Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 67 of 433
Found at i:19328284 original size:13 final size:13
Alignment explanation
Indices: 19328266--19328290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19328256 TGTTACATCA
19328266 AGTATATTAATTC
1 AGTATATTAATTC
19328279 AGTATATTAATT
1 AGTATATTAATT
19328291 TAGTTGTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AGTATATTAATTC
Found at i:19328448 original size:24 final size:24
Alignment explanation
Indices: 19328420--19328468 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
19328410 CCAAAACAAC
19328420 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
*
19328444 AATTAATTTTTGTATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
19328468 A
1 A
19328469 TAAATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:19329140 original size:41 final size:41
Alignment explanation
Indices: 19329066--19329265 Score: 298
Period size: 41 Copynumber: 4.9 Consensus size: 41
19329056 GGCGTTTTAC
*
19329066 CAAAAGCGCCGC-GATGCTCTGGTCTTTAGCGGCGTTTCGA
1 CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGA
* * *
19329106 CAAAAGTGCCGCTAATGGTCTGGTCTTTAGCGGCGTTTCGC
1 CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGA
* *
19329147 CAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTTCGC
1 CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGA
*
19329188 CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT-TA
1 CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGA
*
19329228 CCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTT
1 -CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
19329266 ATGTCAGTTT
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 26 0.18
41 121 0.82
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (41 bp):
CAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTCGA
Found at i:19329186 original size:82 final size:82
Alignment explanation
Indices: 19329050--19329265 Score: 337
Period size: 82 Copynumber: 2.7 Consensus size: 82
19329040 TTATATGACT
* * * *
19329050 TTTAGTGGCGTTTTACCAAAAGCGCCGC-GATGCTCTGGTCTTTAGCGGCGTTTCGACAAAAGTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTTCGACAAAAGCG
*
19329114 CCGCTAATGGTCTGGTC
66 CCGCTAATGCTCTGGTC
** *
19329131 TTTAGCGGCGTTTCGCCAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTTCGCCAAAAGCG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTTCGACAAAAGCG
19329196 CCGCTAATGCTCTGGTC
66 CCGCTAATGCTCTGGTC
*
19329213 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTT
19329266 ATGTCAGTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
81 40 0.33
82 83 0.67
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (82 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTATTTAGCGGCGTTTCGACAAAAGCG
CCGCTAATGCTCTGGTC
Found at i:19329613 original size:3 final size:3
Alignment explanation
Indices: 19329607--19329637 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19329597 CAAAAGTAGT
19329607 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19329638 ACTATTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19332712 original size:80 final size:80
Alignment explanation
Indices: 19332628--19332776 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
19332618 TATGGTAACC
* * * *
19332628 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
19332692 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
19332708 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
19332773 CCGG
66 CCGG
19332777 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:19332718 original size:40 final size:38
Alignment explanation
Indices: 19332669--19332776 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
19332659 ATCACGATTT
*
19332669 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
19332709 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
19332749 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
19332777 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:19334886 original size:28 final size:30
Alignment explanation
Indices: 19334847--19334916 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
19334837 ATAAATATTA
*
19334847 AATT-TATACATG-AACTTTGA-TTGGTGC
1 AATTATATACATGAAACTTTGATTTGATGC
*
19334874 AATTATATACATGAAACTTTGATTTTGATTC
1 AATTATATACATGAAACTTTGA-TTTGATGC
19334905 AATTATATACAT
1 AATTATATACAT
19334917 ATATTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 4 0.11
28 8 0.22
29 8 0.22
31 17 0.46
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (30 bp):
AATTATATACATGAAACTTTGATTTGATGC
Found at i:19336213 original size:20 final size:20
Alignment explanation
Indices: 19336156--19336207 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
19336146 GGAAATATTA
*
19336156 TAAAATCTATCTAAATTATTTTT
1 TAAAATCTATCT---TTACTTTT
19336179 TAAAATCTATCTTTACTTTT
1 TAAAATCTATCTTTACTTTT
19336199 TAAAA-CTAT
1 TAAAATCTAT
19336208 GTTTTAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
23 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATCTATCTTTACTTTT
Found at i:19336382 original size:8 final size:9
Alignment explanation
Indices: 19336355--19336392 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
19336345 TTTAAACAAA
19336355 TTTATTATT
1 TTTATTATT
19336364 TTTAATTATT
1 TTT-ATTATT
19336374 TTT-TTATT
1 TTTATTATT
*
19336382 TTTATAATT
1 TTTATTATT
19336391 TT
1 TT
19336393 GCGAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTATT
Found at i:19336427 original size:17 final size:18
Alignment explanation
Indices: 19336396--19336431 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19336386 TAATTTTGCG
*
19336396 AAAAAAATATGTAATTTT
1 AAAAAAATATATAATTTT
19336414 AAAAAAAT-TATAATTTT
1 AAAAAAATATATAATTTT
19336431 A
1 A
19336432 CCTAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAAAATATATAATTTT
Found at i:19343870 original size:30 final size:30
Alignment explanation
Indices: 19343812--19343870 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
19343802 TTTACGAGCT
* * **
19343812 TAGGGGTAAAATTGTAATTTTGTGAAAGTC
1 TAGGGGTAAAATGGTAATTTGGCCAAAGTC
*
19343842 TAGGGGTAAAATGGTCATTTGGCCAAAGT
1 TAGGGGTAAAATGGTAATTTGGCCAAAGT
19343871 ATAAATTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (30 bp):
TAGGGGTAAAATGGTAATTTGGCCAAAGTC
Found at i:19344220 original size:2 final size:2
Alignment explanation
Indices: 19344213--19344254 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
19344203 GAAATAGGTG
19344213 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19344255 GTTTAAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19349278 original size:2 final size:2
Alignment explanation
Indices: 19349271--19349315 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
19349261 CTTGGGGAAC
19349271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19349313 AT A
1 AT A
19349316 ACACTCCACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19352347 original size:17 final size:18
Alignment explanation
Indices: 19352322--19352365 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
19352312 TTGAAAAGAT
*
19352322 AAAAGTAAATAAAT-AAC
1 AAAAATAAATAAATAAAC
* *
19352339 AAAAATAAATCAATAAAG
1 AAAAATAAATAAATAAAC
19352357 AAAAATAAA
1 AAAAATAAA
19352366 CCTCGGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAATAAAC
Found at i:19352360 original size:18 final size:18
Alignment explanation
Indices: 19352316--19352365 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
19352306 AATAAGTTGA
19352316 AAAGATAAAAGTAAATAAAT
1 AAAGA-AAAA-TAAATAAAT
* *
19352336 -AACAAAAATAAATCAAT
1 AAAGAAAAATAAATAAAT
19352353 AAAGAAAAATAAA
1 AAAGAAAAATAAA
19352366 CCTCGGGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 15 0.58
19 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (18 bp):
AAAGAAAAATAAATAAAT
Found at i:19354401 original size:40 final size:39
Alignment explanation
Indices: 19354341--19354559 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 39
19354331 TATTCGAATG
* *
19354341 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
19354381 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
19354421 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCG-GCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
19354461 ATATCCAGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * **
19354501 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
19354540 ATATCCGGCTAA-ATCCGAAG
1 ATATCCGGCTAAGATCCGAAG
19354560 ATAGTTGGGT
Statistics
Matches: 150, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
37 7 0.05
38 6 0.04
39 18 0.12
40 114 0.76
41 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:19354474 original size:80 final size:78
Alignment explanation
Indices: 19354341--19354559 Score: 264
Period size: 80 Copynumber: 2.8 Consensus size: 78
19354331 TATTCGAATG
* * *
19354341 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGG-CTAAGATCCGAAGGCA
* *
19354406 TTTGTGCGAGTTG-CT
64 TTTATGCGAG-TGACC
* *
19354421 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCAGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGAT-CCGAAGGC
*
19354485 ATTTATGCTAGTGACC
63 ATTTATGCGAGTGACC
* * *
19354501 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCCGGCTAA-ATCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCGAAG
19354560 ATAGTTGGGT
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
77 6 0.05
78 7 0.06
79 20 0.17
80 86 0.71
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCGAAGGCATT
TATGCGAGTGACC
Found at i:19362240 original size:36 final size:35
Alignment explanation
Indices: 19362200--19362267 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
19362190 TCTAAAAATG
19362200 ATATTATTTTAATAGT-TTAATATTAAATTTAATTTA
1 ATATTATTTTAATAGTATT-ATATT-AATTTAATTTA
*
19362236 ATATTATTTTAATAGTATTTTATTAATTTAAT
1 ATATTATTTTAATAGTATTATATTAATTTAAT
19362268 ATTGAAGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 8 0.27
36 20 0.67
37 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
ATATTATTTTAATAGTATTATATTAATTTAATTTA
Found at i:19362270 original size:11 final size:11
Alignment explanation
Indices: 19362200--19362270 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
19362190 TCTAAAAATG
*
19362200 ATATTATTTTA
1 ATATTAATTTA
19362211 ATAGTTTAATATTA
1 ATA--TTAAT-TTA
19362225 A-ATTTAATTTA
1 ATA-TTAATTTA
*
19362236 ATATTATTTTA
1 ATATTAATTTA
*
19362247 ATAGT-ATTT-
1 ATATTAATTTA
19362256 -TATTAATTTA
1 ATATTAATTTA
19362266 ATATT
1 ATATT
19362271 GAAGTGATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 22 0.46
12 7 0.15
13 5 0.10
14 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
ATATTAATTTA
Found at i:19362359 original size:62 final size:59
Alignment explanation
Indices: 19362283--19362399 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
19362273 AGTGATTATC
* ** * *
19362283 TTAATATTAAATTTAATTTAATGTTTATTTTGTAGATAAACATTATATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAACATTTA-TCT-T-GATAAACATTATATTAATTTAATAAGAT
* *
19362345 TTAATATTATATTTAATCTAACATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAACATTTATCTTGATAAACATTATATTAATTTAATA
19362400 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 22 0.46
60 1 0.02
61 2 0.04
62 23 0.48
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAACATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:19368838 original size:22 final size:22
Alignment explanation
Indices: 19368816--19368864 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
19368806 GCCGGATTCT
19368816 CCTTCCCCCCTCCCTTCTCTCTC
1 CCTT-CCCCCTCCCTTCTCTCTC
* *
19368839 CCTTCTCTCTCCCTTCTCTCTTC
1 CCTTCCCCCTCCCTTCTCTC-TC
19368862 CCT
1 CCT
19368865 CTCTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (22 bp):
CCTTCCCCCTCCCTTCTCTCTC
Found at i:19368871 original size:11 final size:11
Alignment explanation
Indices: 19368825--19368870 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
19368815 TCCTTCCCCC
19368825 CTCCCTTCTCT
1 CTCCCTTCTCT
19368836 CTCCCTTCTCT
1 CTCCCTTCTCT
19368847 CTCCCTTCTCT
1 CTCCCTTCTCT
19368858 CTTCCC-TCTCT
1 C-TCCCTTCTCT
19368869 CT
1 CT
19368871 TTTTTTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 1 0.03
11 29 0.85
12 4 0.12
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:19369618 original size:11 final size:11
Alignment explanation
Indices: 19369600--19369629 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19369590 GTGTATATTG
19369600 TATATATTATA
1 TATATATTATA
*
19369611 TTTATATTATA
1 TATATATTATA
19369622 TATATATT
1 TATATATT
19369630 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:19382591 original size:157 final size:155
Alignment explanation
Indices: 19382211--19383324 Score: 1024
Period size: 147 Copynumber: 7.3 Consensus size: 155
19382201 TCTGTTTCAA
* ** *
19382211 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
19382276 TGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 TGTTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA-T
* *
19382341 TTCAA--TTTCTATTCAATTTATGTTTTTC
129 TTCAATTTTTGTTTTCAA-TTA--TTTTTC
* *
19382369 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** ** *
19382434 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTG
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATT-
19382499 TCAATTTTTGTGTTTCAATCTATTTTTC
130 TCAATTTTTGT-TTTCAAT-TATTTTTC
* * **
19382527 GAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCT-AGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* ** * *
19382591 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATT
*
19382656 TCAATTTCTGCTTTTCAATTTATATTTTTC
130 TCAATTTTTG-TTTTCAA--T-TATTTTTC
19382686 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* * * * *
19382751 TTCTG-TTGTCAAAAAAAAATCAACTCTTATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTAA
63 TTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
19382815 GGTATTTTCAATTTTTGTCTTTC-A--A------
124 GGTA-TTTCAATTTTTGT-TTTCAATTATTTTTC
*
19382840 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** *
19382905 TGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
66 TGTT-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-AT
19382970 TTCAA-------TTTC---TA-TTTTC
129 TTCAATTTTTGTTTTCAATTATTTTTC
* ** * * * *
19382986 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* ** ***
19383051 TATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAA
66 TGTTTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-A
*
19383116 TTTCAA-------TTTC---T-GTTTTC
128 TTTCAATTTTTGTTTTCAATTATTTTTC
* * ** * * *
19383133 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * ** * *
19383198 T-ATTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAG
66 TGTTTTTC---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAG
*
19383261 GTATTTTCAATTTCTGTCTTTC-A--A------
125 GTA-TTTCAATTTTTGT-TTTCAATTATTTTTC
*
19383285 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
19383325 ATCACACACT
Statistics
Matches: 834, Mismatches: 76, Indels: 98
0.83 0.08 0.10
Matches are distributed among these distances:
141 5 0.01
145 2 0.00
146 67 0.08
147 167 0.20
148 1 0.00
149 71 0.09
150 1 0.00
151 61 0.07
152 40 0.05
153 1 0.00
156 2 0.00
157 143 0.17
158 121 0.15
159 14 0.02
160 8 0.01
161 4 0.00
162 45 0.05
163 18 0.02
165 3 0.00
166 60 0.07
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (155 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTT
CAATTTTTGTTTTCAATTATTTTTC
Found at i:19382893 original size:75 final size:74
Alignment explanation
Indices: 19382667--19383324 Score: 824
Period size: 75 Copynumber: 8.8 Consensus size: 74
19382657 CAATTTCTGC
* *
19382667 TTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCT-GTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
19382732 ACGCTGAGGTA
64 ACGCTGAGGTA
* * * * ** *
19382743 ATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCTTATTGCAAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
19382808 ATGCTAAGGTA
64 ACGCTGAGGTA
* *
19382819 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
19382884 CGCTGAGGTA
65 CGCTGAGGTA
* **
19382894 ATTTCAATTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
19382958 CGCTGAGGTA
65 CGCTGAGGTA
* * * ** * *
19382968 ATTTCAATTTCTATTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
19383031 GCTGAGGTA
66 GCTGAGGTA
* * **
19383040 TTTTCAATTTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
19383105 CGCTGAGGTA
65 CGCTGAGGTA
* * * ** *
19383115 ATTTCAATTTCTGTTTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
19383178 GTTGAGGTA
66 GCTGAGGTA
* *
19383187 TTTTCAATTTCTATTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
1 TTTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
*
19383251 ACATGCTGAGGTA
62 ACACGCTGAGGTA
*
19383264 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
19383325 ATCACACACT
Statistics
Matches: 503, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
72 123 0.24
73 7 0.01
74 74 0.15
75 158 0.31
76 64 0.13
77 72 0.14
78 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:19383083 original size:221 final size:221
Alignment explanation
Indices: 19382681--19383324 Score: 943
Period size: 221 Copynumber: 2.9 Consensus size: 221
19382671 CAATTTATAT
**
19382681 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTT-AAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* * * *
19382746 TCAATTTCTGTTGTCAAAAAAAAATCAACTCTTATTGCAAGAAATGAGTTGAGCCTCAAGACATG
64 TCAATTTCTATTTTC---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
* *
19382811 CTAAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCC
126 CTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
19382876 TCAGGACACGCTGAGGTAATTTCAATTTCTG
191 TCAGGACACGCTGAGGTAATTTCAATTTCTG
19382907 TTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TT-TTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
19382972 CAATTTCTATTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGA
65 CAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGA
* * **
19383036 GGTATTTTCAATTTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
130 GGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
19383101 GACACGCTGAGGTAATTTCAATTTCTG
195 GACACGCTGAGGTAATTTCAATTTCTG
* * * * * *
19383128 TTTT-CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* ** *
19383192 AATTTCTATTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATG
66 AATTTCTATTTTC--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATG
* *
19383256 CTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCT
126 CTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
19383321 TCAG
191 TCAG
19383325 ATCACACACT
Statistics
Matches: 381, Mismatches: 30, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
219 67 0.18
220 2 0.01
221 136 0.36
222 34 0.09
224 68 0.18
225 63 0.17
226 9 0.02
227 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (221 bp):
TTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
GTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTG
Found at i:19384212 original size:20 final size:21
Alignment explanation
Indices: 19384187--19384230 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
19384177 TAAGCCCCCC
19384187 AAAAAAACCTAA-CCCCAAAA
1 AAAAAAACCTAACCCCCAAAA
19384207 AAAAAAACCTAACCCCCAAAA
1 AAAAAAACCTAACCCCCAAAA
19384228 AAA
1 AAA
19384231 CCAAGAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.66, C:0.30, G:0.00, T:0.05
Consensus pattern (21 bp):
AAAAAAACCTAACCCCCAAAA
Found at i:19384569 original size:18 final size:17
Alignment explanation
Indices: 19384529--19384567 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19384519 CCTAAAGGTG
*
19384529 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
19384546 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
19384563 ATTTT
1 ATTTT
19384568 TATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:19384766 original size:11 final size:11
Alignment explanation
Indices: 19384752--19384786 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
19384742 CTCCTTCCCC
19384752 CTCCCTTCTCT
1 CTCCCTTCTCT
19384763 CTCCCTTCTCT
1 CTCCCTTCTCT
19384774 CTTCCC-TCTCT
1 C-TCCCTTCTCT
19384785 CT
1 CT
19384787 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:19393835 original size:21 final size:22
Alignment explanation
Indices: 19393811--19393856 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19393801 AAGTTCAAAG
19393811 AAATA-TATAAAAAAA-ATACAT
1 AAATATTATAAAAAAACATA-AT
*
19393832 AAATATTTTAAAAAAACATAAT
1 AAATATTATAAAAAAACATAAT
19393854 AAA
1 AAA
19393857 AAATTTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 14 0.64
23 3 0.14
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATATTATAAAAAAACATAAT
Found at i:19393843 original size:22 final size:22
Alignment explanation
Indices: 19393818--19393865 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19393808 AAGAAATATA
* *
19393818 TAAAAAAA-ATACATAAATATTT
1 TAAAAAAACATA-ATAAAAAATT
19393840 TAAAAAAACATAATAAAAAATT
1 TAAAAAAACATAATAAAAAATT
19393862 TAAA
1 TAAA
19393866 CAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAAAACATAATAAAAAATT
Found at i:19402400 original size:16 final size:17
Alignment explanation
Indices: 19402366--19402407 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19402356 TTTTTAAAAC
*
19402366 ATAATTTTTTTGTTCAA
1 ATAATTTTTTTGTTAAA
19402383 ATAATTTTTTTG-TAAA
1 ATAATTTTTTTGTTAAA
*
19402399 ATTATTTTT
1 ATAATTTTT
19402408 CGAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (17 bp):
ATAATTTTTTTGTTAAA
Found at i:19402519 original size:18 final size:17
Alignment explanation
Indices: 19402496--19402535 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19402486 GAAATATGCT
19402496 TTTTTACAAAAAAAAAAC
1 TTTTTA-AAAAAAAAAAC
* *
19402514 TTTTTAATAGAAAAAAC
1 TTTTTAAAAAAAAAAAC
19402531 TTTTT
1 TTTTT
19402536 GGACTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (17 bp):
TTTTTAAAAAAAAAAAC
Found at i:19403677 original size:21 final size:20
Alignment explanation
Indices: 19403632--19403673 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19403622 TTTATAATTT
*
19403632 TACTTGTAAACTCCTAAAAA
1 TACTTGTAAACTCCAAAAAA
19403652 TACTTGTAAACTCCAAAAAA
1 TACTTGTAAACTCCAAAAAA
19403672 TA
1 TA
19403674 ACTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTTGTAAACTCCAAAAAA
Found at i:19410593 original size:31 final size:29
Alignment explanation
Indices: 19410499--19410596 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 29
19410489 TAATCACATC
19410499 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
* * *
19410530 AATATTTAATT--T--AATATATCATATT
1 AATATTAAATTAATAAAATATATCAGATA
19410555 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
19410586 AATATTAAATT
1 AATATTAAATT
19410597 TAATTTAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 13 0.24
26 4 0.07
27 5 0.09
29 5 0.09
30 4 0.07
31 24 0.44
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (29 bp):
AATATTAAATTAATAAAATATATCAGATA
Found at i:19410623 original size:17 final size:17
Alignment explanation
Indices: 19410584--19410620 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19410574 ACTATCTAGA
19410584 TAAATATTAAATTTAAT
1 TAAATATTAAATTTAAT
*
19410601 TTAATATTAAATTT-AT
1 TAAATATTAAATTTAAT
19410617 TAAA
1 TAAA
19410621 ATAATATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATTAAATTTAAT
Found at i:19410998 original size:17 final size:17
Alignment explanation
Indices: 19410976--19411009 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19410966 GAGCATTTGA
19410976 TTCAAATACTGAGAAGG
1 TTCAAATACTGAGAAGG
19410993 TTCAAATACTGAGAAGG
1 TTCAAATACTGAGAAGG
19411010 ATTATTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
TTCAAATACTGAGAAGG
Found at i:19412263 original size:31 final size:29
Alignment explanation
Indices: 19412228--19412285 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
19412218 TATAGTATTT
*
19412228 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
19412259 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
19412286 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:19414567 original size:23 final size:25
Alignment explanation
Indices: 19414536--19414582 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
19414526 TAAATTAGAA
19414536 AAATATCTC-T-AGA-AATTTTCTT
1 AAATATCTCTTCAGAGAATTTTCTT
19414558 AAATAATCTCTTCAGAGAATTTTCT
1 AAAT-ATCTCTTCAGAGAATTTTCT
19414583 CTCTACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 1 0.05
25 3 0.14
26 8 0.38
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (25 bp):
AAATATCTCTTCAGAGAATTTTCTT
Found at i:19414741 original size:12 final size:13
Alignment explanation
Indices: 19414724--19414753 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
19414714 TCAAGATAAA
19414724 TATTATTAAAT-T
1 TATTATTAAATCT
19414736 TATTATTAAATCT
1 TATTATTAAATCT
19414749 TATTA
1 TATTA
19414754 AAATAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTAAATCT
Found at i:19414761 original size:57 final size:58
Alignment explanation
Indices: 19414692--19414822 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 58
19414682 ATCACTTTAA
* * * *
19414692 TATTAAATTAATATAATATTTA-T-CAAGATAAATATT-ATTAAATTTATTATTAAATCT
1 TATTAAAATAATATAATATTTACTACAAGATAAACATTAATTAAATTTAATATTAAA--G
* * *
19414749 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTTAATTTAATATTAAAG
1 TATTAAAATAATATAATATTTA-CTACAAGATAAACATT-AATTAAATTTAATATTAAAG
19414809 TATTAAAATAATAT
1 TATTAAAATAATAT
19414823 TATTTTTGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 19 0.31
59 1 0.02
60 25 0.41
62 16 0.26
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
TATTAAAATAATATAATATTTACTACAAGATAAACATTAATTAAATTTAATATTAAAG
Found at i:19416313 original size:46 final size:46
Alignment explanation
Indices: 19416260--19416435 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
19416250 TATTTGGGCA
19416260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19416306 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19416351 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19416399 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19416436 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19416415 original size:93 final size:93
Alignment explanation
Indices: 19416256--19416427 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19416246 GGGATATTTG
* *
19416256 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19416321 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19416349 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19416414 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19416428 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19419406 original size:15 final size:15
Alignment explanation
Indices: 19419386--19419454 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
19419376 GTATCTTGGG
19419386 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
19419401 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
19419416 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
19419431 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
19419446 TTTCTTTAT
1 TTTCTTTAT
19419455 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:19419455 original size:30 final size:30
Alignment explanation
Indices: 19419377--19419464 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
19419367 CATAGTATCG
* * * *
19419377 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19419407 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19419437 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19419465 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19421960 original size:47 final size:46
Alignment explanation
Indices: 19421842--19422015 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
19421832 CTGGATATTT
*
19421842 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
19421889 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
19421934 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
19421982 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
19422016 TATGGCGGGT
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:19422011 original size:46 final size:46
Alignment explanation
Indices: 19421847--19422020 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19421837 TATTTGGCAT
* *
19421847 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
19421892 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
19421937 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
19421985 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19422021 CGGGTTACAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:19424372 original size:15 final size:15
Alignment explanation
Indices: 19424351--19424418 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
19424341 CGTATCTTGG
19424351 TTCTTTATCCTGGAT
1 TTCTTTATCCTGGAT
* *
19424366 CTCTTTATTCTGGAT
1 TTCTTTATCCTGGAT
* *
19424381 TTCTTTATTCTGGGT
1 TTCTTTATCCTGGAT
* *
19424396 TTCTCTATCTTGGAT
1 TTCTTTATCCTGGAT
19424411 TTCTTTAT
1 TTCTTTAT
19424419 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.57
Consensus pattern (15 bp):
TTCTTTATCCTGGAT
Found at i:19424419 original size:30 final size:30
Alignment explanation
Indices: 19424343--19424428 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
19424333 CATAGTATCG
* * *
19424343 TATCTTGG--TTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19424371 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19424401 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19424429 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
27 1 0.02
28 6 0.12
29 7 0.14
30 34 0.69
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19426351 original size:46 final size:46
Alignment explanation
Indices: 19426188--19426360 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19426178 ATTTGGGCAT
*
19426188 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
19426232 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
19426277 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
19426325 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19426361 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:19429329 original size:15 final size:15
Alignment explanation
Indices: 19429309--19429377 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
19429299 GTATCTTGGG
19429309 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
19429324 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
19429339 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
19429354 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
19429369 TTTCTTTAT
1 TTTCTTTAT
19429378 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:19429378 original size:30 final size:30
Alignment explanation
Indices: 19429300--19429387 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
19429290 CATAGTATCG
* * * *
19429300 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19429330 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19429360 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19429388 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19431817 original size:46 final size:46
Alignment explanation
Indices: 19431767--19431942 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
19431757 TATTTGGGCA
19431767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19431813 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19431858 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19431906 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19431943 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19431922 original size:93 final size:93
Alignment explanation
Indices: 19431763--19431934 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19431753 TGGATATTTG
* *
19431763 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19431828 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19431856 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19431921 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19431935 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19433490 original size:21 final size:20
Alignment explanation
Indices: 19433453--19433492 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19433443 CACTTGAAGC
**
19433453 AGGGCACACGCTTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
19433473 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
19433493 CCATTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:19436684 original size:40 final size:40
Alignment explanation
Indices: 19436501--19436680 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
19436491 TCAAATGATG
* * * *
19436501 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
*
19436541 TCCGGACT-AGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
*
19436580 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* * *
19436620 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
*
19436661 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
19436681 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
39 25 0.20
40 97 0.78
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:19436692 original size:80 final size:79
Alignment explanation
Indices: 19436501--19436718 Score: 196
Period size: 80 Copynumber: 2.7 Consensus size: 79
19436491 TCAAATGATG
* * * * * *
19436501 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTATAC-GAGTAG-CTAAATCCGG-TTAAATCCCGAAGGCAT
19436563 TTATGCGAGTTACTAAA
63 TTATGCGAGTTACTAAA
* * * *
19436580 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTATACGAG-TAGCTAAATCC-GGTTAAATCCCGAAGGCATT
*
19436644 TATGCGAGTTGCTATAA
64 TATGCGAGTTACTA-AA
* * * *
19436661 -CCGGGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTT-ATACGAGTAGCTAAATCCGGTTAAATCCCGAAGG
19436719 TACGTGATTC
Statistics
Matches: 115, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
79 48 0.42
80 64 0.56
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATACGAGTAGCTAAATCCGGTTAAATCCCGAAGGCATTTA
TGCGAGTTACTAAA
Found at i:19436698 original size:40 final size:40
Alignment explanation
Indices: 19436502--19436704 Score: 136
Period size: 40 Copynumber: 5.1 Consensus size: 40
19436492 CAAATGATGT
* * * *
19436502 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCGTTTATAC-GAGTAG-CTATAA
* * *
19436542 CCGGACT-AGAT-CCGAAGGCATTTATGCGAGTTA-CTA-AA
1 CCGGGCTAAG-TCCCGAAGGCGTTTATACGAG-TAGCTATAA
* * *
19436580 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTA-CTA-AA
1 -CCGGGCTAAGTCCCGAAGGCGTTTATACGAG-TAGCTATAA
* * *
19436620 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTAGCTATAA
* *
19436661 CCGGGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCGTTT-ATACGAGTAGCTATAA
19436701 CCGG
1 CCGG
19436705 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 13, Indels: 20
0.81 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 22 0.16
40 114 0.81
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTAGCTATAA
Found at i:19444706 original size:40 final size:40
Alignment explanation
Indices: 19444565--19444709 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
19444555 TTCAATGATG
* * * *
19444565 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCGTTTATGC-GAGTTACTAAA
* * *
19444605 TCCGGACTAGGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCGTTTATGCGAGTTACTAAA
* *
19444645 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCGTTTATGCGAGTTACTA-AA
*
19444686 T-CGGGCTATGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCGTTT
19444710 GAACGAGTAG
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 77 0.88
41 10 0.11
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCGTTTATGCGAGTTACTAAA
Found at i:19444717 original size:40 final size:41
Alignment explanation
Indices: 19444565--19444729 Score: 130
Period size: 40 Copynumber: 4.1 Consensus size: 41
19444555 TTCAATGATG
* * *
19444565 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCGTTTATAC-GAGTTG-CTATAA
* * * * *
19444605 TCCGGACTAGGAT-CCGAAGGCATTTATGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCGTTTATACGAGTTGCTATAA
* *
19444645 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
* *
19444686 T-CGGGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGCTAT-A
1 TCCGGGCTAAGTCCCGAAGGCGTTT-ATACGAGTTGCTATAA
19444725 TCCGG
1 TCCGG
19444730 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
39 3 0.03
40 88 0.85
41 12 0.12
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
Found at i:19446206 original size:48 final size:46
Alignment explanation
Indices: 19446135--19446302 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
19446125 AGCTGACGCT
* *
19446135 ATGTCCGAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTT-TATAT-CCGAGGCCGATGC
* * * *
19446183 ATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTTATATC-CGAGGCCGATGC
* * * * *
19446229 ATGTCCCAGACATGTCTTACACTGGCACTCATGAT--GTGACCGATGC
1 ATGTCCCAGACATGTCTTACACTAGC-TTTAT-ATCCGAGGCCGATGC
*
19446275 ATGTCCCAGACATGTCTTACACTGGCTT
1 ATGTCCCAGACATGTCTTACACTAGCTT
19446303 ACATACCACC
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
45 2 0.02
46 70 0.70
47 1 0.01
48 26 0.26
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTTTATATCCGAGGCCGATGC
Found at i:19446298 original size:46 final size:46
Alignment explanation
Indices: 19446175--19446300 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 46
19446165 ATATCCCGAG
* *
19446175 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CTCTTGTCTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCCTCATGTCTCAA
* *
19446220 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGT-GA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGC-CTCATG-TCTCAA
19446268 -CCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
19446301 TTACATACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
46 65 0.89
48 6 0.08
49 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCCTCATGTCTCAA
Found at i:19448647 original size:2 final size:2
Alignment explanation
Indices: 19448640--19448673 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19448630 TTATTTCATA
19448640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19448674 GATCATTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19450899 original size:30 final size:30
Alignment explanation
Indices: 19450863--19450922 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
19450853 TTCAGTCAGA
*
19450863 CTAATCACGTGTGAAGGATC-GAATCGATAT
1 CTAATCACATGTGAAGGATCAG-ATCGATAT
19450893 CTAATCACATGTGAAGGATCAGATCGATAT
1 CTAATCACATGTGAAGGATCAGATCGATAT
19450923 ATACAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (30 bp):
CTAATCACATGTGAAGGATCAGATCGATAT
Found at i:19465217 original size:9 final size:9
Alignment explanation
Indices: 19465194--19465229 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
19465184 TAAGTCTAAT
19465194 ATGTGTTTAA
1 ATGTGTTT-A
19465204 ATGTGTTTA
1 ATGTGTTTA
19465213 ATGTGTTTA
1 ATGTGTTTA
19465222 ATGTGTTT
1 ATGTGTTT
19465230 TCTTAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:19465380 original size:24 final size:24
Alignment explanation
Indices: 19465353--19465426 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
19465343 GTTACATTAA
19465353 TTAAAGGAGAGCATTATACATCAT
1 TTAAAGGAGAGCATTATACATCAT
*
19465377 TTAAA-G-GAG--TTGTTACATCAT
1 TTAAAGGAGAGCATT-ATACATCAT
* *
19465398 TGAAAGGAGAGCATTATACATCCT
1 TTAAAGGAGAGCATTATACATCAT
19465422 TTAAA
1 TTAAA
19465427 TTCGACAGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.05
21 12 0.30
22 4 0.10
23 4 0.10
24 16 0.40
25 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (24 bp):
TTAAAGGAGAGCATTATACATCAT
Found at i:19467854 original size:21 final size:21
Alignment explanation
Indices: 19467817--19467856 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19467807 TGACAAATGC
*
19467817 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
19467838 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
19467857 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:19468140 original size:27 final size:27
Alignment explanation
Indices: 19468083--19468173 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
19468073 CCCACCATTT
* * ** *
19468083 GCGCCTCTGAGATAGGCACATTTAGCC
1 GCGCCTCTGAGAAAGGCTCAACTAGTC
*
19468110 GCGCCTCTGAGAAAGGCTCAACTAGTA
1 GCGCCTCTGAGAAAGGCTCAACTAGTC
*
19468137 GCGCCTCTGAGAAAGACTCAACTAGTC
1 GCGCCTCTGAGAAAGGCTCAACTAGTC
19468164 GCGCCTCTGA
1 GCGCCTCTGA
19468174 CACAACCTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (27 bp):
GCGCCTCTGAGAAAGGCTCAACTAGTC
Found at i:19474289 original size:21 final size:21
Alignment explanation
Indices: 19474265--19474309 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19474255 TGCAGGGGTC
*
19474265 ACATGCCCA-TGTGGCTAAGGG
1 ACATG-CCAGTGTGGCCAAGGG
*
19474286 ACATGCCAGTGTGGCCATGGG
1 ACATGCCAGTGTGGCCAAGGG
19474307 ACA
1 ACA
19474310 CGTCCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.18
Consensus pattern (21 bp):
ACATGCCAGTGTGGCCAAGGG
Found at i:19475024 original size:17 final size:18
Alignment explanation
Indices: 19475002--19475035 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19474992 CTTTAAGGAC
19475002 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
19475019 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
19475036 AGCTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:19475253 original size:20 final size:20
Alignment explanation
Indices: 19475225--19475282 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
19475215 GTTTTAGCTT
* *
19475225 TTATCTTTATTTATTTTTTA
1 TTATCTTTATTTATCTTTAA
* *
19475245 TTGTCTTTAATTATCTTTAA
1 TTATCTTTATTTATCTTTAA
*
19475265 TTATCTGTATTTATCTTT
1 TTATCTTTATTTATCTTT
19475283 CAGAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATCTTTATTTATCTTTAA
Found at i:19475263 original size:10 final size:10
Alignment explanation
Indices: 19475225--19475282 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
19475215 GTTTTAGCTT
*
19475225 TTATCTTTAT
1 TTATCTTTAA
* *
19475235 TTATTTTTTA
1 TTATCTTTAA
*
19475245 TTGTCTTTAA
1 TTATCTTTAA
19475255 TTATCTTTAA
1 TTATCTTTAA
* *
19475265 TTATCTGTAT
1 TTATCTTTAA
19475275 TTATCTTT
1 TTATCTTT
19475283 CAGAATTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:19476810 original size:51 final size:51
Alignment explanation
Indices: 19476734--19476835 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
19476724 GTTTATCTTA
19476734 GTAAGAAATCTCAGAGGGTGACTAAGGATCAAATCAAATTGCGTGCTTTCC
1 GTAAGAAATCTCAGAGGGTGACTAAGGATCAAATCAAATTGCGTGCTTTCC
19476785 GTAAGAAATCTCAGAGGGTGACTAAGGATCAAATCAAATTGCGTGCTTTCC
1 GTAAGAAATCTCAGAGGGTGACTAAGGATCAAATCAAATTGCGTGCTTTCC
19476836 CTTTTTCCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
GTAAGAAATCTCAGAGGGTGACTAAGGATCAAATCAAATTGCGTGCTTTCC
Found at i:19481381 original size:43 final size:43
Alignment explanation
Indices: 19481321--19481553 Score: 176
Period size: 43 Copynumber: 5.5 Consensus size: 43
19481311 CCTGATTTCA
* *
19481321 TCACCGACAATAAGCCTGCTAGACCTTTAAGTCCGATATCATT
1 TCACCGGCATTAAGCCTGCTAGACCTTTAAGTCCGATATCATT
* * *** *
19481364 TCACCGGCATTACGCCTGCTAG-GCTCGGAGCCCGATA--ATAT
1 TCACCGGCATTAAGCCTGCTAGACCTTTAAGTCCGATATCAT-T
* * *
19481405 TCACCAGC-TTAAAGCTTGCTAGACCTTTAAGTCCGATATCATG
1 TCACCGGCATT-AAGCCTGCTAGACCTTTAAGTCCGATATCATT
* * * *** *
19481448 TCACTGGCATTACGCCTGCTAG-GCTCGGAGCCCGATA--ATAT
1 TCACCGGCATTAAGCCTGCTAGACCTTTAAGTCCGATATCAT-T
* * *
19481489 TCACCAGC-TTAAAGCTTGCTAGACCTTTAAGTTCGATATCATT
1 TCACCGGCATT-AAGCCTGCTAGACCTTTAAGTCCGATATCATT
*
19481532 TCACCGGCATTATGCCTGCTAG
1 TCACCGGCATTAAGCCTGCTAG
19481554 GCTCAAAGCC
Statistics
Matches: 138, Mismatches: 40, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
40 8 0.06
41 32 0.23
42 39 0.28
43 51 0.37
44 8 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
TCACCGGCATTAAGCCTGCTAGACCTTTAAGTCCGATATCATT
Found at i:19481425 original size:41 final size:41
Alignment explanation
Indices: 19481380--19481510 Score: 131
Period size: 41 Copynumber: 3.1 Consensus size: 41
19481370 GCATTACGCC
19481380 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
* *** * ** * *
19481421 TGCTAGACCTTTAAGTCCGAT-ATCATGTCACTGGCATT-ACGCC
1 TGCTAG-GCTCGGAGCCCGATAAT-AT-TCACCAGC-TTAAAGCT
19481464 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
19481505 TGCTAG
1 TGCTAG
19481511 ACCTTTAAGT
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.03
41 23 0.35
42 22 0.33
43 17 0.26
44 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (41 bp):
TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
Found at i:19481441 original size:42 final size:42
Alignment explanation
Indices: 19481395--19481526 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 42
19481385 GGCTCGGAGC
19481395 CCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
1 CCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
** * * * *** *
19481437 CCGAT-ATCATGTCACTGGCATT-ACGCCTGCTAG-GCTCGGAGC
1 CCGATAAT-AT-TCACCAGC-TTAAAGCTTGCTAGACCTTTAAGT
19481479 CCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
1 CCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
*
19481521 TCGATA
1 CCGATA
19481527 TCATTTCACC
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
40 2 0.03
41 17 0.26
42 27 0.42
43 17 0.26
44 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
CCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGT
Found at i:19481564 original size:84 final size:84
Alignment explanation
Indices: 19481332--19481557 Score: 407
Period size: 84 Copynumber: 2.7 Consensus size: 84
19481322 CACCGACAAT
*
19481332 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
19481397 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* *
19481416 AAGCTTGCTAGACCTTTAAGTCCGATATCATGTCACTGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
19481481 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* *
19481500 AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCATTATGCCTGCTAGGCTC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTC
19481558 AAAGCCCAAA
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 135 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
GATAATATTCACCAGCTTA
Found at i:19483477 original size:14 final size:15
Alignment explanation
Indices: 19483448--19483477 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19483438 CAAAATTAAG
19483448 ACATGATACTTTCAC
1 ACATGATACTTTCAC
19483463 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
19483477 A
1 A
19483478 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:19486283 original size:39 final size:40
Alignment explanation
Indices: 19486183--19486364 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
19486173 TCGAATGATG
* * *
19486183 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
19486223 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
19486263 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
19486301 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
19486342 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19486365 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:19486328 original size:78 final size:80
Alignment explanation
Indices: 19486183--19486364 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
19486173 TCGAATGATG
* * * *
19486183 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
19486248 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
19486263 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
19486325 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
19486342 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19486365 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:19492400 original size:12 final size:13
Alignment explanation
Indices: 19492366--19492407 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
19492356 AGGATAATTG
*
19492366 TTAGATTTTATTAT
1 TTAGATTTTA-TCT
19492380 TTAGATTTTAT-T
1 TTAGATTTTATCT
*
19492392 TTAGCTTTTATCT
1 TTAGATTTTATCT
19492405 TTA
1 TTA
19492408 TTTATCTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.42
13 5 0.19
14 10 0.38
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (13 bp):
TTAGATTTTATCT
Found at i:19492413 original size:10 final size:10
Alignment explanation
Indices: 19492398--19492446 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
19492388 TATTTTAGCT
19492398 TTTATCTTTA
1 TTTATCTTTA
19492408 TTTATCTTTA
1 TTTATCTTTA
*
19492418 ATTATCTTTA
1 TTTATCTTTA
* *
19492428 ATTATCTGTA
1 TTTATCTTTA
19492438 TTTATCTTT
1 TTTATCTTT
19492447 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:19493185 original size:18 final size:18
Alignment explanation
Indices: 19493162--19493196 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19493152 TATTCTCTAT
*
19493162 TTTAATTTTCGCAATTTA
1 TTTAATTTTCACAATTTA
19493180 TTTAATTTTCACAATTT
1 TTTAATTTTCACAATTT
19493197 CAATCAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTAATTTTCACAATTTA
Found at i:19494118 original size:25 final size:25
Alignment explanation
Indices: 19494090--19494167 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
19494080 CTTATTCGAA
* *
19494090 CTGAATATTAGTAAGCTCTTACAAG
1 CTGAATATTGGTAAGCTCTTACGAG
19494115 CTGAATATTGGTAAGCTTCTT-CGAG
1 CTGAATATTGGTAAGC-TCTTACGAG
* *
19494140 CTGAATAATGGTAAGCTCATACGAG
1 CTGAATATTGGTAAGCTCTTACGAG
19494165 CTG
1 CTG
19494168 TGGTGAGTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.06
25 40 0.85
26 4 0.09
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (25 bp):
CTGAATATTGGTAAGCTCTTACGAG
Found at i:19494364 original size:45 final size:45
Alignment explanation
Indices: 19494308--19494398 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
19494298 CAATAATTAC
*
19494308 TAAATTATATAAATACACAGTGTAATTATACGAACTTACCTCGAA
1 TAAAGTATATAAATACACAGTGTAATTATACGAACTTACCTCGAA
19494353 TAAAGTATATAAATACACAGTGTAATTATACGAACTTACCTCGAA
1 TAAAGTATATAAATACACAGTGTAATTATACGAACTTACCTCGAA
19494398 T
1 T
19494399 CAGTACAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (45 bp):
TAAAGTATATAAATACACAGTGTAATTATACGAACTTACCTCGAA
Found at i:19498221 original size:17 final size:17
Alignment explanation
Indices: 19498199--19498234 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
19498189 CTCAGAAAGA
19498199 AGGCATTGATTTTATAG
1 AGGCATTGATTTTATAG
19498216 AGGCATTGATTTTATAG
1 AGGCATTGATTTTATAG
19498233 AG
1 AG
19498235 ACTTTCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.39
Consensus pattern (17 bp):
AGGCATTGATTTTATAG
Found at i:19501525 original size:2 final size:2
Alignment explanation
Indices: 19501518--19501550 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19501508 TATAGAATGA
19501518 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19501551 AAAGGGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19507212 original size:17 final size:17
Alignment explanation
Indices: 19507164--19507215 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
19507154 GGTTGAATTG
*
19507164 ATTTAATAAATTTTTTT
1 ATTTAATAAATTTATTT
* *
19507181 ATTTCTATGAATTTATTT
1 ATTT-AATAAATTTATTT
*
19507199 ATTTAATTAATTTATTT
1 ATTTAATAAATTTATTT
19507216 TTGGCTTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTAATAAATTTATTT
Found at i:19511276 original size:38 final size:38
Alignment explanation
Indices: 19511232--19511306 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
19511222 TTCAATGCTT
19511232 ATTCCAATTCATAATCAATATCTTTCAATATCAATCAC
1 ATTCCAATTCATAATCAATATCTTTCAATATCAATCAC
*
19511270 ATTCCAATTCATAGTCAATATCTTTCAATATCAATCA
1 ATTCCAATTCATAATCAATATCTTTCAATATCAATCA
19511307 ATTGATCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.23, G:0.01, T:0.37
Consensus pattern (38 bp):
ATTCCAATTCATAATCAATATCTTTCAATATCAATCAC
Found at i:19515283 original size:46 final size:46
Alignment explanation
Indices: 19515229--19515399 Score: 256
Period size: 46 Copynumber: 3.7 Consensus size: 46
19515219 TTATCTCGTA
19515229 GCCGATGCATG-CTCCAGACATGTCTTACACTGGCTTACATCTCAAG
1 GCCGATGCATGTC-CCAGACATGTCTTACACTGGCTTACATCTCAAG
*
19515275 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
* * *
19515321 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCT-CATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTACATCTCAAG
19515367 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
19515400 AGCTCTCACA
Statistics
Matches: 116, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
46 88 0.76
47 18 0.16
48 10 0.09
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
Found at i:19518165 original size:41 final size:41
Alignment explanation
Indices: 19517986--19518166 Score: 156
Period size: 41 Copynumber: 4.5 Consensus size: 41
19517976 ACGTTATTTG
* ** * *
19517986 GGCTCTGTGCCTAGCAGGCTTTGTGTCGGTG-A-TAT-TCG
1 GGCTTTGTGCCTAGCAGGCTTCATGTCGATGTATTATATCA
* * * *
19518024 GGCTCTGTACGTAGCAGACTTCATGTCGATGTATTATATCA
1 GGCTTTGTGCCTAGCAGGCTTCATGTCGATGTATTATATCA
* * * ** * *
19518065 GGCTTTATGCGTAGCAGGATTTTGTGTCGATGTGTTATATCG
1 GGCTTTGTGCCTAGCAGG-CTTCATGTCGATGTATTATATCA
*
19518107 GGC--TGTGCCTAGCAGGCTTCATGCCGATGTATTATATCA
1 GGCTTTGTGCCTAGCAGGCTTCATGTCGATGTATTATATCA
*
19518146 GGCTTTGTGCCTAGTAGGCTT
1 GGCTTTGTGCCTAGCAGGCTT
19518167 TGTGCCTAGT
Statistics
Matches: 112, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
38 25 0.22
39 21 0.19
40 14 0.12
41 31 0.28
42 21 0.19
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (41 bp):
GGCTTTGTGCCTAGCAGGCTTCATGTCGATGTATTATATCA
Found at i:19518166 original size:16 final size:16
Alignment explanation
Indices: 19518145--19518187 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
19518135 GTATTATATC
19518145 AGGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGT
19518161 AGGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGT
19518177 AGGCTTTGTGC
1 AGGCTTTGTGC
19518188 TGGTGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.12, C:0.19, G:0.33, T:0.37
Consensus pattern (16 bp):
AGGCTTTGTGCCTAGT
Found at i:19518198 original size:57 final size:57
Alignment explanation
Indices: 19518110--19518223 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
19518100 TATATCGGGC
*
19518110 TGTGCCTAGCAGGCTTCATGCCGATGTATTATATCAGGCTTTGTGCCTAGTAGGCTT
1 TGTGCCTAGCAGGCTTCATGCCGATGTATTATATCAGGCTTTGGGCCTAGTAGGCTT
* ** * *
19518167 TGTGCCTAGTAGGCTTTGTGCTGGTGTATTATATCAGGCTTTGGGCCTAGTAGGCTT
1 TGTGCCTAGCAGGCTTCATGCCGATGTATTATATCAGGCTTTGGGCCTAGTAGGCTT
19518224 CGTGTCGGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (57 bp):
TGTGCCTAGCAGGCTTCATGCCGATGTATTATATCAGGCTTTGGGCCTAGTAGGCTT
Found at i:19518206 original size:41 final size:40
Alignment explanation
Indices: 19518161--19518298 Score: 168
Period size: 41 Copynumber: 3.4 Consensus size: 40
19518151 TGTGCCTAGT
19518161 AGGCTTTGTGCCTAGTAGGCTTTGTGCTGGTGTATTATATC
1 AGGCTTTGTGCCTAGTAGGCTTTGTG-TGGTGTATTATATC
* *
19518202 AGGCTTTGGGCCTAGTAGGCTTCGTGTCGGTGTATTATATC
1 AGGCTTTGTGCCTAGTAGGCTTTGTGT-GGTGTATTATATC
* * * * *
19518243 AGACTTTGTGCCTAGTAAGCTTTGTGTTGGTATGTTATATT
1 AGGCTTTGTGCCTAGTAGGCTTTGTG-TGGTGTATTATATC
* *
19518284 AGGCTTCGAGCCTAG
1 AGGCTTTGTGCCTAG
19518299 CGTCTTCGTG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.98
42 1 0.01
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (40 bp):
AGGCTTTGTGCCTAGTAGGCTTTGTGTGGTGTATTATATC
Found at i:19518281 original size:82 final size:81
Alignment explanation
Indices: 19518164--19518325 Score: 207
Period size: 82 Copynumber: 2.0 Consensus size: 81
19518154 GCCTAGTAGG
* * * *
19518164 CTTTGTGCCTAGTAGGCTTTGTGCTGGTGTATTATATCAGGCTTTGGGCCTAGTAGGCTTCGTGT
1 CTTTGTGCCTAGTAAGCTTTGTGCTGGTATATTATATCAGGCTTCGAGCCTAG-AGGCTTCGTGT
**
19518229 CGGTGTATTATATCAGA
65 CAATGTATTATATCAGA
* * * * *
19518246 CTTTGTGCCTAGTAAGCTTTGTGTTGGTATGTTATATTAGGCTTCGAGCCTAGCGTCTTCGTGTC
1 CTTTGTGCCTAGTAAGCTTTGTGCTGGTATATTATATCAGGCTTCGAGCCTAGAGGCTTCGTGTC
*
19518311 AATGTATTCTATCAG
66 AATGTATTATATCAG
19518326 GAAAGTTGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
81 22 0.32
82 46 0.68
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (81 bp):
CTTTGTGCCTAGTAAGCTTTGTGCTGGTATATTATATCAGGCTTCGAGCCTAGAGGCTTCGTGTC
AATGTATTATATCAGA
Found at i:19518966 original size:15 final size:17
Alignment explanation
Indices: 19518936--19518977 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
19518926 CGTACAATGG
19518936 CATCAA-TCATGCAATA
1 CATCAATTCATGCAATA
19518952 C-TCAATTCATG-AATA
1 CATCAATTCATGCAATA
*
19518967 CATCATTTCAT
1 CATCAATTCAT
19518978 ACCTTACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (17 bp):
CATCAATTCATGCAATA
Found at i:19524842 original size:13 final size:13
Alignment explanation
Indices: 19524821--19524854 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
19524811 AATTTTCTCA
19524821 TTTCTTTTTCTTTC
1 TTTC-TTTTCTTTC
*
19524835 TTTCTTTTTTTTC
1 TTTCTTTTCTTTC
19524848 TTTCTTT
1 TTTCTTT
19524855 CCCCTGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:19525471 original size:21 final size:22
Alignment explanation
Indices: 19525433--19525476 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
19525423 TAAAAAGGTA
19525433 ATGTTCAATGAAAAGATG-TTT
1 ATGTTCAATGAAAAGATGATTT
*
19525454 ATGTTC-ATGAAATTGATGATTT
1 ATGTTCAATGAAA-AGATGATTT
19525476 A
1 A
19525477 AAGTGATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (22 bp):
ATGTTCAATGAAAAGATGATTT
Found at i:19525758 original size:21 final size:21
Alignment explanation
Indices: 19525732--19525772 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19525722 ATATGTGAGA
19525732 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
19525753 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
19525773 AAATACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:19531214 original size:38 final size:38
Alignment explanation
Indices: 19531110--19531460 Score: 170
Period size: 41 Copynumber: 8.8 Consensus size: 38
19531100 AACATAATAT
* *
19531110 TATTCAGGCT-TCGTGCCTAGCAGACTTTGTGCCGGTGA
1 TATTCAGGCTCT-GTGCCTAGCAGGCTTTGTGCCGATGA
* * * * * *
19531148 TATTCGGGCGCTGTACTTAGTAGCCTTTGTGCCGATGA
1 TATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGATGA
** *
19531186 TATTTTGACTCTGTGCCTAGCAGGCTTTGTGCC-AGTGA
1 TATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGA-TGA
* * * * *
19531224 TATTCAGGCTCTGTGCGTAGCAGGCTTCGTACTGGTGTA
1 TATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGATG-A
* * * *
19531263 TTACATCAGGCTTTGTGCCTAGTAGGCTTTATGCC-AGTGTA
1 -TA-TTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGA-TG-A
** * **
19531304 TTATATTGGGCTCTGTGCCTAGCAGGCTTCGTATCGATGTA
1 -TAT-TCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGATG-A
* * *
19531345 TTATATCAGGCTTTGTGCCTCA-CAGGCTTTGTGCTGGTGTA
1 -TAT-TCAGGCTCTGTGCCT-AGCAGGCTTTGTGCCGATG-A
* * * * * * * *
19531386 TTATATTAGGTTTTGTGTCTAGTAAGCTTTGTGTCAATGTA
1 -TAT-TCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGATG-A
*
19531427 TTATATCAGGCTCTGTGCCTAGTAGGCTTTGTGC
1 -TAT-TCAGGCTCTGTGCCTAGCAGGCTTTGTGC
19531461 TGGTATGTTA
Statistics
Matches: 238, Mismatches: 64, Indels: 19
0.74 0.20 0.06
Matches are distributed among these distances:
37 1 0.00
38 85 0.36
39 2 0.01
40 3 0.01
41 145 0.61
42 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (38 bp):
TATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCGATGA
Found at i:19531280 original size:41 final size:41
Alignment explanation
Indices: 19531197--19531473 Score: 179
Period size: 41 Copynumber: 6.8 Consensus size: 41
19531187 ATTTTGACTC
* * ** *
19531197 TGTGCCTAGCAGGCTTTGTGCCAGTG-A-TAT-TCAGGCTC
1 TGTGCCTAGCAGGCTTCGTACTGGTGTATTATATCAGGCTT
* *
19531235 TGTGCGTAGCAGGCTTCGTACTGGTGTATTACATCAGGCTT
1 TGTGCCTAGCAGGCTTCGTACTGGTGTATTATATCAGGCTT
* ** * ** ** *
19531276 TGTGCCTAGTAGGCTTTATGCCAGTGTATTATATTGGGCTC
1 TGTGCCTAGCAGGCTTCGTACTGGTGTATTATATCAGGCTT
*
19531317 TGTGCCTAGCAGGCTTCGTA-TCGATGTATTATATCAGGCTT
1 TGTGCCTAGCAGGCTTCGTACT-GGTGTATTATATCAGGCTT
* * * *
19531358 TGTGCCTCA-CAGGCTTTGTGCTGGTGTATTATATTAGGTTT
1 TGTGCCT-AGCAGGCTTCGTACTGGTGTATTATATCAGGCTT
* * * * * ** *
19531399 TGTGTCTAGTAAGCTTTGT-GTCAATGTATTATATCAGGCTC
1 TGTGCCTAGCAGGCTTCGTACT-GGTGTATTATATCAGGCTT
* * * * *
19531440 TGTGCCTAGTAGGCTTTGTGCTGGTATGTTATAT
1 TGTGCCTAGCAGGCTTCGTACTGGTGTATTATAT
19531474 TAAGCTTCGA
Statistics
Matches: 181, Mismatches: 49, Indels: 15
0.74 0.20 0.06
Matches are distributed among these distances:
38 21 0.12
39 1 0.01
40 4 0.02
41 152 0.84
42 3 0.02
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (41 bp):
TGTGCCTAGCAGGCTTCGTACTGGTGTATTATATCAGGCTT
Found at i:19531336 original size:82 final size:82
Alignment explanation
Indices: 19531197--19531460 Score: 304
Period size: 82 Copynumber: 3.3 Consensus size: 82
19531187 ATTTTGACTC
* *
19531197 TGTGCCTAGCAGGCTTTGTGCCAGTG-A-TAT-TCAGGCTCTGTGCGTAGCAGGCTTCGTA-CTG
1 TGTGCCTAGCAGGCTTTGTGCCAGTGTATTATATTAGGCTCTGTGCCTAGCAGGCTTCGTATC-G
* *
19531258 GTGTATTACATCAGGCTT
65 ATGTATTATATCAGGCTT
* * *
19531276 TGTGCCTAGTAGGCTTTATGCCAGTGTATTATATTGGGCTCTGTGCCTAGCAGGCTTCGTATCGA
1 TGTGCCTAGCAGGCTTTGTGCCAGTGTATTATATTAGGCTCTGTGCCTAGCAGGCTTCGTATCGA
19531341 TGTATTATATCAGGCTT
66 TGTATTATATCAGGCTT
** * * * * * * * *
19531358 TGTGCCTCA-CAGGCTTTGTGCTGGTGTATTATATTAGGTTTTGTGTCTAGTAAGCTTTGTGTCA
1 TGTGCCT-AGCAGGCTTTGTGCCAGTGTATTATATTAGGCTCTGTGCCTAGCAGGCTTCGTATCG
*
19531422 ATGTATTATATCAGGCTC
65 ATGTATTATATCAGGCTT
*
19531440 TGTGCCTAGTAGGCTTTGTGC
1 TGTGCCTAGCAGGCTTTGTGC
19531461 TGGTATGTTA
Statistics
Matches: 157, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
79 24 0.15
80 1 0.01
81 4 0.03
82 126 0.80
83 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.38
Consensus pattern (82 bp):
TGTGCCTAGCAGGCTTTGTGCCAGTGTATTATATTAGGCTCTGTGCCTAGCAGGCTTCGTATCGA
TGTATTATATCAGGCTT
Found at i:19531472 original size:123 final size:122
Alignment explanation
Indices: 19531194--19531473 Score: 307
Period size: 123 Copynumber: 2.3 Consensus size: 122
19531184 GATATTTTGA
* * *
19531194 CTCTGTGCCTAGCAGGCTTTGTGCCAG-TGATAT-TCAGGCTCTGTGCGTAGCAGGCTTCGTACT
1 CTCTGTGCCTAGCAGGCTTTGTGCTAGATGTTATATCAGGCTCTGTGCCTAGCAGGCTTCGTACT
* * **
19531257 GGTGTATTACATCAGGCTTTGTGCCTAGTAGGCTTTATGCCAGTGTATTATATTGGG
66 GGTGTATTACATCAGGCTTTGTGCCTAGTAAGCTTTATGCCAATGTATTATATCAGG
* * * * *
19531314 CTCTGTGCCTAGCAGGCTTCGT-ATCGATGTATTATATCAGGCTTTGTGCCTCA-CAGGCTTTGT
1 CTCTGTGCCTAGCAGGCTTTGTGCTAGATG--TTATATCAGGCTCTGTGCCT-AGCAGGCTTCGT
* * * * * * *
19531377 GCTGGTGTATTATATTAGGTTTTGTGTCTAGTAAGCTTTGTGTCAATGTATTATATCAGG
63 ACTGGTGTATTACATCAGGCTTTGTGCCTAGTAAGCTTTATGCCAATGTATTATATCAGG
* *
19531437 CTCTGTGCCTAGTAGGCTTTGTGCTGGTATGTTATAT
1 CTCTGTGCCTAGCAGGCTTTGTGCTAG-ATGTTATAT
19531474 TAAGCTTCGA
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
119 1 0.01
120 23 0.18
122 3 0.02
123 97 0.75
124 3 0.02
125 3 0.02
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (122 bp):
CTCTGTGCCTAGCAGGCTTTGTGCTAGATGTTATATCAGGCTCTGTGCCTAGCAGGCTTCGTACT
GGTGTATTACATCAGGCTTTGTGCCTAGTAAGCTTTATGCCAATGTATTATATCAGG
Found at i:19531506 original size:82 final size:82
Alignment explanation
Indices: 19531340--19531518 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 82
19531330 CTTCGTATCG
* * * * * * *
19531340 ATGTATTATATCAGGCTTTGTGCCTCACAGGCTTTGTGCTGGTGTATTATATTAGGTTTTGTGTC
1 ATGTATTATATCAGGCTCTGTGCCTCACAGGCTTTGTGCTGGTATATTATATTAAGCTTCGAGCC
*
19531405 TAGTAAGCTTTGTGTCA
66 TAGTAAGCTTTGTGCCA
* *
19531422 ATGTATTATATCAGGCTCTGTGCCT-AGTAGGCTTTGTGCTGGTATGTTATATTAAGCTTCGAGC
1 ATGTATTATATCAGGCTCTGTGCCTCA-CAGGCTTTGTGCTGGTATATTATATTAAGCTTCGAGC
*
19531486 CTGGT-AGTCTTCT-TGCCA
65 CTAGTAAG-CTT-TGTGCCA
*
19531504 ATGTATTGTATCAGG
1 ATGTATTATATCAGG
19531519 TAAGTTGTAC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 3 0.04
82 78 0.95
83 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (82 bp):
ATGTATTATATCAGGCTCTGTGCCTCACAGGCTTTGTGCTGGTATATTATATTAAGCTTCGAGCC
TAGTAAGCTTTGTGCCA
Found at i:19531975 original size:21 final size:19
Alignment explanation
Indices: 19531932--19531975 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
19531922 AGTTAAAGGG
*
19531932 TTTACTTATATATGATAAA
1 TTTACTTAAATATGATAAA
*
19531951 TTTACTTAAATTATGGATGAA
1 TTTACTTAAA-TAT-GATAAA
19531972 TTTA
1 TTTA
19531976 TCTGGGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTACTTAAATATGATAAA
Found at i:19534482 original size:40 final size:40
Alignment explanation
Indices: 19534306--19534497 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
19534296 CGGAATACAA
* * * *
19534306 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTATTAGC
* *
19534346 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTATTAGC
*
19534386 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTATTAGC
* * * *
19534426 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTAGCACAAATGCCTTCGGGTATTAGC
** * *
19534466 CCGGATATAATTACTAGCATAAATGTCTTCGG
1 CCGGATATAACAACTAGCACAAATGCCTTCGG
19534498 AACTTAGCCC
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTATTAGC
Found at i:19534664 original size:64 final size:64
Alignment explanation
Indices: 19534596--19534788 Score: 148
Period size: 64 Copynumber: 3.1 Consensus size: 64
19534586 GAACACAAAC
19534596 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCTGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCTGGTACCATTCAAATACTCATACACACAT
* * * * *** * * ** * * ** * *
19534660 ATATCAATA--ATCATTACACATCCATA-TT--TCAT--TTTCGTTACTAAGGCTCAAACACAAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTTAGCCCTGGTACCATT-CAAATACTCATACACACA
*
19534718 C
64 T
*
19534719 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCTGGTACCATTCAAATACTCATACACACAT
19534783 ATATCA
1 ATATCA
19534789 ATAATCATTA
Statistics
Matches: 83, Mismatches: 37, Indels: 18
0.60 0.27 0.13
Matches are distributed among these distances:
58 4 0.05
59 21 0.25
60 6 0.07
61 8 0.10
62 8 0.10
63 5 0.06
64 27 0.33
65 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCTGGTACCATTCAAATACTCATACACACAT
Found at i:19534697 original size:123 final size:123
Alignment explanation
Indices: 19534478--19534816 Score: 579
Period size: 123 Copynumber: 2.8 Consensus size: 123
19534468 GGATATAATT
* * * * * * * *
19534478 ACTAGCATAAATGTCTTCGGAACTTAGCCCAGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACACATATATCA
*
19534543 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
19534601 ACTAGCATAATTGCCTTCGGGACTTAGCCCTGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACACATATATCA
19534666 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
19534724 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACACATATATCA
19534789 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
19534817 CACATAATTC
Statistics
Matches: 205, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 205 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:19538799 original size:40 final size:40
Alignment explanation
Indices: 19538697--19538879 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
19538687 AAATTGAATG
* * * * * *
19538697 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
19538737 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
19538777 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
19538816 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
19538856 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
19538880 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.29
40 85 0.71
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:19538832 original size:39 final size:38
Alignment explanation
Indices: 19538739--19538848 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 38
19538729 TGGAAATTAT
* *
19538739 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTAGCTAA
* *
19538779 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAGCTAA
19538818 ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
19538849 AATCGTGATA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
39 37 0.58
40 27 0.42
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAGTAGCTAA
Found at i:19546219 original size:40 final size:40
Alignment explanation
Indices: 19546126--19546307 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
19546116 AAATTGAATG
* * * * *
19546126 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
19546165 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
19546205 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
19546244 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
19546284 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
19546308 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 64 0.53
40 56 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:19552427 original size:40 final size:39
Alignment explanation
Indices: 19552362--19552554 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 39
19552352 CGGAATACAA
** * * *
19552362 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAAC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTATTAAC
*
19552402 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAAC
*
19552442 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAAC
* * * *
19552482 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTATTAAC
* * * *
19552522 CCGGATATAATTACTAGCATAAATGTCTTCGGG
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGG
19552555 ACTTAGCCCG
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTATTAAC
Found at i:19552755 original size:121 final size:123
Alignment explanation
Indices: 19552534--19552870 Score: 561
Period size: 122 Copynumber: 2.8 Consensus size: 123
19552524 GGATATAATT
* * * * * * *
19552534 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
19552599 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTC-AACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
19552656 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACA-ACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
* *
19552720 ATAATCATTGCACATCCATATTTTATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* *
19552778 ACTAGCATAATTACCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
19552843 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
19552871 CACATAATTC
Statistics
Matches: 200, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
121 50 0.25
122 114 0.57
123 36 0.18
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:19556359 original size:24 final size:24
Alignment explanation
Indices: 19556332--19556381 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19556322 TTGAAAAGAA
19556332 AGCTTAATTGATTGAGAACTTAAT
1 AGCTTAATTGATTGAGAACTTAAT
19556356 AGCTTAATTGATTGAGAACTTAAT
1 AGCTTAATTGATTGAGAACTTAAT
19556380 AG
1 AG
19556382 GAGAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (24 bp):
AGCTTAATTGATTGAGAACTTAAT
Found at i:19556388 original size:24 final size:24
Alignment explanation
Indices: 19556337--19556388 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19556327 AAGAAAGCTT
**
19556337 AATTGATTGAGAACTTAATAGCTT
1 AATTGATTGAGAACTTAATAGCAG
*
19556361 AATTGATTGAGAACTTAATAGGAG
1 AATTGATTGAGAACTTAATAGCAG
19556385 AATT
1 AATT
19556389 TATACACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (24 bp):
AATTGATTGAGAACTTAATAGCAG
Found at i:19559127 original size:20 final size:21
Alignment explanation
Indices: 19559093--19559131 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19559083 TTAATTTTTC
*
19559093 TATTTTTAATGATAATTAATT
1 TATTTTTAATAATAATTAATT
19559114 TATTTTTAA-AATAATTAA
1 TATTTTTAATAATAATTAA
19559132 ACTGTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAATAATAATTAATT
Found at i:19567626 original size:62 final size:62
Alignment explanation
Indices: 19567529--19567653 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
19567519 AACATTTGAG
19567529 TATGGCATGCTAAATGATTCAATGCAATAATCCTACCCATTCATCCGCTACACACCACGAGT
1 TATGGCATGCTAAATGATTCAATGCAATAATCCTACCCATTCATCCGCTACACACCACGAGT
*
19567591 TATGGCATGCTAAATGATTCAATGCAATAATCCTACCCATTCATCCGCTACACGCCACGAGT
1 TATGGCATGCTAAATGATTCAATGCAATAATCCTACCCATTCATCCGCTACACACCACGAGT
19567653 T
1 T
19567654 CCCTAGAACC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (62 bp):
TATGGCATGCTAAATGATTCAATGCAATAATCCTACCCATTCATCCGCTACACACCACGAGT
Found at i:19568469 original size:17 final size:16
Alignment explanation
Indices: 19568416--19568487 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 16
19568406 TAATCGCTCT
*
19568416 AATATTAAATTAATAA
1 AATATTAAATTAATTA
*
19568432 AATACT--ATTAATATA
1 AATATTAAATTAAT-TA
*
19568447 AGTATTAAATTAAATTA
1 AATATTAAATT-AATTA
19568464 AATATTAAATCT-ATTAA
1 AATATTAAAT-TAATT-A
19568481 AATATTA
1 AATATTA
19568488 TCATTATTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.13
15 5 0.11
16 8 0.18
17 22 0.49
18 4 0.09
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:19571746 original size:60 final size:59
Alignment explanation
Indices: 19571666--19571805 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 59
19571656 TTTAGTGTTA
19571666 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TAT
* *
19571727 ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
* *
19571786 ATTGGGCCTTGCCCATATCA
1 ACTGGGCCTAGCCCATATCA
19571806 GCACAGTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
59 26 0.36
60 35 0.49
61 11 0.15
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
Done.