Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 16 of 325
Found at i:5014913 original size:14 final size:14
Alignment explanation
Indices: 5014841--5014924 Score: 64
Period size: 14 Copynumber: 5.9 Consensus size: 14
5014831 AAACATACGC
*
5014841 TAATATTAAT-AA-
1 TAATAATAATAAAT
5014853 TAATAATAATAAAT
1 TAATAATAATAAAT
* *
5014867 AGTAATAATACTACAT
1 --TAATAATAATAAAT
**
5014883 TAATAATAATATGT
1 TAATAATAATAAAT
*
5014897 TAATAACAATAAAT
1 TAATAATAATAAAT
5014911 TAATGAATTAATAA
1 TAAT-AA-TAATAA
5014925 CAAAACAGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
12 9 0.16
13 2 0.04
14 26 0.46
15 2 0.04
16 17 0.30
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:5015374 original size:21 final size:21
Alignment explanation
Indices: 5015350--5015404 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
5015340 AAGCAAATGT
5015350 AGTATAAAAATATTAAAATAA
1 AGTATAAAAATATTAAAATAA
* * *
5015371 AGTAATAAAAA-AATAATATTA
1 AGT-ATAAAAATATTAAAATAA
*
5015392 TGTATAAAAATAT
1 AGTATAAAAATAT
5015405 ATACATATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
AGTATAAAAATATTAAAATAA
Found at i:5019999 original size:46 final size:44
Alignment explanation
Indices: 5019895--5020002 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
5019885 TGTCTTTGAC
** * * * *
5019895 ATGGACTTACATGAATTATTCCTGTCTCTAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
5019939 ATGGACTTATATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
5019985 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5020003 TTTCTGTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.58
46 22 0.42
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:5021199 original size:19 final size:19
Alignment explanation
Indices: 5021175--5021219 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
5021165 TCTTCGGGTT
5021175 CCCATGTAGCCTCGTCTAC
1 CCCATGTAGCCTCGTCTAC
5021194 CCCATGTAGCCTCGTCTAC
1 CCCATGTAGCCTCGTCTAC
5021213 CCCATGT
1 CCCATGT
5021220 CTATTCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.27
Consensus pattern (19 bp):
CCCATGTAGCCTCGTCTAC
Found at i:5027254 original size:46 final size:44
Alignment explanation
Indices: 5027149--5027256 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
5027139 TGTCTTTGAC
** * * *
5027149 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATACAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATACAAT
*
5027193 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TAC-AAT
5027239 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5027257 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
45 2 0.04
46 21 0.38
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATACAAT
Found at i:5035470 original size:24 final size:24
Alignment explanation
Indices: 5035426--5035472 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5035416 ATGTTGGTGG
**
5035426 AGGTGAGTTTGTTAGTAGTGGAGA
1 AGGTGAGTTTCCTAGTAGTGGAGA
5035450 AGGTGAGTTTCCTAG-AGGTGGAG
1 AGGTGAGTTTCCTAGTA-GTGGAG
5035473 GTGATCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.23, C:0.04, G:0.43, T:0.30
Consensus pattern (24 bp):
AGGTGAGTTTCCTAGTAGTGGAGA
Found at i:5035673 original size:72 final size:72
Alignment explanation
Indices: 5035587--5035840 Score: 363
Period size: 72 Copynumber: 3.5 Consensus size: 72
5035577 TAAAGGTGGT
*
5035587 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGATGGAAATGT
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
5035652 TGTTAGA
66 TGTTAGA
*
5035659 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGATGTTATCGGTGGAAATGT
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
5035724 TGTTAGA
66 TGTTAGA
* * *
5035731 GGTGA--GT-TTGTTAGC-AGCAAAAGAAATGAGTTTCTTGGTTGTGAAGGTGACGTTATCGGTG
1 GGTGAGGGTAATGTTA-CTAG----AG--GTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTG
5035792 GAAATGTTGTTAGA
59 GAAATGTTGTTAGA
*
5035806 GGTGAGGGTGATGTTACTAGAGGTGAGTTTCTTGG
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGG
5035841 AGGTGGAAGT
Statistics
Matches: 163, Mismatches: 8, Indels: 22
0.84 0.04 0.11
Matches are distributed among these distances:
69 7 0.04
70 3 0.02
72 87 0.53
73 2 0.01
74 2 0.01
75 52 0.32
77 3 0.02
78 7 0.04
ACGTcount: A:0.23, C:0.06, G:0.36, T:0.35
Consensus pattern (72 bp):
GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
TGTTAGA
Found at i:5035973 original size:6 final size:6
Alignment explanation
Indices: 5035962--5035988 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5035952 GTTGGTCTTT
5035962 TGGAGG TGGAGG TGGAGG TGGAGG TGG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGG
5035989 GGATGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.19
Consensus pattern (6 bp):
TGGAGG
Found at i:5041869 original size:17 final size:18
Alignment explanation
Indices: 5041839--5041874 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5041829 TTAATTTACA
5041839 TTTATTTAAAAATTATAT
1 TTTATTTAAAAATTATAT
*
5041857 TTTATTT-ATAATTATAT
1 TTTATTTAAAAATTATAT
5041874 T
1 T
5041875 AAATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTAAAAATTATAT
Found at i:5047730 original size:3 final size:3
Alignment explanation
Indices: 5047717--5047759 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
5047707 TGACGTCCAT
5047717 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5047760 CTTCTCAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:5060889 original size:62 final size:60
Alignment explanation
Indices: 5060738--5060919 Score: 249
Period size: 62 Copynumber: 2.9 Consensus size: 60
5060728 NNNNNNNNNN
*
5060738 CCATTTCAGAACAAAAAATCCAAAACAAGCAGACAAGAAAACTGCACAAAAAAAGAAATGAATTT
1 CCATTTCAGAACAAAAAATCC-AAACAA-CAGAC-ATAAAACTG-AC-AAAAAAGAAATGAATTT
*
5060803 CCATTTCAGAA-ACAAAAATCCAAACAACAAACATAAAACTGACAAAAAAGAAATGAATTTT
1 CCATTTCAGAACA-AAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA-TTT
*
5060864 CCATTTCAGAACAAAAATATCCAAACAACAGACATAAAAACTGACAAAAAAAAAAT
1 CCATTTCAGAACAAAAA-ATCCAAACAACAGACAT-AAAACTGACAAAAAAGAAAT
5060920 CAAATTTTGG
Statistics
Matches: 108, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
60 14 0.13
61 20 0.19
62 25 0.23
63 23 0.21
64 7 0.06
65 19 0.18
ACGTcount: A:0.58, C:0.19, G:0.08, T:0.15
Consensus pattern (60 bp):
CCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAATTT
Found at i:5061394 original size:16 final size:18
Alignment explanation
Indices: 5061363--5061398 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
5061353 AACAAGGTGT
5061363 ATAATCATCGAGATCAAC
1 ATAATCATCGAGATCAAC
5061381 ATAA-CATC-AGATCAAC
1 ATAATCATCGAGATCAAC
5061397 AT
1 AT
5061399 CTCATCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 4 0.22
18 4 0.22
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
ATAATCATCGAGATCAAC
Found at i:5061404 original size:16 final size:16
Alignment explanation
Indices: 5061366--5061405 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
5061356 AAGGTGTATA
5061366 ATCATCGAGATCAACAT
1 ATCATC-AGATCAACAT
*
5061383 AACATCAGATCAACAT
1 ATCATCAGATCAACAT
*
5061399 CTCATCA
1 ATCATCA
5061406 TTAGATCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (16 bp):
ATCATCAGATCAACAT
Found at i:5064816 original size:287 final size:287
Alignment explanation
Indices: 5063704--5064985 Score: 2365
Period size: 287 Copynumber: 4.5 Consensus size: 287
5063694 CCAACCTTAT
5063704 TTTAAATATTTTAAAGATTCAAAGTATAT-GGCTGGAAACCTGAC-GGTTGCCTTATATC-AGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
5063766 ACAA-ATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGAT-AATCTT-AAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTA-GATGAATCTTAAAAAATTCAA
5063828 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
130 AAAGACTTG-AAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
5063893 TCCAATTTACTTATAAAAA-TAAACTACGA-TCTTTTTTGATATTATTATATTCAAATTACTATT
194 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
5063956 TTTTATATTAATAATGTTTGATTTTAATA
259 TTTTATATTAATAATGTTTGATTTTAATA
5063985 TTTAAATATTTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTTGCCTTATATCGAG
1 TTTAAATA-TTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG-TTGCCTTATATCGAG
5064050 CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
64 CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTA-GATGAATCTTAAAAAATTC
5064115 AAAAAGACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTAT
128 AAAAAGACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTAT
*
5064180 TTCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTG--ATTATTATATTCAAATTACTAT
193 TTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTAT
5064243 TTTTTATATTAATAATG-TTGATTTTAATA
258 TTTTTATATTAATAATGTTTGATTTTAATA
5064272 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
5064337 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTA-GATGAATCTTAAAAAATTCAA
5064402 AAAGACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
130 AAAGACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
5064467 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
195 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-TT
5064532 TTTTATATTAATAATGTTTGATTTTAATA
259 TTTTATATTAATAATGTTTGATTTTAATA
5064561 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
5064626 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTA-ATGAATCTTAAAAAATTCAAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAGATGAATCTTAAAAAATTCAAA
5064690 AAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
131 AAGACTTG-AAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
5064755 CCAATTTACTTATAAAAATTAAACTACGATTC-TTTTTGATATTATTATATTCAAATTACTATTT
195 CCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-TT
5064819 TTTTATATTAATAATGTTTGATTTTAATA
259 TTTTATATTAATAATGTTTGATTTTAATA
5064848 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
5064913 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTA-GATGAATCTTAAAAAATTCAA
5064978 AAAGACTT
130 AAAGACTT
5064986 TTTATCACAA
Statistics
Matches: 981, Mismatches: 3, Indels: 26
0.97 0.00 0.03
Matches are distributed among these distances:
281 8 0.01
282 21 0.02
283 15 0.02
284 2 0.00
285 197 0.20
286 47 0.05
287 281 0.29
288 224 0.23
289 177 0.18
290 9 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (287 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAGATGAATCTTAAAAAATTCAAA
AAGACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTTC
CAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTT
TTATATTAATAATGTTTGATTTTAATA
Found at i:5065233 original size:15 final size:15
Alignment explanation
Indices: 5065190--5065244 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
5065180 AACGACATGT
*
5065190 ATATTACTTAATTAA
1 ATATTATTTAATTAA
5065205 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
5065218 ATATTATTTAATTAA
1 ATATTATTTAATTAA
5065233 ATATTATTTAAT
1 ATATTATTTAAT
5065245 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 2 0.06
15 19 0.54
16 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:5065380 original size:18 final size:18
Alignment explanation
Indices: 5065357--5065438 Score: 83
Period size: 18 Copynumber: 4.4 Consensus size: 18
5065347 CATAATTTAT
*
5065357 ATAACTTACAAAACGTAC
1 ATAACTTACAAAACTTAC
* ** *
5065375 ATAACTATATAAATAAATAT
1 ATAACT-TACAAA-ACTTAC
*
5065395 ATAACTTACATAACTTAC
1 ATAACTTACAAAACTTAC
*
5065413 ATAACTTACATAACTTAC
1 ATAACTTACAAAACTTAC
5065431 ATAACTTA
1 ATAACTTA
5065439 TATGTTGTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
18 35 0.66
19 9 0.17
20 9 0.17
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (18 bp):
ATAACTTACAAAACTTAC
Found at i:5065409 original size:9 final size:9
Alignment explanation
Indices: 5065395--5065438 Score: 88
Period size: 9 Copynumber: 4.9 Consensus size: 9
5065385 AAATAAATAT
5065395 ATAACTTAC
1 ATAACTTAC
5065404 ATAACTTAC
1 ATAACTTAC
5065413 ATAACTTAC
1 ATAACTTAC
5065422 ATAACTTAC
1 ATAACTTAC
5065431 ATAACTTA
1 ATAACTTA
5065439 TATGTTGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:5071188 original size:32 final size:32
Alignment explanation
Indices: 5071152--5071230 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
5071142 AGAATTAATA
* *
5071152 TTTTTGGTTGTATTTTTATGTTAAATTTGCTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGCTG
* * *
5071184 TTTTTGGCTGCA-TTTTATATTATATTTGTTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGCTG
* *
5071215 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
5071231 AATGCAGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTTATATTAAATTTGCTG
Found at i:5071353 original size:43 final size:43
Alignment explanation
Indices: 5071306--5071469 Score: 274
Period size: 43 Copynumber: 3.8 Consensus size: 43
5071296 TTTTTGCAAG
5071306 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
5071349 CGCCGCTAAAAGCCTTGACCTTTAGCTGTGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
5071392 CGCCGCTAAAAGCCTTGACATTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
5071435 TGCCGCTAAAAGCCTTGACTTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
5071470 TTCCAATAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 113 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:5083795 original size:46 final size:46
Alignment explanation
Indices: 5083735--5084054 Score: 525
Period size: 46 Copynumber: 7.0 Consensus size: 46
5083725 TTTGACATGA
* * * * * *
5083735 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
5083781 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5083827 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5083873 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5083919 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
5083965 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5084011 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5084055 AGAGCACACT
Statistics
Matches: 259, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 255 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:5086528 original size:29 final size:30
Alignment explanation
Indices: 5086471--5086538 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
5086461 CACCCTTAAA
* *
5086471 ATATTTACACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
5086501 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
5086530 AGTATTTAC
1 A-TATTTAC
5086539 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:5088872 original size:20 final size:20
Alignment explanation
Indices: 5088831--5088873 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
5088821 TTACCCCAAA
*
5088831 CCCCCAAACTTTATTACTTT
1 CCCCCAAACTTTATTACCTT
5088851 CCCCCAATACTTTATT-CCTT
1 CCCCCAA-ACTTTATTACCTT
5088871 CCC
1 CCC
5088874 ACTTTTCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (20 bp):
CCCCCAAACTTTATTACCTT
Found at i:5089029 original size:20 final size:20
Alignment explanation
Indices: 5088996--5089035 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5088986 TTCCCCTCAA
*
5088996 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
5089016 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
5089036 TTCCCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:5089331 original size:18 final size:18
Alignment explanation
Indices: 5089294--5089331 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5089284 TAAAAATCAC
*
5089294 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
5089312 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
5089330 AT
1 AT
5089332 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:5098536 original size:8 final size:8
Alignment explanation
Indices: 5098523--5098587 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
5098513 GGCCCATCCG
5098523 TATTATTT
1 TATTATTT
5098531 TATTATTT
1 TATTATTT
*
5098539 TA-AATATT
1 TATTAT-TT
*
5098547 TA-TATTA
1 TATTATTT
5098554 TATTATTT
1 TATTATTT
*
5098562 TAATATTT
1 TATTATTT
* *
5098570 AATAATTT
1 TATTATTT
5098578 TATATATTT
1 TAT-TATTT
5098587 T
1 T
5098588 TAAATAATCA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
7 5 0.11
8 34 0.77
9 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTATTT
Found at i:5098552 original size:23 final size:24
Alignment explanation
Indices: 5098526--5098593 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 24
5098516 CCATCCGTAT
5098526 TATTTTATTATTTTAAATATTT-A
1 TATTTTATTATTTTAAATATTTAA
*
5098549 TATTATATTATTTT-AATATTTAA
1 TATTTTATTATTTTAAATATTTAA
5098572 TAATTTTATATATTTTTAAATA
1 T-ATTTTAT-TA-TTTTAAATA
5098594 ATCATCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 15 0.39
24 6 0.16
25 2 0.05
26 4 0.11
27 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTATTATTTTAAATATTTAA
Found at i:5098561 original size:31 final size:31
Alignment explanation
Indices: 5098523--5098582 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
5098513 GGCCCATCCG
* *
5098523 TATTATTTTATTATTTTA-AATATTTATATTA
1 TATTATTTTAATATTTAATAAT-TTTATATTA
5098554 TATTATTTTAATATTTAATAATTTTATAT
1 TATTATTTTAATATTTAATAATTTTATAT
5098583 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTATTTTAATATTTAATAATTTTATATTA
Found at i:5098823 original size:32 final size:29
Alignment explanation
Indices: 5098780--5098838 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 29
5098770 ACAGGTCTAT
*
5098780 TATTTTTATTTAAACACATTTTTTAAATTTAA
1 TATTTTCATTTAAA-AC--TTTTTAAATTTAA
5098812 TATTTTCATTTAAAACTTTTTAAATTT
1 TATTTTCATTTAAAACTTTTTAAATTT
5098839 CGAACAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
31 2 0.08
32 13 0.50
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (29 bp):
TATTTTCATTTAAAACTTTTTAAATTTAA
Found at i:5099497 original size:26 final size:26
Alignment explanation
Indices: 5099465--5099521 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
5099455 TTGTCGGCTT
* *
5099465 TATTTTT-AAATTTTTTTATTTTAAGA
1 TATTTTTCAAATTTTTTAAATTTAA-A
*
5099491 TATTTTTCTAATTTTTTAAATTTAAA
1 TATTTTTCAAATTTTTTAAATTTAAA
5099517 TATTT
1 TATTT
5099522 AATTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TATTTTTCAAATTTTTTAAATTTAAA
Found at i:5100440 original size:17 final size:17
Alignment explanation
Indices: 5100407--5100456 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
5100397 AGATGACTAT
*
5100407 ATAAAAAATTTCA-AAAA
1 ATAAAAAATAT-ATAAAA
5100424 ATAAAAAATATATAAAA
1 ATAAAAAATATATAAAA
**
5100441 ATATTAAATAT-TAAAA
1 ATAAAAAATATATAAAA
5100457 TAATATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAAAATATATAAAA
Found at i:5100461 original size:28 final size:29
Alignment explanation
Indices: 5100390--5100463 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 29
5100380 ACATTAAAAT
* *
5100390 AATATTAAGATGACTATATAAAAAATTTCA
1 AATATTAAAAT-AATATATAAAAAATTTCA
* *
5100420 AAAAATAAAA-AATATAT-AAAAATATT-A
1 AATATTAAAATAATATATAAAAAAT-TTCA
5100447 AATATTAAAATAATATA
1 AATATTAAAATAATATA
5100464 ATATAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
27 15 0.42
28 14 0.39
30 7 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (29 bp):
AATATTAAAATAATATATAAAAAATTTCA
Found at i:5106009 original size:22 final size:22
Alignment explanation
Indices: 5105982--5106040 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
5105972 ACTGGTTTAT
*
5105982 TTTTTATTTAATTT-ATAATAAA
1 TTTTTA-TTAATTTAAAAATAAA
5106004 TTTTTA-TAATTTAAAAATAAA
1 TTTTTATTAATTTAAAAATAAA
5106025 TATTTTA-T-ATTTAAAA
1 T-TTTTATTAATTTAAAA
5106041 TAGTGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.18
21 16 0.47
22 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTTATTAATTTAAAAATAAA
Found at i:5106015 original size:20 final size:21
Alignment explanation
Indices: 5105990--5106042 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
5105980 ATTTTTTATT
* *
5105990 TAATTTATAATAAATT-TTTA
1 TAATTTAAAATAAATATTTTA
5106010 TAATTTAAAAATAAATATTTTA
1 TAATTT-AAAATAAATATTTTA
5106032 T-ATTTAAAATA
1 TAATTTAAAATA
5106043 GTGAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
21 12 0.41
22 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATAAATATTTTA
Found at i:5106693 original size:17 final size:17
Alignment explanation
Indices: 5106669--5106707 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5106659 ATCCTTCACT
*
5106669 CTTTTTTTTTGTTTT-A
1 CTTTTTTTTAGTTTTAA
5106685 CTTTATTTTTAGTTTTAA
1 CTTT-TTTTTAGTTTTAA
5106703 CTTTT
1 CTTTT
5106708 AAAAGTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (17 bp):
CTTTTTTTTAGTTTTAA
Found at i:5107562 original size:60 final size:59
Alignment explanation
Indices: 5107490--5107650 Score: 241
Period size: 60 Copynumber: 2.7 Consensus size: 59
5107480 AAAAATTATT
* * *
5107490 CTCAATGTTTATAAAATTGATCATTTTAGTTCGAATTCTAAAAATTTAATAAATTTAACC
1 CTCAATATTTATAAAATTTATCA-TTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
* *
5107550 CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAAAGATTTAATAAATTAAACT
1 CTCAATATTTATAAAATTTATC-ATTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
*
5107610 CTCAATATTTATAAAATTTATCGATTTAGTTCTAATTCTAA
1 CTCAATATTTATAAAATTTATC-ATTTAGTTCGAATTCTAA
5107651 GTTGACATCC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 92 0.99
61 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (59 bp):
CTCAATATTTATAAAATTTATCATTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
Found at i:5112198 original size:47 final size:47
Alignment explanation
Indices: 5112144--5112237 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
5112134 CAGGAATAGG
5112144 GTGTATGACATTTATAGGGAAAACCTGGGGACCAAATTTGCAATATC
1 GTGTATGACATTTATAGGGAAAACCTGGGGACCAAATTTGCAATATC
5112191 GTGTATGACATTTATAGGGAAAACCTGGGGACCAAATTTGCAATATC
1 GTGTATGACATTTATAGGGAAAACCTGGGGACCAAATTTGCAATATC
5112238 CCCATTCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (47 bp):
GTGTATGACATTTATAGGGAAAACCTGGGGACCAAATTTGCAATATC
Found at i:5119223 original size:22 final size:22
Alignment explanation
Indices: 5119181--5119229 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 22
5119171 TAAGATGAGT
*
5119181 ATATATAAATTTTAATAAAAAA
1 ATATATAAATTTAAATAAAAAA
5119203 ATAT-TAAATATTAAATTAAAAAGA
1 ATATATAAAT-TTAAA-TAAAAA-A
5119227 ATA
1 ATA
5119230 AAAATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 6 0.26
24 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATATAAATTTAAATAAAAAA
Found at i:5120344 original size:19 final size:18
Alignment explanation
Indices: 5120313--5120355 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
5120303 CTATATTTTC
*
5120313 ATAAAATAAATTTACTTA
1 ATAAAATAAATTTAATTA
*
5120331 CTAAAATGAAATTTAATTA
1 ATAAAAT-AAATTTAATTA
5120350 ATAAAA
1 ATAAAA
5120356 ATATCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAAATAAATTTAATTA
Found at i:5122154 original size:14 final size:14
Alignment explanation
Indices: 5122135--5122170 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5122125 ATATCCAAAC
5122135 AATAACAACAAAAT
1 AATAACAACAAAAT
* *
5122149 AGTAACAACATAAT
1 AATAACAACAAAAT
5122163 AATAACAA
1 AATAACAA
5122171 AACAAAAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.67, C:0.14, G:0.03, T:0.17
Consensus pattern (14 bp):
AATAACAACAAAAT
Found at i:5126259 original size:63 final size:62
Alignment explanation
Indices: 5126180--5126386 Score: 231
Period size: 63 Copynumber: 3.3 Consensus size: 62
5126170 CACTGCCAGG
* * * *
5126180 GACACGGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTAGTATAAAAACCACATGGCTAG
1 GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAGTATAAAAACCACATGGCAAA
* * *
5126242 GTATACGGGCGTGTGCCCAGGCTGTGTAACTCATTGTTTG-AGGTATAAAAACCACACGGCCAAA
1 G-ACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTA-GTATAAAAACCACATGG-CAAA
* * *
5126306 GACACAGGCGTGTGCCCAGGCCGTGTATCTCATTGTTTGT-GCT-TAAAAACCACATGGCCAAG
1 GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAG-TATAAAAACCACATGG-CAAA
* *
5126368 GCACATGGGCATGTGCCCA
1 G-ACACGGGCGTGTGCCCA
5126387 AGCTGTGTTG
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
62 21 0.17
63 99 0.80
64 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (62 bp):
GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAGTATAAAAACCACATGGCAAA
Found at i:5130466 original size:132 final size:131
Alignment explanation
Indices: 5130282--5130666 Score: 438
Period size: 132 Copynumber: 2.9 Consensus size: 131
5130272 AAAGTATGAG
* * *
5130282 TGAAGTTCTAAAGGAATC-TTCGATCATTTTG-GACAAAC-AGAAAATTGCAACCCAGCACATTA
1 TGAAATTCTAAAGGAA-CATTCGATTATTTTGAG-CAAACAAG-AAATTGCAACCCAGCACGTTA
* * * * *
5130344 GGGTACGATTACCCGAATTGCCAAACT-TCGAATATTACCTTCGTTTTGAAGAGTTTTTAGAAAA
63 GGGCACGATT-CCCGAATTGTCAAA-TATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAA
5130408 CATAAA
126 CATAAA
* * *
5130414 TGAAATTCTAAAGGGACATTCGATTATTTTGAGTAAACGAGAAATTGCAACCCAGCACGTTAGGG
1 TGAAATTCTAAAGGAACATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAGCACGTTAGGG
* * * * * *
5130479 CACGATTCCGCGATTTGTCAAATATTGAACATCGCCCTCGTTTTAAAG-GATTTTTAGGAGACAT
66 CACGATTCC-CGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAG-TTTTTAGAAAACAT
* *
5130543 GAG
129 AAA
* * *
5130546 TGAAATTTTGAAGGAATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAGCACGTTAGGG
1 TGAAATTCTAAAGGAACATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAGCACGTTAGGG
* * *
5130611 CATGATTTCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAATTTTTA
66 CACGA-TTCCCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTA
5130667 AACGAATAAT
Statistics
Matches: 214, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
131 5 0.02
132 203 0.95
133 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (131 bp):
TGAAATTCTAAAGGAACATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAGCACGTTAGGG
CACGATTCCCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAACATAA
A
Found at i:5135706 original size:13 final size:13
Alignment explanation
Indices: 5135688--5135712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5135678 ATTTGTGAAA
5135688 AAATAAAATAAAT
1 AAATAAAATAAAT
5135701 AAATAAAATAAA
1 AAATAAAATAAA
5135713 GAACACACAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:5138548 original size:90 final size:90
Alignment explanation
Indices: 5138387--5138598 Score: 216
Period size: 90 Copynumber: 2.4 Consensus size: 90
5138377 AGGATTGTGA
* **
5138387 CTTCGATCTGCTCCACTGCAACTTCAGGAAGACAAGATCTTGCAATCTTCGGCCTGTTGCCCTAC
1 CTTCGATCTGCTCCACTGCAACTTCAGGAAGACAAGATCTTGCAATCTTCAGCCTACTGCCCTAC
*
5138452 TATTTAGGGGGTTAAGGCTTGTTCT
66 AATTTAGGGGGTTAAGGCTTGTTCT
* * * * *
5138477 CTTCGATCTTCTCCACTGGAACTTCAGGGAGACAAGGTC-TGCAATCTTTAGCCTACT-CCTCTA
1 CTTCGATCTGCTCCACTGCAACTTCAGGAAGACAAGATCTTGCAATCTTCAGCCTACTGCC-CTA
* * * **
5138540 CAACTTTAGGGAGAT-AGG-GTGTTGG
65 CAA-TTTAGGGGGTTAAGGCTTGTTCT
** * *
5138565 CTTAAATCTGCTTCACTGCAACTTCAAGAAGACA
1 CTTCGATCTGCTCCACTGCAACTTCAGGAAGACA
5138599 TGATTCGCCA
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
88 33 0.33
89 22 0.22
90 44 0.44
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (90 bp):
CTTCGATCTGCTCCACTGCAACTTCAGGAAGACAAGATCTTGCAATCTTCAGCCTACTGCCCTAC
AATTTAGGGGGTTAAGGCTTGTTCT
Found at i:5138780 original size:133 final size:133
Alignment explanation
Indices: 5138491--5138782 Score: 359
Period size: 133 Copynumber: 2.2 Consensus size: 133
5138481 GATCTTCTCC
* * * * * *
5138491 ACTGGAACTTCAGGGAGACAAGGTCTGCAATCTTTAGCCTACTCCTCTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGAAGATA
* * * * * *
5138556 GGGTGTTGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGACATGATTCGCCATCTTTGATCTAC
66 GGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGACACGATTCGCCATCGTCGATCCAC
5138621 TCT
131 TCT
* * * * * * *
5138624 ATTGTAACTTCAGGGAAATAAGATTTATAATCTTCAGCCTACTCCACTACAACTTTAGGAAGCTA
1 ACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGAAGATA
* * * * * *
5138689 GGATGGTGGTTTAAATCTGCTTCACTGCAACTTTAGGAAGACACGATTCGTCGTCGTCGATCCCC
66 GGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGACACGATTCGCCATCGTCGATCCAC
5138754 TCT
131 TCT
5138757 ACTGCAACTTCAGGGAGACAAGATCT
1 ACTGCAACTTCAGGGAGACAAGATCT
5138783 GTAGAATTCA
Statistics
Matches: 130, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (133 bp):
ACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGAAGATA
GGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGACACGATTCGCCATCGTCGATCCAC
TCT
Found at i:5150207 original size:132 final size:132
Alignment explanation
Indices: 5150038--5150422 Score: 442
Period size: 132 Copynumber: 2.9 Consensus size: 132
5150028 AAAGTATGAG
* * *
5150038 TGAAATTCTAAAGGAATC-TTCGATCATTTTG-GACAAAC-AGAAAATTGCAACCCAACACATTA
1 TGAAATTCTAAAGGAA-CATTCGATTATTTTGAG-CAAACGAG-AAATTGCAACCCAGCACGTTA
* * * * * *
5150100 GGGTACGATTACC-CGAATTGCCAAACT-TCGAATATTACCTTCATTTTGAAGAGTTTTTAGAAA
63 GGGCACGATT-CCGCGAATTGTCAAA-TATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAA
*
5150163 ACGTAAA
126 ACATAAA
* *
5150170 TGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCATGTTAGGG
1 TGAAATTCTAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* * * * *
5150235 CACAATTCCGCGAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAG-GATTTTTAGGAGACAT
66 CACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAG-TTTTTAGAAAACAT
* *
5150299 GAG
130 AAA
* * *
5150302 TGAAAATT-TGAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACTCAGCACGTTAGG
1 TG-AAATTCTAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGG
* *
5150366 GCAAGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAATTTTTA
65 GCACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTA
5150423 AACGAATAAT
Statistics
Matches: 216, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
131 5 0.02
132 203 0.94
133 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (132 bp):
TGAAATTCTAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
CACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAACATA
AA
Found at i:5162372 original size:23 final size:23
Alignment explanation
Indices: 5162342--5162387 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5162332 TTTAAGCTTA
5162342 GTGTCAAAACTTGATAGAATTTT
1 GTGTCAAAACTTGATAGAATTTT
5162365 GTGTCAAAACTTGATAGAATTTT
1 GTGTCAAAACTTGATAGAATTTT
5162388 ATCTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (23 bp):
GTGTCAAAACTTGATAGAATTTT
Found at i:5164772 original size:363 final size:363
Alignment explanation
Indices: 5164104--5164832 Score: 1332
Period size: 363 Copynumber: 2.0 Consensus size: 363
5164094 TGTTCAAATC
* * * *
5164104 TCACTCTTAAAAATTGTTGCTATTTTTGTTCTTATCTTTATCTTTAATCATTTGACTTAAATTGT
1 TCACTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCT
5164169 ATTTCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTG
66 ATTTCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTG
5164234 GTCTTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGCG
131 GTCTTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGCG
* **
5164299 TCCAAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTGTTAAGTGGTGGTTAGAAGA
196 TCCAAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTATTAAGTGACGGTTAGAAGA
5164364 CTAGTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAA
261 CTAGTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAA
5164429 AAAGATTTTTAATCCCCACTTTTCTCTCCGACACTATT
326 AAAGATTTTTAATCCCCACTTTTCTCTCCGACACTATT
*
5164467 TCACTCTTAGAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCT
1 TCACTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCT
* * *
5164532 ATTTCCCTTAATTTGTAATAGAATGAGCTTGTTGGTTTAGTGGTAAGGTGTTAGCTTGCTCTTTG
66 ATTTCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTG
*
5164597 GTCTTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTGTTTCTCATGTTTGTGCG
131 GTCTTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGCG
5164662 TCCAAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTATTAAGTGACGGTTAGAAGA
196 TCCAAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTATTAAGTGACGGTTAGAAGA
*
5164727 CTAGTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAATTTTGAAAATTGATTGATTGAAAATAA
261 CTAGTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAA
*
5164792 AAAGATTTTTAATCCCCACTTTTCTCTCTGACACTATT
326 AAAGATTTTTAATCCCCACTTTTCTCTCCGACACTATT
5164830 TCA
1 TCA
5164833 TGTCCCTTTT
Statistics
Matches: 352, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
363 352 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (363 bp):
TCACTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCT
ATTTCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTG
GTCTTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGCG
TCCAAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTATTAAGTGACGGTTAGAAGA
CTAGTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAA
AAAGATTTTTAATCCCCACTTTTCTCTCCGACACTATT
Found at i:5166368 original size:43 final size:43
Alignment explanation
Indices: 5166307--5166394 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
5166297 AATAACAACA
*
5166307 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTTGGTAAATT
1 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
5166350 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
1 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
5166393 TA
1 TA
5166395 CATATTTACC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (43 bp):
TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
Found at i:5174069 original size:14 final size:14
Alignment explanation
Indices: 5174050--5174079 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5174040 TTGTGTTAAC
5174050 ACTTTTCGATCCTT
1 ACTTTTCGATCCTT
5174064 ACTTTTCGATCCTT
1 ACTTTTCGATCCTT
5174078 AC
1 AC
5174080 GCTTCTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.47
Consensus pattern (14 bp):
ACTTTTCGATCCTT
Found at i:5175965 original size:14 final size:15
Alignment explanation
Indices: 5175946--5175974 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5175936 TTGTTCTTTA
5175946 TTAAAA-TTCTATAT
1 TTAAAATTTCTATAT
5175960 TTAAAATTTCTATAT
1 TTAAAATTTCTATAT
5175975 CTTCTCTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAATTTCTATAT
Found at i:5177276 original size:24 final size:26
Alignment explanation
Indices: 5177240--5177292 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
5177230 TATTTCATTA
**
5177240 TATCCTATTATTT-TTTTAGT-TTTT
1 TATCCTACCATTTATTTTAGTATTTT
*
5177264 TATCCTACCATTTATTTTATTATTTT
1 TATCCTACCATTTATTTTAGTATTTT
5177290 TAT
1 TAT
5177293 TATACTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (26 bp):
TATCCTACCATTTATTTTAGTATTTT
Found at i:5181692 original size:21 final size:21
Alignment explanation
Indices: 5181666--5181710 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
5181656 GAGGGATCAA
*
5181666 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
5181687 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
5181708 ATG
1 ATG
5181711 ATGAGCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:5185727 original size:25 final size:25
Alignment explanation
Indices: 5185693--5185744 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5185683 GCCAGCCCAA
5185693 AGGATAACTTTTCATTGCCTCACAT
1 AGGATAACTTTTCATTGCCTCACAT
5185718 AGGATAACTTTTCATTGCCTCACAT
1 AGGATAACTTTTCATTGCCTCACAT
5185743 AG
1 AG
5185745 ACACTCTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (25 bp):
AGGATAACTTTTCATTGCCTCACAT
Found at i:5189520 original size:43 final size:45
Alignment explanation
Indices: 5189468--5189671 Score: 136
Period size: 45 Copynumber: 4.6 Consensus size: 45
5189458 TATCATCAGC
*
5189468 CTTATCTTCACTGGGCAGGAGTGGAGCAGGCT-AAATAT-CAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACAGAT
* * * * **
5189511 CTTATCTTCATTGAGCAGGAGTGAAGCA-GATCAAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAA-TATACAG-AT
* * * ** * *
5189557 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCAT-CAGCT
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ATACAGAT
* *
5189602 -TTATCTTCACTGAGCAGGAGTAGAGCAGGCT-AAATATACCAGGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATA-CAGAT
* *
5189646 CTTATCTTCACTGAACAGGAGCGGAG
1 CTTATCTTCACTGAGCAGGAGTGGAG
5189672 AAGATCAAAT
Statistics
Matches: 120, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
42 4 0.03
43 31 0.26
44 24 0.20
45 35 0.29
46 21 0.17
47 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACAGAT
Found at i:5189700 original size:135 final size:133
Alignment explanation
Indices: 5189459--5189819 Score: 395
Period size: 135 Copynumber: 2.7 Consensus size: 133
5189449 GATTACAGAT
* * * *
5189459 ATCATCAGCCTTATCTTCACTGGGCAGGAGTGGAGCAGGCTAAATATCAGATCTTATCTTCATTG
1 ATCATCAGCTTTATCTTCACTGAGCAGGAGTAGAGCAGGCTAAATATCAGATCTTATCTTCACTG
* * * * * *
5189524 AGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AACAGGAGCGAAGAAGATCAAATTTTGGAGAATCTTATCTCCACGGACCGACAATGGAGCAGATT
5189589 CCA
131 CCA
*
5189592 ATCATCAGCTTTATCTTCACTGAGCAGGAGTAGAGCAGGCTAAATATACCAGGTCTTATCTTCAC
1 ATCATCAGCTTTATCTTCACTGAGCAGGAGTAGAGCAGGCTAAATAT--CAGATCTTATCTTCAC
* * * *
5189657 TGAACAGGAGCGGAGAAGATCAAATTTTGGTGAATCTTATCTCCATGGATCGACAATGGAGCAGA
64 TGAACAGGAGCGAAGAAGATCAAATTTTGGAGAATCTTATCTCCACGGACCGACAATGGAGCAGA
*
5189722 TTTCA
129 TTCCA
** * * *
5189727 GCCACCAG-TCTTATCTTCACTGAGCAGGAGT-GAAGCA-GATCAAATTATAGCAAATCTTATCT
1 ATCATCAGCT-TTATCTTCACTGAGCAGGAGTAG-AGCAGGCT-AAA-TAT--CAGATCTTATCT
** * * *
5189789 TCGTTGAGCAGGAGCGAAGCAGATCAGATTT
60 TCACTGAACAGGAGCGAAGAAGATCAAATTT
5189820 CAGCAGATCC
Statistics
Matches: 193, Mismatches: 29, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
133 44 0.23
134 4 0.02
135 106 0.55
136 39 0.20
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (133 bp):
ATCATCAGCTTTATCTTCACTGAGCAGGAGTAGAGCAGGCTAAATATCAGATCTTATCTTCACTG
AACAGGAGCGAAGAAGATCAAATTTTGGAGAATCTTATCTCCACGGACCGACAATGGAGCAGATT
CCA
Found at i:5194626 original size:46 final size:46
Alignment explanation
Indices: 5194562--5194830 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
5194552 TTTGAGTACT
* *
5194562 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
5194608 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
5194654 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
5194706 TCTGATCAAGTGATAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A---CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
5194758 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
5194804 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
5194831 GCTACACTTA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
49 1 0.01
52 85 0.43
55 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:5194687 original size:52 final size:51
Alignment explanation
Indices: 5194622--5194830 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
5194612 ATCAAGTGAC
5194622 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
5194674 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
5194725 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
5194772 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
5194824 ATAAGTG
1 A-AAGTG
5194831 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 92 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:5194725 original size:7 final size:7
Alignment explanation
Indices: 5194708--5194741 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
5194698 TACACTTATC
5194708 TGATCAAG
1 TGAT-AAG
5194716 TGATAAG
1 TGATAAG
*
5194723 TGAAAAG
1 TGATAAG
5194730 TGATAAG
1 TGATAAG
5194737 TGATA
1 TGATA
5194742 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:5194838 original size:37 final size:37
Alignment explanation
Indices: 5194794--5194939 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
5194784 GATAGCTTTA
**
5194794 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5194831 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
5194868 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
5194905 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5194940 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:5196255 original size:49 final size:49
Alignment explanation
Indices: 5196194--5196386 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
5196184 ATGTGAACAT
5196194 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
5196244 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
5196293 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
5196342 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
5196387 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:5199611 original size:46 final size:46
Alignment explanation
Indices: 5199509--5199775 Score: 356
Period size: 46 Copynumber: 5.6 Consensus size: 46
5199499 TTTGAGTACT
* *
5199509 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTC-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
5199554 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
5199600 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
5199652 TCTGATCAAGTGAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG--A---CAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
5199703 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
5199749 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
5199776 GCTACACTTA
Statistics
Matches: 199, Mismatches: 11, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
45 33 0.17
46 79 0.40
49 1 0.01
51 42 0.21
52 43 0.22
54 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:5199628 original size:97 final size:91
Alignment explanation
Indices: 5199509--5199812 Score: 347
Period size: 97 Copynumber: 3.3 Consensus size: 91
5199499 TTTGAGTACT
* * *
5199509 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGTGACAAAGTG
5199574 ATAAGTGATAGCTTCAGCTACACTTA
66 ATAAGTGATAGCTTCAGCTACACTTA
*
5199600 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTC-GCTACACTTATCTGATCAAGTG-
* * *
5199665 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
58 -A---CAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
5199703 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGC-TTCGCTACACTTATCTGATCAAGTGACAAAGT
5199768 GATAA--G-T-G-----GCTACACTTA
65 GATAAGTGATAGCTTCAGCTACACTTA
*
5199786 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
5199813 GCTACACTTA
Statistics
Matches: 190, Mismatches: 10, Indels: 34
0.81 0.04 0.15
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
91 13 0.07
92 10 0.05
95 1 0.01
97 60 0.32
98 24 0.13
100 1 0.01
103 43 0.23
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (91 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGATAGCTTCAGCTACACTTA
Found at i:5199783 original size:37 final size:37
Alignment explanation
Indices: 5199739--5199884 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
5199729 GATAGCTTTA
**
5199739 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5199776 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
5199813 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
5199850 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
5199885 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:5199812 original size:149 final size:142
Alignment explanation
Indices: 5199516--5199780 Score: 340
Period size: 149 Copynumber: 1.8 Consensus size: 142
5199506 ACTTCTGATC
* *
5199516 AAGTGATAAAGTG-ATAAGTGGTAGCTTCGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 AAGTGA-AAAGTGTATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
5199580 GATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCT
65 GATAGCTTCAGCTACACTTATCTGATCAAGTGAC-----GAAAGTGATAAGTG--AGCTACGACT
* * *
5199645 ACACTTATCTGATCAAGTGA
123 ACACTGATCAGAACAAGTGA
*
5199665 AAGTGAAAAGTG-ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 AAGTGAAAAGTGTATAAGTGATAGCTTC-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
5199729 GATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAAGTGATAAGTG-GCTAC
65 GATAGCTTCAGCTACACTTATCTGATCAAGTGACGAAAGTGATAAGTGAGCTAC
5199781 ACTTATCTGA
Statistics
Matches: 110, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
140 4 0.04
143 13 0.12
148 20 0.18
149 73 0.66
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (142 bp):
AAGTGAAAAGTGTATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
ATAGCTTCAGCTACACTTATCTGATCAAGTGACGAAAGTGATAAGTGAGCTACGACTACACTGAT
CAGAACAAGTGA
Found at i:5204541 original size:34 final size:34
Alignment explanation
Indices: 5204498--5204566 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
5204488 GATAATATAC
*
5204498 ATGTATTCATATATCATCCATATGTTTTATTTAT
1 ATGTATTCATATATCATACATATGTTTTATTTAT
*
5204532 ATGTATTCATATATCGTACATATGTTTTATTTAT
1 ATGTATTCATATATCATACATATGTTTTATTTAT
5204566 A
1 A
5204567 CTTTCATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.52
Consensus pattern (34 bp):
ATGTATTCATATATCATACATATGTTTTATTTAT
Found at i:5210279 original size:17 final size:19
Alignment explanation
Indices: 5210242--5210279 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5210232 AACTATGATT
5210242 TTTTTTATAGAAAATAGAA
1 TTTTTTATAGAAAATAGAA
*
5210261 TTTTTTCTA-AAAATA-AA
1 TTTTTTATAGAAAATAGAA
5210278 TT
1 TT
5210280 ACAACAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
TTTTTTATAGAAAATAGAA
Found at i:5215561 original size:21 final size:22
Alignment explanation
Indices: 5215535--5215581 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5215525 CTCTGCTCAA
*
5215535 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5215556 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5215578 ACTC
1 ACTC
5215582 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5226437 original size:33 final size:33
Alignment explanation
Indices: 5226400--5226495 Score: 111
Period size: 34 Copynumber: 2.9 Consensus size: 33
5226390 AATATGACAA
*
5226400 GCTTATAACAGATCAATACGGTAGCAATAGCAT
1 GCTTATAACAAATCAATACGGTAGCAATAGCAT
* * * * *
5226433 GCTTATAGCAAATCAATATGGTAAGGATTATCAT
1 GCTTATAACAAATCAATACGGT-AGCAATAGCAT
* *
5226467 GCTTATAACAAATCATTACAGTAGCAATA
1 GCTTATAACAAATCAATACGGTAGCAATA
5226496 AACTTAACAC
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 24 0.48
34 26 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
GCTTATAACAAATCAATACGGTAGCAATAGCAT
Found at i:5229654 original size:3 final size:3
Alignment explanation
Indices: 5229646--5229686 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5229636 TATCGATTTG
5229646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5229687 AGAAATCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5230404 original size:23 final size:20
Alignment explanation
Indices: 5230372--5230415 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 20
5230362 ATAATTTTAT
5230372 TAAATATTAAAATAATATAATA
1 TAAATATTAAAA-AA-ATAATA
5230394 TAAATATTTAAAAAAATAATA
1 TAAATA-TTAAAAAAATAATA
5230415 T
1 T
5230416 GGGTGGGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATATTAAAAAAATAATA
Found at i:5231143 original size:17 final size:18
Alignment explanation
Indices: 5231121--5231157 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
5231111 ATATTTAAAT
*
5231121 TTATAATTTAT-AATTTA
1 TTATAAATTATAAATTTA
5231138 TTATAAATTATAAATTTA
1 TTATAAATTATAAATTTA
5231156 TT
1 TT
5231158 TTGTTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAAATTATAAATTTA
Found at i:5232310 original size:7 final size:7
Alignment explanation
Indices: 5232300--5232339 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
5232290 TTAGAGTCTG
5232300 AGGTTTA
1 AGGTTTA
5232307 AGGTTTA
1 AGGTTTA
*
5232314 GGGTTTA
1 AGGTTTA
*
5232321 AAGTTTA
1 AGGTTTA
5232328 AGGTTTA
1 AGGTTTA
5232335 AGGTT
1 AGGTT
5232340 CAGATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (7 bp):
AGGTTTA
Found at i:5232312 original size:21 final size:21
Alignment explanation
Indices: 5232288--5232334 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5232278 GAAGTTCAGA
* *
5232288 GTTTAGAGTCTGAGGTTTAAG
1 GTTTAGAGTCTAAAGTTTAAG
* *
5232309 GTTTAGGGTTTAAAGTTTAAG
1 GTTTAGAGTCTAAAGTTTAAG
5232330 GTTTA
1 GTTTA
5232335 AGGTTCAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (21 bp):
GTTTAGAGTCTAAAGTTTAAG
Found at i:5235319 original size:19 final size:21
Alignment explanation
Indices: 5235295--5235336 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
5235285 TACATGGAGG
*
5235295 TTCTTTTTT-TC-CTTTTTAA
1 TTCTTTTTTCTCAATTTTTAA
5235314 TTCTTTTTTCTCAATTTTTAA
1 TTCTTTTTTCTCAATTTTTAA
5235335 TT
1 TT
5235337 TGCATTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (21 bp):
TTCTTTTTTCTCAATTTTTAA
Found at i:5237731 original size:17 final size:18
Alignment explanation
Indices: 5237699--5237733 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5237689 TGTTTTTTTT
5237699 TAAATATATAAAATTTAA
1 TAAATATATAAAATTTAA
*
5237717 TAAAT-TATAATATTTAA
1 TAAATATATAAAATTTAA
5237734 ACTAATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATATATAAAATTTAA
Found at i:5240215 original size:19 final size:20
Alignment explanation
Indices: 5240191--5240240 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
5240181 GGCACCACTC
5240191 ACTCCTCTG-CACCAACGGG
1 ACTCCTCTGCCACCAACGGG
*
5240210 ACTCCTCACTGCCACCGACGGG
1 ACTCCT--CTGCCACCAACGGG
*
5240232 ACTGCTCTG
1 ACTCCTCTG
5240241 AGCCATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 3 0.12
22 14 0.54
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (20 bp):
ACTCCTCTGCCACCAACGGG
Found at i:5240345 original size:11 final size:11
Alignment explanation
Indices: 5240329--5240353 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5240319 AAGAAAGGGG
5240329 GAAAGAGAAGA
1 GAAAGAGAAGA
5240340 GAAAGAGAAGA
1 GAAAGAGAAGA
5240351 GAA
1 GAA
5240354 GAAGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
GAAAGAGAAGA
Found at i:5240358 original size:3 final size:3
Alignment explanation
Indices: 5240345--5240375 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
5240335 GAAGAGAAAG
5240345 AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
5240376 GAGGAGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5240431 original size:20 final size:20
Alignment explanation
Indices: 5240406--5240445 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5240396 GAGGGAAGAA
5240406 AGAAGAAAAAGAAAAAGAGG
1 AGAAGAAAAAGAAAAAGAGG
* *
5240426 AGAAGAAGAAGAAGAAGAGG
1 AGAAGAAAAAGAAAAAGAGG
5240446 GAGGGAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAAGAAAAAGAGG
Found at i:5240869 original size:14 final size:14
Alignment explanation
Indices: 5240850--5240879 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5240840 AGCTTAATAG
5240850 TATATTTTAAAAAA
1 TATATTTTAAAAAA
5240864 TATATTTTAAAAAA
1 TATATTTTAAAAAA
5240878 TA
1 TA
5240880 CAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:5241180 original size:147 final size:147
Alignment explanation
Indices: 5240881--5242194 Score: 1835
Period size: 147 Copynumber: 9.1 Consensus size: 147
5240871 TAAAAAATAC
* * *
5240881 AAAATAAAAT--AAAAAAA-GGCCAAAATCAGAGTTTTTTTATTAAATTAATATAAATATACTAA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
* *
5240943 AATAATACATATGAAACATTATGAACTAAAATAATA-AAAAAATAAAATACGAAAATAGTATATT
66 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
* *
5241007 TTGAAAAATAAAATCCA
131 TTAAAAAATAAAATCCG
* *
5241024 AAAATAAAATAAAAAACAAACGACCAAAATCAGA-ATTTTTTACTAAATTAATATAAAAAAACTA
1 AAAATAAAATAAAAAA-AAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTA
* * *
5241088 AAATAATACCTTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTGTAT
65 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
5241153 TTTAAAAAATAAAATCCG
130 TTTAAAAAATAAAATCCG
* * **
5241171 AAAACAAAAT----AAAAA-GGCCAAAATCACA-AATTTTTACTAAATTAATATAAAAAAACTAA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
* * * * *
5241230 AATAATACA--TGAAACATTATGTACAAAAATAATATAAAAAACAAAAAACG-AAATAATATATC
66 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
*
5241292 TTAAAAAATAAAATCTG
131 TTAAAAAATAAAATCCG
* * *
5241309 AAAAT--AA-AAATAAAAAGGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAAACTAA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
* * *
5241371 AATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATAATAAATT
66 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
*
5241434 TTAAAAAATAAAATCCA
131 TTAAAAAATAAAATCCG
* *
5241451 AAAATAAAA-ATAAAAAAA-GGCCAAAATCAGAGTTTTTTTTTCTAAATTAATAT-AAAAAACTA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAG-TTTTTTTACTAAATTAATATAAAAAAACTA
5241513 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAGTATA
65 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAGTATA
5241578 TTTTAAAAAATAAAATCCG
129 TTTTAAAAAATAAAATCCG
* * * * *
5241597 AAAACAAAAT-AAATAAAATGGCCAAAATCACAG-ATTTTTACTAAATTAATATAAAAAAAACTA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATAT-AAAAAAACTA
5241660 AAATAATACA--TGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATAT
65 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
**
5241722 TTTAAAAAATAAAATCTA
130 TTTAAAAAATAAAATCCG
* * *
5241740 AAAAT-AAA-AAATAAAAAGGGCCAAAATCAGA-TTTTTTTTCTAAATTAATATAAAAAAACTAA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
*
5241802 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAAGAAAATAGTATAT
66 AATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATAT
*
5241867 TTTAAAAAATAAAATCCA
130 TTTAAAAAATAAAATCCG
* *
5241885 AAAATAAAATAAAAATAAACGGCCAAAATCAGAG-TTTTTTATTAAATTAATATAAAAAAACTAA
1 AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
* ** *
5241949 AATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATAAAAAAATAGTGTATT
66 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
*
5242014 TTAAAAAGTAAAATCCG
131 TTAAAAAATAAAATCCG
* *
5242031 AAAATAAAATAAAAAAACAAACGGTCAAAATCAGAGTTTTTTTATTAAATTAATATAAAAAAATA
1 AAAATAAAAT-AAAAAA-AAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATAT-AAAAAA-A
* * *
5242096 CAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAATA
62 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
5242161 TATTTTAAAAAATAAAATCCG
127 TATTTTAAAAAATAAAATCCG
5242182 AAAATAAAATAAA
1 AAAATAAAATAAA
5242195 TACCAAAATA
Statistics
Matches: 1058, Mismatches: 77, Indels: 65
0.88 0.06 0.05
Matches are distributed among these distances:
136 2 0.00
138 29 0.03
139 42 0.04
140 12 0.01
141 145 0.14
142 71 0.07
143 114 0.11
144 32 0.03
145 124 0.12
146 168 0.16
147 183 0.17
148 17 0.02
149 19 0.02
150 9 0.01
151 91 0.09
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (147 bp):
AAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTTTTTTACTAAATTAATATAAAAAAACTAA
AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
TTAAAAAATAAAATCCG
Found at i:5241441 original size:30 final size:29
Alignment explanation
Indices: 5241405--5241461 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
5241395 TAAAATAATA
*
5241405 TAAAAAACAAAATACGAAAATAATAAATTT
1 TAAAAAACAAAATACAAAAATAA-AAATTT
* *
5241435 TAAAAAATAAAATCCAAAAATAAAAAT
1 TAAAAAACAAAATACAAAAATAAAAAT
5241462 AAAAAAAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (29 bp):
TAAAAAACAAAATACAAAAATAAAAATTT
Found at i:5241850 original size:288 final size:288
Alignment explanation
Indices: 5240881--5242194 Score: 1806
Period size: 288 Copynumber: 4.5 Consensus size: 288
5240871 TAAAAAATAC
* *
5240881 AAAATAAAATAA-AAAAAGGCCAAAATCAGAGTTTTTTTAT-TAAATTAATATAAATATACTAAA
1 AAAATAAAA-AATAAAAAGGCCAAAATCAGAGTTTTTTT-TCTAAATTAATATAAAAAAACTAAA
* *
5240944 ATAATACATATGAAACATTATGAACTAAAAT-A-ATAAAAAAATAAAATACGAAAATAGTATATT
64 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATT
* * *
5241007 TTGAAAAATAAAATCCAAAAATAAAATAAAAAACAAACGACCAAAATCAGA-ATTTTTTACTAAA
129 TTAAAAAATAAAATCCGAAAATAAAAT-AAAAACAAACGGCCAAAATCAGAGA-TTTTTACTAAA
*
5241071 TTAATATAAAAAAACTAAAATAATACCTTTGAAACATTATGTACTAAAATAATATAAAAAATAAA
192 TTAATATAAAAAAACTAAAATAATA-C-ATGAAACATTATGTACTAAAATAATATAAAAAATAAA
* * *
5241136 ATATGAAAATAGTGTATTTTAAAAAATAAAATCC
255 ATACGAAAATAGTATATTTTAAAAAATAAAATCA
* * * ** *
5241170 GAAA-ACAAAATAAAAAGGCCAAAATCACA-AATTTTTACTAAATTAATATAAAAAAACTAAAAT
1 AAAATAAAAAATAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAAACTAAAAT
* * *
5241233 AATACA--TGAAACATTATGTACAAAAATAATATAAAAAACA-AAAA-ACG-AAATAATATATCT
66 AATACATTTGAAACATTATGTACTAAAATAATATAAAAAA-ATAAAATACGAAAATAGTATATTT
* * * * *
5241293 TAAAAAATAAAATCTGAAAAT-AAA-AATAA-AAAGGGCCAAAATCAGAGTTTTTTTTCTAAATT
130 TAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAG-ATTTTTACTAAATT
*
5241355 AATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAACAAAATAC
194 AATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC
* *
5241420 GAAAATAATAAATTTTAAAAAATAAAATCCA
259 GAAAATAGTATATTTTAAAAAATAAAAT-CA
*
5241451 AAAATAAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTTTTCTAAATTAATAT-AAAAAACTAAA
1 AAAATAAAAA-ATAAAAAGGCCAAAATCAGAG-TTTTTTTTCTAAATTAATATAAAAAAACTAAA
*
5241515 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAGTATATT
64 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATT
* * * *
5241580 TTAAAAAATAAAATCCGAAAACAAAATAAATA-AAATGGCCAAAATCACAGATTTTTACTAAATT
129 TTAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTACTAAATT
5241644 AATATAAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAATAAAATA
194 AATAT-AAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATA
5241708 CGAAAATAGTATATTTTAAAAAATAAAATCTA
258 CGAAAATAGTATATTTTAAAAAATAAAATC-A
5241740 AAAATAAAAAATAAAAAGGGCCAAAATCAGA-TTTTTTTTCTAAATTAATATAAAAAAACTAAAA
1 AAAATAAAAAATAAAAA-GGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAAACTAAAA
*
5241804 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAAGAAAATAGTATATTT
65 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTT
* * * *
5241869 TAAAAAATAAAATCCAAAAATAAAATAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTA
130 TAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTACTAAATTA
*
5241934 ATATAAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATA
195 ATATAAAAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATA
** * *
5241999 AAAAAATAGTGTATTTTAAAAAGTAAAATCCGA
258 CGAAAATAGTATATTTTAAAAAATAAAAT-C-A
* * *
5242032 AAATAAAATAAAAAAACAAACGGTCAAAATCAGAGTTTTTTTAT-TAAATTAATATAAAAAAATA
1 AAA-ATAA-AAAATAA-AAA-GGCCAAAATCAGAGTTTTTTT-TCTAAATTAATAT-AAAAAA-A
* * *
5242096 CAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACAAAAATAAT
59 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGT
5242160 ATATTTTAAAAAATAAAATCCGAAAATAAAATAAA
124 ATATTTTAAAAAATAAAATCCGAAAATAAAATAAA
5242195 TACCAAAATA
Statistics
Matches: 916, Mismatches: 74, Indels: 62
0.87 0.07 0.06
Matches are distributed among these distances:
280 63 0.07
281 20 0.02
282 43 0.05
283 18 0.02
284 22 0.02
285 66 0.07
286 38 0.04
287 71 0.08
288 181 0.20
289 118 0.13
290 90 0.10
291 37 0.04
292 5 0.01
293 3 0.00
294 6 0.01
295 15 0.02
296 18 0.02
297 61 0.07
298 41 0.04
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (288 bp):
AAAATAAAAAATAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAAACTAAAAT
AATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTT
AAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTACTAAATTAA
TATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGA
AAATAGTATATTTTAAAAAATAAAATCA
Found at i:5242144 original size:12 final size:13
Alignment explanation
Indices: 5242127--5242162 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
5242117 ATTATGTACT
5242127 AAAATAATATA-A
1 AAAATAATATACA
*
5242139 AAAATAAAATACA
1 AAAATAATATACA
5242152 AAAATAATATA
1 AAAATAATATA
5242163 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:5242194 original size:25 final size:25
Alignment explanation
Indices: 5242127--5242194 Score: 64
Period size: 30 Copynumber: 2.5 Consensus size: 25
5242117 ATTATGTACT
*
5242127 AAAATAATATAAAAAATAAAATACA
1 AAAATAAAATAAAAAATAAAATACA
* *
5242152 AAAATAATATATTTTAAAAAATAAAATCCG
1 AAAATAA-A-A---TAAAAAATAAAATACA
5242182 AAAATAAAATAAA
1 AAAATAAAATAAA
5242195 TACCAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
25 11 0.31
27 1 0.03
28 1 0.03
29 1 0.03
30 21 0.60
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAATAAAATAAAAAATAAAATACA
Found at i:5246909 original size:18 final size:18
Alignment explanation
Indices: 5246886--5246927 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
5246876 CGTTAATGTT
5246886 TTCATCGTCATTTACATC
1 TTCATCGTCATTTACATC
5246904 TTCATCGTCATTTACATC
1 TTCATCGTCATTTACATC
5246922 TTCATC
1 TTCATC
5246928 ATCAATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (18 bp):
TTCATCGTCATTTACATC
Found at i:5248626 original size:22 final size:22
Alignment explanation
Indices: 5248600--5248641 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
5248590 AAATTTACCT
5248600 TTTCTTTTCTTTCT-TCTTCTCC
1 TTTC-TTTCTTTCTATCTTCTCC
5248622 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCTATCTTCT
5248642 TCTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTATCTTCTCC
Found at i:5248763 original size:27 final size:27
Alignment explanation
Indices: 5248733--5248790 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
5248723 GAGAAAGGCA
* *
5248733 CCACTGGTGCTGCCTGTGGGGCACCCT
1 CCACTGGTGCCGCCTATGGGGCACCCT
*
5248760 CCACTGGTGCCGCCTATGGGGTACCCT
1 CCACTGGTGCCGCCTATGGGGCACCCT
5248787 CCAC
1 CCAC
5248791 CCTTATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (27 bp):
CCACTGGTGCCGCCTATGGGGCACCCT
Found at i:5249279 original size:30 final size:31
Alignment explanation
Indices: 5249245--5249310 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
5249235 ATTTGGGAGC
*
5249245 TTAATTAATCTTTTTTTT-TAA-TTTGGAGGT
1 TTAATTAAT-TTTTTTTTAAAATTTTGGAGGT
5249275 TTAATTAATTTTTTTTTAAAATTTTGGAGGT
1 TTAATTAATTTTTTTTTAAAATTTTGGAGGT
5249306 TTAAT
1 TTAAT
5249311 GAGAATTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 8 0.24
30 11 0.33
31 14 0.42
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (31 bp):
TTAATTAATTTTTTTTTAAAATTTTGGAGGT
Found at i:5249831 original size:20 final size:20
Alignment explanation
Indices: 5249793--5249832 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
5249783 ATATATTTTT
5249793 TAATTTTAATACTCTTTTAAA
1 TAATTTTAATAC-CTTTTAAA
5249814 TAATTTTAATGA-CTTTTAA
1 TAATTTTAAT-ACCTTTTAA
5249833 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 10 0.56
22 1 0.06
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
TAATTTTAATACCTTTTAAA
Found at i:5250764 original size:17 final size:16
Alignment explanation
Indices: 5250744--5250796 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
5250734 AATAAAAAAA
5250744 TTATAATTTTAAAGTTT
1 TTATAATTTTAAA-TTT
5250761 TTATAATTTTATAATTTT
1 TTATAATTTTA-AA-TTT
*
5250779 TTAATAACTTTAAATTT
1 TT-ATAATTTTAAATTT
5250796 T
1 T
5250797 AAAAGGGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.47
18 9 0.28
19 8 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATAATTTTAAATTT
Found at i:5250785 original size:19 final size:17
Alignment explanation
Indices: 5250744--5250796 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
5250734 AATAAAAAAA
*
5250744 TTATAATTTTAAAGTTT
1 TTATAATTTTAAATTTT
5250761 TTATAATTTTATAATTTT
1 TTATAATTTTA-AATTTT
*
5250779 TTAATAACTTTAAATTTT
1 TT-ATAATTTTAAATTTT
5250797 AAAAGGGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 11 0.34
18 13 0.41
19 8 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATAATTTTAAATTTT
Found at i:5267661 original size:27 final size:26
Alignment explanation
Indices: 5267631--5267687 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
5267621 TTATTACAAC
* *
5267631 TATCATTACTATTATCTTTTATTTTTT
1 TATCACTACTATTAT-TTTTATGTTTT
* *
5267658 TATCACTATTATTGTTTTTATGTTTT
1 TATCACTACTATTATTTTTATGTTTT
5267684 TATC
1 TATC
5267688 TATCAGCGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.65
Consensus pattern (26 bp):
TATCACTACTATTATTTTTATGTTTT
Found at i:5268037 original size:18 final size:21
Alignment explanation
Indices: 5268006--5268048 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
5267996 TCTTTAATAG
5268006 TCATTTTCTAATAT-TAT-TA
1 TCATTTTCTAATATATATATA
5268025 TCATTTT-TAATATATATATA
1 TCATTTTCTAATATATATATA
5268045 TCAT
1 TCAT
5268049 ATGCATATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (21 bp):
TCATTTTCTAATATATATATA
Found at i:5268214 original size:28 final size:29
Alignment explanation
Indices: 5268163--5268222 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
5268153 GTTATTCCTA
*
5268163 ATATATATATACGTCTTTTAATATCGTATT
1 ATATATATATAC-TCTTTTAATATCATATT
5268193 ATATATATATA-TACTTTT-ATATCATATT
1 ATATATATATACT-CTTTTAATATCATATT
5268221 AT
1 AT
5268223 TGTTATACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.43
29 5 0.18
30 11 0.39
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (29 bp):
ATATATATATACTCTTTTAATATCATATT
Found at i:5273300 original size:31 final size:32
Alignment explanation
Indices: 5273218--5273304 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 32
5273208 TTGAACAAAT
* * * *
5273218 TAATGAGAATTTTCCAAAAATTTTGGAGGGCT
1 TAATGAAAATTTTCCAAAAATTTTGAAGAGCC
*
5273250 TAAT-AAGATTTTCCAAAAATTTTGAAGAGCC
1 TAATGAAAATTTTCCAAAAATTTTGAAGAGCC
* *
5273281 TAATGAAAATTTTTCAAAATTTTT
1 TAATGAAAATTTTCCAAAAATTTT
5273305 AGAGCTCAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (32 bp):
TAATGAAAATTTTCCAAAAATTTTGAAGAGCC
Found at i:5280605 original size:15 final size:15
Alignment explanation
Indices: 5280570--5280612 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
5280560 TTAAAAATTT
*
5280570 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5280584 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5280598 TATTTAATAATAATA
1 TATTTAATTATAATA
5280613 ATGTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5280845 original size:45 final size:43
Alignment explanation
Indices: 5280745--5280854 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
5280735 TTTTCCATTA
5280745 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
5280784 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
5280829 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
5280855 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:5280856 original size:16 final size:16
Alignment explanation
Indices: 5280835--5280902 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
5280825 GATTTGCTAT
*
5280835 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
5280851 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5280867 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
5280883 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
5280899 TACA
1 TACA
5280903 GCGAACAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5280876 original size:32 final size:32
Alignment explanation
Indices: 5280835--5280902 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
5280825 GATTTGCTAT
5280835 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
*
5280867 TACACCTCTATTCCAATACATCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
5280899 TACA
1 TACA
5280903 GCGAACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (32 bp):
TACACCTCTATTCCAATACACCTCTAATCCAA
Found at i:5282340 original size:13 final size:13
Alignment explanation
Indices: 5282322--5282348 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5282312 TTGGTACCAC
5282322 ATTTATATCATCA
1 ATTTATATCATCA
5282335 ATTTATATCATCA
1 ATTTATATCATCA
5282348 A
1 A
5282349 AGCATCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTATATCATCA
Found at i:5284340 original size:14 final size:14
Alignment explanation
Indices: 5284321--5284350 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5284311 CCGTGCGTGA
5284321 CTTTCTTTTTCTTT
1 CTTTCTTTTTCTTT
*
5284335 CTTTCTTTTTTTTT
1 CTTTCTTTTTCTTT
5284349 CT
1 CT
5284351 GATTTGTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTTCTTTTTCTTT
Found at i:5285110 original size:18 final size:18
Alignment explanation
Indices: 5285100--5285136 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5285090 TGTTTTAAAG
5285100 ATAATTTTTGTATTATAA
1 ATAATTTTTGTATTATAA
5285118 ATAATTTTTGTATTATAA
1 ATAATTTTTGTATTATAA
5285136 A
1 A
5285137 CTTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
ATAATTTTTGTATTATAA
Found at i:5291078 original size:15 final size:16
Alignment explanation
Indices: 5291046--5291080 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5291036 ACCAAAATCT
*
5291046 AAATAATTCAAACTCA
1 AAATAATTCAAACCCA
5291062 AAATAATT-AAACCCA
1 AAATAATTCAAACCCA
5291077 AAAT
1 AAAT
5291081 TAGAGGACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATTCAAACCCA
Found at i:5294386 original size:81 final size:81
Alignment explanation
Indices: 5294249--5294416 Score: 318
Period size: 81 Copynumber: 2.1 Consensus size: 81
5294239 ATAGAAACTG
5294249 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
1 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
5294314 TTTAATAGTACACAAA
66 TTTAATAGTACACAAA
* *
5294330 AGACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTTTATGTAGAAACTGAGTATACTAAG
1 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
5294395 TTTAATAGTACACAAA
66 TTTAATAGTACACAAA
5294411 AAACCA
1 AAACCA
5294417 GAAATCTAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (81 bp):
AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
TTTAATAGTACACAAA
Found at i:5301484 original size:65 final size:65
Alignment explanation
Indices: 5301370--5301501 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
5301360 GAAGCTATGA
5301370 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
1 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
* * *
5301435 ACAATATTGAGGATGTGTTGTTTACAATACTAAAA-ATGACAATATATTCATGTTATCAACACAA
1 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATA-GACAATACATTCATGTTATCAACACAA
5301499 T
65 T
5301500 AC
1 AC
5301502 TTTAATAGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 1 0.02
65 62 0.98
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (65 bp):
ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
Found at i:5307551 original size:14 final size:14
Alignment explanation
Indices: 5307532--5307561 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5307522 AGCACAACCG
*
5307532 TTGGGTACAAAGTT
1 TTGGGTACAAAATT
5307546 TTGGGTACAAAATT
1 TTGGGTACAAAATT
5307560 TT
1 TT
5307562 CCGGTAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
TTGGGTACAAAATT
Found at i:5312946 original size:16 final size:16
Alignment explanation
Indices: 5312927--5312971 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
5312917 CAAGAGTTTG
*
5312927 AAATAACTCAAAATCA
1 AAATAATTCAAAATCA
* *
5312943 AAATTATTCAAATTCA
1 AAATAATTCAAAATCA
5312959 AAATAATTCAAAA
1 AAATAATTCAAAA
5312972 AATTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATTCAAAATCA
Found at i:5313779 original size:34 final size:35
Alignment explanation
Indices: 5313735--5313801 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5313725 CAGTAAAATA
* *
5313735 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
* *
5313769 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTT
5313802 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
Found at i:5314906 original size:15 final size:16
Alignment explanation
Indices: 5314881--5314914 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5314871 GAGGAAAAAA
5314881 TTATGTAAAAATTTAT
1 TTATGTAAAAATTTAT
*
5314897 TTAT-TAAAAATTTTT
1 TTATGTAAAAATTTAT
5314912 TTA
1 TTA
5314915 AAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATGTAAAAATTTAT
Found at i:5317237 original size:46 final size:44
Alignment explanation
Indices: 5317178--5317292 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5317168 ACAGGACAGA
* *
5317178 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5317224 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5317268 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5317293 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5317273 original size:44 final size:45
Alignment explanation
Indices: 5317178--5317311 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5317168 ACAGGACAGA
* *
5317178 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5317224 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5317268 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5317312 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5324618 original size:46 final size:44
Alignment explanation
Indices: 5324559--5324673 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5324549 ACAGGACAGA
* *
5324559 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5324605 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5324649 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5324674 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5324654 original size:44 final size:45
Alignment explanation
Indices: 5324559--5324692 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5324549 ACAGGACAGA
* *
5324559 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5324605 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5324649 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5324693 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5330832 original size:42 final size:43
Alignment explanation
Indices: 5330770--5330851 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
5330760 TTTGCAATTG
* *
5330770 TTATGTAACATTTAATTTGTTTG-AAATTCTTATGTTTAAGTTA
1 TTATGTAACATTTAAATTG-TTGAAAATTATTATGTTTAAGTTA
*
5330813 TTATGT-ATATTTAAATTGTTGCAAAATTATTATGTTTAA
1 TTATGTAACATTTAAATTGTTG-AAAATTATTATGTTTAA
5330852 TTTGTTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 3 0.09
42 10 0.29
43 21 0.62
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (43 bp):
TTATGTAACATTTAAATTGTTGAAAATTATTATGTTTAAGTTA
Found at i:5333809 original size:10 final size:10
Alignment explanation
Indices: 5333796--5333824 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
5333786 GCTTTTAGGG
5333796 CATTTTCTTC
1 CATTTTCTTC
5333806 CATTTTCTTC
1 CATTTTCTTC
5333816 CATTTTCTT
1 CATTTTCTT
5333825 TCAATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (10 bp):
CATTTTCTTC
Found at i:5340389 original size:195 final size:195
Alignment explanation
Indices: 5340057--5340642 Score: 1154
Period size: 195 Copynumber: 3.0 Consensus size: 195
5340047 CAAACTTGTA
5340057 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
1 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
*
5340122 TTTATATTTTTCTAACTATTTTGGATTTGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
66 TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
5340187 TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
131 TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
5340252 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
1 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
5340317 TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
66 TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
5340382 TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
131 TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
5340447 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
1 AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
5340512 TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
66 TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
*
5340577 TAAATTATTTGAATTGAATTAAGTTTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
131 TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
5340642 A
1 A
5340643 TGATTCAAGG
Statistics
Matches: 389, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 389 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (195 bp):
AATAATTTTGCATGTTCTAATTAGAACTTGTTAATTGGACGAGTTAAGACAATTTGGTCAGATTA
TTTATATTTTTCTAACTATTTTGGATTCGAGTTGTTTCGGGTCTGATGCTTGATCGAGATCATTT
TAAATTATTTGAATTGAATTAAGTGTGGATTCGAGTTAATAATACCGGATTAAATTAAGACCATT
Found at i:5345623 original size:17 final size:17
Alignment explanation
Indices: 5345582--5345623 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
5345572 CTAAATTGAG
*
5345582 TTTTATTTTTTATTTAA
1 TTTTATATTTTATTTAA
5345599 TTTATATATTTT-TTTAA
1 TTT-TATATTTTATTTAA
5345616 TCTTTATA
1 T-TTTATA
5345624 GCGTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTATTTAA
Found at i:5354914 original size:21 final size:22
Alignment explanation
Indices: 5354881--5354928 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
5354871 ATTACAAATG
*
5354881 TATT-AAAATTATTAATTAAAA
1 TATTAAAAAATATTAATTAAAA
**
5354902 -ATTAAAAAATATTTTTTAAAA
1 TATTAAAAAATATTAATTAAAA
5354923 TATTAA
1 TATTAA
5354929 TTACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 14 0.64
22 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAAAAAATATTAATTAAAA
Found at i:5354937 original size:13 final size:12
Alignment explanation
Indices: 5354882--5354939 Score: 59
Period size: 13 Copynumber: 4.9 Consensus size: 12
5354872 TTACAAATGT
5354882 ATTAAAATTATTA
1 ATTAAAA-TATTA
5354895 ATTAAAA-ATTA
1 ATTAAAATATTA
*
5354906 A--AAAATATTT
1 ATTAAAATATTA
*
5354916 TTTAAAATATTA
1 ATTAAAATATTA
5354928 ATTACAAATATT
1 ATTA-AAATATT
5354940 TAATGGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 5 0.14
12 11 0.30
13 14 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAAATATTA
Done.