 original size:19 final size:20
Alignment explanation
Indices: 53191341--53191383 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
53191331 TAAAATGATA
*
53191341 AAAAAATTATTAAAATTCAT
1 AAAAAATCATTAAAATTCAT
*
53191361 AAAAAATCA-TAAAATTTAT
1 AAAAAATCATTAAAATTCAT
53191380 AAAA
1 AAAA
53191384 TATATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATCATTAAAATTCAT
Found at i:53191400 original size:28 final size:27
Alignment explanation
Indices: 53191362--53191430 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
53191352 AAAATTCATA
* *
53191362 AAAAATCATAAAATTTATAAAA-TATATT
1 AAAAAT-ATAAAATATAGAAAATTAT-TT
53191390 ACAAAATATAAGAATATAGAAAATTATTT
1 A-AAAATATAA-AATATAGAAAATTATTT
*
53191419 AAAATTATAAAA
1 AAAAATATAAAA
53191431 AAATGGGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 13 0.37
29 17 0.49
30 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAAATATAAAATATAGAAAATTATTT
Found at i:53192934 original size:16 final size:17
Alignment explanation
Indices: 53192891--53192937 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
53192881 CAGTCATGCA
*
53192891 ATACTCAATTCATGAAT
1 ATACTCAATTCATGAAC
* *
53192908 ATA-TCATTTCAT-ACC
1 ATACTCAATTCATGAAC
53192923 ATACTCAATTCATGA
1 ATACTCAATTCATGA
53192938 GTATATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (17 bp):
ATACTCAATTCATGAAC
Found at i:53194323 original size:5 final size:5
Alignment explanation
Indices: 53194313--53194379 Score: 104
Period size: 5 Copynumber: 14.0 Consensus size: 5
53194303 ATTCTTTTAT
53194313 TATAA TATAA TAT-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
53194362 TA-CA -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA
53194380 CATTTACTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 1 0.02
4 6 0.11
5 50 0.88
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:53196022 original size:17 final size:17
Alignment explanation
Indices: 53196000--53196034 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53195990 ATCTTAAGTG
53196000 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
53196017 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
53196034 G
1 G
53196035 CGTGACTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (17 bp):
GATGACGAACTATGTAT
Found at i:53197661 original size:13 final size:13
Alignment explanation
Indices: 53197643--53197674 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
53197633 CCCAAAATGT
53197643 CACACGGCTATGG
1 CACACGGCTATGG
53197656 CACACGGCTATGG
1 CACACGGCTATGG
53197669 CACACG
1 CACACG
53197675 CCCGTGTACT
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:0.25, C:0.34, G:0.28, T:0.12
Consensus pattern (13 bp):
CACACGGCTATGG
Found at i:53198678 original size:47 final size:47
Alignment explanation
Indices: 53198475--53198701 Score: 186
Period size: 47 Copynumber: 4.8 Consensus size: 47
53198465 GTAAGGTACC
53198475 GATGCCATGTCCCAGACATGGTCTTACA-TAGACTCAT-ATCTCAAGTG--
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCAT-TCAA-TGCA
* **
53198522 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CAT-TCAATG-CA
* * * * * *
53198573 -ATGCCATATCTCAGACATGGTCTTACACT-G-ACACATCTC-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TCAAT-GCA
*
53198618 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTTTCAATGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATTCAATGCA
*
53198664 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
53198702 CAATGTGGCC
Statistics
Matches: 145, Mismatches: 20, Indels: 30
0.74 0.10 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 20 0.14
47 46 0.32
48 22 0.15
49 5 0.03
50 26 0.18
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTCAATGCA
Found at i:53200693 original size:26 final size:25
Alignment explanation
Indices: 53200614--53200709 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
53200604 GAGGAAGTGC
*
53200614 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
*
53200639 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
* * *
53200664 AAAAGGGCTTTTGCCCTAGTCTATCA
1 AAAAGGGC-TTTGCCCTAGTTTACCG
*
53200690 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
53200710 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 41 0.66
26 21 0.34
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:53200694 original size:51 final size:50
Alignment explanation
Indices: 53200614--53200709 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 50
53200604 GAGGAAGTGC
* *
53200614 AAAAGGGCTATGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCTAGTCTACCAAAAAGGGCTTTGCCCCAGTTTACCG
* *
53200664 AAAAGGGCTTTTGCCCTAGTCTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TATGCCCTAGTCTACCAAAAAGGGCTTTGCCCCAGTT
53200710 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 8 0.20
51 33 0.80
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCTAGTCTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:53200968 original size:31 final size:31
Alignment explanation
Indices: 53200929--53201012 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
53200919 TTGTTACAGT
53200929 AAAA-GCTTCGGCCCAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
53200959 AAAAGGCTTCGGCCCAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
53200990 TAAAGGCTTCGGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
53201013 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
30 9 0.17
31 43 0.83
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:53208180 original size:46 final size:46
Alignment explanation
Indices: 53208130--53208305 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
53208120 TGTTTGGGCA
*
53208130 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *** * * ** *
53208176 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGAGAGATGTA-ACAGGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-GAACG
* *
53208223 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
53208269 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53208306 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53208284 original size:93 final size:93
Alignment explanation
Indices: 53208125--53208297 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
53208115 TAGGATGTTT
* * *
53208125 GGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
1 GGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
53208190 GTTGAGTCAGAGTTCGAGAGATGTAACA
66 GTTGAGTCAGAGTTCGAGAGATGTAACA
* *
53208218 GGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
*
53208283 GTTGAGTCCGAGTTC
66 GTTGAGTCAGAGTTC
53208298 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
GTTGAGTCAGAGTTCGAGAGATGTAACA
Found at i:53210786 original size:51 final size:51
Alignment explanation
Indices: 53210726--53210827 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
53210716 GGCTGAATAT
53210726 GTAAGTGTTAATAGGTAGTCTTCGATTTGGTTTAATTACTAACATGATCTA
1 GTAAGTGTTAATAGGTAGTCTTCGATTTGGTTTAATTACTAACATGATCTA
53210777 GTAAGTGTTAATAGGTAGTCTTCGATTTGGTTTAATTACTAACATGATCTA
1 GTAAGTGTTAATAGGTAGTCTTCGATTTGGTTTAATTACTAACATGATCTA
53210828 ATCTATAAGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (51 bp):
GTAAGTGTTAATAGGTAGTCTTCGATTTGGTTTAATTACTAACATGATCTA
Found at i:53211629 original size:26 final size:25
Alignment explanation
Indices: 53211560--53211655 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
53211550 GAGGAAGTGC
* *
53211560 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
53211585 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
* * *
53211610 AAAAGGGCTTTTGCTCCAGTCTATCA
1 AAAAGGGC-TTTGCCCCAGTTTATCG
53211636 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53211656 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
25 41 0.65
26 22 0.35
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:53211892 original size:31 final size:31
Alignment explanation
Indices: 53211845--53211928 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
53211835 TTGTTACAGT
*
53211845 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
53211876 AAAGACTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
53211907 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53211929 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:53212741 original size:30 final size:30
Alignment explanation
Indices: 53212707--53212766 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
53212697 TGGAAATTCC
53212707 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
53212737 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
53212767 CTCCACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
ACTATCTCAATGATCATTACACATTCTCAA
Found at i:53218261 original size:25 final size:26
Alignment explanation
Indices: 53218231--53218279 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
53218221 TGAATTTGTC
*
53218231 ATTTTTTTTCT-TAATTTGATACTTA
1 ATTTTTTTTATCTAATTTGATACTTA
*
53218256 ATTTTTTTTATCTAATTTGGTACT
1 ATTTTTTTTATCTAATTTGATACT
53218280 CAAATTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTTTTTTTATCTAATTTGATACTTA
Found at i:53218285 original size:27 final size:25
Alignment explanation
Indices: 53218231--53218286 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
53218221 TGAATTTGTC
* *
53218231 ATTTTTTTTCTTAATTTGATACTTA
1 ATTTTTTTTATTAATTTGATACTAA
*
53218256 ATTTTTTTTATCTAATTTGGTACTCAA
1 ATTTTTTTTAT-TAATTTGATACT-AA
53218283 ATTT
1 ATTT
53218287 GGCCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 11 0.42
27 5 0.19
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTTTTTTATTAATTTGATACTAA
Found at i:53218560 original size:24 final size:23
Alignment explanation
Indices: 53218516--53218561 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
53218506 TATGTTTTTA
*
53218516 TTTTATTTTATATGTTCAATTAC
1 TTTTATTTTATATATTCAATTAC
* *
53218539 TTTTAGTTTTATTTATTTAATTA
1 TTTTA-TTTTATATATTCAATTA
53218562 ATTGTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATATTCAATTAC
Found at i:53228795 original size:46 final size:46
Alignment explanation
Indices: 53228691--53228826 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 46
53228681 ACATCTTTTA
* * **
53228691 GCCGATGCATGTCCAAGACATGTCTTACACTAGCTTACGTCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATAACGAG
* * * *
53228737 GCCGATGTATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGCG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATAACGAG
* * *
53228783 GCTGATGCATGTCCCAGACATGCCTTACACTAGCCTACAATAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTAC-ATAAC
53228827 CCATATGCCA
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 67 0.92
47 5 0.07
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATAACGAG
Found at i:53245551 original size:55 final size:52
Alignment explanation
Indices: 53245439--53245728 Score: 202
Period size: 55 Copynumber: 5.5 Consensus size: 52
53245429 AACTTGCCAT
* * * *
53245439 TGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAACTCATCAA
* * *
53245492 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTGTGGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-G-AACTCATCAA
* * * * * *
53245547 TGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTAT-GAACTCATCAA
* * * * *
53245601 TGTCATGCCTTGGCATGGTCTTACATGATA---T-CCTTAT---CTTACCAAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAACTCATC-AA
* ** *
53245647 TGTCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACAT-ATCAA
1 TGCCATG--CCTTGACATGGTCTTACATGGTA-CCTTGCCTTAT-GAAC-TCATCAA
*
53245702 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
53245729 ATAACCTTAT
Statistics
Matches: 184, Mismatches: 35, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
45 5 0.03
46 8 0.04
47 16 0.09
48 2 0.01
49 6 0.03
50 1 0.01
51 1 0.01
52 7 0.04
53 36 0.20
54 46 0.25
55 50 0.27
56 5 0.03
57 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAACTCATCAA
Found at i:53245628 original size:54 final size:54
Alignment explanation
Indices: 53245439--53245736 Score: 229
Period size: 54 Copynumber: 5.6 Consensus size: 54
53245429 AACTTGCCAT
* * * * * *
53245439 TGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* ** * * *
53245492 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTGGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAA
* * * *
53245547 TGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* * ** * *
53245601 TGTCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA-AA--TGTC-A
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-TAGAACTTATCAA
* ** * * *
53245652 TG---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* *
53245702 TGCCATGCCTTGGCATGGTCTTACATGATAACCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
53245737 ATCTTACCAA
Statistics
Matches: 192, Mismatches: 40, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 28 0.15
48 3 0.02
49 3 0.02
50 3 0.02
51 3 0.02
52 5 0.03
53 36 0.19
54 65 0.34
55 43 0.22
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
Found at i:53245668 original size:47 final size:47
Alignment explanation
Indices: 53245614--53245783 Score: 169
Period size: 47 Copynumber: 3.5 Consensus size: 47
53245604 CATGCCTTGG
53245614 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
* * ** * * ***
53245661 CATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTATCTTA-CCAA-ATGTC-ATG---TTCC-AAA
* *
53245715 CATGGTCTTACATGATAACCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
*
53245762 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGATATCCTT
53245784 GTTGTAACAC
Statistics
Matches: 94, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
47 46 0.49
48 5 0.05
49 4 0.04
50 3 0.03
51 3 0.03
52 3 0.03
53 5 0.05
54 25 0.27
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
Found at i:53245690 original size:101 final size:101
Alignment explanation
Indices: 53245559--53245785 Score: 382
Period size: 101 Copynumber: 2.2 Consensus size: 101
53245549 CCATGTCTCG
* * * * * *
53245559 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGATGTCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
* *
53245624 CATGATATCCTTATCTTACCAAATGTCATGTTCCAA
66 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
53245660 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
53245725 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
53245761 ACATGGTCTTACATGGTATCCTTGT
1 ACATGGTCTTACATGGTATCCTTGT
53245786 TGTAACACCC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 118 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
Found at i:53249148 original size:44 final size:44
Alignment explanation
Indices: 53249079--53249165 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
53249069 GTATCCTTAA
* *
53249079 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* * *
53249123 CCGTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
53249166 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:53251883 original size:46 final size:46
Alignment explanation
Indices: 53251833--53252005 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
53251823 TGGTTGAGCA
* *
53251833 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53251879 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
53251926 TCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
53251972 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
53252006 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 55 0.53
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53251989 original size:93 final size:93
Alignment explanation
Indices: 53251830--53252000 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53251820 GGATGGTTGA
* *
53251830 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
53251895 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
53251923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
53251987 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
53252001 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53252267 original size:19 final size:20
Alignment explanation
Indices: 53252230--53252267 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53252220 ATAAGGTGGT
53252230 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53252250 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53252268 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53257439 original size:40 final size:40
Alignment explanation
Indices: 53257365--53257599 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
53257355 GACCCAAGTA
* * * *
53257365 CCTTTGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
53257404 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
53257444 CCTTTGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
53257484 CCTTCAGGACTTAGCCCTAAGTCCCGGATATAGTCAATAGCACAAATA
1 CCTTCGGGAC-T-----T-AG-CCCGGATATAGTCAATAGCACAAATG
*
53257532 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
53257572 CCTTCGGGACTTAGCCCGGATATCAGTC
1 CCTTCGGGACTTAGCCCGGATAT-AGTC
53257600 GAATGATCAT
Statistics
Matches: 168, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
39 11 0.07
40 110 0.65
41 10 0.06
42 1 0.01
46 1 0.01
47 3 0.02
48 32 0.19
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:53257567 original size:88 final size:88
Alignment explanation
Indices: 53257418--53257588 Score: 306
Period size: 88 Copynumber: 1.9 Consensus size: 88
53257408 CGGGTCTTAG
* *
53257418 CCCGGATATAGTCAATAGCACAAATGCCTTTGGGACTTAGCCCAGATATAGTCACTAGCACAAAT
1 CCCGGATATAGTCAATAGCACAAATACCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAT
53257483 GCCTTCAGGACTTAGCCCTAAGT
66 GCCTTCAGGACTTAGCCCTAAGT
*
53257506 CCCGGATATAGTCAATAGCACAAATACCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 CCCGGATATAGTCAATAGCACAAATACCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAT
*
53257571 GCCTTCGGGACTTAGCCC
66 GCCTTCAGGACTTAGCCC
53257589 GGATATCAGT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (88 bp):
CCCGGATATAGTCAATAGCACAAATACCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAT
GCCTTCAGGACTTAGCCCTAAGT
Found at i:53262147 original size:54 final size:54
Alignment explanation
Indices: 53261951--53262259 Score: 289
Period size: 54 Copynumber: 5.9 Consensus size: 54
53261941 TTTCCTTTTT
* * * * *
53261951 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
53262004 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATTG-GA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACA-TGATATCC-TTGCCTTATA
* * *
53262058 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
53262113 GAACTTATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTTATCTTACCA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-TA
* * ** * *
53262168 -AA--T-GCAATG---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
*
53262214 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
53262260 ATCTTACGAA
Statistics
Matches: 207, Mismatches: 34, Indels: 29
0.77 0.13 0.11
Matches are distributed among these distances:
46 1 0.00
47 27 0.13
48 3 0.01
49 1 0.00
50 5 0.02
51 5 0.02
52 3 0.01
53 44 0.21
54 72 0.35
55 44 0.21
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:53262194 original size:47 final size:47
Alignment explanation
Indices: 53262137--53262359 Score: 205
Period size: 47 Copynumber: 4.6 Consensus size: 47
53262127 CATGCCTTGG
* * *
53262137 CATGATCTTACATGATATCCTTATCTTACCAAATGCAATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * * ***
53262184 CATGGTCTTACATGGTATCCTTGTCTTATAGAACTTAT-CAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTATCTTACA-AA---ATGCAATG---TTCC-AAA
* * *
53262238 CATGGTCTTACATGATATCCTTATCTTACGAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * * *
53262285 CATGATCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCACA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* *
53262332 CATCGTCTTAAATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
53262360 ATGCCAATGC
Statistics
Matches: 140, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
47 91 0.65
48 5 0.04
50 7 0.05
51 6 0.04
53 5 0.04
54 26 0.19
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
Found at i:53262205 original size:101 final size:101
Alignment explanation
Indices: 53261974--53262312 Score: 430
Period size: 101 Copynumber: 3.3 Consensus size: 101
53261964 CCATGTCTTG
* * *
53261974 ACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
53262038 CATTGGACCTTTGCCTTATAGTAACTCATCAATGCCATG-TCTTG
66 CA-T-GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* * *
53262082 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGATCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
53262147 CATGATATCCTTATCTTACCAAATGCAATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
*
53262183 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
53262248 CATGATATCCTTATCTTACGAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
53262284 ACATGATCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTA
53262313 CAAAATGCCA
Statistics
Matches: 209, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
100 8 0.04
101 125 0.60
102 2 0.01
103 3 0.01
104 6 0.03
105 2 0.01
107 2 0.01
108 28 0.13
109 33 0.16
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:53262425 original size:47 final size:47
Alignment explanation
Indices: 53262359--53262495 Score: 138
Period size: 45 Copynumber: 3.0 Consensus size: 47
53262349 TCCTTATCTT
** * *
53262359 AATGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC
1 AATGCCAATGCCATGTCTTGACGTGGTCTTACATGGAGTCCTTAAGC
* * *
53262406 AATGTCAATGCCATGTCTTGACATGGTCTTACACGG-GATCCTT--GC
1 AATGCCAATGCCATGTCTTGACGTGGTCTTACATGGAG-TCCTTAAGC
** *
53262451 CTTACCAATGCCATGTCTTGACGTGGTCTTACATGGTA-TCCTTAA
1 AATGCCAATGCCATGTCTTGACGTGGTCTTACATGG-AGTCCTTAA
53262496 CCATCAATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
45 36 0.50
46 1 0.01
47 35 0.49
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (47 bp):
AATGCCAATGCCATGTCTTGACGTGGTCTTACATGGAGTCCTTAAGC
Found at i:53266831 original size:30 final size:30
Alignment explanation
Indices: 53266763--53266831 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
53266753 CCGTGTACTA
53266763 GGCCGTGTCCTCCACACGACTGAGACACGC
1 GGCCGTGTCCTCCACACGACTGAGACACGC
*** * * *
53266793 GATTGTGTCCTCCACATGGCTGAGACACGT
1 GGCCGTGTCCTCCACACGACTGAGACACGC
53266823 GGCCGTGTC
1 GGCCGTGTC
53266832 TCTGCCCATA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.20
Consensus pattern (30 bp):
GGCCGTGTCCTCCACACGACTGAGACACGC
Found at i:53275723 original size:46 final size:46
Alignment explanation
Indices: 53275568--53275878 Score: 251
Period size: 46 Copynumber: 6.7 Consensus size: 46
53275558 GGGGTAAGGT
* * * **
53275568 GCCGATGTCATGTCCTAGACATGGTCTTACACTAG-ATATCATCTTTGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATC-CCGAG
* * *
53275617 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ATATATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCCCG-AG
* *
53275663 GTCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
*
53275709 GCCGATGCATGTCCCAGACATGTCTTACACTGGTTTACATCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
* * * * * *
53275755 GCCGATGCATGTCCCAGACTTGTCTTACACTGGCGCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCCCGAG
** * ***
53275801 GTTGATGCCAT-ACCCAGACATGGTCTTACACTGGCTCT-CATAATGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCCCG-AG
53275848 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
53275879 AGCCCACAAT
Statistics
Matches: 220, Mismatches: 32, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 121 0.55
47 38 0.17
48 5 0.02
49 31 0.14
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
Found at i:53280386 original size:48 final size:48
Alignment explanation
Indices: 53280327--53281465 Score: 1926
Period size: 48 Copynumber: 23.8 Consensus size: 48
53280317 ATAAATGTGT
* * *
53280327 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280375 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53280423 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280471 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53280519 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
53280567 TATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53280615 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53280663 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280711 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
53280759 GATATGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
53280807 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280855 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53280903 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280951 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53280999 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
53281043 GATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53281091 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53281139 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53281187 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
53281235 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
53281283 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
53281331 GATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
53281379 GATATGTATAAGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
53281427 GATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
53281466 GTTGTAACAT
Statistics
Matches: 1024, Mismatches: 63, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
44 41 0.04
45 1 0.00
46 2 0.00
47 1 0.00
48 979 0.96
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
Found at i:53281077 original size:22 final size:22
Alignment explanation
Indices: 53281008--53281078 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
53280998 AGATATGTAT
*
53281008 ATGTGGTAAAGCCGAATGGCTA
1 ATGTGGTAAAGCCGAATGGATA
* * *
53281030 ATGT-GAAATATG-AGATATGTAT-
1 ATGTGGTAA-A-GCCGA-ATGGATA
53281052 ATGTGGTAAAGCCGAATGGATA
1 ATGTGGTAAAGCCGAATGGATA
53281074 ATGTG
1 ATGTG
53281079 AAATATATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
21 9 0.25
22 19 0.53
23 8 0.22
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGGTAAAGCCGAATGGATA
Found at i:53281567 original size:37 final size:37
Alignment explanation
Indices: 53281512--53281653 Score: 203
Period size: 37 Copynumber: 3.8 Consensus size: 37
53281502 AATATATTCT
*
53281512 GGGTGAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
53281549 GGGTAAGACCCGATGACTACTTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
53281586 GGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * * * *
53281623 GGGTAGGACCCGGTAACTTCATGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
53281654 TCTTCTGAGC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:53281633 original size:74 final size:74
Alignment explanation
Indices: 53281509--53281653 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 74
53281499 GGAAATATAT
* * * *
53281509 TCTGGGTGAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTACTTGTG
1 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACATGTG
53281574 GAGATTATG
66 GAGATTATG
* * *
53281583 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAGGACCCGGTAACTTCATGTG
1 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACATGTG
53281648 GAGATT
66 GAGATT
53281654 TCTTCTGAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (74 bp):
TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACATGTG
GAGATTATG
Found at i:53282935 original size:40 final size:40
Alignment explanation
Indices: 53282876--53283067 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
53282866 GAGAATTGAG
* * *
53282876 AGTGATATATCTGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
* *
53282916 AGTGATATATCCGGACTAAATCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
53282956 AGTGATGTATCCGAACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
53282996 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
**
53283036 AGTGATGTATCC-GAGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGA-CTAAATCCCGAAGAGCA
53283068 ATCATGCTGG
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 140 0.99
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
Found at i:53286887 original size:109 final size:102
Alignment explanation
Indices: 53286760--53286971 Score: 295
Period size: 109 Copynumber: 2.0 Consensus size: 102
53286750 GTATAAGTTG
53286760 ATATATATGTGTGATATGTATATGT-G-TAAAG-CGAATGGCTAATGTGAAAATATAATATGATG
1 ATATATATGTGTGATATGTATATGTGGTTAAAGCCGAATGGCTAATGTG-AAATAT-AT-T-ATG
*
53286822 TAAAAATCATGTAAATATGTGAGTAAAAGCCGAATGGCTAATGTGAA
62 --AAAATAATGT--ATATGTG-GT-AAAGCCGAATGGCTAATGTGAA
*
53286869 ATATATATGTGTGATATGTATATGTGGTTAAAGCCGAATGGCTAATGTGAAATATATTATGAGAA
1 ATATATATGTGTGATATGTATATGTGGTTAAAGCCGAATGGCTAATGTGAAATATATTATGAAAA
53286934 TAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 TAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53286971 A
1 A
53286972 AAAAATAAAA
Statistics
Matches: 98, Mismatches: 2, Indels: 13
0.87 0.02 0.12
Matches are distributed among these distances:
102 23 0.23
103 2 0.02
104 7 0.07
106 8 0.08
108 3 0.03
109 26 0.27
110 3 0.03
111 11 0.11
112 15 0.15
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (102 bp):
ATATATATGTGTGATATGTATATGTGGTTAAAGCCGAATGGCTAATGTGAAATATATTATGAAAA
TAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:53286904 original size:51 final size:51
Alignment explanation
Indices: 53286760--53286971 Score: 245
Period size: 51 Copynumber: 4.0 Consensus size: 51
53286750 GTATAAGTTG
*
53286760 ATATATATGTGTGAT-ATGTATATGT-GTAAAG-CGAATGGCTAATGTGAAA
1 ATATATATGTGTAATAATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA
*
53286809 ATATAATATGATGTAAAAATCATGTAAATATGTGAGTAAAAGCCGAATGGCTAATGTGAA
1 ATAT-ATATG-TGT---AATAATGT--ATATGTG-GT-AAAGCCGAATGGCTAATGTGAA
*
53286869 ATATATATGTGTGAT-ATGTATATGTGGTTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGTGTAATAATGTATATGTGG-TAAAGCCGAATGGCTAATGTGAA
*
53286920 ATATATTATGAG-AATAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATA-TATGTGTAATAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53286971 A
1 A
53286972 AAAAATAAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 28
0.82 0.02 0.16
Matches are distributed among these distances:
49 4 0.03
50 5 0.03
51 57 0.40
52 25 0.17
54 6 0.04
55 6 0.04
57 6 0.04
58 3 0.02
59 7 0.05
60 10 0.07
61 15 0.10
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (51 bp):
ATATATATGTGTAATAATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:53287057 original size:46 final size:46
Alignment explanation
Indices: 53287018--53287158 Score: 151
Period size: 58 Copynumber: 2.8 Consensus size: 46
53287008 ATATATGTGT
53287018 GATATGTATATGTGGTAATAGCCG-AT-GCTAATGTGAATATAATGA
1 GATATGTATATGTGGTAA-AGCCGAATGGCTAATGTGAATATAATGA
53287063 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAATATTTATATATGTTA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-A-A--TATA-ATG--A
53287116 GATATGTATATATGAGTGGGTAAAGCCGAATGGCTAATGTGAA
1 GATATG--TATAT--GT-GGTAAAGCCGAATGGCTAATGTGAA
53287159 ATATGAATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 17
0.83 0.00 0.17
Matches are distributed among these distances:
44 5 0.06
45 20 0.24
46 9 0.11
47 1 0.01
48 1 0.01
50 4 0.05
51 3 0.04
53 7 0.09
55 5 0.06
56 1 0.01
57 3 0.04
58 23 0.28
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (46 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAATATAATGA
Found at i:53287147 original size:58 final size:60
Alignment explanation
Indices: 53287076--53287189 Score: 171
Period size: 58 Copynumber: 1.9 Consensus size: 60
53287066 ATGTATATGT
** *
53287076 GGTAAAGCCGAATGGCTAATGTG-AATATTTATATATGTTAG-AT-ATGTATATATGAGTG
1 GGTAAAGCCGAATGGCTAATGTGAAATATGAATATATG-TAGAATAATGAATATATGAGTG
53287134 GGTAAAGCCGAATGGCTAATGTGAAATATGAATATATGTAGAATAATGAATATATG
1 GGTAAAGCCGAATGGCTAATGTGAAATATGAATATATGTAGAATAATGAATATATG
53287190 TGTATTTGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 26 0.52
59 14 0.28
60 10 0.20
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (60 bp):
GGTAAAGCCGAATGGCTAATGTGAAATATGAATATATGTAGAATAATGAATATATGAGTG
Found at i:53287360 original size:23 final size:20
Alignment explanation
Indices: 53287333--53287378 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
53287323 CGAATGGCTA
53287333 ATGTGAAATATTAAGATATGTAT
1 ATGTGAAATA-T-AG-TATGTAT
*
53287356 ATGTGTAATATAGTATGTAT
1 ATGTGAAATATAGTATGTAT
53287376 ATG
1 ATG
53287379 GTAAAGCCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 1 0.05
23 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (20 bp):
ATGTGAAATATAGTATGTAT
Found at i:53287386 original size:63 final size:64
Alignment explanation
Indices: 53287251--53287402 Score: 163
Period size: 63 Copynumber: 2.4 Consensus size: 64
53287241 GTATTATATG
* * *
53287251 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTTTATTGTAGATGTATGTAATATGTGGTTTTA
1 TGGTAAAGCCGAATGGCTAATGTGAAATATAAGTATATTGTAGATG-ATGTAATATGTGGTTATA
* * *
53287316 T--TTAAGCCGAATGGCTAATGTGAAATATTAAG-ATA-TGTATATG-TGTAATATAGT-ATGTA
1 TGGTAAAGCCGAATGGCTAATGTGAAATA-TAAGTATATTGTAGATGATGTAATAT-GTGGT-TA
53287375 TA
63 TA
*
53287377 TGGTAAAGCCGAATGGCGAATGTGAA
1 TGGTAAAGCCGAATGGCTAATGTGAA
53287403 TGTATAGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
60 9 0.12
61 6 0.08
62 7 0.09
63 48 0.65
64 3 0.04
65 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (64 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATAAGTATATTGTAGATGATGTAATATGTGGTTATA
Found at i:53287541 original size:36 final size:37
Alignment explanation
Indices: 53287473--53287611 Score: 203
Period size: 36 Copynumber: 3.8 Consensus size: 37
53287463 AATATATTCT
*
53287473 GGGTGAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
53287510 GGGTAAGACCCGATGACTAC-TGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
53287546 GGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * *
53287583 GGGT-AGACCCG-TAACTTCATGTGGAGATT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT
53287612 TCTTCTGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
35 14 0.15
36 42 0.45
37 37 0.40
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:53288872 original size:40 final size:40
Alignment explanation
Indices: 53288813--53289004 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
53288803 GAGAATTGAG
* * *
53288813 AGTGATATATCTGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
* *
53288853 AGTGATATATCCGGACTAAATCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
53288893 AGTGATGTATCCGAACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
53288933 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
**
53288973 AGTGATGTATCC-GAGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGA-CTAAATCCCGAAGAGCA
53289005 ATCATGCTGG
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 140 0.99
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
Found at i:53292769 original size:48 final size:48
Alignment explanation
Indices: 53292700--53293035 Score: 582
Period size: 48 Copynumber: 7.0 Consensus size: 48
53292690 AGATAAATAT
53292700 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53292748 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
53292796 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53292844 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
53292892 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53292940 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
53292988 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53293036 TGTTGTAACA
Statistics
Matches: 271, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 271 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:53293130 original size:37 final size:37
Alignment explanation
Indices: 53293080--53293224 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
53293070 GGAAATATAT
*
53293080 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
53293117 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53293154 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
53293191 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
53293225 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53296553 original size:13 final size:13
Alignment explanation
Indices: 53296535--53296560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53296525 ACAAATCATT
53296535 TCTTTAAAACCCA
1 TCTTTAAAACCCA
53296548 TCTTTAAAACCCA
1 TCTTTAAAACCCA
53296561 AATCCACAGC
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
TCTTTAAAACCCA
Found at i:53307836 original size:20 final size:20
Alignment explanation
Indices: 53307787--53307848 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
53307777 AGTTTATGTT
* *
53307787 AAGTAAATGAAATGGAAAGT-
1 AAGTAAATGGAATGGTAA-TA
53307807 AAGTAAATGGAATGGTAATA
1 AAGTAAATGGAATGGTAATA
*
53307827 AAGTAAATGGAGTGGTACATA
1 AAGTAAATGGAATGGTA-ATA
53307848 A
1 A
53307849 TTTATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 32 0.86
21 4 0.11
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.23
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAATA
Found at i:53312120 original size:27 final size:27
Alignment explanation
Indices: 53312090--53312267 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53312080 ATATTGAGTC
* * * *
53312090 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53312117 CGCACACTTAGTGCTACGTACTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53312144 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53312172 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53312199 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53312226 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53312253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53312268 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53312229 original size:82 final size:81
Alignment explanation
Indices: 53312111--53312266 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53312101 TGCTATATAA
* *
53312111 TCAACTCGCACACTTAGTGCTACGTACTCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATACTCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53312176 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53312193 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATACTCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53312257 CACTTAGTGC
65 CACTTAGTGC
53312267 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATACTCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53315904 original size:24 final size:24
Alignment explanation
Indices: 53315869--53315945 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
53315859 GGACTCACCG
*
53315869 CAGCTCGAATGAGCTTACTATTCT
1 CAGCTCGTATGAGCTTACTATTCT
*
53315893 CAGCTCGTATGAACTTACTATT-T
1 CAGCTCGTATGAGCTTACTATTCT
*
53315916 -AGCTCGTCA-GAGCTTACTGTTCAT
1 CAGCTCGT-ATGAGCTTACTATTC-T
53315940 CAGCTC
1 CAGCTC
53315946 AGGAGGAGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 17 0.38
23 2 0.04
24 21 0.47
25 5 0.11
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTATTCT
Found at i:53317897 original size:46 final size:45
Alignment explanation
Indices: 53317682--53318087 Score: 228
Period size: 46 Copynumber: 8.6 Consensus size: 45
53317672 GGGGTAAAGT
*
53317682 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTGTCATCTTCAAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TCATC-TCAAG
* * * * * * * *
53317731 GCCAATGCCATCTCCCAAACATTGTCTTACACTAGCTCTCGCGTATC-CG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACATTGGCT-T--CATCTCAAG
* * * * * *
53317780 TGCCAATGCCATGTCCCAGACATGGTCGTATACTGAC-ACATCTCATA-
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTCATCTCA-AG
* * * *
53317827 GCTGATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTT-CATCTCAAG
* * **
53317873 GCCGATGCATGCCCCAGACATGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCT-TCAT-CTCAAG
* * * *
53317919 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-TTCATCTCAAG
* * * * *
53317965 GTCGATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-TTCATCTCAAG
* * **
53318011 GCCGATGCCATGTCCCATACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TCAT-CTCAAG
* * *
53318059 GCTGATGGATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
53318088 CTAGCTCACA
Statistics
Matches: 281, Mismatches: 58, Indels: 39
0.74 0.15 0.10
Matches are distributed among these distances:
44 9 0.03
45 15 0.05
46 142 0.51
47 25 0.09
48 22 0.08
49 35 0.12
50 31 0.11
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGGCTTCATCTCAAG
Found at i:53318078 original size:140 final size:138
Alignment explanation
Indices: 53317684--53318089 Score: 380
Period size: 140 Copynumber: 2.9 Consensus size: 138
53317674 GGTAAAGTGC
* * *
53317684 CGATGCCATGTCCCAGACATGGTCTTACACTGG-CTGTCATCTTCAAGGCCAATGCCAT-CTCCC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCCT-ACATC-TCAAGGCCGATG-CATGC-CCC
* * * * * *
53317747 AAACATTGTCTTACACTAGCTCTCGCGT-ATCCGT-GCCAATGCCATGTCCCAGACATGGTCGTA
60 AGACA-TGTCTTACATTGGCTCT--CATAAT--GTGGCCGATG-CATGTCCCAGACAT-GTCTTA
* *
53317810 TACTGACAC--ATCTC-ATAG-
118 CACTGGCACTAATCTCAAT-GT
* * * *
53317828 CTGATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAGGCCGATGCATGCCCCAGACA
1 C-GATGCATGTCCCAAACATGTCTTACACTGGCCTACATCTCAAGGCCGATGCATGCCCCAGACA
53317893 TGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAA
65 TGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAA
53317958 TCTCAATGT
130 TCTCAATGT
* * * * *
53317967 CGATGCATGTCCTAGACATGTCTTACACTGGCACT-CATCTCAATGCCGATGCCATGTCCCATAC
1 CGATGCATGTCCCAAACATGTCTTACACTGGC-CTACATCTCAAGGCCGATG-CATGCCCCAGAC
* * *
53318031 ATGGTCTTACATTGGCTCTCATAATGTGGCTGATGGATGTCCTAGACATGTCTTACACT
64 AT-GTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
53318090 AGCTCACACA
Statistics
Matches: 223, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
136 12 0.05
137 16 0.07
138 55 0.25
139 18 0.08
140 68 0.30
141 10 0.04
142 11 0.05
143 14 0.06
144 15 0.07
145 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (138 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCCTACATCTCAAGGCCGATGCATGCCCCAGACAT
GTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAAT
CTCAATGT
Found at i:53326189 original size:15 final size:15
Alignment explanation
Indices: 53326157--53326185 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53326147 ATTTTCTGTG
53326157 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
53326172 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
53326186 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:53327328 original size:45 final size:45
Alignment explanation
Indices: 53327266--53327487 Score: 291
Period size: 45 Copynumber: 4.9 Consensus size: 45
53327256 TAGGATTCCG
* **
53327266 ATATGTGTTTTTGTGTAAGACCACGTTTGGGACGTTGGCATTGAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* * * *
53327311 ATATGTGTTTTCATGTAAGACCATGTCTAGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* *
53327356 ATATGTGGTTACGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* *
53327401 ATATGTGTTTTCCTGTAAGACCACGTTTGGGAGGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* * * * * *
53327446 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGGCATC
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATC
53327488 GTATTTGATT
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 152 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
Found at i:53327419 original size:90 final size:90
Alignment explanation
Indices: 53327278--53327487 Score: 321
Period size: 90 Copynumber: 2.3 Consensus size: 90
53327268 ATGTGTTTTT
** *
53327278 GTGTAAGACCACGTTTGGGACGTTGGCATTGATATATGTGTTTTCATGTAAGACCATGTCTAGGA
1 GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
53327343 CGTTGGCATCAATATATGTGGTTAC
66 CGTTGGCATCAATATATGTGGTTAC
* * *
53327368 GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCCTGTAAGACCACGTTTGGGA
1 GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
*
53327433 GGTTGGCATCAATATATGTGGTTAC
66 CGTTGGCATCAATATATGTGGTTAC
* * * *
53327458 GTGTAAGACCATGTCTGGGACATCGGCATC
1 GTGTAAGACCACGTTTGGGACGTTGGCATC
53327488 GTATTTGATT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 109 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (90 bp):
GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
CGTTGGCATCAATATATGTGGTTAC
Found at i:53327925 original size:24 final size:24
Alignment explanation
Indices: 53327898--53327946 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
53327888 AATTGAATGA
*
53327898 TAGTTTGTTAATGTATATATATGT
1 TAGTTTGTAAATGTATATATATGT
53327922 TAGTTTGTAAATGTATATATATGT
1 TAGTTTGTAAATGTATATATATGT
53327946 T
1 T
53327947 CATTCGGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (24 bp):
TAGTTTGTAAATGTATATATATGT
Found at i:53330555 original size:48 final size:49
Alignment explanation
Indices: 53330418--53330689 Score: 190
Period size: 48 Copynumber: 5.7 Consensus size: 49
53330408 TTTATTTGTG
* * ** *
53330418 AGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATTA-AGATGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* * * **
53330465 GAGCTACTGTAAGA-CACGTCTGGGACAT-GCATCGGCCTCGAGATATGCA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATG-A
*
53330514 AGCCAGTGTAAGA-CAGGTCTGGGACAT-GCATCGGCAACGAG--ATG-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* * * * *
53330558 TGTCAGTGTAAGACCATGTCTGGGACATGGCGTAGG-TAC-AGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATA--TGA
** ** * *
53330607 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCTACCTCGA-TTTTGA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* *
53330656 TAGTCAGTGTAAGACCATGTCTTGGACATGGCAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
53330690 TGACTTGATG
Statistics
Matches: 178, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.07
45 15 0.08
46 16 0.09
47 13 0.07
48 53 0.30
49 35 0.20
50 30 0.17
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
Found at i:53330683 original size:49 final size:47
Alignment explanation
Indices: 53330559--53330733 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 47
53330549 AACGAGATGT
* * *
53330559 GTCAGTGTAAGACCATGTCTGGGACATGGCGTAGGTAC-AGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGC--A-TTACTAGAT-TTTGATA
* *
53330609 GCCAGTGTAAGACCATGTCTGGGACATGGCATCTACCTCGATTTTGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TA-CTAGATTTTGATA
* * *
53330658 GTCAGTGTAAGACCATGTCTTGGACATGGCATTGACTTGA--TGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATT-ACTAGATTTTGAT-A
53330705 GTCAGTGTAAGACCATG-CTTGGGACATGG
1 GTCAGTGTAAGACCATGTC-TGGGACATGG
53330734 TATCGGCATT
Statistics
Matches: 109, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
46 5 0.05
47 27 0.25
48 8 0.07
49 37 0.34
50 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (47 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATTACTAGATTTTGATA
Found at i:53338066 original size:27 final size:27
Alignment explanation
Indices: 53338036--53338118 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
53338026 GACCCCCTTG
* *
53338036 GTGGTAAAATGACTGTATTGCCCCTAT
1 GTGGTAAAATGACTATTTTGCCCCTAT
*
53338063 GTGGTAAAATGACTATTTTGCCCTTAT
1 GTGGTAAAATGACTATTTTGCCCCTAT
* * *
53338090 ATGCTAAAGTGACTATTTTGCCCCTAT
1 GTGGTAAAATGACTATTTTGCCCCTAT
53338117 GT
1 GT
53338119 AATGTAAGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGTAAAATGACTATTTTGCCCCTAT
Found at i:53339841 original size:46 final size:46
Alignment explanation
Indices: 53339774--53339949 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
53339764 TGTAACCCGC
*
53339774 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
53339820 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * *
53339866 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
53339913 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53339950 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:53339894 original size:93 final size:93
Alignment explanation
Indices: 53339782--53339952 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53339772 GCCCATAAGT
* *
53339782 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53339847 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
53339875 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53339940 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53339953 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53342374 original size:15 final size:15
Alignment explanation
Indices: 53342350--53342397 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
53342340 AGGAAACCGA
53342350 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
53342365 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
53342379 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
53342395 ATA
1 ATA
53342398 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:53345409 original size:46 final size:46
Alignment explanation
Indices: 53345342--53345517 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
53345332 TGTAACCCGC
*
53345342 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
53345388 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * *
53345434 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
53345481 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53345518 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:53345462 original size:93 final size:93
Alignment explanation
Indices: 53345350--53345520 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53345340 GCCCATAAGT
* *
53345350 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53345415 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
53345443 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53345508 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53345521 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53356661 original size:42 final size:42
Alignment explanation
Indices: 53356549--53356706 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 42
53356539 AGTACCACAC
* * * * **
53356549 CAATGCCATATTCTAGATATGGTCTTCCATGGGATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * *
53356591 CGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAT
*
53356634 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-AT
* **
53356677 -GATGTTATATCCCAGATATGGTCTTACACG
1 CAATGCCATATCCCAGATATGGTCTTACACG
53356707 TAATTTCAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 61 0.64
43 34 0.36
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:53361653 original size:7 final size:7
Alignment explanation
Indices: 53361641--53361670 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
53361631 GCCGAAGCCT
53361641 TTTCATA
1 TTTCATA
53361648 TTTCATA
1 TTTCATA
53361655 TTTCATA
1 TTTCATA
53361662 TTTCATA
1 TTTCATA
53361669 TT
1 TT
53361671 ACTGGGCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCATA
Found at i:53361950 original size:25 final size:25
Alignment explanation
Indices: 53361896--53361978 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
53361886 CTAGAGGCCT
*
53361896 AGCCTCTTTTAAT-AACT-GGGGAAA
1 AGCC-CTTTTAATAAACTAGGGCAAA
*
53361920 AGCCCTTTTGATAAACTAGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
*
53361945 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
53361970 AGCCCTTTT
1 AGCCCTTTT
53361979 CGGTAAACTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.13
24 8 0.15
25 38 0.72
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:53361993 original size:26 final size:25
Alignment explanation
Indices: 53361896--53362003 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
53361886 CTAGAGGCCT
* *
53361896 AGCCTCTTTTAAT-AACT-GGGGAAA
1 AGCC-CTTTTGATAAACTAGGGCAAA
53361920 AGCCCTTTTGATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTAGGGCAAA
* *
53361945 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTAGGGCAAA
* * *
53361970 AGCCCTTTTCGGTAAACTAAGGC-AT
1 AGCCCTTTT-GATAAACTAGGGCAAA
53361995 AGCCCTTTT
1 AGCCCTTTT
53362004 TGCACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.10
24 8 0.11
25 48 0.67
26 9 0.12
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTAGGGCAAA
Done.