Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 147 of 185
Found at i:45354601 original size:94 final size:94
Alignment explanation
Indices: 45354435--45355098 Score: 746
Period size: 94 Copynumber: 7.1 Consensus size: 94
45354425 CCGACCCACT
* * * * * *
45354435 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
*
45354499 TAGATTCAATCTGACCCACTACAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* *
45354529 GGGTATAGGATTTGTAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGCAATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
*
45354594 A-ACTTCAATTTGACCCACTGCAACTTCAG
66 AGA-TTCAATCTGACCCACTGCAACTTCAG
* * * * *
45354623 GGGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
45354688 AGATTTAAT-TTATCCCACTGTAACTTCAA
66 AGATTCAATCTGA-CCCACTGCAACTTCAG
* * * *
45354717 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * *
45354782 AGATTTAAT-TCGACCCACTGTAACTTTAG
66 AGATTCAATCT-GACCCACTGCAACTTCAG
* * * * *
45354811 GGGTATATGATTTTTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTC-CTTATAG
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC-TATGG
* *
45354875 TAGATTCAATCCGACCTACTGCAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* * ** ** * * *
45354905 GGATATAGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCACTACGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
45354970 AGATTTAATCTGATCTACTGCAACTT-AA
66 AGATTCAATCTGACCCACTGCAACTTCAG
* * ** * * *
45354998 AGGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* *
45355063 AGATTCAATCTGACCTACTACAACTTCAG
66 AGATTCAATCTGACCCACTGCAACTTCAG
45355092 GGGTATA
1 GGGTATA
45355099 AGAATTATGG
Statistics
Matches: 481, Mismatches: 80, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
93 78 0.16
94 397 0.83
95 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (94 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTGCAACTTCAG
Found at i:45354621 original size:50 final size:48
Alignment explanation
Indices: 45354464--45354916 Score: 158
Period size: 50 Copynumber: 9.6 Consensus size: 48
45354454 TCATCTTGCT
* *
45354464 CCACTGTAACTTCAGGAAGATAAGATTCGCCATTGTAGA-TTCAATCTGAC
1 CCACTGCAACTTCAGGGAGATAAGATTCG-CA-TGTA-ACTTCAATCTGAC
* * *
45354514 CCACTACAACTTCAGGG-GTATAGGATT----TGTAGCTTCAATCTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* *
45354557 TCCATTGCAACTTCAGGGAGATAAGATTCGCAATGGTAACTTCAATTTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTAACTTCAATCTGAC
* *
45354608 CCACTGCAACTTCAGGG-GTATAGGATT----TGTAGCTTCAATCT-AC
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* * * * * *
45354651 TCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGA-TTTAAT-TTATC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTA-ACTTCAATCTGA-C
* * * * *
45354702 CCACTGTAACTTCAAGGG-TATAGGATT--TATG--GCTTCAATCTG-C
1 CCACTGCAACTTC-AGGGAGATAAGATTCGCATGTAACTTCAATCTGAC
* * *
45354745 TCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGTAGA-TTTAAT-TCGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTA-ACTTCAATCT-GAC
* * * * *
45354796 CCACTGTAACTTTAGGG-GTATATGATT----TTTAGCTTCAATCTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* * *
45354839 TCCACTACAACTTCAAGGAGATAAGATTC-CTTATAGTAGA-TTCAATCCGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC--AT-GTA-ACTTCAATCTGAC
* * *
45354890 CTACTGCAACTTCAGGGATATAGGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
45354917 TGTAGCTTTA
Statistics
Matches: 297, Mismatches: 56, Indels: 100
0.66 0.12 0.22
Matches are distributed among these distances:
43 9 0.03
44 118 0.40
45 6 0.02
46 1 0.00
47 4 0.01
48 1 0.00
49 8 0.03
50 142 0.48
51 8 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (48 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGCATGTAACTTCAATCTGAC
Found at i:45354842 original size:282 final size:281
Alignment explanation
Indices: 45354435--45355098 Score: 852
Period size: 282 Copynumber: 2.4 Consensus size: 281
45354425 CCGACCCACT
* * * * *
45354435 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGG
* *
45354499 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCATTG
65 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* * ** *
45354564 CAACTTCAGGGAGATAAGATTCGC-AATGGTA-ACTTCAATTTGACCCACTGCAACTTCAGGGGT
130 CAACTTCAAGGAGATAAGATTC-CTAATAGTAGA-TTCAATCCGACCCACTGCAACTTCAGGGAT
** * ** *
45354627 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGAT
193 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGAT
* *
45354692 TTAAT-TTATCCCACTGTAACTTCAA
258 TTAATCTGAT-CCACTGCAACTT-AA
* * * * *
45354717 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
* ** * * *
45354782 AGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGATTTTTAGCTTCAATCTGCTCCACTA
66 AGATTCAATCT-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* *
45354846 CAACTTCAAGGAGATAAGATTCCTTATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATAT
130 CAACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATAT
* * * *
45354911 AGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCACTACGGTAGATTT
195 AGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGATTT
*
45354976 AATCTGATCTACTGCAACTTAA
260 AATCTGATCCACTGCAACTTAA
* * * *
45354998 AGGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
*
45355063 AGATTCAATCTGACCTACTACAACTTCAGGGGTATA
66 AGATTCAATCTGACCCACTACAACTTCAGGGGTATA
45355099 AGAATTATGG
Statistics
Matches: 325, Mismatches: 51, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
281 89 0.27
282 229 0.70
283 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (281 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTAC
AACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATATA
GGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGATTTA
ATCTGATCCACTGCAACTTAA
Found at i:45363483 original size:18 final size:19
Alignment explanation
Indices: 45363457--45363498 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
45363447 TATCTATTTA
* * *
45363457 TCATAATTA-TGATTAATT
1 TCATTATTATTGAGTAATG
45363475 TCATTATTATTGAGTAATG
1 TCATTATTATTGAGTAATG
45363494 TCATT
1 TCATT
45363499 GTATAGCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (19 bp):
TCATTATTATTGAGTAATG
Found at i:45366992 original size:17 final size:16
Alignment explanation
Indices: 45366965--45366996 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
45366955 ATTTACTTAG
45366965 TTTGTTATATATTTGT
1 TTTGTTATATATTTGT
45366981 TTTGTATATATATTTG
1 TTTGT-TATATATTTG
45366997 ATTGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTGTTATATATTTGT
Found at i:45372274 original size:31 final size:29
Alignment explanation
Indices: 45372204--45372283 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
45372194 ATTTGTCACT
* * **
45372204 TTTTTAAAGTTTAGTGACTGAGTTGTAAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
45372233 TTTTCAAAGTTCAGTGACTGAAATGTTAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
45372262 TTTAATCAAAGTTGAGTGACTG
1 TTT--TCAAAGTTCAGTGACTG
45372284 GTAGAACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 27 0.63
31 16 0.37
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTTCAAAGTTCAGTGACTGAAATGTAAC
Found at i:45378460 original size:25 final size:26
Alignment explanation
Indices: 45378404--45378471 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
45378394 GGTCACCGAT
*
45378404 TTCAGCTCTTATGAGCTTCCCGATAC
1 TTCAGCTCATATGAGCTTCCCGATAC
*
45378430 TT-AGCTCGTATGAGCTTCCC-ATTA-
1 TTCAGCTCATATGAGCTTCCCGA-TAC
*
45378454 TTCAGCTCACATGAGCTT
1 TTCAGCTCATATGAGCTT
45378472 TCTGTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (26 bp):
TTCAGCTCATATGAGCTTCCCGATAC
Found at i:45379203 original size:25 final size:25
Alignment explanation
Indices: 45379141--45379191 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
45379131 AATGAAAGAA
45379141 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
45379166 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
45379191 A
1 A
45379192 TGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (25 bp):
AGTAAAATGTGGTTTGAATATGCAT
Found at i:45381361 original size:26 final size:26
Alignment explanation
Indices: 45381330--45381425 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
45381320 GGTAGATTCG
*
45381330 AAGAGCCATTAATCGGGAAGGTTACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* *
45381356 AAGAGCCTTTAATTGGGAAGGTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* * * *
45381382 AAAAGCCTTTAATCGAGAAGCTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
45381408 AAGAGCCA-TATATCGGGA
1 AAGAGCCATTA-ATCGGGA
45381426 CGCTTATAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.03
26 57 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAGGTCACA
Found at i:45385396 original size:312 final size:311
Alignment explanation
Indices: 45384801--45385399 Score: 1006
Period size: 312 Copynumber: 1.9 Consensus size: 311
45384791 TTTTTTAAGG
*
45384801 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGGT
1 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
45384866 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
66 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
* * *
45384931 CATGGATGACTGATAACACACTGAGGCATTATCTCTTGTATATTCATTATACTAGAAAGTGTTTT
131 CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
*
45384996 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGATTTGTGAGCAATTGTTCCTTG
196 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
* *
45385061 CTTTTTTAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
261 CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
* *
45385112 CATTGAGGGATAGACGAGGTAGTGCTGTAGCTAAGACAAATGTTATTGGATTCATGTGCATATGA
1 CATTGAGGGATAGACGAGATAG-GCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGA
* * *
45385177 TTTGTTGAAGTTTTCTGTGTTAATGTAGTTGATAT-TCTGGGTAATAGCTACTTATTGGCTAGGT
65 TGTGTTGAAGTTGTCTGTGTTAATGTAGTTGAT-TGTCTGGGTAATAGCTACTTATTGGCAAGGT
*
45385241 AACATGGATTACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGGAAACT-T
129 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTA-GAAACTGT
*
45385305 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTTC
193 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCC
*
45385370 TTGCATTTATGAAAAATCAG-TGTGTTCATA
258 TTGCATTTATAAAAAAT-AGTTGTGTTCATA
45385400 TTATTATACA
Statistics
Matches: 269, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
311 21 0.08
312 240 0.89
313 8 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (311 bp):
CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
Found at i:45387876 original size:13 final size:13
Alignment explanation
Indices: 45387858--45387884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45387848 GTTTTTGAAA
45387858 TATTTTCTAATTT
1 TATTTTCTAATTT
45387871 TATTTTCTAATTT
1 TATTTTCTAATTT
45387884 T
1 T
45387885 TTCAAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTCTAATTT
Found at i:45402517 original size:28 final size:28
Alignment explanation
Indices: 45402436--45402537 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 28
45402426 TTGATTTTCG
* * *
45402436 ACACTAAGTGTGCGAATTTAATTGTGAG
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
*
45402464 GCACTAAGT-TGCGAGTTTAATTGTAAA
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
*
45402491 ACACTAAGTGTGCGAGTTTAATGGTAAA
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
* *
45402519 GCACTAAGTGTGTGAGTTT
1 ACACTAAGTGTGCGAGTTT
45402538 GATTATTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 23 0.35
28 42 0.65
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGTGCGAGTTTAATTGTAAA
Found at i:45403315 original size:23 final size:24
Alignment explanation
Indices: 45403285--45403909 Score: 243
Period size: 23 Copynumber: 26.8 Consensus size: 24
45403275 TTTTTATGCT
45403285 TAAATGCTGCCCAATTTGTGGT-AA
1 TAAATGCTGCCCAATTT-TGGTGAA
* *
45403309 T-TATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
45403332 TAAATGCTGCCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
45403355 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
45403378 TAAGTACTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
45403401 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
45403425 TAAATGCTGTCCAATTTT-GT--A
1 TAAATGCTGCCCAATTTTGGTGAA
* *
45403446 TACACATGCTGTCAAATTTTGGTGAA
1 TA-A-ATGCTGCCCAATTTTGGTGAA
* *
45403472 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
45403495 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
45403518 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
45403541 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* **
45403565 TAAATGCTGTCCAATTTT--ACATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
45403588 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
45403611 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
** *
45403634 TGTACGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
45403658 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* ** * *
45403681 TACATGCTATCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
45403704 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
*** *
45403727 TGTGTGCTACCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
45403751 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
45403774 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
45403797 TAAGTGCTGTCCAA-ATTAGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* *
45403820 TATATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
45403844 TAAATGTTGTCCAATTTT-GT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
45403867 TACATGCTGTCAAATTTTGGTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
*
45403891 TAAATGCTGTCCAATTTTG
1 TAAATGCTGCCCAATTTTG
45403910 TATATATATA
Statistics
Matches: 446, Mismatches: 115, Indels: 80
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.01
22 21 0.05
23 262 0.59
24 151 0.34
25 6 0.01
26 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAATGCTGCCCAATTTTGGTGAA
Found at i:45403420 original size:93 final size:92
Alignment explanation
Indices: 45403303--45403485 Score: 278
Period size: 93 Copynumber: 2.0 Consensus size: 92
45403293 GCCCAATTTG
* *
45403303 TGGTAATTATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATTTTGCATATACATGCTGTCAA
1 TGGTAATTATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTCAA
* *
45403368 ATTTT-GTGTATAAGTACTGTCCAAAT
66 ATTTTGGTGAATAAATACTGTCCAAAT
* *
45403394 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATACACATGCTGTC
1 TGGTA-AT-TATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTC
*
45403459 AAATTTTGGTGAATAAATGCTGTCCAA
64 AAATTTTGGTGAATAAATACTGTCCAA
45403486 TTTTGCATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 5 0.06
92 2 0.02
93 59 0.72
94 16 0.20
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (92 bp):
TGGTAATTATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTCAA
ATTTTGGTGAATAAATACTGTCCAAAT
Found at i:45403526 original size:93 final size:93
Alignment explanation
Indices: 45403404--45403918 Score: 787
Period size: 93 Copynumber: 5.5 Consensus size: 93
45403394 TGGTATATGT
* * * * * * * * * *
45403404 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATACACATGCTGTCAAATTTTGGT
1 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGT
45403469 GAATAAATGCTGTCCAATTTTGCATATAC
65 GAATAAATGCTGTCCAATTTTGCATATAC
*
45403498 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
*
45403563 AATAAATGCTGTCCAATTTTACATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* *
45403591 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTACGCTGCCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
45403656 AATAAATGCTGTCCAATTTTGCATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* * * *
45403684 ATGCTATCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTGTGCTACCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
45403749 AATAAATGCTGTCCAATTTTGCATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* *
45403777 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATATATATGCTGCCTAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
* *
45403842 AATAAATGTTGTCCAATTTTGTATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* * *
45403870 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATAT
1 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATAT
45403919 ATATGCTGCT
Statistics
Matches: 391, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
93 348 0.89
94 43 0.11
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (93 bp):
ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
AATAAATGCTGTCCAATTTTGCATATAC
Found at i:45403528 original size:140 final size:140
Alignment explanation
Indices: 45403285--45403915 Score: 802
Period size: 140 Copynumber: 4.5 Consensus size: 140
45403275 TTTTTATGCT
* * * * *
45403285 TAAATGCTGCCCAATTTGTGGTA-AT-TATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATT
1 TAAATGCTGTCCAATTT-T-GTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATT
* *
45403348 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTACTGTCCAAATTGGTATATGTATGCTGCCC
64 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
45403413 AATTTTGGTGAA
129 AATTTTGGTGAA
*
45403425 TAAATGCTGTCCAATTTTGTATACACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
*
45403490 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAA
66 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
45403555 TTTTGGTGAA
131 TTTTGGTGAA
** * * * *
45403565 TAAATGCTGTCCAATTTTACATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTG
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
* ** * * * * * * * * * ** *
45403629 GTATATGTACGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTATCAA
66 GCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCA
*
45403694 ATTTT-GTGTA
130 ATTTTGGTGAA
* * * *** ** *
45403704 TAAGTGCTGTCCAAATTGGTATATGTGTGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
* *
45403769 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATATATATGCTGCCTAA
66 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
45403834 TTTTGGTGAA
131 TTTTGGTGAA
* *
45403844 TAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
*
45403909 GTATATA
66 GCATATA
45403916 TATATATGCT
Statistics
Matches: 412, Mismatches: 74, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
138 3 0.01
139 109 0.26
140 300 0.73
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (140 bp):
TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
TTTTGGTGAA
Found at i:45403944 original size:27 final size:24
Alignment explanation
Indices: 45403738--45403953 Score: 93
Period size: 23 Copynumber: 9.0 Consensus size: 24
45403728 GTGTGCTACC
* *
45403738 CAATTTTGGTGAATA-AATGCTGT
1 CAATTTTGATGTATATAATGCTGT
*
45403761 CCAATTTTGCA--TATA-CATGCTGT
1 -CAATTTTG-ATGTATATAATGCTGT
*
45403784 CAAATTTTG-TGTATA-AGTGCTGT
1 C-AATTTTGATGTATATAATGCTGT
* *
45403807 CCAA-ATT-A-GTATATATATGCTGC
1 -CAATTTTGATGTATATA-ATGCTGT
* * *
45403830 CTAATTTTGGTGAATA-AATGTTGT
1 C-AATTTTGATGTATATAATGCTGT
45403854 CCAA-TTT--TGTATATACATGCTGT
1 -CAATTTTGATGTATATA-ATGCTGT
*
45403877 CAAATTTTGGTGTATA-AATGCTGT
1 C-AATTTTGATGTATATAATGCTGT
*
45403901 CCAATTTTGTATATATATATATGCTGCT
1 -CAATTTTG-ATGTATATA-ATGCTG-T
*
45403929 CAATTTTTGATGTATA-AAAGCTGT
1 CAA-TTTTGATGTATATAATGCTGT
45403953 C
1 C
45403954 CAAACAGGGT
Statistics
Matches: 148, Mismatches: 19, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
21 10 0.07
22 7 0.05
23 47 0.32
24 37 0.25
25 14 0.09
26 12 0.08
27 15 0.10
28 6 0.04
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
CAATTTTGATGTATATAATGCTGT
Found at i:45405016 original size:20 final size:19
Alignment explanation
Indices: 45404990--45405040 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
45404980 TTGGAGCAGG
* *
45404990 AATATCGATACCTTAGGAA
1 AATATCGATACCATAAGAA
45405009 ATATATCGATACCATAAGAA
1 A-ATATCGATACCATAAGAA
45405029 AAGTATCGATAC
1 AA-TATCGATAC
45405041 TAGATTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (19 bp):
AATATCGATACCATAAGAA
Found at i:45405287 original size:22 final size:23
Alignment explanation
Indices: 45405260--45405302 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
45405250 AAATTGCTCA
* *
45405260 ACTTTACTTTTTAT-TCAAAAAC
1 ACTTTAATTGTTATATCAAAAAC
45405282 ACTTTAATTGTTATATCAAAA
1 ACTTTAATTGTTATATCAAAA
45405303 CATATGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (23 bp):
ACTTTAATTGTTATATCAAAAAC
Found at i:45408104 original size:5 final size:5
Alignment explanation
Indices: 45408088--45408129 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
45408078 TCCCCTGGCC
* * *
45408088 CTATG CTCTG CTATG CTATG CTATG CTATG CCATG CCATG CT
1 CTATG CTATG CTATG CTATG CTATG CTATG CTATG CTATG CT
45408130 TTTTTGTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (5 bp):
CTATG
Found at i:45408551 original size:17 final size:18
Alignment explanation
Indices: 45408512--45408553 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
45408502 TTTAATTATT
* *
45408512 TAAAAATAATAGACATTA
1 TAAAATTAATAGAAATTA
45408530 T-AAATTAATA-AAATTA
1 TAAAATTAATAGAAATTA
45408546 TAAAATTA
1 TAAAATTA
45408554 TATTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAATTAATAGAAATTA
Found at i:45408582 original size:22 final size:22
Alignment explanation
Indices: 45408543--45408585 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45408533 ATTAATAAAA
** *
45408543 TTATAAAATTATATTTTAATTC
1 TTATAAAAAAATAATTTAATTC
45408565 TTATAAAAAAATAATTTAATT
1 TTATAAAAAAATAATTTAATT
45408586 TTACAAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAAAAAAATAATTTAATTC
Found at i:45411936 original size:29 final size:29
Alignment explanation
Indices: 45411899--45412059 Score: 115
Period size: 29 Copynumber: 5.3 Consensus size: 29
45411889 TTCAATGCTC
*
45411899 ACCACAAAGGCTTTCCTGTCCAGAGTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
* * * * *
45411928 GCCACAAAGGCTTTTCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTGTCCA-A-AGT-TTT
* * *
45411960 ACCATAAAGGCTTTCTTGCCCAAAGTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
* ** * * *
45411989 GCCACAAAATCTTTCCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTGTCCA-A-AGT-TTT
*
45412021 ACCACAAAGGCTTTCCTGTCCAAATTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
*
45412050 TCCACAAAGG
1 ACCACAAAGG
45412060 GGTTCCTCTC
Statistics
Matches: 95, Mismatches: 31, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
29 45 0.47
30 6 0.06
31 8 0.08
32 36 0.38
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (29 bp):
ACCACAAAGGCTTTCCTGTCCAAAGTTTT
Found at i:45412035 original size:32 final size:32
Alignment explanation
Indices: 45411929--45412037 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 32
45411919 CAGAGTTTTG
*
45411929 CCACAAAGGCTTTTCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
* ** * *
45411961 CCATAAAGGCTTT-CTTGCCCA-A-AGT-TTTG
1 CCACAAAGGCTTTCCTT-TTCATATAGTACTTA
**
45411990 CCACAAAATCTTTCCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
45412022 CCACAAAGGCTTTCCT
1 CCACAAAGGCTTTCCT
45412038 GTCCAAATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
29 14 0.24
30 7 0.12
31 7 0.12
32 30 0.52
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.37
Consensus pattern (32 bp):
CCACAAAGGCTTTCCTTTTCATATAGTACTTA
Found at i:45412066 original size:61 final size:61
Alignment explanation
Indices: 45411807--45412059 Score: 251
Period size: 61 Copynumber: 4.2 Consensus size: 61
45411797 TAAGAGGTTC
* * * * * * * *
45411807 GCCATAAAGGCGTTCCTTTT-A-ATAGAAATTGCCACGAAGGCTTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGC-TTTCCTGTCCAAAGTTTT
* * ** * * * *
45411867 GCCACAGAGGCATTCCTTAACAT-TCAATGCTCACCACAAAGGCTTTCCTGTCCAGAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATAT-AGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
* * * *
45411928 GCCACAAAGGCTTTTCTTTTCATATAGTACTTACCATAAAGGCTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
** *
45411989 GCCACAAAATCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAATTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
*
45412050 TCCACAAAGG
1 GCCACAAAGG
45412060 GGTTCCTCTC
Statistics
Matches: 152, Mismatches: 37, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
60 15 0.10
61 125 0.82
62 12 0.08
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (61 bp):
GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
Found at i:45415525 original size:25 final size:25
Alignment explanation
Indices: 45415476--45415525 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
45415466 TTTTCTATTA
*
45415476 ATTTTTATAAATTTTTATACTCTTT
1 ATTTTTATAAATTTTTATACACTTT
45415501 ATTTTTA-AATATTATTTA-ACACTTT
1 ATTTTTATAA-ATT-TTTATACACTTT
45415526 TATTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATAAATTTTTATACACTTT
Found at i:45419421 original size:12 final size:13
Alignment explanation
Indices: 45419401--45419429 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45419391 TTAATTATTA
45419401 AATTAAAAATAAT
1 AATTAAAAATAAT
45419414 AATT-AAAATAAT
1 AATTAAAAATAAT
45419426 AATT
1 AATT
45419430 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:45421451 original size:29 final size:29
Alignment explanation
Indices: 45421379--45421501 Score: 88
Period size: 31 Copynumber: 4.1 Consensus size: 29
45421369 TTCAAAAAAT
* * *
45421379 TTTGGCC-TTATTTGAGCACTTTTATAAAGA
1 TTTGGCCATTATTTGACCA-TTTT-GAAAGG
* *
45421409 TTTGACCCTTATTTGACCATTTTGAAAGG
1 TTTGGCCATTATTTGACCATTTTGAAAGG
***
45421438 TTTGG-CATTCATTTTTGCACTTTTGTAAAGG
1 TTTGGCCATT-ATTTGACCA-TTTTG-AAAGG
* * *
45421469 TTAGGCCCTTATATGACCATTTTGAAAGG
1 TTTGGCCATTATTTGACCATTTTGAAAGG
45421498 TTTG
1 TTTG
45421502 ACCCTTATGT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 20 0.28
31 24 0.33
32 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (29 bp):
TTTGGCCATTATTTGACCATTTTGAAAGG
Found at i:45421506 original size:29 final size:29
Alignment explanation
Indices: 45421384--45421509 Score: 101
Period size: 29 Copynumber: 4.2 Consensus size: 29
45421374 AAAATTTTGG
* * *
45421384 CCTTATTTGAGCACTTTTATAAAGATTTGAC
1 CCTTATTTGACCA-TTTT-GAAAGGTTTGAC
*
45421415 CCTTATTTGACCATTTTGAAAGGTTTG-G
1 CCTTATTTGACCATTTTGAAAGGTTTGAC
* *** * *
45421443 CATTCATTTTTGCACTTTTGTAAAGGTTAGGC
1 CCTT-ATTTGACCA-TTTTG-AAAGGTTTGAC
*
45421475 CCTTATATGACCATTTTGAAAGGTTTGAC
1 CCTTATTTGACCATTTTGAAAGGTTTGAC
45421504 CCTTAT
1 CCTTAT
45421510 GTGAGCAACC
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
28 3 0.04
29 29 0.39
30 14 0.19
31 25 0.34
32 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (29 bp):
CCTTATTTGACCATTTTGAAAGGTTTGAC
Found at i:45434947 original size:8 final size:8
Alignment explanation
Indices: 45434934--45434958 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45434924 TTATGAAAAG
45434934 AAAGAATT
1 AAAGAATT
45434942 AAAGAATT
1 AAAGAATT
45434950 AAAGAATT
1 AAAGAATT
45434958 A
1 A
45434959 CTTTGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AAAGAATT
Found at i:45440825 original size:11 final size:12
Alignment explanation
Indices: 45440800--45440825 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45440790 CTTAGATCTA
45440800 TTTTTCTTTGTT
1 TTTTTCTTTGTT
45440812 TTTTTCTTTGTT
1 TTTTTCTTTGTT
45440824 TT
1 TT
45440826 GCCTACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTGTT
Found at i:45445640 original size:3 final size:3
Alignment explanation
Indices: 45445632--45445700 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
45445622 TGTGAGAAGT
45445632 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
45445680 GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA
45445701 TTGGTAATCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45452383 original size:20 final size:20
Alignment explanation
Indices: 45452358--45452396 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45452348 TGCAATTTGG
45452358 TATCGATAC-CAATTAAAAAT
1 TATCGATACTC-ATTAAAAAT
45452378 TATCGATACTCATTAAAAA
1 TATCGATACTCATTAAAAA
45452397 AAATATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TATCGATACTCATTAAAAAT
Found at i:45458037 original size:72 final size:72
Alignment explanation
Indices: 45457915--45458051 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 72
45457905 GTTTGAAAAC
* *
45457915 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATACCTTTGAGAAACTTTTTTGGAGAAAC
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAC
45457980 TGGAAAT
66 TGGAAAT
**** * *
45457987 TTAAAAACTAAATTTTTGAAAACTTAAATGTCTTGAGA-AACTTTGGGAAACTTGTTTGGAGAAA
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATT-ACATAACTTTGAGAAACTTGTTTGGAGAAA
45458051 C
65 C
45458052 AACTCAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 54 0.96
73 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (72 bp):
TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAC
TGGAAAT
Found at i:45458316 original size:32 final size:33
Alignment explanation
Indices: 45458236--45458396 Score: 184
Period size: 32 Copynumber: 4.8 Consensus size: 33
45458226 TCACTTGTCT
* *
45458236 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCA
*
45458270 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTTTCCTGTTCACCATCA
* *
45458303 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCA
* *
45458337 TTTTGTTGCAGGGAATCTCTT-CTATTC-CCATCA
1 -TTTCTTGCAGGGAATCT-TTCCTGTTCACCATCA
*
45458370 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA
45458397 TGTATTATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
31 1 0.01
32 44 0.41
33 10 0.09
34 7 0.07
35 44 0.41
36 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACCATCA
Found at i:45458344 original size:67 final size:67
Alignment explanation
Indices: 45458236--45458406 Score: 263
Period size: 67 Copynumber: 2.6 Consensus size: 67
45458226 TCACTTGTCT
* * * *
45458236 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCT-TTCCTGTTCACA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTT-CTATTCACA
45458300 TCA
65 TCA
*
45458303 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCCCAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCACAT
45458368 CA
66 CA
* *
45458370 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
45458407 CTTTTTGGAC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
67 94 0.98
68 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCACAT
CA
Found at i:45460001 original size:32 final size:32
Alignment explanation
Indices: 45459960--45460067 Score: 162
Period size: 32 Copynumber: 3.3 Consensus size: 32
45459950 AGGCAATGTT
45459960 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
* *
45459992 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTC
*
45460027 TTCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
45460059 TCCTGTTCA
1 TCCTGTTCA
45460068 TGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 34 0.51
33 4 0.06
34 4 0.06
35 25 0.37
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (32 bp):
TCCTGTTCACATCATTTCTTGCAGGGAATCTC
Found at i:45461674 original size:32 final size:32
Alignment explanation
Indices: 45461633--45461740 Score: 162
Period size: 32 Copynumber: 3.3 Consensus size: 32
45461623 AGGCAATGTT
45461633 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
* *
45461665 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTC
*
45461700 TTCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
45461732 TCCTGTTCA
1 TCCTGTTCA
45461741 TGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 34 0.51
33 4 0.06
34 4 0.06
35 25 0.37
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (32 bp):
TCCTGTTCACATCATTTCTTGCAGGGAATCTC
Found at i:45463346 original size:32 final size:32
Alignment explanation
Indices: 45463305--45463412 Score: 162
Period size: 32 Copynumber: 3.3 Consensus size: 32
45463295 AGGCAATGTT
45463305 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
* *
45463337 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTC
*
45463372 TTCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
45463404 TCCTGTTCA
1 TCCTGTTCA
45463413 TGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 34 0.51
33 4 0.06
34 4 0.06
35 25 0.37
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (32 bp):
TCCTGTTCACATCATTTCTTGCAGGGAATCTC
Found at i:45465019 original size:32 final size:32
Alignment explanation
Indices: 45464978--45465085 Score: 162
Period size: 32 Copynumber: 3.3 Consensus size: 32
45464968 AGGCAATGTT
45464978 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
* *
45465010 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTC
*
45465045 TTCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
45465077 TCCTGTTCA
1 TCCTGTTCA
45465086 TGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 34 0.51
33 4 0.06
34 4 0.06
35 25 0.37
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (32 bp):
TCCTGTTCACATCATTTCTTGCAGGGAATCTC
Found at i:45466691 original size:32 final size:32
Alignment explanation
Indices: 45466650--45466757 Score: 162
Period size: 32 Copynumber: 3.3 Consensus size: 32
45466640 AGGCAATGTT
45466650 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
* *
45466682 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTC
*
45466717 TTCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
45466749 TCCTGTTCA
1 TCCTGTTCA
45466758 TGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 34 0.51
33 4 0.06
34 4 0.06
35 25 0.37
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (32 bp):
TCCTGTTCACATCATTTCTTGCAGGGAATCTC
Found at i:45469600 original size:20 final size:23
Alignment explanation
Indices: 45469565--45469609 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
45469555 GAGCAAATCG
45469565 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
45469587 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
45469608 TT
1 TT
45469610 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:45470161 original size:17 final size:17
Alignment explanation
Indices: 45470139--45470193 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
45470129 TTTGGCCAAG
45470139 TATCGATATTTTTGGAA
1 TATCGATATTTTTGGAA
*** **
45470156 TATCGATACCCTTCAAA
1 TATCGATATTTTTGGAA
*
45470173 TATTGATATTTTTGGAA
1 TATCGATATTTTTGGAA
45470190 TATC
1 TATC
45470194 AAAGAAACTG
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (17 bp):
TATCGATATTTTTGGAA
Found at i:45474952 original size:50 final size:48
Alignment explanation
Indices: 45474865--45474964 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 48
45474855 ATTTTTCAAG
* *
45474865 TCATTTTCATTTTCATTATGGAGAAAATTTCATTCATTTCCAAATGATT
1 TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATG-TT
* *
45474914 TCATTTTCCATTTTCATTTTGGAGAAAACCTT-AATCATTTGCAAATGTT
1 TCATTTT-CATTTTCATTATGGAGAAAA-CTTCAATCATTTCCAAATGTT
45474963 TC
1 TC
45474965 TTATTTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 11 0.24
50 32 0.71
51 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (48 bp):
TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATGTT
Found at i:45481528 original size:50 final size:50
Alignment explanation
Indices: 45481413--45481661 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
45481403 GATAATAACA
* * ** * *
45481413 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
45481464 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
45481514 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
45481564 TGCCCATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
45481619 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
45481662 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
50 93 0.55
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:45481599 original size:100 final size:104
Alignment explanation
Indices: 45481412--45481661 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
45481402 TGATAATAAC
** * *
45481412 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
45481477 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
45481514 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
45481578 CCTAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
45481619 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45481662 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:45481777 original size:13 final size:13
Alignment explanation
Indices: 45481756--45481787 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45481746 GCTTGGATCA
*
45481756 TCATCAAATAAAT
1 TCATAAAATAAAT
45481769 TCATAAAATAAAT
1 TCATAAAATAAAT
45481782 TCATAA
1 TCATAA
45481788 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:45483850 original size:25 final size:25
Alignment explanation
Indices: 45483816--45483865 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
45483806 TAGATTAGAT
45483816 TACTCATTTCTGAGGCGTTGTTGTC
1 TACTCATTTCTGAGGCGTTGTTGTC
*
45483841 TACTCGTTTCTGAGGCGTTGTTGTC
1 TACTCATTTCTGAGGCGTTGTTGTC
45483866 AACACCCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.20, G:0.26, T:0.44
Consensus pattern (25 bp):
TACTCATTTCTGAGGCGTTGTTGTC
Found at i:45489412 original size:21 final size:21
Alignment explanation
Indices: 45489388--45489445 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
45489378 TGATGCTGGG
45489388 AGGATGTCATTTGATGCACCA
1 AGGATGTCATTTGATGCACCA
* *
45489409 AGGATGTCTTTTGATGCAGCA
1 AGGATGTCATTTGATGCACCA
* *
45489430 AGAATGTCATGTGATG
1 AGGATGTCATTTGATG
45489446 ATCCCAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AGGATGTCATTTGATGCACCA
Found at i:45492701 original size:17 final size:16
Alignment explanation
Indices: 45492673--45492712 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
45492663 ACAAGAAATT
45492673 ATAAAA-AAAATAAGA
1 ATAAAATAAAATAAGA
*
45492688 ATAATAATAAAATAATA
1 ATAA-AATAAAATAAGA
45492705 ATAAAATA
1 ATAAAATA
45492713 GGACTCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAAATAAAATAAGA
Found at i:45492703 original size:11 final size:11
Alignment explanation
Indices: 45492673--45492712 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
45492663 ACAAGAAATT
45492673 ATAAAA-AA-A
1 ATAAAATAATA
45492682 ATAAGAATAATA
1 ATAA-AATAATA
45492694 ATAAAATAATA
1 ATAAAATAATA
45492705 ATAAAATA
1 ATAAAATA
45492713 GGACTCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 2 0.07
11 17 0.61
12 5 0.18
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:45492834 original size:10 final size:9
Alignment explanation
Indices: 45492818--45492869 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
45492808 ATAATGATTA
45492818 TTTATAATT
1 TTTATAATT
45492827 TCTTATAATT
1 T-TTATAATT
45492837 TTTAGTAATT
1 TTTA-TAATT
*
45492847 ATTAT-ATT
1 TTTATAATT
45492855 TTTAATAATT
1 TTT-ATAATT
45492865 ATTTA
1 -TTTA
45492870 AGAAATTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.14
9 7 0.19
10 21 0.58
11 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:45492857 original size:18 final size:19
Alignment explanation
Indices: 45492829--45492867 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
45492819 TTATAATTTC
*
45492829 TTATAATTTTTAGTAATTA
1 TTATAATTTTTAATAATTA
45492848 TTAT-ATTTTTAATAATTA
1 TTATAATTTTTAATAATTA
45492866 TT
1 TT
45492868 TAAGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATAATTTTTAATAATTA
Found at i:45494480 original size:33 final size:34
Alignment explanation
Indices: 45494432--45494520 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 34
45494422 ATATTCGAAT
*
45494432 AATTATAATTAAAATAAAATAAATAT-AAAATATA
1 AATTAGAA-TAAAATAAAATAAATATCAAAATATA
* * *
45494466 AA-TAGATTGAAAATAAAAT-AATATCTAAATTTA
1 AATTAGAAT-AAAATAAAATAAATATCAAAATATA
*
45494499 AATTAGAATAAACTAAAATAAA
1 AATTAGAATAAAATAAAATAAA
45494521 GCTTAAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 6 0.13
33 30 0.67
34 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (34 bp):
AATTAGAATAAAATAAAATAAATATCAAAATATA
Found at i:45495481 original size:61 final size:61
Alignment explanation
Indices: 45495375--45495495 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
45495365 TAACACATGT
* ** *
45495375 TTATACGATGTGGGTTCACCTTTATGATGGTGCGAACCAACATCGTGCGGTCTCATAGAAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
** * ** * *
45495436 TTATACGATGTGGGTTTGCCTATATGATGGAATGAACGTATATCGTGTAGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
45495496 GGGTACGCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (61 bp):
TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
Found at i:45498688 original size:21 final size:21
Alignment explanation
Indices: 45498649--45498688 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45498639 GATAACTTAT
*
45498649 AATAATTACATTGTCAATTAG
1 AATAATTAAATTGTCAATTAG
45498670 AATAATTAAATCTGT-AATT
1 AATAATTAAAT-TGTCAATT
45498689 GTTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AATAATTAAATTGTCAATTAG
Found at i:45503759 original size:44 final size:43
Alignment explanation
Indices: 45503646--45503767 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
45503636 TCCGATATGT
* *
45503646 GATTTTGTGTAAGACCACGTCTGGGACGTTGGTATCGATTTAA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* * * *
45503689 GATTTCCTGTAAGACCACATCTGGGACGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* *
45503732 GATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
45503768 AGTATATGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 42 0.63
44 25 0.37
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
Found at i:45511349 original size:34 final size:35
Alignment explanation
Indices: 45511288--45511355 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
45511278 GTTAAATTGA
* * *
45511288 ATGTATTTATTACGTACATAGCTGAATTGAATTTT
1 ATGTATGTATAACGTACATAGCCGAATTGAATTTT
*
45511323 ATGTATGTATAAC-TACATTGCCGAATTGAATTT
1 ATGTATGTATAACGTACATAGCCGAATTGAATTT
45511356 AGCATGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (35 bp):
ATGTATGTATAACGTACATAGCCGAATTGAATTTT
Found at i:45511533 original size:43 final size:42
Alignment explanation
Indices: 45511471--45511677 Score: 201
Period size: 43 Copynumber: 4.9 Consensus size: 42
45511461 TCCGATATGT
* *
45511471 GATTTCGTGTAAGATCACGTCTGGGATGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTT-A
* *
45511514 GATTTTGTGTAAGACCACGTTTGGGATGTTGGCATCGATTTTA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA-TTTA
* ** *
45511557 GATTTACGTGTAAGACCA-TTCTGGGACATTGGCATCG-TATA
1 GATTT-CGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
45511598 TGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCAT-GATAGTT-
1 -GATTTCGTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGAT--TTA
* * *
45511641 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
45511678 TACGAGCTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 24
0.77 0.10 0.14
Matches are distributed among these distances:
41 16 0.12
42 47 0.35
43 57 0.42
44 15 0.11
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
Found at i:45511624 original size:85 final size:84
Alignment explanation
Indices: 45511478--45511679 Score: 207
Period size: 85 Copynumber: 2.4 Consensus size: 84
45511468 TGTGATTTCG
* ** * * * *
45511478 TGTAAGATCACGTCTGGGATGTTTGCATCG-ATTTGAGATTTTGTGTAAGACCACGTTTGGGAT-
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATAT--GATTTCGTGTAAGACCACGTCTGGGATA
* *
45511541 GTTGGCATCGAT-TTTAGATTTACG
64 G-TGGCAT-GATAGTT-GA-TTACA
*
45511565 TGTAAGACCA-TTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACC-CTGTCTGGGATAG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCAC-GTCTGGGATAG
45511628 TGGCATGATAGTTGATTACA
65 TGGCATGATAGTTGATTACA
*
45511648 TGTAAGACCACGTCTGGGACGTTGGCATCGTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA
45511680 CGAGCTTTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
83 14 0.14
84 25 0.26
85 31 0.32
86 16 0.16
87 12 0.12
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCACGTCTGGGATAGT
GGCATGATAGTTGATTACA
Found at i:45513892 original size:30 final size:30
Alignment explanation
Indices: 45513856--45513937 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
45513846 AAGAGTTATC
* *
45513856 ACTCACACAAGCTGGCATTATAAAAGGGTT
1 ACTCACACAAGATGACATTATAAAAGGGTT
* *
45513886 ACTCACACAAGTTGACATTATAACAGGGTT
1 ACTCACACAAGATGACATTATAAAAGGGTT
*
45513916 GCTCACACAAGATGACATTATA
1 ACTCACACAAGATGACATTATA
45513938 TTGAGGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (30 bp):
ACTCACACAAGATGACATTATAAAAGGGTT
Found at i:45518737 original size:40 final size:38
Alignment explanation
Indices: 45518669--45518901 Score: 171
Period size: 40 Copynumber: 5.9 Consensus size: 38
45518659 CCAAAGGGGT
* *
45518669 ACCGTAGTAGAAATAGGGGCACGA-ATGTGCACTTTGGAGC
1 ACCGAAGTACAAATAGGGGCAC-ATATGTGCA-TTTGG-GC
* *
45518709 ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGGT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
** * * *
45518749 ACTAAAGTACAAACAAGGGCACGTATGTGCATTTAGGGC
1 ACCGAAGTACAAATAGGGGCACATATGTGCATTT-GGGC
* * *
45518788 TGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGT
1 -ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
* * ** * * *
45518829 ACTGAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT-TGGG-C
**
45518869 ATGGAAGTACAAATAGGGGCACATATGTGCATT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT
45518902 CATACAATAA
Statistics
Matches: 153, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
39 10 0.07
40 138 0.90
41 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (38 bp):
ACCGAAGTACAAATAGGGGCACATATGTGCATTTGGGC
Found at i:45518796 original size:80 final size:80
Alignment explanation
Indices: 45518685--45518903 Score: 307
Period size: 80 Copynumber: 2.7 Consensus size: 80
45518675 GTAGAAATAG
* *
45518685 GGGCACGAATGTGCACTTT-GGAGC-ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGG
1 GGGCACGTATGTGCA-TTTAGG-GCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGG
45518748 TACTAAAGTACAAACAA
64 TACTAAAGTACAAACAA
*
45518765 GGGCACGTATGTGCATTTAGGGCTGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
* *
45518830 CTGAAGTACAAACAG
66 CTAAAGTACAAACAA
* * * * **
45518845 GGGCATGTATGCGCATTCAGGGTTATGGAAGTACAAATAGGGGCACATATGTGCATTCA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCA
45518904 TACAATAATT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
79 5 0.04
80 120 0.96
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (80 bp):
GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
CTAAAGTACAAACAA
Found at i:45518902 original size:40 final size:39
Alignment explanation
Indices: 45518712--45518903 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 39
45518702 TTGGAGCACC
45518712 GAAGTACAAATAGGGGCACATATGTGCATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTCA-GGGTACT
* * * * * * *
45518752 AAAGTACAAACAAGGGCACGTATGTGCATTTAGGGCTGCC
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
45518792 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTC-AGGGTACT
* ** *
45518832 GAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTTA-T
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
45518871 GGAAGTACAAATAGGGGCACATATGTGCATTCA
1 -GAAGTACAAATAGGGGCACATATGTGCATTCA
45518904 TACAATAATT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 8 0.06
40 114 0.90
41 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (39 bp):
GAAGTACAAATAGGGGCACATATGTGCATTCAGGGTACT
Found at i:45529870 original size:30 final size:31
Alignment explanation
Indices: 45529810--45529870 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
45529800 GGGTTGGGAG
*
45529810 GGGAGAGGAGCAAAAGTTTTGGGGCGAAAGT
1 GGGAGAGGAGCAAAAGTTTTGGGGCAAAAGT
*
45529841 GGGA-AGGAGTAAAAGTTTTGAGGG-AAAAGT
1 GGGAGAGGAGCAAAAGTTTTG-GGGCAAAAGT
45529871 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.36, C:0.03, G:0.43, T:0.18
Consensus pattern (31 bp):
GGGAGAGGAGCAAAAGTTTTGGGGCAAAAGT
Found at i:45531864 original size:40 final size:41
Alignment explanation
Indices: 45531816--45532000 Score: 164
Period size: 40 Copynumber: 4.6 Consensus size: 41
45531806 TACCAAAAAA
* *
45531816 AAACAGGGGCAGGCATGTGCATTCAGGGGTACT-GTAA-TAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCG-AAGTAC
* * * *
45531856 AAATAGGGGTACAAATGTGCACTCAGGGGTA-TCGAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * *
45531896 AAACAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * * * * *
45531936 AAACAAGGGCACGGATGCGCACTCAAGGGTACT-AAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * *
45531976 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGAATGTGCATTCA
45532001 TACGATAATT
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 114 0.97
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
Found at i:45531958 original size:80 final size:80
Alignment explanation
Indices: 45531816--45532000 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
45531806 TACCAAAAAA
* * * * * * *
45531816 AAACAGGGGCAGGCATGTGCATTCAGGGGTACTGTAATACAAATAGGGGTACAAATGTGCACTCA
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
* *
45531881 GGGGTA-TCGAAGTAC
66 AGGGTACT-AAAGTAC
* **
45531896 AAACAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTACAAACAAGGGCACGGATGCGCACTC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAA-TACAAACAAGGGCACAAATGCGCACTC
45531960 AAGGGTACTAAAGTAC
65 AAGGGTACTAAAGTAC
* *
45531976 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
45532001 TACGATAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 84 0.95
81 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (80 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
AGGGTACTAAAGTAC
Found at i:45540367 original size:14 final size:14
Alignment explanation
Indices: 45540334--45540369 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
45540324 CAAGAAACTT
45540334 GTTTTC-AAACTAA
1 GTTTTCAAAACTAA
45540347 G-TTTCAAAACTAA
1 GTTTTCAAAACTAA
45540360 GTTTTCAAAA
1 GTTTTCAAAA
45540370 AACCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 9 0.43
14 8 0.38
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (14 bp):
GTTTTCAAAACTAA
Found at i:45541924 original size:27 final size:27
Alignment explanation
Indices: 45541873--45542089 Score: 211
Period size: 27 Copynumber: 8.1 Consensus size: 27
45541863 TTACACTATT
* * * *
45541873 ATGACCAAAATACCTCCATACGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
45541900 ATTACCGAAATATCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
45541927 ATGATCGAAATACCCCTATA-AGAAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
45541953 ATGACCAAAATACCCCTACAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45541980 ATGACTGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * *
45542007 ATGATTGAAATACCCCCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45542034 ATGACCGAAGTACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45542061 ATGATCGAAACACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
45542088 AT
1 AT
45542090 TACTGTTATA
Statistics
Matches: 155, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 21 0.14
27 134 0.86
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:45542031 original size:107 final size:108
Alignment explanation
Indices: 45541880--45542094 Score: 252
Period size: 107 Copynumber: 2.0 Consensus size: 108
45541870 ATTATGACCA
* * * * * * *
45541880 AAATACCTCCATACGGTAGAATTACCGAAATATCCCTATAGGGTAAAATGATCGAAATACCCCTA
1 AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
* *
45541945 TAA-GAAAAATGACCAAAATACCCCTACAGGGTAAAATGACTG
66 TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
* ** * *
45541987 AAATACCCCCATAGGGTAGAATGATTGAAATACCCCCACAGGGTAGAATGACCGAAGTACCCCCA
1 AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
* * * * *
45542052 TAAGGTAAAATGATCGAAACACCCCCATAGGGTAAAATTACTG
66 TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
45542095 TTATATCCCT
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
107 56 0.64
108 32 0.36
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (108 bp):
AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
Found at i:45547628 original size:27 final size:26
Alignment explanation
Indices: 45547597--45547649 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
45547587 CTATTATGAA
45547597 CATATAGGAAAATGGAAGCCTTTGTGG
1 CATATAGG-AAATGGAAGCCTTTGTGG
**
45547624 CATATCTGAAATGGAAGCCTTTGTGG
1 CATATAGGAAATGGAAGCCTTTGTGG
45547650 TAAATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (26 bp):
CATATAGGAAATGGAAGCCTTTGTGG
Found at i:45549844 original size:22 final size:22
Alignment explanation
Indices: 45549812--45549867 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
45549802 TACTTGTCAC
*
45549812 TATGCTACAACACGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
*
45549834 TATGCTGCAACATGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
* *
45549856 GATGCCGCAACA
1 TATGCTGCAACA
45549868 TAGGGAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (22 bp):
TATGCTGCAACACGGAGGGTTG
Found at i:45563355 original size:19 final size:19
Alignment explanation
Indices: 45563331--45563374 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45563321 AGGGATCAAA
* *
45563331 TTGAGACAAATCA-GAAATT
1 TTGAGA-AAAACATGAAAAT
45563350 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
45563369 TTGAGA
1 TTGAGA
45563375 TGCAGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:45564532 original size:40 final size:40
Alignment explanation
Indices: 45564477--45564637 Score: 216
Period size: 40 Copynumber: 4.0 Consensus size: 40
45564467 GAGGTACCAC
45564477 AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
* * * * *
45564517 AGTACAAAAAGGGGCACGTATGAGGATTCAAGGTTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
* *
45564557 AGTACAAAAAGGGGCACGTATGTGC-TTTCAAGGGTACCGA
1 AGTACAAAAAGGGGCACATATGTGCATTT-AAGGGTATCGA
* * *
45564597 AGTACAAACAGGGGCACATATGGGCATTTAGGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
45564637 A
1 A
45564638 ATAAGTCTCA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (40 bp):
AGTACAAAAAGGGGCACATATGTGCATTTAAGGGTATCGA
Found at i:45565415 original size:22 final size:21
Alignment explanation
Indices: 45565386--45565428 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
45565376 GATGACAAAT
* *
45565386 TTTATTTTGTTATTATTTTAC
1 TTTATTTTATTATTAATTTAC
45565407 TTTACTTTTATTATTAATTTAC
1 TTTA-TTTTATTATTAATTTAC
45565429 AATTATACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTATTAATTTAC
Found at i:45567777 original size:5 final size:5
Alignment explanation
Indices: 45567767--45567791 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45567757 CTTAGTAATT
45567767 ATTGA ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA ATTGA ATTGA
45567792 TAGTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATTGA
Found at i:45568978 original size:20 final size:20
Alignment explanation
Indices: 45568931--45569026 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
45568921 TTGTATGGGA
45568931 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
45568951 TATACACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
45568971 TTTGCACTAT-AGTGCCTCTA
1 TTTGCACT-TCGGTGCCTCTG
* *
45568991 CTTGCACATTC-GTGCCTTTG
1 TTTGCAC-TTCGGTGCCTCTG
* *
45569011 TATGCACTTTGGTGCC
1 TTTGCACTTCGGTGCC
45569027 CCTATTATGC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.03
20 56 0.93
21 2 0.03
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:45569025 original size:60 final size:62
Alignment explanation
Indices: 45568932--45569052 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 62
45568922 TGTATGGGAT
* *
45568932 TTGCACTTCGGTGCCTCTGTATACACTTCGGTGCCTCTGTT-TGCA-CTAT-AGTGCCTCTAC
1 TTGCACTTCGGTGCCTCTGTATACACTTCGGTGCCCCTATTATGCATCTATGA-TGCCTCTAC
* * *
45568992 TTGCACATTC-GTGCCTTTGTATGCACTTTGGTGCCCCTATTATGCATCTATGATGCCTCTA
1 TTGCAC-TTCGGTGCCTCTGTATACACTTCGGTGCCCCTATTATGCATCTATGATGCCTCTA
45569053 GTGTAGTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
60 32 0.62
61 7 0.13
62 12 0.23
63 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (62 bp):
TTGCACTTCGGTGCCTCTGTATACACTTCGGTGCCCCTATTATGCATCTATGATGCCTCTAC
Found at i:45570021 original size:20 final size:20
Alignment explanation
Indices: 45569974--45570027 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
45569964 AATTTTAATC
*
45569974 AAGTATCGATACACATATATA
1 AAGTATCGATAC-CATAAATA
*
45569995 AAGTATCGATACCATAAATT
1 AAGTATCGATACCATAAATA
*
45570015 AATTATCGATACC
1 AAGTATCGATACC
45570028 CCTATTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (20 bp):
AAGTATCGATACCATAAATA
Found at i:45572767 original size:42 final size:41
Alignment explanation
Indices: 45572711--45572942 Score: 200
Period size: 43 Copynumber: 5.5 Consensus size: 41
45572701 CATTGAATAA
*
45572711 AAAGGGGTTGCTAAGTG-TGGATTCCCCGAATTATTGACTTT
1 AAAGGGGTTGCTAAGTGCT-GATTCCCCGTATTATTGACTTT
* *
45572752 AAAGGTGGTTGCTAAGTGCTGATTCAACCGTATCT-TTGACTGTC
1 AAAGG-GGTTGCTAAGTGCTGATTC-CCCGTAT-TATTGACT-TT
* * * * *
45572796 AACGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
* * * *
45572837 AAAGGTGGTTGCTAAGTGCTGAATCCACCGTATTTTTTACTGTG
1 AAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATTATTGACT-TT
* * * * *
45572881 AAAGGGGCTGCTATGTGCTGATTCCCCGTATCACTGAATTT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
*
45572922 -AAGTTGGTTGCTAAGTGCTGA
1 AAAG-GGGTTGCTAAGTGCTGA
45572943 ATCCACCGAG
Statistics
Matches: 150, Mismatches: 31, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 25 0.17
42 54 0.36
43 57 0.38
44 11 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (41 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
Found at i:45572857 original size:85 final size:84
Alignment explanation
Indices: 45572711--45572950 Score: 311
Period size: 85 Copynumber: 2.8 Consensus size: 84
45572701 CATTGAATAA
* * * * *
45572711 AAAGGGGTTGCTAAGTG-TGGATTCCCCGAATTATTGACTTTAAAGGTGGTTGCTAAGTGCTGAT
1 AAAGGGGTTGCTATGTGCT-GATTCCCCGTATTACTGA-ATTAAAGGTGGTTGCTAAGTGCTGAA
45572775 TCAACCGTATCTTTGACTGTC
64 TCAACCGTATCTTTGACTGTC
*
45572796 AACGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATATAAAGGTGGTTGCTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAAT-TAAAGGTGGTTGCTAAGTGCTGAAT
* * * *
45572861 CCACCGTATTTTTTACTGTG
65 CAACCGTATCTTTGACTGTC
* * * *
45572881 AAAGGGGCTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGTTGGTTGCTAAGTGCTGAATC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGAATC
*
45572946 CACCG
66 AACCG
45572951 AGTAACGAAT
Statistics
Matches: 138, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
84 30 0.22
85 107 0.78
86 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGAATC
AACCGTATCTTTGACTGTC
Found at i:45580130 original size:14 final size:13
Alignment explanation
Indices: 45580097--45580163 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 13
45580087 TAAACACTAG
45580097 AAAATAAATCACA-A
1 AAAATAAAT-A-ATA
45580111 AAAATAAATAATA
1 AAAATAAATAATA
*
45580124 AAGAATAAAAAATTA
1 AA-AATAAATAA-TA
45580139 ATTAAATAAA-AATA
1 A--AAATAAATAATA
45580153 AAAATAAATAA
1 AAAATAAATAA
45580164 ACCAAATTGC
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 20 0.43
15 5 0.11
16 6 0.13
17 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (13 bp):
AAAATAAATAATA
Found at i:45585431 original size:40 final size:40
Alignment explanation
Indices: 45585330--45585470 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 40
45585320 TAGCGGCGTT
** *
45585330 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAGTGGCGTT
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCG-C
* * *
45585371 TATGAGAAAAATGCCGCAAAAAGTCAAGCATTAACGGCGC
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCGC
45585411 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACAGG-GC
1 TATGAGAAAAACGCCACAAAAGGTCAAGCATTAAC-GGCGC
*
45585451 TATGAGAAAAATGCCACAAA
1 TATGAGAAAAACGCCACAAA
45585471 GTATCATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 53 0.60
41 36 0.40
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (40 bp):
TATGAGAAAAACGCCACAAAAGGTCAAGCATTAACGGCGC
Found at i:45585579 original size:21 final size:21
Alignment explanation
Indices: 45585555--45585598 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45585545 CCCTATCTTT
45585555 TCCCTAAAAATT-TTCCCCAAA
1 TCCCT-AAAATTATTCCCCAAA
*
45585576 TCCCTAAATTTATTCCCCAAA
1 TCCCTAAAATTATTCCCCAAA
45585597 TC
1 TC
45585599 AAAATCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (21 bp):
TCCCTAAAATTATTCCCCAAA
Found at i:45596268 original size:22 final size:22
Alignment explanation
Indices: 45596243--45596286 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45596233 TGTGCTGCTG
*
45596243 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
45596265 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
45596287 ATTATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:45597736 original size:21 final size:21
Alignment explanation
Indices: 45597712--45597753 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
45597702 CACTATATGA
45597712 ACTC-GTAATTTTTCTATTTAT
1 ACTCTGTAATTTTTCT-TTTAT
* *
45597733 ACTCTTTTATTTTTCTTTTAT
1 ACTCTGTAATTTTTCTTTTAT
45597754 TTTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.64
Consensus pattern (21 bp):
ACTCTGTAATTTTTCTTTTAT
Found at i:45602264 original size:9 final size:9
Alignment explanation
Indices: 45602252--45602321 Score: 74
Period size: 9 Copynumber: 8.0 Consensus size: 9
45602242 TATATCATAT
45602252 CATAACTTA
1 CATAACTTA
45602261 CATAACTTA
1 CATAACTTA
45602270 CATAACTTA
1 CATAACTTA
45602279 CATAA--TA
1 CATAACTTA
*
45602286 CATAA-ATA
1 CATAACTTA
* * *
45602294 TATATCATA
1 CATAACTTA
45602303 TCATAACTTA
1 -CATAACTTA
45602313 CATAACTTA
1 CATAACTTA
45602322 ATCATACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
7 7 0.13
8 5 0.09
9 35 0.66
10 6 0.11
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:45602425 original size:10 final size:10
Alignment explanation
Indices: 45602410--45602434 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45602400 CAATGACATG
45602410 ATTTAAATCA
1 ATTTAAATCA
45602420 ATTTAAATCA
1 ATTTAAATCA
45602430 ATTTA
1 ATTTA
45602435 GTACAAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTAAATCA
Found at i:45603894 original size:43 final size:43
Alignment explanation
Indices: 45603846--45604024 Score: 223
Period size: 43 Copynumber: 4.2 Consensus size: 43
45603836 AGAACATGAC
* * *
45603846 CTTTAGCAGCGTTTGTGGGGAAAGTGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * * *
45603889 CTTTAGTGGTGTTTGTGGGGAAAGCGCCACTAAAGATCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * *
45603932 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATATT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
* * * *
45603975 CTGTAGCGGCGCTTGTGGGGAAAGCGCTGTTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
*
45604018 CTATAGC
1 CTTTAGC
45604025 AGCATTTTTC
Statistics
Matches: 114, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTT
Found at i:45605431 original size:17 final size:18
Alignment explanation
Indices: 45605409--45605442 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45605399 AGTTATTTGG
*
45605409 ATTGTGGTTT-GGGTTTC
1 ATTGTGCTTTAGGGTTTC
45605426 ATTGTGCTTTAGGGTTT
1 ATTGTGCTTTAGGGTTT
45605443 TCATGCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.06, G:0.32, T:0.53
Consensus pattern (18 bp):
ATTGTGCTTTAGGGTTTC
Found at i:45606082 original size:21 final size:19
Alignment explanation
Indices: 45606050--45606088 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
45606040 AAAAATTATA
*
45606050 AATAAAAATAAATAATAAT
1 AATAAAAATAAAGAATAAT
45606069 AATAATAACATAAAGAATAA
1 AATAA-AA-ATAAAGAATAA
45606089 CCTACACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (19 bp):
AATAAAAATAAAGAATAAT
Found at i:45606410 original size:20 final size:20
Alignment explanation
Indices: 45606374--45606412 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45606364 TCAAAGAAAT
*
45606374 ATATAAAATATATTTTAAAA
1 ATATAAAATATAATTTAAAA
45606394 ATATAATAATA-AATTTAAA
1 ATATAA-AATATAATTTAAA
45606413 TTTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAATATAATTTAAAA
Found at i:45610388 original size:31 final size:31
Alignment explanation
Indices: 45610353--45610434 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 31
45610343 CTAATTTTTA
*
45610353 ATTTTTATTTTTAAAATT-AT-ATATCTTTG
1 ATTTTTATTTATAAAATTAATCATATCTTTG
* *
45610382 ACATTTTAGTTTATATAATTAATCATATCTTTG
1 A-TTTTTA-TTTATAAAATTAATCATATCTTTG
45610415 ATTTTTATTTAAATAAAATT
1 ATTTTTATTT--ATAAAATT
45610435 TAATGAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 12 0.29
32 7 0.17
33 17 0.40
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (31 bp):
ATTTTTATTTATAAAATTAATCATATCTTTG
Found at i:45610532 original size:13 final size:13
Alignment explanation
Indices: 45610516--45610542 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45610506 AAAATTTATC
45610516 TAATAAATAAATA
1 TAATAAATAAATA
45610529 TAATAAATAAATA
1 TAATAAATAAATA
45610542 T
1 T
45610543 TTATGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAAATAAATA
Found at i:45611741 original size:18 final size:20
Alignment explanation
Indices: 45611707--45611745 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
45611697 TGTTTAGTTA
45611707 TTTGTTTTTAGTTTAATTTT
1 TTTGTTTTTAGTTTAATTTT
45611727 TTTG-TTTTA-TTTAATTTT
1 TTTGTTTTTAGTTTAATTTT
45611745 T
1 T
45611746 CACATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTGTTTTTAGTTTAATTTT
Found at i:45616152 original size:159 final size:159
Alignment explanation
Indices: 45615947--45616341 Score: 763
Period size: 159 Copynumber: 2.5 Consensus size: 159
45615937 TTCATTTTTA
45615947 AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
1 AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
45616012 GGCATCTTGTAAATCAGCAAAAGAATAAGAATTTAAATTAGATAAGTTAGAAGTTACCTAAGAGT
66 GGCATCTTGTAAATCAGCAAAAGAATAAGAATTTAAATTAGATAAGTTAGAAGTTACCTAAGAGT
45616077 TAATTGTTTTCATCTTTAAGTTTTTAAAT
131 TAATTGTTTTCATCTTTAAGTTTTTAAAT
45616106 AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
1 AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
45616171 GGCATCTTGTAAATCAGCAAAAGAATAAGAATTTAAATTAGATAAGTTAGAAGTTACCTAAGAGT
66 GGCATCTTGTAAATCAGCAAAAGAATAAGAATTTAAATTAGATAAGTTAGAAGTTACCTAAGAGT
45616236 TAATTGTTTTCATCTTTAAGTTTTTAAAT
131 TAATTGTTTTCATCTTTAAGTTTTTAAAT
*
45616265 AGTTTTTAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
1 AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
**
45616330 GAAATCTTGTAA
66 GGCATCTTGTAA
45616342 TCATTAAAAG
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 233 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (159 bp):
AGTTTTGAAATAGTTTCTTTATATTTTGAAACCATTAATTCAAACTCCAAACCCAATTCATCATA
GGCATCTTGTAAATCAGCAAAAGAATAAGAATTTAAATTAGATAAGTTAGAAGTTACCTAAGAGT
TAATTGTTTTCATCTTTAAGTTTTTAAAT
Found at i:45616270 original size:11 final size:11
Alignment explanation
Indices: 45616254--45616280 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45616244 TTCATCTTTA
45616254 AGTTTTTAAAT
1 AGTTTTTAAAT
45616265 AGTTTTTAAAT
1 AGTTTTTAAAT
45616276 AGTTT
1 AGTTT
45616281 CTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (11 bp):
AGTTTTTAAAT
Found at i:45618580 original size:11 final size:11
Alignment explanation
Indices: 45618523--45618590 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 11
45618513 TAGGAATAGA
45618523 AAAATAAAAAT
1 AAAATAAAAAT
45618534 AAATGATAAACAAGT
1 AAA--ATAAA-AA-T
45618549 AAGAATAATAAA-
1 AA-AATAA-AAAT
*
45618561 CAAAT--AAAT
1 AAAATAAAAAT
45618570 AAAATAAAAAT
1 AAAATAAAAAT
45618581 AAAATAAAAA
1 AAAATAAAAA
45618591 CAAAGAATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
11 20 0.43
12 1 0.02
13 5 0.11
14 8 0.17
15 4 0.09
16 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:45618590 original size:17 final size:18
Alignment explanation
Indices: 45618525--45618589 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 18
45618515 GGAATAGAAA
45618525 AATAAAAATAAATGATAAAC
1 AATAAAAATAAA--ATAAAC
*
45618545 AAGTAAGAAT--AATAAAC
1 AA-TAAAAATAAAATAAAC
*
45618562 AA-ATAAATAAAATAAA-
1 AATAAAAATAAAATAAAC
45618578 AAT-AAAATAAAA
1 AATAAAAATAAAA
45618590 ACAAAGAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
15 4 0.11
16 10 0.27
17 14 0.38
19 1 0.03
20 2 0.05
21 6 0.16
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (18 bp):
AATAAAAATAAAATAAAC
Found at i:45619186 original size:20 final size:20
Alignment explanation
Indices: 45619156--45619222 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
45619146 CTTTGTTTCT
*
45619156 CTCACGACCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
*
45619176 CTCACTCCCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
45619196 CTCACGCCCGTGTGAACTCC
1 CTCACGCCCGTGTGAACTCC
*
45619216 CACACGC
1 CTCACGC
45619223 TCGTATGGCT
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:0.18, C:0.45, G:0.18, T:0.19
Consensus pattern (20 bp):
CTCACGCCCGTGTGAACTCC
Found at i:45623609 original size:30 final size:30
Alignment explanation
Indices: 45623552--45623611 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
45623542 GCATATGGTC
** *
45623552 AGCCCGTGTGGTTCACACGGGCGTGTGGCT
1 AGCCCGTGTGGTTCACACAAGCATGTGGCT
*
45623582 AGCCCGTGTGGTTCGCACAAGCATGTGGCT
1 AGCCCGTGTGGTTCACACAAGCATGTGGCT
45623612 GCTGAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.27, G:0.37, T:0.23
Consensus pattern (30 bp):
AGCCCGTGTGGTTCACACAAGCATGTGGCT
Found at i:45628033 original size:19 final size:19
Alignment explanation
Indices: 45628011--45628050 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45628001 TATTCAAAAG
45628011 CACCATTTTTTTATGATTT
1 CACCATTTTTTTATGATTT
45628030 CACCATTTTTTTATGATTT
1 CACCATTTTTTTATGATTT
45628049 CA
1 CA
45628051 GTTTCATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (19 bp):
CACCATTTTTTTATGATTT
Found at i:45630076 original size:22 final size:22
Alignment explanation
Indices: 45630042--45630107 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
45630032 ATTTGAAAAA
* *
45630042 TATACTTTAATATTAATATTTT
1 TATATTTTTATATTAATATTTT
45630064 TATATTTTTATATTAAT-TTTT
1 TATATTTTTATATTAATATTTT
*
45630085 TATCTATTTTTATAATAA-ATTTT
1 TA--TATTTTTATATTAATATTTT
45630108 AAATAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 6 0.16
22 15 0.39
23 17 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTTTATATTAATATTTT
Found at i:45631906 original size:62 final size:62
Alignment explanation
Indices: 45631780--45631908 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 62
45631770 ATCCCTGACT
* * * * * * * *
45631780 GTGTGGTGTTATACCATAAATAGTGAGTTAAACGGCCAAGGCACACGCCCGTGTTCCTGGCC
1 GTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTCCCCGCCC
* * * *
45631842 GTGTGGTCTTATACTACAAACAGTGAGTTACACGACCCAGACACACGCCCTTGTCCCCGCCC
1 GTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTCCCCGCCC
45631904 GTGTG
1 GTGTG
45631909 ACCCCAAATA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (62 bp):
GTGTGGTCTTATACCACAAACAGTGAGTTAAACGACCAAGACACACGCCCGTGTCCCCGCCC
Found at i:45632560 original size:28 final size:30
Alignment explanation
Indices: 45632507--45632562 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
45632497 AGAGTCAAAG
*
45632507 AAGTAAAACAAAGAAAGAAAAGAAGAAAAA
1 AAGTAAAACAAAAAAAGAAAAGAAGAAAAA
45632537 AAGTAAAA-AAAAAAAG-AAAGAAGAAA
1 AAGTAAAACAAAAAAAGAAAAGAAGAAA
45632563 GAAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 10 0.40
29 7 0.28
30 8 0.32
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (30 bp):
AAGTAAAACAAAAAAAGAAAAGAAGAAAAA
Found at i:45633613 original size:18 final size:19
Alignment explanation
Indices: 45633579--45633618 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
45633569 TCCAAATTAA
45633579 TAAATTTATTAAACT-AAT
1 TAAATTTATTAAACTAAAT
45633597 TAAATTT-TTAAACCTAAAT
1 TAAATTTATTAAA-CTAAAT
45633616 TAA
1 TAA
45633619 CCTAAGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTATTAAACTAAAT
Found at i:45636483 original size:51 final size:51
Alignment explanation
Indices: 45636428--45636625 Score: 222
Period size: 51 Copynumber: 3.9 Consensus size: 51
45636418 ATGTGAAAGT
* *
45636428 GAAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
* *
45636479 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG
1 GAAAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
* * ** ** * *
45636529 GATAGCTTA-AATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
1 GAAAG-TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
* * *
45636580 GATAGTGTTGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
45636626 ATTCGGTATC
Statistics
Matches: 120, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 3 0.03
50 42 0.35
51 74 0.62
53 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
Found at i:45638837 original size:31 final size:32
Alignment explanation
Indices: 45638799--45638872 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
45638789 ATACAATAAT
*
45638799 ATAAAATAAAATCCTAAAAA-AT-CAACCAAAA
1 ATAAAATAAAATCCTAAAAATATAAAACC-AAA
* *
45638830 ATAAAAT-AAGTCTTAAAAATATAAAACCAAA
1 ATAAAATAAAATCCTAAAAATATAAAACCAAA
45638861 ATAAAATTAAAA
1 ATAAAA-TAAAA
45638873 ATGTTCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.29
31 18 0.51
32 5 0.14
33 2 0.06
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.20
Consensus pattern (32 bp):
ATAAAATAAAATCCTAAAAATATAAAACCAAA
Found at i:45648241 original size:32 final size:32
Alignment explanation
Indices: 45648205--45648279 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
45648195 TACAATATAT
*
45648205 ATAAAATAAAATCCTAAAAAAAT-CAACCAAAA
1 ATAAAATAAAATCCTAAAAAAATAAAACC-AAA
* * *
45648237 ATAAAAT-AAGTCTTAAAAATATAAAACCAAA
1 ATAAAATAAAATCCTAAAAAAATAAAACCAAA
45648268 ATAAAATTAAAA
1 ATAAAA-TAAAA
45648280 ATGTTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 21 0.60
32 12 0.34
33 2 0.06
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.20
Consensus pattern (32 bp):
ATAAAATAAAATCCTAAAAAAATAAAACCAAA
Found at i:45648531 original size:18 final size:17
Alignment explanation
Indices: 45648489--45648532 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
45648479 GGTCTCCTCC
45648489 TCCTCCTCCTCCTCATCA
1 TCCTCCT-CTCCTCATCA
* *
45648507 TCATCCTCTCCTTCATCG
1 TCCTCCTCTCC-TCATCA
45648525 TCCTCCTC
1 TCCTCCTC
45648533 GTCTAGTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.09, C:0.52, G:0.02, T:0.36
Consensus pattern (17 bp):
TCCTCCTCTCCTCATCA
Found at i:45651213 original size:50 final size:50
Alignment explanation
Indices: 45651107--45651398 Score: 291
Period size: 50 Copynumber: 5.7 Consensus size: 50
45651097 GGAAATAAGA
* *
45651107 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGGGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-GATGAGAGG
* * *
45651163 TCCCATGTAAGACCATTTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
45651213 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
45651263 TCCCCCGTAAGACAATGTCTGGGACATCGCATAGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * *
45651313 TCCCATGTAAGACCATATCTGGGATATGACATTGGTA--GTACAAGAAACG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
45651362 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45651399 TGTTATTATC
Statistics
Matches: 199, Mismatches: 36, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 124 0.62
51 2 0.01
55 1 0.01
56 34 0.17
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:45653141 original size:16 final size:17
Alignment explanation
Indices: 45653122--45653157 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
45653112 AAAGCACAAA
45653122 AAATAAAATTT-AAAAT
1 AAATAAAATTTAAAAAT
45653138 AAATAAAATTTAAAAAT
1 AAATAAAATTTAAAAAT
45653155 AAA
1 AAA
45653158 GTCAGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAAAATTTAAAAAT
Found at i:45654495 original size:10 final size:10
Alignment explanation
Indices: 45654449--45654495 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45654439 AACATGTTGG
45654449 ATTTTTATTA
1 ATTTTTATTA
45654459 ATTTTATAATTA
1 ATTTT-T-ATTA
**
45654471 ATTTTGGTTA
1 ATTTTTATTA
45654481 ATTTTTATT-
1 ATTTTTATTA
45654490 ATTTTT
1 ATTTTT
45654496 GATAGATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 15 0.48
11 1 0.03
12 9 0.29
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:45655342 original size:19 final size:19
Alignment explanation
Indices: 45655318--45655371 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
45655308 AATCTTCAAG
45655318 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
45655337 GATATGTAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
45655356 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45655372 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45655347 original size:36 final size:34
Alignment explanation
Indices: 45655307--45655378 Score: 83
Period size: 38 Copynumber: 2.0 Consensus size: 34
45655297 TATGGAAACA
45655307 TAATCTTCA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTT-ATAGGATATGCAATCTTAGA-A-GATATG
*
45655343 TAATCTTAGTTATGATATGCAATCTTAGAAGATATG
1 TAATCTTA--TAGGATATGCAATCTTAGAAGATATG
45655379 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 1 0.03
36 13 0.41
37 1 0.03
38 17 0.53
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (34 bp):
TAATCTTATAGGATATGCAATCTTAGAAGATATG
Found at i:45655622 original size:23 final size:23
Alignment explanation
Indices: 45655578--45655622 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
45655568 TCTTATTTTG
* *
45655578 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
45655601 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
45655623 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:45655844 original size:3 final size:3
Alignment explanation
Indices: 45655838--45655881 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
45655828 TGACATCATC
* * * *
45655838 ATT ATT ATT ATT ATT ATT GTT ATT ATT TTT ATT TTT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45655882 ATTCATGCGC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (3 bp):
ATT
Found at i:45661833 original size:25 final size:26
Alignment explanation
Indices: 45661805--45661863 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
45661795 CTGAAACACG
*
45661805 GTAAGCTCAT-ACGAGCTGAGAATTA
1 GTAAGCTCATCACGAGCTGAAAATTA
* *
45661830 GTAAGCTC-TCATGAGCTGAAAATTG
1 GTAAGCTCATCACGAGCTGAAAATTA
45661855 GTAAGCTCA
1 GTAAGCTCA
45661864 AACAAGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (26 bp):
GTAAGCTCATCACGAGCTGAAAATTA
Found at i:45663679 original size:54 final size:54
Alignment explanation
Indices: 45663603--45663763 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
45663593 AAGAGAAGAA
* * * * *
45663603 TGGTAAATATGGAAAACCCTGAAAGAATGATATGTATGGCTAACT-TAGAAGGGC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCT-GAAGGAC
* * *
45663657 TGGTAGATATGGTAAACTCTGAAAGAATAAAATGCGTGGCTAACTCTGAAGGAC
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCTGAAGGAC
* * * * * *
45663711 TGGTTGATATGGTAAACTTTGAGAGAACGATATGTGTGGCGAACTCCGAAGGA
1 TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCTGAAGGA
45663764 ACAGTTTCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 88 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (54 bp):
TGGTAGATATGGTAAACTCTGAAAGAATGATATGTGTGGCTAACTCTGAAGGAC
Found at i:45665424 original size:12 final size:13
Alignment explanation
Indices: 45665394--45665428 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
45665384 TTAATCGGCC
45665394 ATCGATTGAATTAG
1 ATCGATT-AATTAG
45665408 ATCGATTAATT-G
1 ATCGATTAATTAG
45665420 ATCGATTAA
1 ATCGATTAA
45665429 CCAAATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 4 0.19
14 7 0.33
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (13 bp):
ATCGATTAATTAG
Done.