Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 589 of 770
Found at i:184207509 original size:2 final size:2
Alignment explanation
Indices: 184207502--184207526 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
184207492 GAGACTAGTC
184207502 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
184207527 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:184209562 original size:30 final size:30
Alignment explanation
Indices: 184209528--184209588 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
184209518 TCCTTAACTC
184209528 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
184209558 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
184209588 A
1 A
184209589 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:184212173 original size:40 final size:40
Alignment explanation
Indices: 184212045--184212294 Score: 354
Period size: 40 Copynumber: 6.3 Consensus size: 40
184212035 AACCCAAGTA
* *
184212045 CCTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGATCTTAGCCGGATATAGTAACTAGCACAAATG
*
184212084 CCTTCGGGA-CTTAGCCCGAATATAGTAACTAGCA-AAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCACAAATG
* *
184212123 CCTT-TGGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCACAAATG
184212163 CCTTC-GGATCTTAGCACGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAGC-CGGATATAGTAACTAGCACAAATG
184212203 CCTTCGGGA-CTTAGCTCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAGC-CGGATATAGTAACTAGCACAAATG
184212243 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCACAAATG
184212283 CCTTC-GGATCTT
1 CCTTCGGGATCTT
184212295 TGTCCGGTTA
Statistics
Matches: 193, Mismatches: 9, Indels: 17
0.88 0.04 0.08
Matches are distributed among these distances:
38 3 0.02
39 48 0.25
40 138 0.72
41 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGATCTTAGCCGGATATAGTAACTAGCACAAATG
Found at i:184213724 original size:13 final size:13
Alignment explanation
Indices: 184213708--184213735 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
184213698 TTTATTATTT
184213708 TTAACACAAAATA
1 TTAACACAAAATA
184213721 TTAACACAAAATA
1 TTAACACAAAATA
184213734 TT
1 TT
184213736 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:184215994 original size:31 final size:31
Alignment explanation
Indices: 184215953--184216016 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
184215943 CCTTTTCATA
* *
184215953 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
184215984 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
184216015 TT
1 TT
184216017 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:184216272 original size:23 final size:24
Alignment explanation
Indices: 184216208--184216372 Score: 189
Period size: 23 Copynumber: 7.0 Consensus size: 24
184216198 GCTTTATCAT
*
184216208 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
184216233 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
184216257 ATAA-TGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
184216281 ACAACTGGGGCATAAGCCC-TTTC
1 ATAACTGGGGCATAAGCCCTTTTA
184216304 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
184216326 ATAAACTGGGGCATAAGCCC-TTCA
1 AT-AACTGGGGCATAAGCCCTTTTA
184216350 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
184216373 GCACTTCCTC
Statistics
Matches: 125, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.02
23 75 0.60
24 22 0.18
25 26 0.21
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:184216321 original size:71 final size:69
Alignment explanation
Indices: 184216233--184216371 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 69
184216223 GCCTCTTTTA
* *
184216233 ATAACTGGGGCAAAAGCCCTTTTTATAA-TGGGGCATAAGCCCTTTATCACAACTGGGGCATAAG
1 ATAACTGGGGCAAAAGCCCTTTATA-AACTGGGGCATAAGCCCTTCA--ACAACTGGGGCATAAG
184216297 CCCTTTC
63 CCCTTTC
* *
184216304 ATAACTGGGGCATAAGCCCTTTATAAACTGGGGCATAAGCCCTTCAATAACTGGGGCATAAGCCC
1 ATAACTGGGGCAAAAGCCCTTTATAAACTGGGGCATAAGCCCTTCAACAACTGGGGCATAAGCCC
184216369 TTT
66 TTT
184216372 TGCACTTCCT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
69 21 0.33
70 2 0.03
71 40 0.63
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (69 bp):
ATAACTGGGGCAAAAGCCCTTTATAAACTGGGGCATAAGCCCTTCAACAACTGGGGCATAAGCCC
TTTC
Found at i:184216354 original size:46 final size:48
Alignment explanation
Indices: 184216235--184216371 Score: 210
Period size: 46 Copynumber: 2.9 Consensus size: 48
184216225 CTCTTTTAAT
* *
184216235 AACTGGGGCAAAAGCCCTTTTTATAA-TGGGGCATAAGCCCTTTATCAC
1 AACTGGGGCATAAGCCC-TTTCATAACTGGGGCATAAGCCCTTTATCAC
184216283 AACTGGGGCATAAGCCCTTTCATAACTGGGGCATAAGCCCTTTAT-A-
1 AACTGGGGCATAAGCCCTTTCATAACTGGGGCATAAGCCCTTTATCAC
184216329 AACTGGGGCATAAGCCC-TTCAATAACTGGGGCATAAGCCCTTT
1 AACTGGGGCATAAGCCCTTTC-ATAACTGGGGCATAAGCCCTTT
184216372 TGCACTTCCT
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
45 3 0.04
46 39 0.46
47 8 0.09
48 35 0.41
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
AACTGGGGCATAAGCCCTTTCATAACTGGGGCATAAGCCCTTTATCAC
Found at i:184216446 original size:20 final size:20
Alignment explanation
Indices: 184216418--184216501 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
184216408 GCATTTATGA
*
184216418 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
184216438 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
184216458 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
184216478 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
184216498 ACAT
1 ACAT
184216502 ACCATGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:184216473 original size:11 final size:11
Alignment explanation
Indices: 184216423--184216497 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
184216413 TATGAACATC
184216423 TCATGTGCATA
1 TCATGTGCATA
* *
184216434 TCA--TACATG
1 TCATGTGCATA
184216443 TCATGTGCATA
1 TCATGTGCATA
*
184216454 TCA--TACATA
1 TCATGTGCATA
184216463 TCATGTGCATA
1 TCATGTGCATA
* *
184216474 TCA--TACATG
1 TCATGTGCATA
184216483 TCATGTGCATA
1 TCATGTGCATA
184216494 TCAT
1 TCAT
184216498 ACATACCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:184217834 original size:27 final size:27
Alignment explanation
Indices: 184217743--184217826 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
184217733 GGGCATATTC
*
184217743 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
* *
184217770 GTCACTTTACCTTACAGGGGCTTTACT
1 GTCACTTTACCATACAGGGGCTTTACG
*
184217797 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
184217824 GTC
1 GTC
184217827 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:184217843 original size:27 final size:26
Alignment explanation
Indices: 184217743--184217836 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
184217733 GGGCATATTC
*
184217743 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
*
184217770 GTCACTTTACCTTACAGGGGCTTTACT
1 GTCACTTTACC-TACAGGGGCTTTACG
184217797 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
184217824 GTCTTTTTACCTA
1 GTCACTTTACCTA
184217837 ATAGGGGTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.07
27 52 0.88
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:184217918 original size:27 final size:27
Alignment explanation
Indices: 184217888--184217939 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
184217878 GTAAATCTAC
184217888 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
184217915 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
184217940 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:184218000 original size:27 final size:27
Alignment explanation
Indices: 184217951--184218099 Score: 148
Period size: 27 Copynumber: 5.7 Consensus size: 27
184217941 AGAAAGTCAA
* **
184217951 GGGTATTTT-GTAACTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAATTAG
*
184217977 GGGTATTTTGGTAATTTTAAAAATT-G
1 GGGTATTTTGGTAATTTTACAAATTAG
* * **
184218003 AGGTA-TTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTAG
* *
184218029 TGGTATTTTGGT-ATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAATTAG
184218055 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTTGGTAATTTTACAAATTAG
184218081 AGGGTATTTCT-GTAATTTT
1 -GGGTATTT-TGGTAATTTT
184218100 GTAAATCGAG
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
25 15 0.14
26 43 0.41
27 45 0.43
28 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTAG
Found at i:184218007 original size:26 final size:26
Alignment explanation
Indices: 184217952--184218099 Score: 106
Period size: 26 Copynumber: 5.7 Consensus size: 26
184217942 GAAAGTCAAG
* ** *
184217952 GGTATTTT-GTAACTTTGTAAATTAGG
1 GGTATTTTGGTAATTTTAAAAATT-GA
184217978 GGTATTTTGGTAATTTTAAAAATTGA
1 GGTATTTTGGTAATTTTAAAAATTGA
* *** *
184218004 GGTA-TTTGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTA-AAAATTGA
* * *
184218030 GGTATTTTGGT-ATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTA-AAAATTGA
*
184218056 GGTATTTTGGTAATTTTACAAATTGA
1 GGTATTTTGGTAATTTTAAAAATTGA
184218082 GGGTATTTCT-GTAATTTT
1 -GGTATTT-TGGTAATTTT
184218100 GTAAATCGAG
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
25 12 0.12
26 48 0.48
27 39 0.39
28 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTAAAAATTGA
Found at i:184218036 original size:52 final size:53
Alignment explanation
Indices: 184217978--184218077 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
184217968 GTAAATTAGG
*
184217978 GGTATTTTGGTAATTTTA-AAAATTGAGGTA-TTTGGTAATTTCACAAACCAGT
1 GGTATTTTGGT-ATTTTACAAAATAGAGGTATTTTGGTAATTTCACAAACCAGT
* * *
184218030 GGTATTTTGGTATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 GGTATTTTGGTATTTTACAAAATAGAGGTATTTTGGTAATTTCACAAA
184218078 TTGAGGGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 6 0.14
52 20 0.48
53 16 0.38
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (53 bp):
GGTATTTTGGTATTTTACAAAATAGAGGTATTTTGGTAATTTCACAAACCAGT
Found at i:184218105 original size:27 final size:26
Alignment explanation
Indices: 184217894--184218113 Score: 108
Period size: 27 Copynumber: 8.2 Consensus size: 26
184217884 CTACAAACCA
* * * *
184217894 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTT-TGTAATTTTATAAATCG
* * * *
184217921 ATGGTATTTCTATAATTTTTAGAAAGTCA
1 AGGGTATTT-TGTAA-TTTTATAAA-TCG
* * *
184217950 AGGGTATTTTGTAACTTTGTAAAT-T
1 AGGGTATTTTGTAATTTTATAAATCG
* *
184217975 AGGGGTATTTTGGTAATTTTAAAAATTG
1 A-GGGTATTTT-GTAATTTTATAAATCG
* * * *
184218003 A-GGTATTTGGTAATTTCACAAA-CC
1 AGGGTATTTTGTAATTTTATAAATCG
* *
184218027 AGTGGTATTTTGGT-ATTTTACAAA-CT
1 AG-GGTATTTT-GTAATTTTATAAATCG
* *
184218053 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTT-GTAATTTTATAAATCG
*
184218081 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTT-TGTAATTTTATAAATCG
184218108 AGGGTA
1 AGGGTA
184218114 AAATAGTAAT
Statistics
Matches: 152, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
24 1 0.01
25 12 0.08
26 46 0.30
27 69 0.45
28 14 0.09
29 10 0.07
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
AGGGTATTTTGTAATTTTATAAATCG
Found at i:184218122 original size:27 final size:27
Alignment explanation
Indices: 184218092--184218360 Score: 235
Period size: 27 Copynumber: 9.8 Consensus size: 27
184218082 GGGTATTTCT
* **
184218092 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
184218119 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
184218146 GTAATTCTATAAATCGACGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAACG
184218172 GATAATT-TGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACG
* *
184218199 GTAATTCTGTAAGTCGAGGGTAAAATGGGTAAAATG
1 GTAATTCTGTAAATC----G----A-GGGTAAAACG
* *
184218235 GTAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
184218261 GTAATT-TGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
184218287 GTAATTCTATAAATCAAGGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
184218313 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
184218340 GTAATTATGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
184218361 CTTTGGTAAT
Statistics
Matches: 205, Mismatches: 22, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
25 8 0.04
26 80 0.39
27 92 0.45
31 1 0.00
32 1 0.00
35 1 0.00
36 22 0.11
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:184218230 original size:62 final size:61
Alignment explanation
Indices: 184218164--184218284 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 61
184218154 ATAAATCGAC
* *
184218164 GGTAAAA-GGATAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATG
1 GGTAAAATGG-TAATTATGTAAATCG-GGGTAAAACGGTAATT-TGTAAATCAAGGGTAAAATG
*
184218226 GGTAAAATGGTAATTATGTAAATCGGGGTAAAATGGTAATTTGTAAATCAAGGGTAAAA
1 GGTAAAATGGTAATTATGTAAATCGGGGTAAAACGGTAATTTGTAAATCAAGGGTAAAA
184218285 CAGTAATTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 16 0.30
62 27 0.50
63 11 0.20
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.27
Consensus pattern (61 bp):
GGTAAAATGGTAATTATGTAAATCGGGGTAAAACGGTAATTTGTAAATCAAGGGTAAAATG
Found at i:184218231 original size:36 final size:35
Alignment explanation
Indices: 184218189--184218261 Score: 110
Period size: 36 Copynumber: 2.1 Consensus size: 35
184218179 TGTAAATCGA
* *
184218189 GGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAT
1 GGGTAAAACGGTAATTATGTAAATCG-GGGTAAAAT
*
184218225 GGGTAAAATGGTAATTATGTAAATCGGGGTAAAAT
1 GGGTAAAACGGTAATTATGTAAATCGGGGTAAAAT
184218260 GG
1 GG
184218262 TAATTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.32
36 23 0.68
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (35 bp):
GGGTAAAACGGTAATTATGTAAATCGGGGTAAAAT
Found at i:184218266 original size:88 final size:89
Alignment explanation
Indices: 184218136--184218310 Score: 246
Period size: 88 Copynumber: 2.0 Consensus size: 89
184218126 TGTAAATCAA
* * *
184218136 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAAGGATAATTTGTAAATCGAGGGTAAAACGGT
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAAGGATAATTTGTAAATCAAGGGTAAAACAGT
* * *
184218201 AATTCTGTAAGTCGAGGGTAAAAT
66 AATTCTATAAATCAAGGGTAAAAT
* * *
184218225 GGGTAAAATGGTAATTATGTAAATCG-GGGTAAAATGG-TAATTTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAA-GGATAATTTGTAAATCAAGGGTAAAACAG
184218288 TAATTCTATAAATCAAGGGTAAA
65 TAATTCTATAAATCAAGGGTAAA
184218311 CGGTACTTCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
88 51 0.67
89 25 0.33
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (89 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAAGGATAATTTGTAAATCAAGGGTAAAACAGT
AATTCTATAAATCAAGGGTAAAAT
Found at i:184218309 original size:141 final size:142
Alignment explanation
Indices: 184218092--184218360 Score: 409
Period size: 141 Copynumber: 1.9 Consensus size: 142
184218082 GGGTATTTCT
* *
184218092 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * *
184218157 AATCGACGGTAAAAGGATAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAAGG-TAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCG-GGGTA
184218221 AAATGGGTAAAATG
129 AAATGGGTAAAATG
*
184218235 GTAATTATGTAAATCG-GGGTAAAATGGTAATT-TGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * *
184218298 AATCAAGGGTAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGTA
66 AATCAACGGTAAAAGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGTA
184218361 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
140 9 0.08
141 76 0.66
142 15 0.13
143 15 0.13
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (142 bp):
GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAAGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGTAAA
ATGGGTAAAATG
Found at i:184218383 original size:53 final size:50
Alignment explanation
Indices: 184218225--184218387 Score: 164
Period size: 53 Copynumber: 3.1 Consensus size: 50
184218215 AGGGTAAAAT
* *
184218225 GGGTAAAATGGTAATTATGTAAATCGGGGTAAAATGGTAATTTGTAAATCAA
1 GGGTAAAACGGTAATTATGTAAATCGGGGT-AAATGGTAATTT-TAAATCGA
* * * * * *
184218277 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAACGGTACTTCTATAAATCGA
1 GGGTAAAACGGTAATTATGTAAATC-GGGGTAAATGGTAATT-T-TAAATCGA
**
184218330 GGGTAAAACGGTAATTATGTAAATCGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGTA-AATGGTAATTTTA-AA-TCGA
184218383 GGGTA
1 GGGTA
184218388 TTTCAATAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
51 2 0.02
52 38 0.43
53 49 0.55
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (50 bp):
GGGTAAAACGGTAATTATGTAAATCGGGGTAAATGGTAATTTTAAATCGA
Found at i:184221243 original size:30 final size:31
Alignment explanation
Indices: 184221183--184221245 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
184221173 CCTTTTCATA
*
184221183 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCAAATTTCATAATACTGGGCTGAAGCCT
*
184221214 TTTCAAATTTCATATTACTGGGC-GAAGCCT
1 TTTCAAATTTCATAATACTGGGCTGAAGCCT
184221244 TT
1 TT
184221246 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCAAATTTCATAATACTGGGCTGAAGCCT
Found at i:184221491 original size:24 final size:24
Alignment explanation
Indices: 184221455--184221617 Score: 155
Period size: 24 Copynumber: 7.1 Consensus size: 24
184221445 GGCCTAGCTC
*
184221455 TTTAGTAACTGGGGCAAAAGCCCTT
1 TTTA-TAACTGGGGCATAAGCCCTT
* *
184221480 TTTATAA-TTGGGCATAAGACCTT
1 TTTATAACTGGGGCATAAGCCCTT
* * *
184221503 ATCACAACTGGGGCATAAG-CCTT
1 TTTATAACTGGGGCATAAGCCCTT
* *
184221526 CATCATAACTGGGGCATAAGCCC--
1 -TTTATAACTGGGGCATAAGCCCTT
*
184221549 TTTAAAACT-GGGCATAAGCCC--
1 TTTATAACTGGGGCATAAGCCCTT
184221570 TTTATAACT-GGGCATAAGCCC-T
1 TTTATAACTGGGGCATAAGCCCTT
*
184221592 TTAATAACTGGGGCATAAGCCCTT
1 TTTATAACTGGGGCATAAGCCCTT
184221616 TT
1 TT
184221618 GCACTTCCTC
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
21 32 0.27
22 14 0.12
23 33 0.28
24 34 0.29
25 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
TTTATAACTGGGGCATAAGCCCTT
Found at i:184221563 original size:21 final size:22
Alignment explanation
Indices: 184221435--184221616 Score: 176
Period size: 23 Copynumber: 8.0 Consensus size: 22
184221425 TGCTTTATCA
* *
184221435 TATAACTGGAGGCCT-AGCTCTT
1 TATAACTGG-GGCATAAGCCCTT
*
184221457 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC--TT
* *
184221482 TATAA-TTGGGCATAAGACCTT
1 TATAACTGGGGCATAAGCCCTT
*
184221503 ATCACAACTGGGGCATAAG-CCTT
1 -T-ATAACTGGGGCATAAGCCCTT
184221526 CATCATAACTGGGGCATAAGCCCTT
1 --T-ATAACTGGGGCATAAGCCCTT
*
184221551 TAAAACT-GGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
184221572 TATAACT-GGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
184221593 TAATAACTGGGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTT
184221616 T
1 T
184221617 TGCACTTCCT
Statistics
Matches: 138, Mismatches: 11, Indels: 21
0.81 0.06 0.12
Matches are distributed among these distances:
21 37 0.27
22 17 0.12
23 45 0.33
24 31 0.22
25 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (22 bp):
TATAACTGGGGCATAAGCCCTT
Found at i:184221691 original size:20 final size:20
Alignment explanation
Indices: 184221663--184221706 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
184221653 GCATTTATGA
184221663 ACATCTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
*
184221683 ACATGTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
184221703 ACAT
1 ACAT
184221707 ACATGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATCTCATGTGCATATCAT
Found at i:184221793 original size:24 final size:25
Alignment explanation
Indices: 184221748--184221794 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
184221738 CATTATAAAC
* *
184221748 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCATAAAGGTCATTTTTA
184221773 CCTAGGGGCA-AAAGGTCATTTT
1 CCTAGGGGCATAAAGGTCATTTT
184221795 CTATTATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTTA
Found at i:184222951 original size:26 final size:26
Alignment explanation
Indices: 184222918--184223009 Score: 104
Period size: 25 Copynumber: 3.7 Consensus size: 26
184222908 TCATACGAAA
*
184222918 CATA-AGGGCATATT-CGTCATTTTAC
1 CATACAGGGC-TATTACGTCACTTTAC
184222943 CATACAGGG-TATTACGGTCACTTTAC
1 CATACAGGGCTATTAC-GTCACTTTAC
*
184222969 CTTACAGGGCT-TTACGTCACTTTAC
1 CATACAGGGCTATTACGTCACTTTAC
*
184222994 CCTACAGGGCT-TTACG
1 CATACAGGGCTATTACG
184223010 GTCTTTTTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.07
25 30 0.50
26 25 0.42
27 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (26 bp):
CATACAGGGCTATTACGTCACTTTAC
Found at i:184223022 original size:25 final size:26
Alignment explanation
Indices: 184222933--184223012 Score: 110
Period size: 25 Copynumber: 3.1 Consensus size: 26
184222923 GGGCATATTC
*
184222933 GTCATTTTACCATACAGGG-TATTACG
1 GTCACTTTACCATACAGGGCT-TTACG
*
184222959 GTCACTTTACCTTACAGGGCTTTAC-
1 GTCACTTTACCATACAGGGCTTTACG
*
184222984 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTACCATACAGGGCTTTACG
184223010 GTC
1 GTC
184223013 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 24 0.49
26 24 0.49
27 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTTTACG
Found at i:184223028 original size:26 final size:25
Alignment explanation
Indices: 184222933--184223022 Score: 103
Period size: 26 Copynumber: 3.5 Consensus size: 25
184222923 GGGCATATTC
*
184222933 GTCATTTTACCATACAGGG-TATTACG
1 GTCACTTTACC-TACAGGGCT-TTACG
184222959 GTCACTTTACCTTACAGGGCTTTAC-
1 GTCACTTTACC-TACAGGGCTTTACG
184222984 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTA-CCTACAGGGCTTTACG
**
184223010 GTCTTTTTACCTA
1 GTCACTTTACCTA
184223023 ATAGGGGTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
25 26 0.46
26 30 0.53
27 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (25 bp):
GTCACTTTACCTACAGGGCTTTACG
Found at i:184223104 original size:27 final size:27
Alignment explanation
Indices: 184223074--184223180 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
184223064 GTAAATCTAC
184223074 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
184223101 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
184223127 AGAAAGTCAAGGGTATTT-TGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
184223156 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
184223181 AAAATTGAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
26 12 0.18
27 32 0.49
28 10 0.15
29 11 0.17
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:184223191 original size:27 final size:26
Alignment explanation
Indices: 184223137--184223283 Score: 158
Period size: 27 Copynumber: 5.7 Consensus size: 26
184223127 AGAAAGTCAA
* **
184223137 GGGTATTTT-GTAACTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAAT-AG
*
184223163 GGGTATTTTGGTAATTTTA-AAATTG
1 GGGTATTTTGGTAATTTTACAAATAG
* * *
184223188 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
*
184223216 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAG
184223243 GGGTATTTTGGTAATTTTACAAATA-
1 GGGTATTTTGGTAATTTTACAAATAG
184223268 GGGTATTTT-GTAATTT
1 GGGTATTTTGGTAATTT
184223284 GTAAATCGAG
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
24 7 0.07
25 10 0.10
26 32 0.30
27 55 0.52
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:184223225 original size:53 final size:51
Alignment explanation
Indices: 184223163--184223297 Score: 159
Period size: 54 Copynumber: 2.6 Consensus size: 51
184223153 TGTAAATCAG
184223163 GGGTATTTTGGTAATTTTAAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTAAAATTGAGGGTATTTCGGTAATTTCACAAA-CA
* * * *
184223215 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATA
1 G-GGTATTTTGGTAATTTTA-AAATTGA-GGGTATTTCGGTAATTTCACAAACA
*
184223268 GGGTATTTT-GTAATTTGT-AAATCGAGGGTA
1 GGGTATTTTGGTAATTT-TAAAATTGAGGGTA
184223298 AAATAGTAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
50 8 0.11
51 8 0.11
52 10 0.14
53 21 0.29
54 25 0.35
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (51 bp):
GGGTATTTTGGTAATTTTAAAATTGAGGGTATTTCGGTAATTTCACAAACA
Found at i:184223315 original size:27 final size:27
Alignment explanation
Indices: 184223277--184223480 Score: 142
Period size: 27 Copynumber: 7.6 Consensus size: 27
184223267 AGGGTATTTT
184223277 GTAATT-TGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
184223303 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
184223330 --AATTCTATAAATCGA-GGT-AAA-A
1 GTAATTCTGTAAATCGAGGGTAAAATA
* **
184223352 CTAATT-T-TAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
184223377 GTAATTCTGTAAGTCGAGGGTAAACGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAA--A---T---A
* **
184223412 TGGTAATTATGTAAATCGAGGGTAAAACG
1 --GTAATTCTGTAAATCGAGGGTAAAATA
*
184223441 GTAATT-TGTAAATC-AGGGTAAAA-C
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
184223465 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
184223481 GGTAAACGGT
Statistics
Matches: 144, Mismatches: 14, Indels: 40
0.73 0.07 0.20
Matches are distributed among these distances:
22 9 0.06
23 7 0.05
24 16 0.11
25 34 0.24
26 15 0.10
27 39 0.27
29 1 0.01
35 1 0.01
37 22 0.15
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:184223417 original size:37 final size:38
Alignment explanation
Indices: 184223359--184223437 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 38
184223349 AAACTAATTT
* *
184223359 TAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGG
*
184223397 TAAA-CGAGGGTAAAATGGTAATTATGTAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGG
184223434 TAAA
1 TAAA
184223438 ACGGTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (38 bp):
TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGG
Found at i:184223483 original size:24 final size:22
Alignment explanation
Indices: 184223431--184223526 Score: 99
Period size: 23 Copynumber: 4.2 Consensus size: 22
184223421 TGTAAATCGA
*
184223431 GGGTAAAACGGTAATTTGTAAATC
1 GGGT-AAAC-GTAATTTATAAATC
184223455 AGGGTAAAACGTAATTCTATAAATC
1 -GGGT-AAACGTAATT-TATAAATC
*
184223480 GGGTAAACGGTACTTTATAAATC
1 GGGTAAAC-GTAATTTATAAATC
184223503 GGGT-AA-GTAATTT-TAAATC
1 GGGTAAACGTAATTTATAAATC
184223522 GGGTA
1 GGGTA
184223527 TTTGTAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
19 10 0.15
20 6 0.09
22 2 0.03
23 16 0.25
24 15 0.23
25 16 0.25
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (22 bp):
GGGTAAACGTAATTTATAAATC
Found at i:184223498 original size:23 final size:24
Alignment explanation
Indices: 184223404--184223526 Score: 116
Period size: 25 Copynumber: 5.2 Consensus size: 24
184223394 GGGTAAACGA
* *
184223404 GGGTAAAATGGTAATTATGTAAATC
1 GGGTAAAACGGTAATT-TATAAATC
*
184223429 GAGGGTAAAACGGTAATTTGTAAATC
1 --GGGTAAAACGGTAATTTATAAATC
184223455 AGGGTAAAAC-GTAATTCTATAAATC
1 -GGGTAAAACGGTAATT-TATAAATC
*
184223480 GGGT-AAACGGTACTTTATAAATC
1 GGGTAAAACGGTAATTTATAAATC
184223503 GGGT--AA--GTAATTT-TAAATC
1 GGGTAAAACGGTAATTTATAAATC
184223522 GGGTA
1 GGGTA
184223527 TTTGTAATTT
Statistics
Matches: 89, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.11
20 6 0.07
22 2 0.02
23 16 0.18
24 15 0.17
25 17 0.19
26 8 0.09
27 15 0.17
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (24 bp):
GGGTAAAACGGTAATTTATAAATC
Found at i:184230146 original size:40 final size:40
Alignment explanation
Indices: 184230096--184230247 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
184230086 TAACCACAAG
* *
184230096 CACAATTGCCTTCGAGTCTTAACCCAGG-TATAGCAACTCA
1 CACAAATGCCTTCGGGTCTTAACCC-GGATATAGCAACTCA
* * **
184230136 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTTG
1 CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCA
184230176 CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCA
1 CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCA
184230216 CACAAATGCCTTCGGGTCTTAACCCGGATATA
1 CACAAATGCCTTCGGGTCTTAACCCGGATATA
184230248 ATCACTAGCA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.02
40 99 0.98
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCA
Found at i:184230263 original size:40 final size:41
Alignment explanation
Indices: 184230079--184230282 Score: 226
Period size: 40 Copynumber: 5.1 Consensus size: 41
184230069 CGAAATTTAG
* * * *
184230079 CCGGATATAA-CCACAAGCACAATTGCCTTCGAGTCTTAAC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
*
184230119 CCAGG-TAT-AGCAACTCA-CACAAATGCCTTCGGGTCTTAGC
1 CC-GGATATAAGCAACT-AGCACAAATGCCTTCGGGTCTTAAC
*
184230159 CCGGATATAA-CAACTTGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
184230199 CCGGATAT-AGCAACTCA-CACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAAGCAACT-AGCACAAATGCCTTCGGGTCTTAAC
* * * * *
184230239 CCGGATATAATC-ACTAGCATAAATGCCTCCGGGGCTTAGC
1 CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
184230279 CCGG
1 CCGG
184230283 GTATCATTCA
Statistics
Matches: 141, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
39 5 0.04
40 130 0.92
41 6 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
CCGGATATAAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:184230282 original size:80 final size:78
Alignment explanation
Indices: 184230079--184230282 Score: 282
Period size: 80 Copynumber: 2.6 Consensus size: 78
184230069 CGAAATTTAG
* * *
184230079 CCGGATATAACCACAAGCACAATTGCCTTCGAGTCTTAACCCAGGTATAGCAACTCACACAAATG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCC-GGTATAGCAACTCACACAAATG
*
184230144 CCTTCGGGTCTTAGC
64 CCTTCGGGTCTTAAC
*
184230159 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCACACAAATG
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGG-TATAGCAACTCACACAAATG
184230224 CCTTCGGGTCTTAAC
64 CCTTCGGGTCTTAAC
* * * *
184230239 CCGGATATAATCACTAGCATAAATGCCTCCGGGGCTTAGCCCGG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
184230283 GTATCATTCA
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
79 3 0.03
80 107 0.96
81 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATAGCAACTCACACAAATGCC
TTCGGGTCTTAAC
Found at i:184236457 original size:46 final size:46
Alignment explanation
Indices: 184236404--184236499 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
184236394 TTACATACGA
184236404 ACTTACCTCACTACAAAAATAGGAGAATTGGACCTTATCGTCAAAC
1 ACTTACCTCACTACAAAAATAGGAGAATTGGACCTTATCGTCAAAC
*
184236450 ACTTACCTCACTACAAAAATAGTAGAATTGGACCTTATCGTCAAAC
1 ACTTACCTCACTACAAAAATAGGAGAATTGGACCTTATCGTCAAAC
184236496 ACTT
1 ACTT
184236500 TGTTTTTCCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (46 bp):
ACTTACCTCACTACAAAAATAGGAGAATTGGACCTTATCGTCAAAC
Found at i:184245062 original size:40 final size:40
Alignment explanation
Indices: 184245025--184245208 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
184245015 GCTACTCGTT
*
184245025 CAAATGCCTTCGGGACGTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
184245065 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
184245105 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** * * *
184245144 CAAATGCCTTC-GGATCTTAGTTCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
184245185 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
184245209 ACATCATTCG
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:184245136 original size:79 final size:81
Alignment explanation
Indices: 184245027--184245209 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
184245017 TACTCGTTCA
* *
184245027 AATGCCTTCGGGACGTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
184245090 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
***
184245107 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTTCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
184245170 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
184245186 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
184245210 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:184247154 original size:30 final size:30
Alignment explanation
Indices: 184247118--184247218 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
184247108 GACAAGATTG
* * *
184247118 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
184247148 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
184247176 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
184247205 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
184247219 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:184247230 original size:29 final size:28
Alignment explanation
Indices: 184247147--184247222 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
184247137 AAAATTGTAC
* *
184247147 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
184247175 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
184247204 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
184247223 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:184254617 original size:40 final size:40
Alignment explanation
Indices: 184254572--184254737 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
184254562 CGGAATATAA
184254572 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184254612 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
184254652 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
184254691 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
184254730 CCGGATAT
1 CCGGATAT
184254738 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184264513 original size:37 final size:37
Alignment explanation
Indices: 184264464--184264610 Score: 134
Period size: 37 Copynumber: 3.8 Consensus size: 37
184264454 ATCACGATTT
*
184264464 GCACAAATGCCTTCGGGTCTTAGCCCGGATAA-AACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAACAACTA
*
184264501 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-A-CAACTA
* *** *
184264541 GCACAATTGCCTTCGGGTCTTAACCCGGTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG-ATAACAACTA
* * *
184264580 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
184264611 TCATTCAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
37 30 0.32
38 4 0.04
39 28 0.30
40 28 0.30
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAACAACTA
Found at i:184264568 original size:40 final size:38
Alignment explanation
Indices: 184264432--184264572 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 38
184264422 CCGCACCAAG
* * * * *
184264432 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTAGCAC-AAT
* *
184264472 GCCTTCGGGTCTTAGCCCGGATA-A-AACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTAGCAC-AAT
* *
184264509 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTAGCACAA-T
184264549 GCCTTCGGGTCTTAACCCGG-TATA
1 GCCTTCGGGTCTTAACCCGGATATA
184264573 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
37 32 0.37
38 2 0.02
39 6 0.07
40 47 0.54
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTAGCACAAT
Found at i:184272713 original size:39 final size:40
Alignment explanation
Indices: 184272537--184272717 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
184272527 CCGCACCAAG
* * * * * * * *
184272537 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
184272577 GCCTTCGGGTCTTAGCCCGG--ATAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
184272615 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
184272655 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
184272694 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
184272718 CATTCAATTT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 32 0.27
39 33 0.28
40 55 0.46
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:184274525 original size:40 final size:40
Alignment explanation
Indices: 184274470--184274549 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
184274460 CAAAATCTCA
184274470 AAGTAAACCTTGGATCTCTATCTGACACAATAGACAATGG
1 AAGTAAACCTTGGATCTCTATCTGACACAATAGACAATGG
*
184274510 AAGTAAATCTTGGATCTCTATCTGACACAATAGACAATGG
1 AAGTAAACCTTGGATCTCTATCTGACACAATAGACAATGG
184274550 CACCCCGTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (40 bp):
AAGTAAACCTTGGATCTCTATCTGACACAATAGACAATGG
Found at i:184284906 original size:13 final size:13
Alignment explanation
Indices: 184284888--184284913 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
184284878 GCTTGAAAGG
184284888 GACACGCCCGTGT
1 GACACGCCCGTGT
184284901 GACACGCCCGTGT
1 GACACGCCCGTGT
184284914 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:184289403 original size:19 final size:19
Alignment explanation
Indices: 184289379--184289424 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
184289369 TTTTGGTACG
184289379 AGCTTACTAAGCTGTTGAA
1 AGCTTACTAAGCTGTTGAA
*
184289398 AGCTTACTAAGCTTTTGAA
1 AGCTTACTAAGCTGTTGAA
184289417 AGCTTACT
1 AGCTTACT
184289425 TTGTGTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
AGCTTACTAAGCTGTTGAA
Found at i:184289688 original size:23 final size:23
Alignment explanation
Indices: 184289662--184289706 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
184289652 GGTATGTGAT
*
184289662 GGCAA-TTGTGGTATGTTATAGTA
1 GGCAAGTTGTGGTAAGTT-TAGTA
*
184289685 GGCAAGTTTTGGTAAGTTTAGT
1 GGCAAGTTGTGGTAAGTTTAGT
184289707 TTGAGATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.24, C:0.04, G:0.31, T:0.40
Consensus pattern (23 bp):
GGCAAGTTGTGGTAAGTTTAGTA
Found at i:184289855 original size:71 final size:71
Alignment explanation
Indices: 184289774--184289912 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
184289764 CATGAATTGC
*
184289774 TAAGGTTTATAAGTAGGAAAATAGTTGATATTGTTATGATATAAATGATGACTGTTTTGGCATAA
1 TAAGGTTTATAAGTAGGAAAATAGTTGATATTGTTATGATATAAATGATGAATGTTTTGGCATAA
184289839 AATATG
66 AATATG
* *
184289845 TAAGGTTTATAAGTAGGAAAATGGTTGATATTGTTGTGATATAAATGATGAATGTTTTGGCATAA
1 TAAGGTTTATAAGTAGGAAAATAGTTGATATTGTTATGATATAAATGATGAATGTTTTGGCATAA
184289910 AAT
66 AAT
184289913 TGGCTGAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.38
Consensus pattern (71 bp):
TAAGGTTTATAAGTAGGAAAATAGTTGATATTGTTATGATATAAATGATGAATGTTTTGGCATAA
AATATG
Found at i:184291648 original size:39 final size:39
Alignment explanation
Indices: 184291533--184291727 Score: 255
Period size: 39 Copynumber: 4.9 Consensus size: 39
184291523 CTCGTTCAAA
* * *** * *
184291533 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
*
184291573 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* * * *
184291613 TGCCTTCGGGCTTAGCCCGAATATCATAGCTCGCACCAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
184291652 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
184291691 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
184291728 TTCATACACA
Statistics
Matches: 137, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 95 0.69
40 42 0.31
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:184292414 original size:28 final size:28
Alignment explanation
Indices: 184292356--184292451 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
184292346 ACAAATTTTA
** * *
184292356 ACTAAGTGTGCGGGTTCAAATTATACAGC
1 ACTAAGTGTGCAAGTTC-GATTATATAGC
*
184292385 ACTAAGTGTGCAAGTTTGATTATATAGC
1 ACTAAGTGTGCAAGTTCGATTATATAGC
* *
184292413 ACTAAGTGTGCGAGTTCGACTAT-TAAGC
1 ACTAAGTGTGCAAGTTCGATTATAT-AGC
184292441 ACTAAGTGTGC
1 ACTAAGTGTGC
184292452 GGGCTTATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.74
29 14 0.24
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
ACTAAGTGTGCAAGTTCGATTATATAGC
Found at i:184302278 original size:16 final size:16
Alignment explanation
Indices: 184302259--184302291 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
184302249 AGTAAATCGC
184302259 ACACATAGTGCATTTG
1 ACACATAGTGCATTTG
184302275 ACACATAGTGCATTTG
1 ACACATAGTGCATTTG
184302291 A
1 A
184302292 GATTCCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (16 bp):
ACACATAGTGCATTTG
Found at i:184312864 original size:40 final size:40
Alignment explanation
Indices: 184312819--184312986 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
184312809 CGGAATATAA
184312819 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
184312859 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184312899 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
184312939 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184312979 CCGGATAT
1 CCGGATAT
184312987 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184312969 original size:80 final size:80
Alignment explanation
Indices: 184312835--184312984 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
184312825 ATAACCACGT
* *
184312835 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
184312900 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
184312915 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
184312978 CCCGGAT
64 CCCGGAT
184312985 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:184320843 original size:40 final size:40
Alignment explanation
Indices: 184320798--184320927 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
184320788 CGGAATATAA
184320798 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
184320838 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184320878 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184320918 CCGGATATAA
1 CCGGATATAA
184320928 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184320942 original size:40 final size:40
Alignment explanation
Indices: 184320814--184320964 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
184320804 ATAACCACGT
* * *
184320814 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
184320854 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
184320894 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
184320934 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
184320965 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 18 0.20
40 70 0.78
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:184325767 original size:43 final size:42
Alignment explanation
Indices: 184325665--184325803 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 42
184325655 GTCCTAGACG
* *
184325665 TGGTCTTACATGT-AATCAAATATCGATAACACTGTCCCA-AA
1 TGGTCTTACATGTAAATCAAATA-CGATGACAATGTCCCAGAA
*** *
184325706 TAGGATCTTA-AACAAAATCAAATACGATGACAATGTCCCAGGCA
1 T-GG-TCTTACATGTAAATCAAATACGATGACAATGTCCCA-GAA
* * *
184325750 TGGTCTTACATGTAAATCACAAGT-CAATGCCAATGTCCCAGATG
1 TGGTCTTACATGTAAATCA-AA-TACGATGACAATGTCCCAGA-A
184325794 TGGTCTTACA
1 TGGTCTTACA
184325804 CAAAAACACA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 24 0.32
44 28 0.37
45 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (42 bp):
TGGTCTTACATGTAAATCAAATACGATGACAATGTCCCAGAA
Found at i:184328039 original size:27 final size:28
Alignment explanation
Indices: 184327982--184328051 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
184327972 AAATTTGTAC
**
184327982 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
184328010 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
184328037 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
184328052 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:184328060 original size:27 final size:27
Alignment explanation
Indices: 184327982--184328063 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
184327972 AAATTTGTAC
* *
184327982 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
184328010 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
184328037 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
184328064 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:184335963 original size:27 final size:28
Alignment explanation
Indices: 184335906--184335975 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
184335896 AAATTTGTAC
**
184335906 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
184335934 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
184335961 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
184335976 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:184335984 original size:27 final size:27
Alignment explanation
Indices: 184335906--184335987 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
184335896 AAATTTGTAC
* *
184335906 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
184335934 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
184335961 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
184335988 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:184337545 original size:25 final size:26
Alignment explanation
Indices: 184337489--184337581 Score: 152
Period size: 26 Copynumber: 3.6 Consensus size: 26
184337479 TGGTAAAAAT
184337489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
184337515 TGATAATGGATTAGGTAAAT-ATCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
184337540 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
184337566 TGATAATGGTTTAGGT
1 TGATAATGGGTTAGGT
184337582 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.38
26 38 0.62
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:184342630 original size:28 final size:29
Alignment explanation
Indices: 184342563--184342663 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
184342553 ATAGTGAATC
*
184342563 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
184342592 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
184342620 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
184342650 CGCACACTTAGTGC
1 CGCACACTTAGTGC
184342664 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:184346531 original size:39 final size:40
Alignment explanation
Indices: 184346456--184346673 Score: 320
Period size: 40 Copynumber: 5.6 Consensus size: 40
184346446 ATTCGGATTG
*
184346456 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
184346495 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
184346534 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
184346574 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
184346614 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* **
184346652 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
184346674 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
37 6 0.04
38 16 0.10
39 66 0.40
40 77 0.47
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:184346586 original size:79 final size:80
Alignment explanation
Indices: 184346456--184346673 Score: 329
Period size: 79 Copynumber: 2.8 Consensus size: 80
184346446 ATTCGGATTG
*
184346456 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
184346520 TTTGTGC-AGTTACT
66 ATTGTGCGAGTTACT
* * *
184346534 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
184346599 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* **
184346614 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TACTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
184346674 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
77 14 0.11
78 22 0.17
79 70 0.55
80 21 0.17
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:184348832 original size:31 final size:31
Alignment explanation
Indices: 184348791--184348854 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
184348781 CCTTTTCAAA
* *
184348791 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
184348822 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
184348853 TT
1 TT
184348855 ACTGTACGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:184349121 original size:23 final size:23
Alignment explanation
Indices: 184349067--184349159 Score: 150
Period size: 23 Copynumber: 4.0 Consensus size: 23
184349057 CCTAGCCTCT
* *
184349067 TTTAATAATTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
184349090 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
184349114 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
184349137 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
184349160 ATATTCACTT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
23 44 0.68
24 21 0.32
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:184349241 original size:20 final size:20
Alignment explanation
Indices: 184349213--184349279 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
184349203 TTATGATTAC
*
184349213 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
184349233 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
184349253 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
184349273 ACCATGT
1 ATCATGT
184349280 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:184358452 original size:29 final size:28
Alignment explanation
Indices: 184358419--184358517 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
184358409 AGTGAATCCA
*
184358419 CACACTTAGTGCTATATACATTC-AGCTCG
1 CACACTTAGTGCTATATA-A-TCAAACTCG
*
184358448 CACACTTAGTGCTATATAATCAAACTTG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * *
184358476 CACACTTAGTGCTGTACAATTTTAAACCCG
1 CACACTTAGTGCTATATAA--TCAAACTCG
184358506 CACACTTAGTGC
1 CACACTTAGTGC
184358518 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.37
29 18 0.30
30 18 0.30
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:184362311 original size:49 final size:48
Alignment explanation
Indices: 184362166--184362425 Score: 400
Period size: 49 Copynumber: 5.4 Consensus size: 48
184362156 TACATATATG
* * * *
184362166 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
*
184362213 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
184362260 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
*
184362309 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
*
184362358 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
184362407 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
184362426 TAATGTAAAA
Statistics
Matches: 203, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 83 0.41
49 119 0.59
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
Found at i:184362576 original size:37 final size:37
Alignment explanation
Indices: 184362526--184362610 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
184362516 TGGAAATGTT
*
184362526 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
184362563 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
184362600 CCGGGTAAGAC
1 CCGGGTAAGAC
184362611 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:184364731 original size:29 final size:29
Alignment explanation
Indices: 184364699--184364830 Score: 237
Period size: 29 Copynumber: 4.6 Consensus size: 29
184364689 CGTTAACCGA
184364699 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
184364728 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
184364757 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
184364786 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
184364815 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
184364831 TTTTTCAACA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:184364738 original size:58 final size:58
Alignment explanation
Indices: 184364667--184364830 Score: 215
Period size: 58 Copynumber: 2.8 Consensus size: 58
184364657 CGAATGATTA
* *
184364667 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATC
* * *
184364725 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
* ** *
184364783 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAG
184364831 TTTTTCAACA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 6 0.06
58 89 0.92
59 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:184364768 original size:87 final size:87
Alignment explanation
Indices: 184364667--184364830 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
184364657 CGAATGATTA
* *
184364667 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATCGAGGC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGC
184364730 ACTATGTGTGCGAGATCAGTAATC
64 ACTATGTGTGCGAGATCAGTAATC
* ** *
184364754 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
*
184364819 TGTGTGTGCGAG
66 TATGTGTGCGAG
184364831 TTTTTCAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 5 0.07
87 61 0.90
88 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (87 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
TATGTGTGCGAGATCAGTAATC
Found at i:184368798 original size:20 final size:20
Alignment explanation
Indices: 184368775--184368838 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
184368765 TAAACATCAT
*
184368775 ATGTATGATATGCACATGAC
1 ATGTATGATATGCAAATGAC
* *
184368795 ATGTATGATATGCATATGAT
1 ATGTATGATATGCAAATGAC
*
184368815 ATGTATGATATGCAAATGAG
1 ATGTATGATATGCAAATGAC
184368835 ATGT
1 ATGT
184368839 TCATAAATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCAAATGAC
Found at i:184368802 original size:9 final size:9
Alignment explanation
Indices: 184368773--184368826 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
184368763 GATAAACATC
184368773 ATATGTATG
1 ATATGTATG
*
184368782 ATATGCACATG
1 ATATG--TATG
*
184368793 ACATGTATG
1 ATATGTATG
184368802 ATATGCATATG
1 ATATG--TATG
184368813 ATATGTATG
1 ATATGTATG
184368822 ATATG
1 ATATG
184368827 CAAATGAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 21 0.57
11 16 0.43
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.37
Consensus pattern (9 bp):
ATATGTATG
Found at i:184368812 original size:11 final size:11
Alignment explanation
Indices: 184368778--184368833 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
184368768 ACATCATATG
184368778 TATGATATGCA
1 TATGATATGCA
* *
184368789 CATGACATG--
1 TATGATATGCA
184368798 TATGATATGCA
1 TATGATATGCA
184368809 TATGATATG--
1 TATGATATGCA
184368818 TATGATATGCA
1 TATGATATGCA
*
184368829 AATGA
1 TATGA
184368834 GATGTTCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (11 bp):
TATGATATGCA
Found at i:184368915 original size:23 final size:23
Alignment explanation
Indices: 184368885--184369050 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
184368875 AGGAAGTGCA
184368885 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
184368908 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
184368931 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
184368955 AAAGGGTTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
184368978 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
184369001 AAAGGGCTCATGCGCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
184369024 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
184369048 AAA
1 AAA
184369051 AGAGGCTAGG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 91 0.69
24 41 0.31
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:184368977 original size:47 final size:46
Alignment explanation
Indices: 184368885--184369071 Score: 259
Period size: 47 Copynumber: 4.0 Consensus size: 46
184368875 AGGAAGTGCA
*
184368885 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
184368931 AAAGGGCTTATGCCCCAGTTATCAAAAGGGTTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* * *
184368978 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCGCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
* *
184369024 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
184369072 ATGATAAAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
46 42 0.34
47 64 0.51
48 8 0.06
49 11 0.09
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:184368996 original size:70 final size:70
Alignment explanation
Indices: 184368883--184369050 Score: 284
Period size: 70 Copynumber: 2.4 Consensus size: 70
184368873 GGAGGAAGTG
* *
184368883 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
184368948 GTTAT
66 GTTAT
*
184368953 CAAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCGCCA
1 CAAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
184369018 GTTAT
66 GTTAT
*
184369023 TAAAAGGGCTTT-TGCCCCAGTTATTAAA
1 CAAAAGGG-TTTATGCCCCAGTTATTAAA
184369051 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 90 0.97
71 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (70 bp):
CAAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
GTTAT
Found at i:184369297 original size:31 final size:30
Alignment explanation
Indices: 184369262--184369356 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 30
184369252 CGTTTACAGT
184369262 AAAGGCTTCGGCCGAGTAATATGAAATATGA
1 AAAGGCTTCGGCC-AGTAATATGAAATATGA
184369293 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGG-CCAGTAATATGAAATATGA
*
184369324 AAAGGCTTCGGACCAGTATTATGAAATATGA
1 AAAGGCTTCGG-CCAGTAATATGAAATATGA
184369355 AA
1 AA
184369357 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 59 0.97
32 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTAATATGAAATATGA
Found at i:184380541 original size:17 final size:18
Alignment explanation
Indices: 184380499--184380547 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
184380489 AGTTGAAAAG
184380499 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
184380518 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
184380535 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
184380548 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:184381429 original size:40 final size:40
Alignment explanation
Indices: 184381363--184381513 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
184381353 AAATTGAATG
* * *
184381363 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
184381402 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
184381442 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
184381482 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
184381514 ACTGATTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:184386504 original size:20 final size:20
Alignment explanation
Indices: 184386479--184386525 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
184386469 ATTTTGATAT
*
184386479 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
184386499 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
184386519 ACATGAT
1 ACATGAT
184386526 GTATTCCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:184386620 original size:27 final size:27
Alignment explanation
Indices: 184386576--184386720 Score: 219
Period size: 27 Copynumber: 5.6 Consensus size: 27
184386566 GGAAGTGCAG
184386576 AAGGG-TTATG-CCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
*
184386601 AAGGGATTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
*
184386628 AAGGGCTTATGCCGCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
184386655 AAGGGCTTATGCCCCAGTTTATTG-AA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
**
184386681 AAGGGCTTATGCCATAGTTTATTG-AA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
184386707 AAGGGCTT-TGCCCC
1 AAGGGCTTATGCCCC
184386721 GGTTATTAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.08
26 39 0.35
27 63 0.57
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (27 bp):
AAGGGCTTATGCCCCAGTTTATTGAAA
Found at i:184394667 original size:20 final size:20
Alignment explanation
Indices: 184394642--184394688 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
184394632 ATTTTGATAT
*
184394642 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
184394662 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
184394682 ACATGAT
1 ACATGAT
184394689 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:184394789 original size:27 final size:27
Alignment explanation
Indices: 184394740--184394887 Score: 227
Period size: 26 Copynumber: 5.7 Consensus size: 27
184394730 GGAAGTGCAG
184394740 AAGGGCTTATG-CCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
184394766 AAGGGCTTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
184394793 AAGGGCTTATGCCCCAGTTTATTG-AA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
*
184394819 AAGGGTTTATGCCCCAGTTTATT-AAA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
*
184394845 AAGGGCTT-TGCCCCAGTTTATCG-AA
1 AAGGGCTTATGCCCCAGTTTATTGAAA
*
184394870 AAGGGCTT-TGCCCTAGTT
1 AAGGGCTTATGCCCCAGTT
184394888 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
25 32 0.28
26 44 0.38
27 39 0.34
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (27 bp):
AAGGGCTTATGCCCCAGTTTATTGAAA
Found at i:184394821 original size:53 final size:52
Alignment explanation
Indices: 184394740--184394893 Score: 235
Period size: 53 Copynumber: 3.0 Consensus size: 52
184394730 GGAAGTGCAG
184394740 AAGGGCTTATG-CCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTATT-AAA
*
184394793 AAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTATGCCCCAGTTTATTAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTAAA
* *
184394845 AAGGGCTT-TGCCCCAGTTTATCGAAAAGGGCTT-TGCCCTAG-TTATTAAA
1 AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTAAA
184394894 GAGGCTAGGC
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
49 8 0.08
50 7 0.07
51 23 0.24
52 11 0.11
53 35 0.36
54 12 0.12
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (52 bp):
AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTAAA
Found at i:184406366 original size:28 final size:28
Alignment explanation
Indices: 184406301--184406401 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
184406291 ATAGTGAATC
*
184406301 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
184406330 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
184406358 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
184406388 CGCACACTTAGTGC
1 CGCACACTTAGTGC
184406402 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:184427395 original size:18 final size:17
Alignment explanation
Indices: 184427346--184427397 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
184427336 TGCATACTAT
*
184427346 ACTGTTACTGTTACAGC
1 ACTGTTACTGTTACTGC
*
184427363 ACTGATTATTGTTACTGC
1 ACTG-TTACTGTTACTGC
*
184427381 ACTGTTTACTATTACTG
1 ACTG-TTACTGTTACTG
184427398 TAATGGGCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:184431083 original size:29 final size:29
Alignment explanation
Indices: 184431049--184431121 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
184431039 TACTCAATCA
* * *
184431049 CGCACACTTAGTGGCATATGATTC-AAGCC
1 CGCACACTTAGTGCCATAT-AGTCTAAACC
* *
184431078 CGCACACATAGTGCCATATAGTCTAAACT
1 CGCACACTTAGTGCCATATAGTCTAAACC
184431107 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
184431122 GTACATTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAGTCTAAACC
Found at i:184434040 original size:6 final size:6
Alignment explanation
Indices: 184434003--184434061 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
184433993 TCTGATTGCA
* * *
184434003 TACT-T TACTGT TACTAT TACTG- CACTGAT TACTGT TACTG- CACTGTT
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT TACTGT TACTG-T
184434050 TACTGT TACTGT
1 TACTGT TACTGT
184434062 AATGGGCCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
5 12 0.28
6 23 0.53
7 8 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:184434040 original size:18 final size:17
Alignment explanation
Indices: 184434009--184434060 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
184433999 TGCATACTTT
*
184434009 ACTGTTACTATTACTGC
1 ACTGTTACTGTTACTGC
184434026 ACTGATTACTGTTACTGC
1 ACTG-TTACTGTTACTGC
184434044 ACTGTTTACTGTTACTG
1 ACTG-TTACTGTTACTG
184434061 TAATGGGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:184444054 original size:40 final size:40
Alignment explanation
Indices: 184443990--184444116 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
184443980 CGGAATACAA
* * *
184443990 CCGGATATAACCACGTGCATGAATGCCTTTGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* *
184444030 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* * *
184444070 CCGGAT-GTAGC-CGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGAACCACG-T-GCACGAA-TGCCTTCGGGTCTTAGC
184444110 CCGGATA
1 CCGGATA
184444117 TAATTTCCAG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 5 0.07
40 67 0.92
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
Found at i:184458201 original size:40 final size:40
Alignment explanation
Indices: 184458157--184458299 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
184458147 TGGAAATTAT
* *
184458157 ATCCGGGTTAATACCCGAAGGCAATTGTGCTAGCGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTAC
184458197 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTAC
* *
184458237 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTC-G-TTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-CGGCTAC
*
184458276 TATCCGAGCTAAGACCCGAAGGCA
1 -ATCCGGGCTAAGACCCGAAGGCA
184458300 TTCGTGCACG
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
39 5 0.05
40 88 0.94
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTAC
Found at i:184458300 original size:40 final size:40
Alignment explanation
Indices: 184458197--184458322 Score: 150
Period size: 40 Copynumber: 3.1 Consensus size: 40
184458187 TAGCGGCTAC
* *
184458197 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-CG-GCT
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTCT
184458235 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTCT
1 --ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTCT
* * * *
184458277 ATCCGAGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTCT
184458317 ATCCGG
1 ATCCGG
184458323 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.04
40 69 0.91
41 2 0.03
42 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTCT
Found at i:184458321 original size:80 final size:79
Alignment explanation
Indices: 184458153--184458322 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 79
184458143 ATGCTGGAAA
* * * *
184458153 TTATATCCGGGTTAATACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGACCCGAAGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGCGGCTA-ATCCGAGCTAAGACCCGAAGG
184458218 CAATTGTGCTAGCGG
65 CAATTGTGCTAGCGG
* * *
184458233 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTCT-ATCCGAGCTAAGACCCGAA
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-CG-GCTAATCCGAGCTAAGACCCGAA
*
184458296 GGC-ATTCGTGC-ACGTGG
63 GGCAATT-GTGCTA-GCGG
184458313 TTATATCCGG
1 TTATATCCGG
184458323 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
79 7 0.09
80 64 0.85
81 2 0.03
82 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (79 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGCGGCTAATCCGAGCTAAGACCCGAAGGC
AATTGTGCTAGCGG
Found at i:184461341 original size:40 final size:40
Alignment explanation
Indices: 184461272--184461517 Score: 395
Period size: 40 Copynumber: 6.2 Consensus size: 40
184461262 AACCCAAGTA
* * **
184461272 CCTTCGAGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
184461311 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
184461351 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
184461391 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
184461431 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
184461471 CCTTCGGGACTGAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
184461511 CCTTCGG
1 CCTTCGG
184461518 ATCTTAGTCC
Statistics
Matches: 194, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 12 0.06
40 182 0.94
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:184463316 original size:66 final size:66
Alignment explanation
Indices: 184463188--184463316 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 66
184463178 TACTATGTGT
* ** * *
184463188 ACACCATGTAGACAAGAGAGTTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACAAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
184463253 GG
65 GG
* *
184463255 ACACCATGTAGACAAGAGAGCTACAAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACAAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
184463317 TTCACCATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 24 0.44
67 28 0.52
68 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACAAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:184464431 original size:2 final size:2
Alignment explanation
Indices: 184464424--184464450 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
184464414 TCATGACATG
184464424 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
184464451 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:184469124 original size:27 final size:27
Alignment explanation
Indices: 184469094--184469186 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
184469084 TAGATAACTT
*
184469094 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTATAAG
* *
184469121 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTATAAG
* * * **
184469148 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCAAAATACCCCTATAAG
*
184469175 GTAAAATTACCA
1 GTAGAATTACCA
184469187 TTTTGCCCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTATAAG
Found at i:184469195 original size:27 final size:27
Alignment explanation
Indices: 184469165--184469221 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
184469155 TACCGAGATA
*
184469165 CCCTTATGGG-GTAAAATTACCATTTTG
1 CCCTTA-GGGTGTAAAATGACCATTTTG
* *
184469192 CCCTTAGGGTGTTAAATGACTATTTTG
1 CCCTTAGGGTGTAAAATGACCATTTTG
184469219 CCC
1 CCC
184469222 CTCGTGCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CCCTTAGGGTGTAAAATGACCATTTTG
Found at i:184469879 original size:27 final size:26
Alignment explanation
Indices: 184469835--184469886 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
184469825 CTCGCTACAA
*
184469835 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
184469862 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
184469887 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:184475547 original size:48 final size:46
Alignment explanation
Indices: 184475446--184475552 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 46
184475436 TTATTTGTGT
*
184475446 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGA-CACATTACGAGA
* *
184475492 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-A-GCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACACATT---ACGAGA
184475540 GCTAGTGTAAGAC
1 GCTAGTGTAAGAC
184475553 ATGGGCCTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
45 4 0.08
46 11 0.21
47 15 0.29
48 22 0.42
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACACATTACGAGA
Found at i:184475671 original size:125 final size:124
Alignment explanation
Indices: 184475449--184475677 Score: 309
Period size: 125 Copynumber: 1.8 Consensus size: 124
184475439 TTTGTGTGCT
*
184475449 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGAT-AGAGCCAGTGTAAGACCATGTCTGG
**
184475514 GACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGGGCCTCTAGATGTAAGCC
65 GACATGGCATCAGCACGGAGACGAGAGCTAGTGTAAGACATGGGCCTCTAGATGTAAGCC
** * * *
184475574 AGTGTAAGACATGTCTGGGACATGCATCGACTGCGA-GAT-GTGTCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATAGAGCCAGTGTAAGACCATGTCTGG
* * *
184475637 GACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGAC
65 GACATGGCATCAGCACGGAGA--CGAGAGCTAGTGTAAGAC
184475678 CATGTCTGGG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
123 38 0.42
125 51 0.57
126 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (124 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCAGCACGGAGACGAGAGCTAGTGTAAGACATGGGCCTCTAGATGTAAGCC
Found at i:184483654 original size:47 final size:47
Alignment explanation
Indices: 184483601--184484075 Score: 709
Period size: 47 Copynumber: 10.0 Consensus size: 47
184483591 AAGATATGTA
*
184483601 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
184483648 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG--TGTATG
* * *
184483697 TATATGATAAGGCCAAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
*
184483744 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
184483793 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
184483840 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
184483887 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
184483934 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * * *
184483983 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGATGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
184484030 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
184484076 AACTGTGACA
Statistics
Matches: 390, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
47 257 0.66
48 3 0.01
49 130 0.33
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:184483801 original size:96 final size:96
Alignment explanation
Indices: 184483599--184484076 Score: 745
Period size: 96 Copynumber: 5.0 Consensus size: 96
184483589 ACAAGATATG
184483599 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG--TATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
184483662 GAATGGCCAATGTGATGAATGTGAAAGTATATA
66 GAATGGCCAATGTGATGAATGTGAAAG--TGTA
* *
184483695 TATATATGATAAGGCCAAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
184483760 GAATGGCCAACGTGATGAATGTGAAAGTGTA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
184483791 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCT
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
184483854 GAATGGCCAATGTGATGAATGTGAAAGTATA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
*
184483885 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
184483950 GAATGGCCAATGTGATGAATGTGAAAGTGTA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
184483981 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG--GATGTATATATATATGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
* *
184484044 GAATGGTCAATGTGATGGAA-GTGGAAGTGTA
66 GAATGGCCAATGTGAT-GAATGTGAAAGTGTA
184484075 TA
1 TA
184484077 ACTGTGACAG
Statistics
Matches: 353, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
94 135 0.38
95 3 0.01
96 175 0.50
98 40 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (96 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:184483856 original size:25 final size:25
Alignment explanation
Indices: 184483781--184483856 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
184483771 GTGATGAATG
184483781 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
* * * *
184483806 CGAATG-GCCA---ATGTGATGAATG-
1 TGAAAGTG-TATGTATGTGAT-AAGGC
184483828 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
184483853 TGAA
1 TGAA
184483857 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 12 0.33
23 4 0.11
24 4 0.11
25 16 0.44
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.29
Consensus pattern (25 bp):
TGAAAGTGTATGTATGTGATAAGGC
Found at i:184483979 original size:190 final size:191
Alignment explanation
Indices: 184483601--184484060 Score: 814
Period size: 190 Copynumber: 2.4 Consensus size: 191
184483591 AAGATATGTA
*
184483601 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATGTGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
184483666 GGCCAATGTGATGAATGTGAAAGTATATATATATATGATAAGGCCAAATGGCCAATGTGATGAAT
66 GGCCAATGTGATGAATGTGAAAG-ATATATATATATGATAAGGCCAAATGGCCAATGTGATGAAT
184483731 GTGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
130 GTGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
*
184483793 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCTGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
*
184483858 GGCCAATGTGATGAATGTGAAAG-TATATATATATGATAAGGCCGAATGGCCAATGTGATGAATG
66 GGCCAATGTGATGAATGTGAAAGATATATATATATGATAAGGCCAAATGGCCAATGTGATGAATG
*
184483922 TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
131 TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
* * * * *
184483983 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGATGTATATATATATGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
*
184484048 GGTCAATGTGATG
66 GGCCAATGTGATG
184484061 GAAGTGGAAG
Statistics
Matches: 257, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 171 0.67
192 86 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (191 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGATATATATATATGATAAGGCCAAATGGCCAATGTGATGAATG
TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
Found at i:184485750 original size:18 final size:20
Alignment explanation
Indices: 184485727--184485764 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
184485717 AATATTACAC
184485727 ATTTC-AGTTTCACA-TAAA
1 ATTTCAAGTTTCACACTAAA
*
184485745 ATTTCAATTTTCACACTAAA
1 ATTTCAAGTTTCACACTAAA
184485765 TTTGGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTCAAGTTTCACACTAAA
Found at i:184491146 original size:30 final size:30
Alignment explanation
Indices: 184491091--184491221 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
184491081 ATAGTGAATC
*
184491091 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
184491120 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
184491150 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
184491178 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
184491208 CGCACACTTAGTGC
1 CGCACACTTAGTGC
184491222 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:184491201 original size:58 final size:58
Alignment explanation
Indices: 184491090--184491221 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
184491080 TATAGTGAAT
* * * * *
184491090 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
184491149 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
184491207 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
184491222 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:184498926 original size:30 final size:30
Alignment explanation
Indices: 184498871--184499001 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
184498861 ATAGTGAATC
*
184498871 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
184498900 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
184498930 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
184498958 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
184498988 CGCACACTTAGTGC
1 CGCACACTTAGTGC
184499002 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:184498981 original size:58 final size:58
Alignment explanation
Indices: 184498870--184499001 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
184498860 TATAGTGAAT
* * * * *
184498870 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
184498929 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
184498987 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
184499002 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Done.