Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 176 of 433
Found at i:55013714 original size:26 final size:23
Alignment explanation
Indices: 55013654--55013722 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 23
55013644 CCGTTACATG
55013654 GCTCTTTGTGAGCATTCCTGATAA
1 GCTCTTTGTGAGC-TTCCTGATAA
*
55013678 GCTCTTCGTGAGCTTCCTGATTAAA
1 GCTCTTTGTGAGCTTCCTGA-T-AA
* *
55013703 TGTTCTTTGTGAACTTCCTG
1 -GCTCTTTGTGAGCTTCCTG
55013723 TTTTAAACTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.18
24 13 0.34
25 2 0.05
26 16 0.42
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCTGATAA
Found at i:55018106 original size:33 final size:29
Alignment explanation
Indices: 55018040--55018098 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
55018030 AAATATTAGG
55018040 GAAGACCTGTTTCATTATTTATTTTCTTT
1 GAAGACCTGTTTCATTATTTATTTTCTTT
*
55018069 GAAGACCTGTTTCATTATTTATTTGCTTT
1 GAAGACCTGTTTCATTATTTATTTTCTTT
55018098 G
1 G
55018099 CTTGAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (29 bp):
GAAGACCTGTTTCATTATTTATTTTCTTT
Found at i:55023915 original size:2 final size:2
Alignment explanation
Indices: 55023908--55023954 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
55023898 TTACCCAAAC
* *
55023908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55023950 AT AT A
1 AT AT A
55023955 CTTGACCACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:55036269 original size:19 final size:19
Alignment explanation
Indices: 55036245--55036288 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
55036235 TCATAAGTAC
55036245 ATGTTAGAGTGAGAATTTG
1 ATGTTAGAGTGAGAATTTG
*
55036264 ATGTTAGAGTGAGAATTTT
1 ATGTTAGAGTGAGAATTTG
55036283 ATGTTA
1 ATGTTA
55036289 CCATGTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (19 bp):
ATGTTAGAGTGAGAATTTG
Found at i:55038243 original size:43 final size:42
Alignment explanation
Indices: 55038187--55038310 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 42
55038177 AACATATACA
** * * *
55038187 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACA-AG
* * * *
55038230 ATGCCACTGTCCCAGACAG-GGTTTTACACGAAATCAGATAAG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAACAAG
* * *
55038272 ATGCCAATGTCCCAGACATGGTCTTGCACGCAAAACAAA
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCAAA
55038311 TGTCGATGCC
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 26 0.41
43 36 0.57
44 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAACAAG
Found at i:55043139 original size:44 final size:44
Alignment explanation
Indices: 55043073--55043159 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
55043063 GCAGTAGTTT
55043073 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
1 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
* *
55043117 AGTCATAACTTTGCCATTGCATTATTATGATATGAAAATATTC
1 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTC
55043160 ATTGAGTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (44 bp):
AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
Found at i:55043480 original size:18 final size:18
Alignment explanation
Indices: 55043434--55043481 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
55043424 TTATGGTTTT
55043434 AAAT-AAATTTTGGGTAA
1 AAATAAAATTTTGGGTAA
*
55043451 AAATAAATATTTTGGGTTA
1 AAATAAA-ATTTTGGGTAA
* *
55043470 AATTGAAATTTT
1 AAATAAAATTTT
55043482 AAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
AAATAAAATTTTGGGTAA
Found at i:55045149 original size:312 final size:311
Alignment explanation
Indices: 55044579--55045204 Score: 1128
Period size: 312 Copynumber: 2.0 Consensus size: 311
55044569 GTGAGTGATA
55044579 TTAAGAGCAATTTGGTAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
1 TTAAGAGCAATTTGGTAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
*
55044644 TGACTTATTGCATATTGAATGGTTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
66 TGACTTATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
* * *
55044709 AGCAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGTATGATTAAGTTGTATGAAATAAATTGA
131 AGAAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGAAATAAATTGA
55044774 TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
196 TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
*
55044839 TATTGGTAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
261 TATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
* *
55044890 TTAAGGGCAATTTGGTAAATTGGCCTGATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
1 TTAAGAGCAATTTGGTAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
* * *
55044955 TGAGTTAATTGCATATTGAATGGCTGGATTTGCAAAATTAGGTTTTATTTTATAAAAGAGCAAAA
66 TGACTT-ATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAA
55045020 TAGAAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTAT-AGAATAAATT
130 TAGAAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGA-AATAAATT
55045084 GATATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATG
194 GATATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATG
*
55045149 AATATTGGGAAAATGATATTTGTTATGCTTAATTTTGTTGATGTTAAAATTGC
259 AATATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
55045202 TTA
1 TTA
55045205 GCAACATGCT
Statistics
Matches: 302, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
311 69 0.23
312 233 0.77
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (311 bp):
TTAAGAGCAATTTGGTAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
TGACTTATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
AGAAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGAAATAAATTGA
TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
TATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
Found at i:55047476 original size:40 final size:40
Alignment explanation
Indices: 55047417--55047558 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
55047407 AAATTGAATG
* * *
55047417 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
55047457 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
55047497 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
55047537 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
55047559 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:55047559 original size:40 final size:39
Alignment explanation
Indices: 55047456--55047584 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
55047446 TGCTGGAAAT
* * *
55047456 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
55047496 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
55047536 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
55047576 TATATCCGG
1 TATATCCGG
55047585 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:55055446 original size:40 final size:40
Alignment explanation
Indices: 55055387--55055528 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
55055377 AAATTGAATG
* * *
55055387 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
55055427 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
55055467 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
55055507 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
55055529 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:55055529 original size:40 final size:39
Alignment explanation
Indices: 55055426--55055554 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
55055416 TGCTGGAAAT
* * *
55055426 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
55055466 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
55055506 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
55055546 TATATCCGG
1 TATATCCGG
55055555 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:55067778 original size:42 final size:43
Alignment explanation
Indices: 55067721--55067824 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
55067711 CTATTATCCT
* * *
55067721 AGACAGGGTCTTACACGAAATCA-AA-TATGATGGCAAGGTCCC
1 AGACATGGTCTTACACGAAATCATAAGT-CGATGCCAAGGTCCC
*
55067763 AGACATGGTCTTACACGTAAATCATAAGTCGATGCCAATGTCCC
1 AGACATGGTCTTACACG-AAATCATAAGTCGATGCCAAGGTCCC
*
55067807 AAACATGGTCTTACACGA
1 AGACATGGTCTTACACGA
55067825 TAACACATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 16 0.30
43 7 0.13
44 30 0.56
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (43 bp):
AGACATGGTCTTACACGAAATCATAAGTCGATGCCAAGGTCCC
Found at i:55072922 original size:80 final size:80
Alignment explanation
Indices: 55072838--55072986 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55072828 TATGGTAACC
* * * *
55072838 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55072902 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55072918 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55072983 CCGG
66 CCGG
55072987 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55072928 original size:40 final size:38
Alignment explanation
Indices: 55072879--55072986 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55072869 ATCACGATTT
*
55072879 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55072919 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55072959 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55072987 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55080383 original size:40 final size:40
Alignment explanation
Indices: 55080281--55080464 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
55080271 AAATTGAATG
* * * * *
55080281 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
55080321 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
55080361 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
55080401 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
55080441 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
55080465 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:55084347 original size:80 final size:80
Alignment explanation
Indices: 55084263--55084411 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55084253 TATGGTAACC
* * * *
55084263 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55084327 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55084343 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55084408 CCGG
66 CCGG
55084412 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55084353 original size:40 final size:38
Alignment explanation
Indices: 55084304--55084411 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55084294 ATCACGATTT
*
55084304 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55084344 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55084384 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55084412 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55089759 original size:28 final size:28
Alignment explanation
Indices: 55089728--55089784 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55089718 TATTCCCTAT
55089728 TCATTTGTATATATAGCATATTTTCTCA
1 TCATTTGTATATATAGCATATTTTCTCA
55089756 TCATTTGTATATATAGCATATTTTCTCA
1 TCATTTGTATATATAGCATATTTTCTCA
55089784 T
1 T
55089785 ACTTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (28 bp):
TCATTTGTATATATAGCATATTTTCTCA
Found at i:55095675 original size:39 final size:40
Alignment explanation
Indices: 55095625--55095846 Score: 265
Period size: 39 Copynumber: 5.6 Consensus size: 40
55095615 GCCACTAGCT
* ** *
55095625 CAAATGCCTTC-GGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
55095664 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
55095703 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
55095743 CAAACGCCTTC-GGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *** * *
55095782 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCGCA
55095822 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
55095847 TTATCATCCG
Statistics
Matches: 164, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 86 0.52
40 78 0.48
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:55095745 original size:79 final size:79
Alignment explanation
Indices: 55095625--55095807 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 79
55095615 GCCACTAGCT
* ** * *
55095625 CAAATGCCTTC-GGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTC-GGACTTAGCCCGG
55095689 -TATAATAACTCGCA
65 ATATAATAACTCGCA
*
55095703 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGACTTAGCCCGGA
* *
55095768 TATAGTAGCTCGCA
66 TATAATAACTCGCA
*
55095782 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55095808 ATTAGCCACT
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 24 0.26
79 70 0.74
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGACTTAGCCCGGA
TATAATAACTCGCA
Found at i:55103789 original size:40 final size:40
Alignment explanation
Indices: 55103737--55103964 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
55103727 GCCACTAGCT
* *
55103737 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55103777 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
55103816 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
55103856 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
55103896 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
55103936 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
55103965 CATCCGAACA
Statistics
Matches: 168, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.23
40 128 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55103835 original size:79 final size:80
Alignment explanation
Indices: 55103737--55103921 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
55103727 GCCACTAGCT
* ** * *
55103737 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
55103802 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
55103816 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
55103881 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
55103896 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55103922 ATTAGCCACT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.61
80 37 0.39
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:55103949 original size:80 final size:77
Alignment explanation
Indices: 55103737--55103961 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 77
55103727 GCCACTAGCT
* *
55103737 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTA-ACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-AAT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
55103801 GTATAATAACTCGCA
63 GTATAATAACTCGCA
* *
55103816 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCACAAACGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
55103880 GATATAGTAGCTCGCA
63 G-TATAATAACTCGCA
* *
55103896 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG--ACTAGCACAAATGCCT-TCGGGACTTAGCCCG
55103960 GT
63 GT
55103962 TATCATCCGA
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
77 3 0.02
79 63 0.49
80 62 0.48
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGACTAGCACAAATGCCTTCGGGACTTAGCCCGGTA
TAATAACTCGCA
Found at i:55105942 original size:20 final size:20
Alignment explanation
Indices: 55105917--55105963 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
55105907 TCCAGTAATG
* *
55105917 TTTTCATAAAATTTTAGAAT
1 TTTTCATAAAATTTTACAAC
**
55105937 TTTTCACCAAATTTTACAAC
1 TTTTCATAAAATTTTACAAC
55105957 TTTTCAT
1 TTTTCAT
55105964 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTCATAAAATTTTACAAC
Found at i:55112800 original size:40 final size:40
Alignment explanation
Indices: 55112755--55112921 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
55112745 CGGAATATAA
55112755 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55112795 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
55112835 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55112875 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55112914 CCGGATAT
1 CCGGATAT
55112922 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55112905 original size:80 final size:79
Alignment explanation
Indices: 55112755--55112921 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
55112745 CGGAATATAA
* *
55112755 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
55112820 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
55112835 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
55112897 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
55112914 CCGGATAT
1 CCGGATAT
55112922 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:55113770 original size:17 final size:19
Alignment explanation
Indices: 55113747--55113792 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
55113737 AAGAAGCATG
55113747 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
55113765 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
55113783 AATCATGCTC
1 AATCATGCTC
55113793 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:55119635 original size:20 final size:20
Alignment explanation
Indices: 55119610--55119656 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
55119600 CCAGCACATG
* *
55119610 TTTTCATAAAATTTTAGAAT
1 TTTTCATAAAATTTTACAAC
*
55119630 TTTTCATCAAATTTTACAAC
1 TTTTCATAAAATTTTACAAC
55119650 TTTTCAT
1 TTTTCAT
55119657 TTTAGTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTCATAAAATTTTACAAC
Found at i:55122504 original size:43 final size:43
Alignment explanation
Indices: 55122456--55122603 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
55122446 TACCGAGATG
*
55122456 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTTTAGGACATTGGCATTGTATTA
** * * *
55122499 TGATTATGTGTAAGACCATGCTTAGGATATTGTCATCAT-TA-TA
1 TGATTACATGTAAGACCATGTTTAGGACATTGGCAT--TGTATTA
*** *
55122542 TGATTTTGTGTAAGACCATGTTTAGGACATTGGCATTG-ATATG
1 TGATTACATGTAAGACCATGTTTAGGACATTGGCATTGTAT-TA
* *
55122585 TGATAACATGTAAGTCCAT
1 TGATTACATGTAAGACCAT
55122604 ATCTGGGATA
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
43 79 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTTTAGGACATTGGCATTGTATTA
Found at i:55125969 original size:29 final size:28
Alignment explanation
Indices: 55125937--55126039 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
55125927 GTGACGAGAT
* *
55125937 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
55125966 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
55125995 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
55126024 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55126040 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:55134032 original size:46 final size:46
Alignment explanation
Indices: 55133982--55134157 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55133972 GATATTGGCA
55133982 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55134028 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55134075 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55134121 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55134158 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55134137 original size:93 final size:93
Alignment explanation
Indices: 55133978--55134149 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55133968 ACTGGATATT
* *
55133978 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55134043 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55134071 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55134136 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55134150 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55137127 original size:15 final size:15
Alignment explanation
Indices: 55137107--55137160 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
55137097 GTATCTTGGG
55137107 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
55137122 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55137137 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55137152 TTTCTTTAT
1 TTTCTTTAT
55137161 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55137137 original size:30 final size:30
Alignment explanation
Indices: 55137103--55137171 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
55137093 TATCGTATCT
55137103 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
55137133 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
55137163 -GGTTTTCTT
1 TGGGTTTCTT
55137172 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:55139591 original size:46 final size:46
Alignment explanation
Indices: 55139541--55139716 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55139531 ATGGTTGGCA
55139541 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55139587 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55139634 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55139680 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55139717 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55139696 original size:93 final size:93
Alignment explanation
Indices: 55139537--55139708 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55139527 TAGGATGGTT
* *
55139537 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55139602 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55139630 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55139695 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55139709 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55142691 original size:15 final size:15
Alignment explanation
Indices: 55142671--55142724 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
55142661 GTATCTTGGG
55142671 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
55142686 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55142701 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55142716 TTTCTTTAT
1 TTTCTTTAT
55142725 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55142701 original size:30 final size:30
Alignment explanation
Indices: 55142667--55142735 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
55142657 TATCGTATCT
55142667 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
55142697 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
55142727 -GGTTTTCTT
1 TGGGTTTCTT
55142736 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:55145168 original size:46 final size:46
Alignment explanation
Indices: 55145113--55145293 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
55145103 TAGGATGGTT
55145113 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
55145159 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
55145205 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
55145252 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55145294 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:55145274 original size:93 final size:93
Alignment explanation
Indices: 55145115--55145285 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55145105 GGATGGTTGA
* *
55145115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55145180 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55145208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55145273 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55145286 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55158424 original size:25 final size:24
Alignment explanation
Indices: 55158396--55158474 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
55158386 TCTTATGAGG
55158396 TTATCATACTTCAGCTCGGAGGAGC
1 TTATCATA-TTCAGCTCGGAGGAGC
* * ** *
55158421 TTATCGTTGTTCAGCTTAGAGGAGA
1 TTATC-ATATTCAGCTCGGAGGAGC
*
55158446 TTA-CTATTATTCAGCTCGGAAGAGC
1 TTATC-A-TATTCAGCTCGGAGGAGC
55158471 TTAT
1 TTAT
55158475 AGTTTACAGC
Statistics
Matches: 39, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (24 bp):
TTATCATATTCAGCTCGGAGGAGC
Found at i:55158655 original size:14 final size:15
Alignment explanation
Indices: 55158636--55158672 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
55158626 GACAAGTGTT
*
55158636 TACATGATATAT-AG
1 TACATGATATATAAA
55158650 TACATGATATATAAA
1 TACATGATATATAAA
55158665 TACATGAT
1 TACATGAT
55158673 GTAGAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (15 bp):
TACATGATATATAAA
Found at i:55163566 original size:41 final size:41
Alignment explanation
Indices: 55163514--55163597 Score: 134
Period size: 41 Copynumber: 2.0 Consensus size: 41
55163504 TGATGATATC
* *
55163514 GGAATGGAAATAGGATAGAGTTACTATGGATTTCT-TATCGG
1 GGAATGAAAATAGGATAGAGTTACTATGAATTT-TGTATCGG
55163555 GGAATGAAAATAGGATAGAGTTACTATGAATTTTGTATCGG
1 GGAATGAAAATAGGATAGAGTTACTATGAATTTTGTATCGG
55163596 GG
1 GG
55163598 TTACTCCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (41 bp):
GGAATGAAAATAGGATAGAGTTACTATGAATTTTGTATCGG
Found at i:55165929 original size:50 final size:50
Alignment explanation
Indices: 55165861--55165986 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
55165851 TAGGGTACCG
* *
55165861 ATTTCAGCTCATATGAGCTTACCGTTATTCA-AATCAGAGGAGCTTACTGTT
1 ATTT-AGCTCGTAGGAGCTTACCGTTATTCAGAATCA-AGGAGCTTACTGTT
* ** * *
55165912 ATTTAGCTCGTAGGAGCTTACCCTTATTCAGCTTTAAGGAGTTTACTGTT
1 ATTTAGCTCGTAGGAGCTTACCGTTATTCAGAATCAAGGAGCTTACTGTT
* *
55165962 ATTTAGCTTGGAGGAGCTTACCGTT
1 ATTTAGCTCGTAGGAGCTTACCGTT
55165987 TACAACTCGT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 58 0.91
51 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (50 bp):
ATTTAGCTCGTAGGAGCTTACCGTTATTCAGAATCAAGGAGCTTACTGTT
Found at i:55165944 original size:25 final size:25
Alignment explanation
Indices: 55165863--55165986 Score: 99
Period size: 25 Copynumber: 5.0 Consensus size: 25
55165853 GGGTACCGAT
* *
55165863 TTCAGCTCATATGAGCTTACCGTTA
1 TTCAGCTCGTAGGAGCTTACCGTTA
** *
55165888 TTCAAATCAG-AGGAGCTTACTGTTA
1 TTCAGCTC-GTAGGAGCTTACCGTTA
* *
55165913 TTTAGCTCGTAGGAGCTTACCCTTA
1 TTCAGCTCGTAGGAGCTTACCGTTA
* * *
55165938 TTCAGCT-TTAAGGAGTTTACTGTTA
1 TTCAGCTCGT-AGGAGCTTACCGTTA
* * *
55165963 TTTAGCTTGGAGGAGCTTACCGTT
1 TTCAGCTCGTAGGAGCTTACCGTT
55165987 TACAACTCGT
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
24 2 0.03
25 73 0.97
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (25 bp):
TTCAGCTCGTAGGAGCTTACCGTTA
Found at i:55167604 original size:6 final size:6
Alignment explanation
Indices: 55167593--55167779 Score: 154
Period size: 6 Copynumber: 30.8 Consensus size: 6
55167583 AACCAAAATG
*
55167593 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
55167641 AGTAA-C AGAATT AGAATC AGAATC AAAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
55167690 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
55167738 AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
55167780 GTGAATGCAA
Statistics
Matches: 145, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.08
6 121 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:55167608 original size:30 final size:30
Alignment explanation
Indices: 55167572--55167779 Score: 216
Period size: 30 Copynumber: 7.1 Consensus size: 30
55167562 AAGAAACATT
* *
55167572 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
55167602 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
55167632 ATCA-ATATTAGTAACAGAATTAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
55167662 ATCAAAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
55167693 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
55167717 ATCAGTATTAGTAACAGAATCAGAATCAAA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
55167747 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
55167778 AT
1 AT
55167780 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
24 22 0.15
27 1 0.01
28 1 0.01
29 1 0.01
30 84 0.56
31 42 0.28
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:55167692 original size:85 final size:85
Alignment explanation
Indices: 55167593--55167779 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
55167583 AACCAAAATG
*
55167593 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATTAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
55167658 CAGAATCAAAATTAGGTGAC
66 CAAAATCAAAATTAGGTGAC
*
55167678 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
55167743 CAAAATCAGAATTAGGTGAC
66 CAAAATCAAAATTAGGTGAC
55167763 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
55167780 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAAAATCAAAATTAGGTGAC
Found at i:55167945 original size:27 final size:26
Alignment explanation
Indices: 55167897--55167983 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
55167887 AGCATGGCTG
* * *
55167897 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
55167923 CCAGATACAGACATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
55167950 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
55167977 CCAGAAC
1 CCAGAAC
55167984 GATTCCTCCG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 42 0.79
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:55168282 original size:27 final size:27
Alignment explanation
Indices: 55168243--55168410 Score: 264
Period size: 27 Copynumber: 6.2 Consensus size: 27
55168233 TAGTGTTTTA
*
55168243 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
55168270 ATAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
55168297 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
55168324 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
55168351 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
55168378 ATAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
55168405 GTAATT
1 GTAATT
55168411 TCACAATCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:55168454 original size:27 final size:27
Alignment explanation
Indices: 55168415--55168637 Score: 263
Period size: 27 Copynumber: 8.3 Consensus size: 27
55168405 GTAATTTCAC
* * *
55168415 AATCGAGGATAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55168442 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
**
55168469 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55168496 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
** *
55168523 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
55168550 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
55168577 AATCGAGGGTGAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55168604 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
55168631 AATCGAG
1 AATCGAG
55168638 AGTACTTTGG
Statistics
Matches: 166, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 160 0.96
28 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:55168490 original size:54 final size:54
Alignment explanation
Indices: 55168415--55168655 Score: 331
Period size: 54 Copynumber: 4.5 Consensus size: 54
55168405 GTAATTTCAC
* * * * *
55168415 AATCGAGGATAAAATGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
* *
55168469 AATCGAGGGTAAAACGGTAATTTTACAAA-TCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAACT-GAGGGTAAAACGGTAATTCTGTA
* *
55168523 AATCGAGGGTAAAATAGTAATTTTATAAACTAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
* *
55168577 AATCGAGGGTGAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
* ***
55168631 AATCGAGAGTACTTTGGTAATTTTA
1 AATCGAGGGTAAAATGGTAATTTTA
55168656 CAAGTCGAGG
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 162 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:55168523 original size:81 final size:81
Alignment explanation
Indices: 55168405--55168666 Score: 305
Period size: 81 Copynumber: 3.2 Consensus size: 81
55168395 GGGTATTTCA
* * *
55168405 GTAATTTCAC-AATCGAGGATAAAATGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
55168469 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * *
55168485 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAATAGTAATTTTAT
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTTTGTAAACT-GAGGGTAAAATGGTAATTTTGT
*
55168549 AAA-CTAAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* ** * * *
55168566 GTAATTCTGTAAATCGAGGGTGAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
* ****
55168631 AATCGAGAGTACTTTG
66 AATCGAGGGTAAAACG
*
55168647 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
55168667 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
80 11 0.07
81 136 0.91
82 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
GTAATTTTACAAATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
AATCGAGGGTAAAACG
Found at i:55170648 original size:6 final size:6
Alignment explanation
Indices: 55170637--55170799 Score: 122
Period size: 6 Copynumber: 26.8 Consensus size: 6
55170627 AACCAAAATG
* * * *
55170637 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAGC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC
* * *
55170685 AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
55170734 AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
55170783 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
55170800 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
5 8 0.07
6 105 0.85
7 7 0.06
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:55170676 original size:30 final size:31
Alignment explanation
Indices: 55170642--55170799 Score: 150
Period size: 31 Copynumber: 5.6 Consensus size: 31
55170632 AAATGAGAAT
*
55170642 CAGAATCAGAATCAGAATCAATATTA-GT-A
1 CAGAATCAGAATCAGAATCAAAATTAGGTGA
*
55170671 GCAGAATTAGAATCAGAATCAAAATTAGGTGA
1 -CAGAATCAGAATCAGAATCAAAATTAGGTGA
*
55170703 CAGAATCAGAATCAGAATC------A-GTAA
1 CAGAATCAGAATCAGAATCAAAATTAGGTGA
*
55170727 CAGAATCAGAATC--AAT----ATTA-GTAA
1 CAGAATCAGAATCAGAATCAAAATTAGGTGA
*
55170751 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAAATTAGGTGA
55170782 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
55170800 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 5, Indels: 23
0.80 0.04 0.17
Matches are distributed among these distances:
22 3 0.03
24 34 0.31
25 1 0.01
26 3 0.03
30 28 0.25
31 41 0.37
32 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATTAGGTGA
Found at i:55170755 original size:79 final size:79
Alignment explanation
Indices: 55170637--55170799 Score: 283
Period size: 79 Copynumber: 2.1 Consensus size: 79
55170627 AACCAAAATG
* *
55170637 AGAATCAGAATCAGAATCAGAATCAATATTAGTAGCAGAATTAGAATCAGAATCAAAATTAGGTG
1 AGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTG
55170702 ACAGAATCAGAATC
66 ACAGAATCAGAATC
*
55170716 AGAATCAGTAA-CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
1 AGAATCAG-AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGT
55170780 GACAGAATCAGAATC
65 GACAGAATCAGAATC
55170795 AGAAT
1 AGAAT
55170800 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 78 0.98
80 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTG
ACAGAATCAGAATC
Found at i:55170966 original size:27 final size:27
Alignment explanation
Indices: 55170935--55171003 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
55170925 GATATCGTGA
*
55170935 CAGAGTCACCAGATACAGACA-TTGTGG
1 CAGAGCCACCAGA-ACAGACATTTGTGG
*
55170962 CAGAGCCACCAGAACAGATATTTGTGG
1 CAGAGCCACCAGAACAGACATTTGTGG
*
55170989 CATAGCCACCAGAAC
1 CAGAGCCACCAGAAC
55171004 GCTTCCTCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.16
27 32 0.84
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGAACAGACATTTGTGG
Found at i:55171304 original size:62 final size:56
Alignment explanation
Indices: 55171201--55171403 Score: 184
Period size: 54 Copynumber: 3.6 Consensus size: 56
55171191 GGGGCAAAAT
* * * * * * *
55171201 GGTAATTTTACCCCATA-AGGTATCTCAGTAATTCCATCCTACAGGGGTATTTTAGT
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT-GC
* *
55171257 GTTTTAGTAATTCTACCTTACAGAGGTATTTCAATAATTCTACCCTACAGGGGTA--TTGC
1 G-----GTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGC
* * *
55171316 GGTAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTA-TTT-C
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGC
*
55171370 GGTAATTCTATCCTACA-AGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAGA-GGTATTTCAGTAATT
55171404 TCACAATCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
54 74 0.61
55 2 0.02
56 1 0.01
59 2 0.02
60 2 0.02
61 12 0.10
62 28 0.23
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (56 bp):
GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGC
Found at i:55171305 original size:27 final size:27
Alignment explanation
Indices: 55171263--55171403 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
55171253 TAGTGTTTTA
* * *
55171263 GTAATTCTACCTTACAGAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
55171290 ATAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
55171317 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
55171344 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
55171371 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
55171398 GTAATT
1 GTAATT
55171404 TCACAATCGA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:55171447 original size:27 final size:27
Alignment explanation
Indices: 55171408--55171630 Score: 306
Period size: 27 Copynumber: 8.3 Consensus size: 27
55171398 GTAATTTCAC
* *
55171408 AATCGAGGATAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55171435 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
**
55171462 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55171489 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
55171516 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
55171543 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
55171570 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
55171597 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
55171624 AATCGAG
1 AATCGAG
55171631 AGTACTTTGG
Statistics
Matches: 171, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 167 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:55171516 original size:81 final size:80
Alignment explanation
Indices: 55171398--55171659 Score: 312
Period size: 81 Copynumber: 3.2 Consensus size: 80
55171388 GGGTATTTCA
* * * *
55171398 GTAATTTCAC-AATCGAGGATAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTTTGTA
55171462 AATCGAGGGTAAAACG
65 AATCGAGGGTAAAACG
* * *
55171478 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAAT-GAGGGTAAAACGGTAATTTTGTA
55171543 AA-CTGAGGGTAAAACG
65 AATC-GAGGGTAAAACG
* ** * *
55171559 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTTTGTA
* ****
55171624 AATCGAGAGTACTTTG
65 AATCGAGGGTAAAACG
*
55171640 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
55171660 CATTTCAGTA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
80 11 0.07
81 140 0.92
82 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (80 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAATGAGGGTAAAACGGTAATTTTGTAA
ATCGAGGGTAAAACG
Found at i:55171647 original size:54 final size:54
Alignment explanation
Indices: 55171408--55171630 Score: 340
Period size: 54 Copynumber: 4.1 Consensus size: 54
55171398 GTAATTTCAC
* * * * *
55171408 AATCGAGGATAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
*
55171462 AATCGAGGGTAAAACGGTAATTTTACAAA-TCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAACT-GAGGGTAAAACGGTAATTCTGTA
*
55171516 AATCGAGGGTAAAACAGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
* * *
55171570 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
55171624 AATCGAG
1 AATCGAG
55171631 AGTACTTTGG
Statistics
Matches: 155, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 153 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:55171659 original size:54 final size:54
Alignment explanation
Indices: 55171408--55171659 Score: 310
Period size: 54 Copynumber: 4.7 Consensus size: 54
55171398 GTAATTTCAC
* * ** * *
55171408 AATCGAGGATAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTGTA
55171462 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
* *
55171516 AATCGAGGGTAAAACAGTAATTTTATAAA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTGTA
* ** *
55171570 AATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
* **** *
55171624 AATCGAGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGG
55171660 CATTTCAGTA
Statistics
Matches: 175, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 173 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
Found at i:55181108 original size:29 final size:29
Alignment explanation
Indices: 55181076--55181210 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
55181066 ATACCCTTCG
** * *
55181076 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
55181105 AGCTTGCACACATAGTG-TATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55181133 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
55181162 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55181191 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
55181211 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.25
29 69 0.75
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:55181867 original size:142 final size:143
Alignment explanation
Indices: 55181693--55181986 Score: 556
Period size: 142 Copynumber: 2.1 Consensus size: 143
55181683 TATACCCCAT
*
55181693 ATGGCCGAATGCTTCATGCACACACACAATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTTCATGCACACACACAATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
55181758 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
55181823 G-AAACAACATGC
131 GAAAACAACATGC
55181835 ATGGCCGAATAC-TCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTT
1 ATGGCCGAATACTTCATGCACACACACA-ATAACAACAAGAACTCAATGGCACAAAATTTCCTTT
55181899 TTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAA
65 TTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAA
55181964 GGAAAACAACATGC
130 GGAAAACAACATGC
55181978 ATGGCCGAA
1 ATGGCCGAA
55181987 ATTTAACTCA
Statistics
Matches: 149, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
141 15 0.10
142 114 0.77
143 20 0.13
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (143 bp):
ATGGCCGAATACTTCATGCACACACACAATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACATGC
Found at i:55188891 original size:29 final size:29
Alignment explanation
Indices: 55188859--55188993 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
55188849 ATACCCTTCG
** * *
55188859 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
55188888 AGCTTGCACACATAGTG-TATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55188916 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
55188945 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55188974 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
55188994 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.25
29 69 0.75
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:55189730 original size:140 final size:140
Alignment explanation
Indices: 55189476--55189764 Score: 432
Period size: 140 Copynumber: 2.1 Consensus size: 140
55189466 TATACCCCAT
* *
55189476 ATGGCCGAATGCTTCATTGCACATTACACACATAACAACAAGAACTCAATACATTTCCTTTTTGT
1 ATGGCCGAATACTTCATTGCACATCACACACATAACAACAAGAACTCAATACATTTCCTTTTTGT
55189541 TAAACATTCGAACTCACTCATCTCCAGCTTTCATCACAACAACATTC-AAACA-TCA-CAAGG-A
66 TAAACATTCGAACTCACTCATCTCCAGCTTTCATCACAACAACATTCAAAACACTCACCAAGGAA
55189602 AACAACATAGC
131 AACAACAT-GC
55189613 ATGGCCGAATAC-TCA-TGCACA-CACACACATAACAACAAGAACTCAATGGCACAAAATTTCCT
1 ATGGCCGAATACTTCATTGCACATCACACACATAACAACAAGAACTCAAT---AC---ATTTCCT
55189675 TTTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACA-TCAAAACACTCAC
60 TTTTGTTAAACATTCGAACTCACTCATCTCCA-GCTTTCATCACAACAACATTCAAAACACTCAC
55189739 CAAGGAAAACAACATGC
124 CAAGGAAAACAACATGC
55189756 ATGGCCGAA
1 ATGGCCGAA
55189765 ATTTAACTCA
Statistics
Matches: 139, Mismatches: 2, Indels: 16
0.89 0.01 0.10
Matches are distributed among these distances:
134 25 0.18
135 6 0.04
136 3 0.02
137 13 0.09
140 41 0.29
141 23 0.17
142 3 0.02
143 16 0.12
144 9 0.06
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (140 bp):
ATGGCCGAATACTTCATTGCACATCACACACATAACAACAAGAACTCAATACATTTCCTTTTTGT
TAAACATTCGAACTCACTCATCTCCAGCTTTCATCACAACAACATTCAAAACACTCACCAAGGAA
AACAACATGC
Found at i:55191681 original size:39 final size:39
Alignment explanation
Indices: 55191626--55191710 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
55191616 CACTGTCAAG
*
55191626 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55191665 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55191704 CTATCGC
1 CTATCGC
55191711 ATGTATAGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (39 bp):
CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
Found at i:55191728 original size:33 final size:39
Alignment explanation
Indices: 55191626--55191735 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
55191616 CACTGTCAAG
* *
55191626 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
*
55191665 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55191704 CTATCGC-A-T-GTAT-AG-GATTT-AAATA-TTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55191736 ATGTGATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.10
33 5 0.07
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 45 0.65
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (39 bp):
CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
Found at i:55193485 original size:58 final size:58
Alignment explanation
Indices: 55193423--55193621 Score: 247
Period size: 58 Copynumber: 3.4 Consensus size: 58
55193413 AACAAATTTG
* *
55193423 TACTTGAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
* ** *
55193481 TACTTAAGAAAAGTTTGAAAGATAGGCAACTGGGGATGTGAATCTGCAAGCTGTTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
* * * * * ** * *
55193539 TACTTAAGAAAAATTTGAAAGATAGCTAGCT-AAGGATGTGAACCCACGAGCTATTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGA-GATGTGAATCTGCAAGCTGTTTTA
55193597 TACTTAAGAAAAATTTGAAAGATAA
1 TACTTAAGAAAAATTTGAAAGATAA
55193622 TATAGTTAGG
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
58 122 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (58 bp):
TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
Found at i:55193763 original size:69 final size:69
Alignment explanation
Indices: 55193625--55193972 Score: 355
Period size: 69 Copynumber: 5.0 Consensus size: 69
55193615 AAGATAATAT
* * * *
55193625 AGTTAGGAGTTTTTGACTCTCGCTAACTATGTTGGAGGCTAC-GGTGTTTATCCTACGAGCCTCA
1 AGTT-GGAG-TTTTG-CTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTA
*
55193689 GTATGAC
63 ATATGAC
* * * *
55193696 AGTTGGAGTTTTGCTCTCACTAACTATGTTGGAGGTTACAGTTTTTTGTCCTATGAGCCTTAATA
1 AGTTGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTAATA
55193761 TGAC
66 TGAC
* ** * * *
55193765 AAGTGGGAGCTTTT-CTCTCAAAAACTATGTTAGAGGCTGCA-ATTTTTATCCTACGAGCCTTAT
1 -AGTTGGAG-TTTTGCTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTAA
*
55193828 TATGAT
64 TATGAC
* * * * * * *
55193834 AGCTGGGAGCTTTGCTCTCGCTAATTGTGTTGGAGACTACAG-TTTTTATCCTATGAGCCTTAAT
1 AG-TTGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTAAT
*
55193898 ATGAT
65 ATGAC
* * *
55193903 AGTTGAGAGTTTTGCTCTCACTAACTGTGTTGGAGGCTACA-ATTATTATCCTGCGAGCCTTAAT
1 AGTTG-GAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTAAT
55193967 ATGAC
65 ATGAC
55193972 A
1 A
55193973 TAAAAGATAT
Statistics
Matches: 230, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
68 31 0.13
69 158 0.69
70 33 0.14
71 8 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (69 bp):
AGTTGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAGATTTTTATCCTACGAGCCTTAATA
TGAC
Found at i:55200663 original size:29 final size:29
Alignment explanation
Indices: 55200631--55200766 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
55200621 ATACCCTTCG
** *
55200631 AGCTCGCACACCCAGTGCCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * ** *
55200660 AGCTTGCACACATAGTGTTATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55200689 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
55200718 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55200747 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
55200767 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:55200698 original size:58 final size:58
Alignment explanation
Indices: 55200606--55200766 Score: 169
Period size: 58 Copynumber: 2.8 Consensus size: 58
55200596 AATTTAAGCC
* *** * * ** * *
55200606 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCATATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
* ** * * *
55200664 TGCACACATAGTGTTATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
*
55200722 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
55200767 ATCTCGTCAC
Statistics
Matches: 81, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 81 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55201478 original size:141 final size:141
Alignment explanation
Indices: 55201249--55201540 Score: 550
Period size: 141 Copynumber: 2.1 Consensus size: 141
55201239 TATACCCCAT
55201249 ATGGCCGAATACTCATGCACATACACACATAACAACAAGAACTCAATGGCACAAATTTCCTTTTT
1 ATGGCCGAATACTCATGCACA-ACACACATAACAACAAGAACTCAATGGCACAAATTTCCTTTTT
55201314 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
65 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
*
55201379 AAGACAACATGC
130 AAAACAACATGC
55201391 ATGGCCGAATACTCATGCAC-ACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTTT
1 ATGGCCGAATACTCATGCACAACACACATAACAACAAGAACTCAATGGCAC-AAATTTCCTTTTT
55201455 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
65 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
55201520 AAAACAACATGC
130 AAAACAACATGC
55201532 ATGGCCGAA
1 ATGGCCGAA
55201541 ATTTAACTCA
Statistics
Matches: 148, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
140 30 0.20
141 98 0.66
142 20 0.14
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (141 bp):
ATGGCCGAATACTCATGCACAACACACATAACAACAAGAACTCAATGGCACAAATTTCCTTTTTG
TTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGGA
AAACAACATGC
Found at i:55203460 original size:39 final size:39
Alignment explanation
Indices: 55203405--55203489 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
55203395 CACTGTCAAG
*
55203405 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55203444 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55203483 CTATCGC
1 CTATCGC
55203490 ATGTATAGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (39 bp):
CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
Found at i:55203507 original size:33 final size:39
Alignment explanation
Indices: 55203405--55203514 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
55203395 CACTGTCAAG
* *
55203405 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
*
55203444 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55203483 CTATCGC-A-T-GTAT-AG-GATTT-AAATA-TTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55203515 ATGTGATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.10
33 5 0.07
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 45 0.65
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (39 bp):
CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
Found at i:55205549 original size:143 final size:139
Alignment explanation
Indices: 55205283--55205552 Score: 454
Period size: 143 Copynumber: 1.9 Consensus size: 139
55205273 CCGATATCTG
55205283 CACACACTAACAACAAGAACCAATGGACAAAATTTCCTTTTGTTAAACATTCGAAACTCACTCAT
1 CACACACTAACAACAAGAACCAATGGACAAAATTTCCTTTTGTTAAACATTCGAAACTCACTCAT
*
55205348 CTCATGCTTTCATACAAACAACATCAAAACACTCACCAAGGAAGACAAAATGCATGGCCGAATAC
66 CTCATGCTTTCATACAAACAACATCAAAACACTCACCAAGGAAAACAAAATGCATGGCCGAATAC
55205413 TCATGCACA
131 TCATGCACA
55205422 CACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTTTGTTAAACATTCG-AACTCAC
1 CACACAC-TAACAACAAGAAC-CAATGG-ACAAAATTTCC-TTTTGTTAAACATTCGAAACTCAC
*
55205486 TCATCTCCATGCTTTCAT-CACAACAACATCAAAACACTCACCAAGGAAAACAACATGCATGGCC
62 TCATCT-CATGCTTTCATACA-AACAACATCAAAACACTCACCAAGGAAAACAAAATGCATGGCC
55205550 GAA
125 GAA
55205553 ATTTAACTCA
Statistics
Matches: 123, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
139 7 0.06
140 13 0.11
141 6 0.05
142 26 0.21
143 71 0.58
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (139 bp):
CACACACTAACAACAAGAACCAATGGACAAAATTTCCTTTTGTTAAACATTCGAAACTCACTCAT
CTCATGCTTTCATACAAACAACATCAAAACACTCACCAAGGAAAACAAAATGCATGGCCGAATAC
TCATGCACA
Found at i:55212458 original size:29 final size:29
Alignment explanation
Indices: 55212426--55212557 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
55212416 ATACCCTTCG
** * *
55212426 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * ** *
55212455 AGCTTGCACACATAGTGTTATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55212484 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
55212513 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
55212542 AGCACGCACACTTAGT
1 AGCTCGCACACTTAGT
55212558 CCCAATCTCG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 87 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:55212553 original size:58 final size:58
Alignment explanation
Indices: 55212401--55212557 Score: 161
Period size: 58 Copynumber: 2.7 Consensus size: 58
55212391 AATTTAAGCC
* *** * * ** * *
55212401 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* ** * * *
55212459 TGCACACATAGTGTTATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
55212517 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGT
55212558 CCCAATCTCG
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 78 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:55213216 original size:143 final size:143
Alignment explanation
Indices: 55213044--55213338 Score: 572
Period size: 143 Copynumber: 2.1 Consensus size: 143
55213034 TATACCCCAT
*
55213044 ATGGCCGAATACTCATGCACATACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
55213109 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
55213174 GAAGACAACATGC
131 GAAAACAACATGC
55213187 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
55213252 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
55213317 GAAAACAACATGC
131 GAAAACAACATGC
55213330 ATGGCCGAA
1 ATGGCCGAA
55213339 ATTTAACTCA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 150 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (143 bp):
ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACATGC
Found at i:55215259 original size:39 final size:39
Alignment explanation
Indices: 55215204--55215288 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
55215194 CACTGTCAAG
*
55215204 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55215243 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
55215282 CTATCGC
1 CTATCGC
55215289 ATGTATAGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (39 bp):
CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
Found at i:55215306 original size:33 final size:39
Alignment explanation
Indices: 55215204--55215313 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
55215194 CACTGTCAAG
* *
55215204 CTATCGCTATTGGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
*
55215243 CTATCGCTATTAGTGTAAGTGATTTCAAATACTTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55215282 CTATCGC-A-T-GTAT-AG-GATTT-AAATA-TTTGAGT
1 CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
55215314 ATGTGATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.10
33 5 0.07
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 45 0.65
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (39 bp):
CTATCGCTATTAGTATAAGTGATTTCAAATACTTTGAGT
Found at i:55217063 original size:58 final size:58
Alignment explanation
Indices: 55217001--55217199 Score: 247
Period size: 58 Copynumber: 3.4 Consensus size: 58
55216991 AACAAATTTG
* *
55217001 TACTTGAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
* ** *
55217059 TACTTAAGAAAAGTTTGAAAGATAGGCAACTGGGGATGTGAATCTGCAAGCTGTTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
* * * * * ** * *
55217117 TACTTAAGAAAAATTTGAAAGATAGCTAGCT-AAGGATGTGAACCCACGAGCTATTTTA
1 TACTTAAGAAAAATTTGAAAGATAACCAACTGGA-GATGTGAATCTGCAAGCTGTTTTA
55217175 TACTTAAGAAAAATTTGAAAGATAA
1 TACTTAAGAAAAATTTGAAAGATAA
55217200 TATAGTTAGG
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
58 122 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (58 bp):
TACTTAAGAAAAATTTGAAAGATAACCAACTGGAGATGTGAATCTGCAAGCTGTTTTA
Found at i:55217420 original size:69 final size:69
Alignment explanation
Indices: 55217201--55217549 Score: 369
Period size: 69 Copynumber: 5.0 Consensus size: 69
55217191 GAAAGATAAT
* * ** * *
55217201 ATAGTTAGGAGTTTTTGACTCTCGCTAACTATGTTGGAGGCTACGGTGTTTATCCTACGAGCCTC
1 ATAGTTGGGAG-TTTTG-CTCTCACTAACTATGTTGGAGGCTACAATTTTTATCCTACGAGCCTT
*
55217266 AGTATG
64 AATATG
* * * * *
55217272 ACAGTTGGGAGTTTTGCTCTCACTAACTATGTTGGAGGTTACAGTTTTTTGTCCTATGAGCCTTA
1 ATAGTTGGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACA-ATTTTTATCCTACGAGCCTTA
55217337 ATATG
65 ATATG
* ** * *
55217342 ACAAG-TGGGAGCTTTT-CTCTCAAAAACTATGTTAGAGGCTGCAATTTTTATCCTACGAGCCTT
1 A-TAGTTGGGAG-TTTTGCTCTCACTAACTATGTTGGAGGCTACAATTTTTATCCTACGAGCCTT
*
55217405 ATTATG
64 AATATG
* * * * * * * *
55217411 ATAGCTGGGAGCTTTGCTCTCGCTAATTGTGTTGGAGACTACAGTTTTTATCCTATGAGCCTTAA
1 ATAGTTGGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAA
55217476 TATG
66 TATG
* * * *
55217480 ATAGTTGAGAGTTTTGCTCTCACTAACTGTGTTGGAGGCTACAATTATTATCCTGCGAGCCTTAA
1 ATAGTTGGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAA
55217545 TATG
66 TATG
55217549 A
1 A
55217550 CATAAAAGAT
Statistics
Matches: 229, Mismatches: 44, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
68 5 0.02
69 155 0.68
70 54 0.24
71 15 0.07
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (69 bp):
ATAGTTGGGAGTTTTGCTCTCACTAACTATGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAA
TATG
Found at i:55220900 original size:40 final size:40
Alignment explanation
Indices: 55220841--55221121 Score: 451
Period size: 40 Copynumber: 7.0 Consensus size: 40
55220831 GGATTGATAA
55220841 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55220880 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55220920 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55220960 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
55221001 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55221040 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55221080 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
55221120 CC
1 CC
55221122 AGCTAAACTC
Statistics
Matches: 227, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 13 0.06
40 212 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55225978 original size:28 final size:29
Alignment explanation
Indices: 55225941--55226006 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
55225931 TAAAGTGATT
*
55225941 TTGAGTAAAAATGTATATT-AGGGATTAAA
1 TTGAG-AAAAATGTAAATTGAGGGATTAAA
* *
55225970 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
55225999 TTGTGAAA
1 TTGAGAAA
55226007 TAAATGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:55227323 original size:13 final size:12
Alignment explanation
Indices: 55227296--55227331 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
55227286 TAGATATGTT
55227296 TTGGTTGTAGAA
1 TTGGTTGTAGAA
*
55227308 TTGGTTAGTTGAA
1 TTGGTT-GTAGAA
55227321 TTGGTTGTAGA
1 TTGGTTGTAGA
55227332 TAGATGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (12 bp):
TTGGTTGTAGAA
Found at i:55234432 original size:27 final size:27
Alignment explanation
Indices: 55234402--55234453 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
55234392 CCCAAATTGA
*
55234402 TAAAATAACTATTATGCCCCTATGAGG
1 TAAAATAACTAATATGCCCCTATGAGG
* *
55234429 TAAAATGACTAATATGCCCTTATGA
1 TAAAATAACTAATATGCCCCTATGA
55234454 AATCTATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
TAAAATAACTAATATGCCCCTATGAGG
Found at i:55235172 original size:31 final size:31
Alignment explanation
Indices: 55235128--55235189 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
55235118 TTTAATAGAT
* *
55235128 TATCTTTTTGCTCAACAACTTGAGTTTTAAC
1 TATCATTTCGCTCAACAACTTGAGTTTTAAC
55235159 TATCATTTCGCTCAACAACTTGAGTTTTAAC
1 TATCATTTCGCTCAACAACTTGAGTTTTAAC
55235190 AATGAACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (31 bp):
TATCATTTCGCTCAACAACTTGAGTTTTAAC
Found at i:55236220 original size:28 final size:29
Alignment explanation
Indices: 55236178--55236243 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
55236168 TAAAGTGATT
*
55236178 TTGAGTAAAAATGTATATT-ACGGATTAAA
1 TTGAG-AAAAATGTAAATTGACGGATTAAA
* *
55236207 TTGAGAAAAGTGTAAATTGAGGGATTAAA
1 TTGAGAAAAATGTAAATTGACGGATTAAA
*
55236236 TTGTGAAA
1 TTGAGAAA
55236244 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGACGGATTAAA
Found at i:55245239 original size:44 final size:44
Alignment explanation
Indices: 55245099--55245255 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 44
55245089 AACTTGTACA
* * *
55245099 ATGCCAACGTCCCAAATATGGTCTTACA-TGT-AATCAAATATCA
1 ATGCCAACGTCCCAGAGATGGTCTTACACT-TAAATCAAATATCG
* * *
55245142 ATG-CTACTGTCCCAGACA-GGTCTTACAC-GAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAGATGGTCTTACACTTAAATCAAATATCG
* *
55245183 ATGCCGATGTCCCAGAGATGGTCTTACACTTAAATCATAAT-TCG
1 ATGCCAACGTCCCAGAGATGGTCTTACACTTAAATCA-AATATCG
55245227 ATGCCAACGTCCCAGACG-TGGTCTTACAC
1 ATGCCAACGTCCCAGA-GATGGTCTTACAC
55245256 GAAAACACAT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 12 0.13
42 34 0.36
43 18 0.19
44 29 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGAGATGGTCTTACACTTAAATCAAATATCG
Found at i:55249650 original size:47 final size:47
Alignment explanation
Indices: 55249579--55249758 Score: 172
Period size: 47 Copynumber: 3.8 Consensus size: 47
55249569 TTATCTATGT
*
55249579 GCCAGTGTAAGA-CATGTCTTGGACATGGCATCGACATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA-GAGA
* *
55249626 GCCAGTGTAAGA-CATGCCTGGGACATGGCATCGACACGTAT-AGAG-GT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA--T-TGAGAGAGA
** * * * *
55249673 GTTAATGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATAGATAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGA-GA
* * *
55249720 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCATT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
55249759 ATACCCTATG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
47 74 0.68
48 25 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGAGA
Found at i:55254654 original size:46 final size:44
Alignment explanation
Indices: 55254603--55254769 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 44
55254593 ATGTTTGGGC
55254603 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
55254647 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* *
55254696 ATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
55254740 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC
55254770 GTTATGGGCA
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.30
45 1 0.01
46 33 0.32
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:55257724 original size:15 final size:15
Alignment explanation
Indices: 55257704--55257757 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
55257694 ATATCTTGGG
55257704 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
55257719 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55257734 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55257749 TTTCTTTAT
1 TTTCTTTAT
55257758 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55257734 original size:30 final size:30
Alignment explanation
Indices: 55257700--55257768 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
55257690 TATCATATCT
55257700 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
55257730 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
55257760 -GGTTTTCTT
1 TGGGTTTCTT
55257769 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:55260143 original size:46 final size:45
Alignment explanation
Indices: 55260090--55260264 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
55260080 TGTTTGGGCA
55260090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
*** *
55260136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGT-A-T-GCGAAG
* * * *
55260183 TCTGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
* * *
55260229 CCCGAGA-TCGTTGAGTTGAGTCTGAGTTCGCTTATG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATG
55260265 GGCAGGTTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.60
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAAG
Found at i:55260245 original size:93 final size:93
Alignment explanation
Indices: 55260086--55260258 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
55260076 AGGATGTTTG
* * *
55260086 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55260151 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
55260179 GGCATCTGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCCGAGA-TCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGA-ACTCGTTGA
*
55260243 GTTGAGTCTGAGTTCG
65 GTTGAGTCCGAGTTCG
55260259 CTTATGGGCA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55265130 original size:40 final size:40
Alignment explanation
Indices: 55265086--55265256 Score: 297
Period size: 40 Copynumber: 4.3 Consensus size: 40
55265076 AACTCACACG
* *
55265086 AATGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
55265126 AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
55265166 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
* *
55265206 AATGCCTTCGGGACTCAGCCCAGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
55265246 AATGCCTTCGG
1 AATGCCTTCGG
55265257 ATCTTAGTCC
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
Found at i:55265183 original size:80 final size:80
Alignment explanation
Indices: 55265051--55265256 Score: 301
Period size: 80 Copynumber: 2.6 Consensus size: 80
55265041 AACCCAAGTA
* * *
55265051 CCTTCGGAATTTAG-CCGGATATAG-CAACTCA-CACGAATGCCTTCGGGACTTAGCCCGGACAT
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGCCTTCGGGACTTAGCCCGGACAT
*
55265113 AGTCACTAGCACAAATG
64 AATCACTAGCACAAATG
*
55265130 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
55265195 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * *
55265210 CCTTCGGGACTCAGCCCAGATATAATCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
55265257 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 13 0.11
80 102 0.88
81 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
TCACTAGCACAAATG
Found at i:55267146 original size:22 final size:22
Alignment explanation
Indices: 55267121--55267162 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
55267111 TTCGCTGCCT
* *
55267121 CTAGTATTGAGATTATCTGTAC
1 CTAGTACTGACATTATCTGTAC
*
55267143 CTAGTACTGACATTCTCTGT
1 CTAGTACTGACATTATCTGT
55267163 GAACTCTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
CTAGTACTGACATTATCTGTAC
Found at i:55270355 original size:71 final size:71
Alignment explanation
Indices: 55270271--55270434 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55270261 CGATTTGTCT
55270271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55270336 CTTTCA
66 CTTTCA
55270342 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55270407 CTTTCA
66 CTTTCA
55270413 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
55270435 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:55270472 original size:71 final size:70
Alignment explanation
Indices: 55270271--55270468 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
55270261 CGATTTGTCT
* * * *
55270271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55270336 CTTTCA
65 CTTTCA
* * * *
55270342 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55270407 CTTTCA
65 CTTTCA
* *
55270413 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
55270469 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:55275454 original size:43 final size:43
Alignment explanation
Indices: 55275334--55275492 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
55275324 AACTTGTACA
* * * * *
55275334 ATGCCAACGTCCCAAATATGGTCTTACATGT-AATCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATA-CG
* * * *
55275377 ATGCTACTGTCCCAGACAAGGTCTTACATG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
*
55275419 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TACG
* *
55275463 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
55275493 AAAACACATA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 26 0.27
43 39 0.40
44 31 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:55279897 original size:47 final size:47
Alignment explanation
Indices: 55279826--55280005 Score: 174
Period size: 47 Copynumber: 3.8 Consensus size: 47
55279816 TTTTCTATGT
*
55279826 GCCAGTGTAAGA-CATGTCTTGGACATGGCATCGACATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA-GAGA
* *
55279873 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAGACGTAT-AGAG-GT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC--GACAT-TGAGAGAGA
** * * *
55279920 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATAGATAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGA-GA
* *
55279967 GCTAGTGTAAGACCATGAT-TGGGACATGGCATCGGCATT
1 GCCAGTGTAAGACCATG-TCTGGGACATGGCATCGACATT
55280006 ATACCCTATG
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 3 0.03
47 72 0.64
48 24 0.21
49 7 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGAGA
Found at i:55279991 original size:95 final size:94
Alignment explanation
Indices: 55279829--55280000 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 94
55279819 TCTATGTGCC
* * *
55279829 AGTGTAAGACATGTCTTGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGTCTGG
55279894 GACATGGCATCGAGACGTATAGAGGTGTT
66 GACATGGCATCGAGACGTATAGAGGTGTT
* *
55279923 AGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATA-GATAAGCTAGTGTAAGACCATGAT
1 AGTGTAAAA-CATGTCTGGGACATGGCATCGACATTGAGACGA-AAGCCAGTGTAAGA-CATG-T
55279986 -TGGGACATGGCATCG
62 CTGGGACATGGCATCG
55280001 GCATTATACC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
93 2 0.03
94 25 0.36
95 41 0.59
96 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGTCTGG
GACATGGCATCGAGACGTATAGAGGTGTT
Found at i:55284896 original size:46 final size:45
Alignment explanation
Indices: 55284843--55285016 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
55284833 TGTTTGGGCA
55284843 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
*** *
55284889 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGT-A-T-GCGAAG
* * * *
55284936 TCCGAGCTCATTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAA-G
* *
55284982 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTAT
55285017 AGGCAGGTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 59 0.57
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAAG
Found at i:55284998 original size:93 final size:93
Alignment explanation
Indices: 55284839--55285011 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
55284829 AGGATGTTTG
* * * *
55284839 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
55284904 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
55284932 GGCATCCGAGCTCATTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
55284996 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
55285012 CTTATAGGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55293412 original size:28 final size:28
Alignment explanation
Indices: 55293369--55293431 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
55293359 TGGGAAGTAG
*
55293369 TTGGGCCTGATGGGCCAAGTGAACGAGA
1 TTGGGCCTGATAGGCCAAGTGAACGAGA
* *
55293397 TTGGGTCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCAAGTGAACGAGA
55293425 TTGGGCC
1 TTGGGCC
55293432 AAATGAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.38, T:0.22
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCAAGTGAACGAGA
Found at i:55293779 original size:27 final size:26
Alignment explanation
Indices: 55293748--55294184 Score: 384
Period size: 27 Copynumber: 16.3 Consensus size: 26
55293738 GAAAATGCTA
*
55293748 AAATACCCTTGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-CG
*
55293775 AAATACCCCCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTA-CG
* *
55293802 AAATACCTTCGA-TTGTGAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-CG
*
55293828 AAATACCC-CTGGTTTGTAAAATTACCG
1 AAATACCCTC-GATTTGTAAAATTA-CG
* *
55293855 AAGTACCCT-TAGTTTGTAAAATTATCG
1 AAATACCCTCGA-TTTGTAAAATTA-CG
*
55293882 AAATACCC-CTGATTTGTAAAATTATCA
1 AAATACCCTC-GATTTGTAAAATTA-CG
*
55293909 AAATACCCTCGGTTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTA-CG
* ** *
55293936 AAGTACCC-CGGCTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTAC-G
* *
55293962 AAATACCC-CGGTTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTAC-G
* * * *
55293988 AAATACCTTC-AGTTGCAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTAC-G
* *
55294014 AAATACCCTCGATTTTTAGAATTACTG
1 AAATACCCTCGATTTGTAAAATTAC-G
* * *
55294041 AAATACCCTCGATTTTTAGAATTACTA
1 AAATACCCTCGATTTGTAAAATTAC-G
55294068 AAATACCCTCGATTTGTAAAATTACTG
1 AAATACCCTCGATTTGTAAAATTAC-G
* *
55294095 AAACACCATCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTA-CG
* *
55294122 AAGTACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTA-CG
* *
55294149 AAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-CG
55294176 AAATACCCT
1 AAATACCCT
55294185 TGTAGTGTAA
Statistics
Matches: 346, Mismatches: 53, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 87 0.25
27 254 0.73
28 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACG
Found at i:55293931 original size:81 final size:80
Alignment explanation
Indices: 55293747--55294210 Score: 449
Period size: 81 Copynumber: 5.8 Consensus size: 80
55293737 AGAAAATGCT
* * * *
55293747 AAAATACCCTTGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCTTC
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
*
55293812 GA-TTGTGAAATTATC
66 GATTTGTAAAATTA-C
* * * * *
55293827 GAAATACCC-CTGGTTTGTAAAATTACCGAAGTACCCT-TAGTTTGTAAAATTATCGAAATACCC
1 AAAATACCCTC-GATTTGTAAAATTACCGAAATACCCTCGA-TTTGTAAAATTACCGAAATACCC
55293890 -CTGATTTGTAAAATTATC
64 TC-GATTTGTAAAATTA-C
* * ** **
55293908 AAAATACCCTCGGTTTGTAAAATTACCGAAGTACCC-CGGCTTGTAAAATTACTAAAATACCC-C
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
*
55293971 GGTTTGTAAAATTAC
66 GATTTGTAAAATTAC
* * * ** * * *
55293986 TAAAATACCTTC-AGTTGCAAAATTACTAAAATACCCTCGATTTTTAGAATTACTGAAATACCCT
1 -AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
* *
55294050 CGATTTTTAGAATTAC
65 CGATTTGTAAAATTAC
* * * *
55294066 TAAAATACCCTCGATTTGTAAAATTACTGAAACACCATCGATTTGTAAAATTACCGAAGTACCCT
1 -AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
55294131 CGATTTGTAAAATTACC
65 CGATTTGTAAAATTA-C
* * * * * * *
55294148 AAAACACCCCCGATTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATGACCGACATACCC
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCC
55294211 CTGTAAGGTA
Statistics
Matches: 316, Mismatches: 56, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
78 19 0.06
79 46 0.15
80 98 0.31
81 151 0.48
82 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (80 bp):
AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
GATTTGTAAAATTAC
Found at i:55294193 original size:27 final size:28
Alignment explanation
Indices: 55294163--55294227 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
55294153 ACCCCCGATT
* * *
55294163 TGTAAAATTATCGAAATACCCTTGT-AG
1 TGTAAAATGACCGAAATACCCCTGTAAG
*
55294190 TGTAAAATGACCGACATACCCCTGTAAG
1 TGTAAAATGACCGAAATACCCCTGTAAG
55294218 -GTAAAATGAC
1 TGTAAAATGAC
55294228 TATTTTGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (28 bp):
TGTAAAATGACCGAAATACCCCTGTAAG
Found at i:55304594 original size:41 final size:41
Alignment explanation
Indices: 55304549--55304666 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55304539 TGAAAGATAA
55304549 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55304590 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55304620 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55304661 ATGTAG
1 ATGTAG
55304667 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55304605 original size:71 final size:71
Alignment explanation
Indices: 55304517--55304680 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55304507 GAGATGTATC
55304517 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55304582 AGGACA
66 AGGACA
55304588 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55304653 AGGACA
66 AGGACA
55304659 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55304681 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55314106 original size:40 final size:40
Alignment explanation
Indices: 55313914--55314099 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
55313904 TCGAATGATG
* * *
55313914 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
55313954 TCTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55313994 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55314034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55314075 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55314100 AACGAGTAGT
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55319161 original size:11 final size:11
Alignment explanation
Indices: 55319147--55319187 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
55319137 CACATTCTCA
55319147 AAACATTTAAT
1 AAACATTTAAT
**
55319158 AAACATTTGCT
1 AAACATTTAAT
*
55319169 TAACATTTAAT
1 AAACATTTAAT
55319180 AAACATTT
1 AAACATTT
55319188 GCTTTTACTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (11 bp):
AAACATTTAAT
Found at i:55319190 original size:22 final size:22
Alignment explanation
Indices: 55319148--55319191 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55319138 ACATTCTCAA
55319148 AACATTTAATAAACATTTGCTT
1 AACATTTAATAAACATTTGCTT
55319170 AACATTTAATAAACATTTGCTT
1 AACATTTAATAAACATTTGCTT
55319192 TTACTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
AACATTTAATAAACATTTGCTT
Found at i:55321516 original size:43 final size:44
Alignment explanation
Indices: 55321414--55321517 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
55321404 GTCCTAGATG
* *
55321414 TGGTCTTACATGT-AATCAAATATCGAAGCCACTGTCCCAGACA
1 TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCCAAGACA
* * * **
55321457 AGGTCTTACA-CTAAATCATATA-CGATTCCAATGTCCAAGACA
1 TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCCAAGACA
55321499 TGGTCTTACATGTAAATCA
1 TGGTCTTACATGTAAATCA
55321518 CAAATCAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCCAAGACA
Found at i:55322892 original size:43 final size:43
Alignment explanation
Indices: 55322844--55323058 Score: 213
Period size: 42 Copynumber: 5.0 Consensus size: 43
55322834 TACACGAACA
* *
55322844 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* * * *
55322887 ATGCCACTGTTCCAGATAG-GGTCTTACACGAAATCAAATA-CA
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGAAATCAAATATCG
* * *
55322929 ATGTCGATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* * * *
55322971 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCA-AATATCG
* * * * *
55323015 ATGCCAACGTCCCAAACGTGGTCTTACATGAAAGCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
55323058 A
1 A
55323059 ATCCTATGTC
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
42 64 0.45
43 48 0.34
44 31 0.22
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:55322951 original size:85 final size:85
Alignment explanation
Indices: 55322841--55323047 Score: 231
Period size: 85 Copynumber: 2.4 Consensus size: 85
55322831 TGTTACACGA
* * * * * *
55322841 ACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTTCCAGATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAAACA
55322905 GGGTCTTACACG-AAATCAAAT
64 GGGTCTTACACGTAAATCAAAT
* * *
55322926 ACAATGTCGATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCCCAAACATG
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCCCAAACAGG
55322991 GTCTTACACGTAAATCATAAGT
66 GTCTTACACGTAAATCA-AA-T
* * * * *
55323013 -CGATGCCAACGTCCCAAACGTGGTCTTACATGAAA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAA
55323048 GCACATATCG
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
84 26 0.25
85 45 0.44
86 30 0.29
87 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (85 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCCCAAACAGG
GTCTTACACGTAAATCAAAT
Done.