Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 10 of 433
Found at i:2829754 original size:47 final size:47
Alignment explanation
Indices: 2829700--2829925 Score: 362
Period size: 49 Copynumber: 4.7 Consensus size: 47
2829690 GATTTTACGC
2829700 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
2829747 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
2829794 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
2829843 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
2829892 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAATGTGTATATATGTGATAAGGCC
2829926 GATGAATGTG
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 74 0.44
48 4 0.02
49 89 0.53
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:2829824 original size:96 final size:97
Alignment explanation
Indices: 2829700--2829925 Score: 381
Period size: 96 Copynumber: 2.4 Consensus size: 97
2829690 GATTTTACGC
2829700 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
2829762 GTATATATGTGATAAGGCCGAATGGCCA-ATGT
66 ATATATATGTGATAAGGCCGAATGG-CAGATGT
2829794 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
2829859 TATATATATGTGATAAGGCCTAATGGCAGATGT
65 TATATATATGTGATAAGGCCGAATGGCAGATGT
2829892 GATGAATGTGAAG-GTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCC
2829926 GATGAATGTG
Statistics
Matches: 125, Mismatches: 2, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
94 10 0.08
95 2 0.02
96 66 0.53
97 8 0.06
98 39 0.31
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (97 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCGAATGGCAGATGT
Found at i:2829916 original size:16 final size:16
Alignment explanation
Indices: 2829897--2829952 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
2829887 GATGTGATGA
2829897 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
*
2829913 ATGTGATAAGGCCG-ATGA-
1 ATGTG--AAGG-TGTAT-AT
2829931 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
2829947 ATGTGA
1 ATGTGA
2829953 TAGGGCCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
18 11 0.34
19 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGTGAAGGTGTATAT
Found at i:2829931 original size:34 final size:34
Alignment explanation
Indices: 2829892--2829961 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2829882 TGGCAGATGT
2829892 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
*
2829926 GATGAATGTGAAGGTGTATATATGTGATAGGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
2829960 GA
1 GA
2829962 GTGGCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCC
Found at i:2829982 original size:81 final size:83
Alignment explanation
Indices: 2829843--2830003 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 83
2829833 TGGCCGATGT
* * *
2829843 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
*
2829908 TATATATGTGATAAGGCC
66 TATAAATGTGATAAGGCC
* * * *
2829926 GATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-CAGACGTGATGAATGTGAAAGT
2829988 GTATAAATGTGATAAG
65 GTATAAATGTGATAAG
2830004 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 54 0.78
82 5 0.07
83 10 0.14
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.29
Consensus pattern (83 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
TATAAATGTGATAAGGCC
Found at i:2832002 original size:42 final size:41
Alignment explanation
Indices: 2831938--2832149 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
2831928 CTCGACGATG
* * *
2831938 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
2831980 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
2832020 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
2832060 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
2832100 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
2832142 ATTCGGGC
1 ATCCGGGC
2832150 CTTCGTGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:2832181 original size:43 final size:43
Alignment explanation
Indices: 2832132--2832480 Score: 601
Period size: 43 Copynumber: 8.1 Consensus size: 43
2832122 CAGTCATGCT
2832132 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
2832175 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
2832218 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* *
2832261 GGTGATATGTATTCGGTCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
2832304 GGTGATATGTATTGGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
2832347 GGTGATATGTATTCGGG-CTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
2832389 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
2832432 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
2832475 GGTGAT
1 GGTGAT
2832481 TCGAGCAAGG
Statistics
Matches: 291, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
42 41 0.14
43 250 0.86
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.32
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:2836268 original size:47 final size:47
Alignment explanation
Indices: 2836214--2836439 Score: 353
Period size: 49 Copynumber: 4.7 Consensus size: 47
2836204 GATTTTACGC
2836214 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
2836261 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
2836308 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
2836357 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
2836406 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAATGTGTATATATGTGATAAGGCC
2836440 GATGAATGTG
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.45
48 4 0.02
49 87 0.53
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:2836338 original size:96 final size:97
Alignment explanation
Indices: 2836214--2836439 Score: 372
Period size: 96 Copynumber: 2.4 Consensus size: 97
2836204 GATTTTACGC
2836214 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
2836276 GTATATATGTGATAAGGCCGAATGGCCA-ATGT
66 ATATATATGTGATAAGGCCGAATGG-CAGATGT
*
2836308 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
2836373 TATATATATGTGATAAGGCCTAATGGCAGATGT
65 TATATATATGTGATAAGGCCGAATGGCAGATGT
2836406 GATGAATGTGAAG-GTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCC
2836440 GATGAATGTG
Statistics
Matches: 123, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
94 10 0.08
95 2 0.02
96 64 0.52
97 8 0.07
98 39 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCGAATGGCAGATGT
Found at i:2836430 original size:16 final size:16
Alignment explanation
Indices: 2836411--2836466 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
2836401 GATGTGATGA
2836411 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
*
2836427 ATGTGATAAGGCCG-ATGA-
1 ATGTG--AAGG-TGTAT-AT
2836445 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
2836461 ATGTGA
1 ATGTGA
2836467 TAGGGCCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
18 11 0.34
19 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGTGAAGGTGTATAT
Found at i:2836445 original size:34 final size:34
Alignment explanation
Indices: 2836406--2836475 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2836396 TGGCAGATGT
2836406 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
*
2836440 GATGAATGTGAAGGTGTATATATGTGATAGGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
2836474 GA
1 GA
2836476 GTGGCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCC
Found at i:2836496 original size:81 final size:83
Alignment explanation
Indices: 2836357--2836517 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 83
2836347 TGGCCGATGT
* * *
2836357 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
*
2836422 TATATATGTGATAAGGCC
66 TATAAATGTGATAAGGCC
* * * *
2836440 GATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-CAGACGTGATGAATGTGAAAGT
2836502 GTATAAATGTGATAAG
65 GTATAAATGTGATAAG
2836518 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 54 0.78
82 5 0.07
83 10 0.14
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.29
Consensus pattern (83 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
TATAAATGTGATAAGGCC
Found at i:2842816 original size:23 final size:23
Alignment explanation
Indices: 2842790--2842833 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2842780 TAGATATGTG
*
2842790 ATGACGTTATCTT-ATAAATATAC
1 ATGAAGTTATCTTGA-AAATATAC
*
2842813 ATGAATTTATCTTGAAAATAT
1 ATGAAGTTATCTTGAAAATAT
2842834 GTTGAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATAC
Found at i:2846171 original size:17 final size:17
Alignment explanation
Indices: 2846151--2846183 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2846141 TTATAAAGAT
2846151 TTAATATGAT-TAAACAA
1 TTAA-ATGATATAAACAA
2846168 TTAAATGATATAAACA
1 TTAAATGATATAAACA
2846184 GTAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (17 bp):
TTAAATGATATAAACAA
Found at i:2849234 original size:97 final size:96
Alignment explanation
Indices: 2849059--2849234 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 96
2849049 AGTGACAAGA
* * *
2849059 AGAGCAAACAAAATGCAATGACAAGCAGTACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
1 AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
* *
2849124 GGAATAATTATGATAGCACTAACCTTCATTT
66 GAAATAATCATGATAGCACTAACCTTCATTT
* * * * * * *
2849155 AGAGCAAACCAAATATAATGACAAACAGCATTGGCAAATGCAATAATCAGTCACTTT-CTAAGGA
1 AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATG-AAAAATAAGTCAATTTAC-AAGGA
2849219 TAGAAATAATCATGAT
64 TAGAAATAATCATGAT
2849235 GTGAAGGAGG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 34 0.52
97 32 0.48
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (96 bp):
AGAGCAAACAAAATACAATGACAAACAGCACTAGCAAATGAAAAATAAGTCAATTTACAAGGATA
GAAATAATCATGATAGCACTAACCTTCATTT
Found at i:2856120 original size:16 final size:16
Alignment explanation
Indices: 2856099--2856132 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2856089 AATCTTTAAG
2856099 TTAGTCTAAACACGTC
1 TTAGTCTAAACACGTC
2856115 TTAGTCTAAACACGTC
1 TTAGTCTAAACACGTC
2856131 TT
1 TT
2856133 TGGGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (16 bp):
TTAGTCTAAACACGTC
Found at i:2857165 original size:43 final size:42
Alignment explanation
Indices: 2857071--2857169 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
2857061 TTATTGAAAA
* * *
2857071 AAAACGTCGCTAGAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCG
* * *
2857113 AAAAGCGCCGCTAAAGGTTAAGGCTTTTAGCGGCGCTTT-TTCT
1 AAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGCG
2857156 ACAAACGCCGCTAA
1 A-AAACGCCGCTAA
2857170 TTTTGGTAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 4 0.08
43 38 0.79
44 6 0.12
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (42 bp):
AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCG
Found at i:2857256 original size:31 final size:31
Alignment explanation
Indices: 2857221--2857303 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
2857211 CTTCCTGCAT
* *
2857221 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
2857252 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
2857283 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
2857304 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:2863174 original size:9 final size:9
Alignment explanation
Indices: 2863160--2863287 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
2863150 ATGTATTAGT
2863160 TAAGTTATG
1 TAAGTTATG
2863169 TAAGTTGTTATG
1 TAA---GTTATG
*
2863181 TACGTTATG
1 TAAGTTATG
*
2863190 TGAGTTATG
1 TAAGTTATG
*
2863199 TAAATTATG
1 TAAGTTATG
2863208 TAAGTTATG
1 TAAGTTATG
*
2863217 TGAGTTATG
1 TAAGTTATG
2863226 TAAGTTGTTATG
1 TAA---GTTATG
*
2863238 TAAATTATG
1 TAAGTTATG
*
2863247 TAAGTTATA
1 TAAGTTATG
*
2863256 TGAGTTATG
1 TAAGTTATG
2863265 TAAGTTATG
1 TAAGTTATG
* *
2863274 TAATTTATT
1 TAAGTTATG
2863283 TAAGT
1 TAAGT
2863288 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:2863287 original size:57 final size:57
Alignment explanation
Indices: 2863160--2863287 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
2863150 ATGTATTAGT
** * *
2863160 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
2863217 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
2863274 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
2863288 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:2867489 original size:18 final size:19
Alignment explanation
Indices: 2867468--2867503 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2867458 TTTGAAATTC
2867468 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
2867486 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
2867504 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:2868157 original size:40 final size:41
Alignment explanation
Indices: 2868086--2868186 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 41
2868076 TTTAGTGGCG
* *
2868086 TTTTACAAAAGCGTCGCTAATTCTCAGTTTTT-GCGGCGTT
1 TTTTACAAAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTT
* * *
2868126 TTTTACGAAAGCGCCACTAATTCTTTA-TTTTTAGTGGCGTT
1 TTTTACAAAAGCGCCACTAATTC-TCAGTTTTTAGCGGCGTT
*
2868167 TTTGTA-AAAA-CGCCGCTAAT
1 TTT-TACAAAAGCGCCACTAAT
2868187 GCCTCTGCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
40 34 0.67
41 15 0.29
42 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (41 bp):
TTTTACAAAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTT
Found at i:2869316 original size:41 final size:43
Alignment explanation
Indices: 2869234--2869319 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
2869224 GATAACAAAC
* *
2869234 CCGGCCCATACCATTAACTTAATATATATACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
* * *
2869277 CCGGCCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
2869318 CC
1 CC
2869320 CTAAACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 19 0.50
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (43 bp):
CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
Found at i:2869896 original size:41 final size:41
Alignment explanation
Indices: 2869851--2870242 Score: 381
Period size: 41 Copynumber: 9.6 Consensus size: 41
2869841 AACTTTTTGC
*
2869851 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
2869892 GGCGTTTTGTACCAAAAACGCCGCTATTAATCAGTTTTTTGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** * *
2869934 GGCGTTTTTATCC-AAAACGCCACAATTGATCAGTTTTTAGT
1 GGCGTTTGGA-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
2869975 GGCGTTTTGGA-TAAAAACGCCACAATTGATCAGTTTTTAGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
2870016 GGCATTTGGGA-TAAAAACGCCGCAATTAATTAGTTTTTAGT
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** *
2870057 GGCGTTTGGGA-TTAAAACGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
2870098 GGCGTTTGG-CGAAAAACACCGCTATTGACCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
2870138 GGCGTTTTGG-CCAAAAACGCCGCTATTGACCAGTTTTTAGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * * *
2870179 GGCGTTTTTG-TCAAAAATGCCGCTATAGTTTAGTTTTTAGT
1 GGCG-TTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
2870220 GGCGTTTCGGA-C--AAACGCCGCTA
1 GGCGTTT-GGACCAAAAACGCCGCTA
2870243 ATGTTTATTA
Statistics
Matches: 306, Mismatches: 36, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
39 10 0.03
40 37 0.12
41 214 0.70
42 45 0.15
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:2870201 original size:122 final size:122
Alignment explanation
Indices: 2869851--2870242 Score: 439
Period size: 122 Copynumber: 3.2 Consensus size: 122
2869841 AACTTTTTGC
* *
2869851 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGTGGCGTTTTGTACCAAAAACGCCGC
1 GGCGTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTG-GCCAAAAACGCCGC
* * * * *
2869916 TATTAATCAGTTTTTTGTGGCGTTTTTATCCAAAACGCCACAATTGATCAGTTTTTAGT
64 TATTAATCAGTTTTTAGTGGCGTTTTTGTCAAAAACGCCGCTATTGATCAGTTTTTAGT
** * * * * ** *
2869975 GGCGTTTTGGATAAAAACGCCACAATTGATCAGTTTTTAGTGGCATTTGGGATAAAAACGCCGCA
1 GGCG-TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCCGCT
* ** * *
2870040 ATTAATTAGTTTTTAGTGGCGTTTGGGAT-TAAAACGCCGCTATTGATCAGCTTTTAGT
65 ATTAATCAGTTTTTAGTGGCGTTTTTG-TCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
2870098 GGCGTTTGGCGAAAAACACCGCTATTGACCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCCGCTA
1 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCCGCTA
* * * * * *
2870163 TTGACCAGTTTTTAGTGGCGTTTTTGTCAAAAATGCCGCTATAGTTTAGTTTTTAGT
66 TTAATCAGTTTTTAGTGGCGTTTTTGTCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
2870220 GGCGTTTCGG--ACAAACGCCGCTA
1 GGCGTTT-GGCCAAAAACGCCGCTA
2870243 ATGTTTATTA
Statistics
Matches: 220, Mismatches: 44, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
121 12 0.05
122 101 0.46
123 64 0.29
124 38 0.17
125 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (122 bp):
GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCCGCTA
TTAATCAGTTTTTAGTGGCGTTTTTGTCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:2875327 original size:16 final size:16
Alignment explanation
Indices: 2875306--2875360 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
2875296 GTTTGGTTCA
2875306 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
2875322 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
2875338 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
2875354 CTGTAAT
1 CTGTAAT
2875361 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:2875431 original size:44 final size:46
Alignment explanation
Indices: 2875346--2875434 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
2875336 AGCTGTAATG
*
2875346 GAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATA
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATA
*
2875392 GAATAGAACTGTAAT-AGT-ATTCTTA-TGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAAGTAATTC-AACTGTTTGGTTGAATGGAAT
2875435 GATGATGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 22 0.55
45 4 0.10
46 14 0.35
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATA
Found at i:2876323 original size:40 final size:40
Alignment explanation
Indices: 2876204--2876325 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
2876194 CTTAAGTATA
* *
2876204 TCTGTTAATACATACTTCATCTGGATAAATTATATAGGTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
*
2876244 TCTGTTAATACATACTTCAACCGGATAAATTATATAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
*
2876284 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
2876324 TC
1 TC
2876326 ACTCAAATGC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (40 bp):
TCTGTTAATACATACTTCATCCGGATAAATTATATAGTTT
Found at i:2890965 original size:107 final size:107
Alignment explanation
Indices: 2890851--2891198 Score: 440
Period size: 107 Copynumber: 3.3 Consensus size: 107
2890841 ATCAGTATTT
*
2890851 AAAAAAAA-TTGGTGCTGGCTTGTCAATGGCCGACACCAAGTACAAAAAAAAAATCAAATTTTTT
1 AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGACACCAAGTAC--AAAAAAAATCAAATTTTTT
* * *
2890915 TTATGCT-GCCTCTCAATGGCCGGCACCAGAGTACTAGTTTCAA
64 TGATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTCAA
* * *
2890958 AAAAAAAATTTTTTTGGTCCTGGCCTGTCAATAGCCGGCACCAAGTAC---AAAAATCAAATTTT
1 AAAAAAAA----TTTGGTGCTGGCCTGTCAATGGCCGACACCAAGTACAAAAAAAATCAAATTTT
*
2891020 TTTGATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTTAA
62 TTTGATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTCAA
* * *
2891066 AAAAAAAATTTGGTACTGGCCTGTCAATGGCCAACACCAAGTACAAAAAAAATCAAAATTTTTTG
1 AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGACACCAAGTACAAAAAAAATCAAATTTTTTTG
* * * * * *
2891131 GTGCTGGACTGTCAATGGCCAGTAGCAGAGTACGAGTTTCAA
66 ATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTCAA
2891173 AAAAAAAA-TT-GTGCTGGCCTGTCAAT
1 AAAAAAAATTTGGTGCTGGCCTGTCAAT
2891199 TCGGTTGTAC
Statistics
Matches: 211, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
104 32 0.15
105 15 0.07
106 2 0.01
107 90 0.43
108 41 0.19
112 31 0.15
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (107 bp):
AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGACACCAAGTACAAAAAAAATCAAATTTTTTTG
ATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTCAA
Found at i:2891093 original size:54 final size:54
Alignment explanation
Indices: 2891020--2891198 Score: 167
Period size: 53 Copynumber: 3.4 Consensus size: 54
2891010 ATCAAATTTT
* * * *
2891020 TTTGATGCTGGCCTATCAATGGCCGGCACCAGAGTACGAGTTTTAAAAAAAAAA
1 TTTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTACGAGTTTAAAAAAAAAAA
* *
2891074 TTTGGTACTGGCCTGTCAATGGCCAACACCA-AGTAC-A----AAAAAAATCAAAA
1 TTTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTACGAGTTTAAAAAAA--AAAA
* * * *
2891124 TTTTTTGGTGCTGGACTGTCAATGGCCAGTAGCAGAGTACGAGTTTCAAAAAAAAAA
1 ---TTTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTACGAGTTTAAAAAAAAAAA
2891181 -TT-GTGCTGGCCTGTCAAT
1 TTTGGTGCTGGCCTGTCAAT
2891199 TCGGTTGTAC
Statistics
Matches: 101, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
48 6 0.06
50 4 0.04
52 16 0.16
53 33 0.33
54 31 0.31
55 1 0.01
57 4 0.04
59 6 0.06
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (54 bp):
TTTGGTGCTGGCCTGTCAATGGCCAGCACCAGAGTACGAGTTTAAAAAAAAAAA
Found at i:2893608 original size:16 final size:16
Alignment explanation
Indices: 2893586--2893628 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2893576 ACGAAATTTA
*
2893586 AATATTTTATTGAAAT
1 AATATTTTATTAAAAT
*
2893602 GATATTTTAATTAAAAT
1 AATATTTT-ATTAAAAT
2893619 AAT-TTTTATT
1 AATATTTTATT
2893629 TAATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:2894224 original size:29 final size:31
Alignment explanation
Indices: 2894180--2894238 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
2894170 ACTTGTGTTT
2894180 TTAAATATGAAAAGTAAAATG-ACTAAATTCC
1 TTAAATATGAAAAGTAAAA-GAACTAAATTCC
2894211 TTAAA-AT-AAAAGTAAAAGAACTAAATTC
1 TTAAATATGAAAAGTAAAAGAACTAAATTC
2894239 TAAATACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 1 0.04
29 19 0.70
30 2 0.07
31 5 0.19
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.27
Consensus pattern (31 bp):
TTAAATATGAAAAGTAAAAGAACTAAATTCC
Found at i:2895927 original size:17 final size:18
Alignment explanation
Indices: 2895889--2895930 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
2895879 TCTAATTAAG
2895889 TAAATATTAATATAATATT
1 TAAAT-TTAATATAATATT
*
2895908 TAAATTTAATATCA-ATT
1 TAAATTTAATATAATATT
2895925 TAAATT
1 TAAATT
2895931 AATTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTTAATATAATATT
Found at i:2901019 original size:46 final size:44
Alignment explanation
Indices: 2900915--2901022 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2900905 TGTCTTTGAC
** * * *
2900915 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2900959 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2901005 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2901023 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2930004 original size:17 final size:17
Alignment explanation
Indices: 2929982--2930014 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2929972 CGAACCAACT
2929982 TTGACTAACAACTACTC
1 TTGACTAACAACTACTC
*
2929999 TTGACTAACAGCTACT
1 TTGACTAACAACTACT
2930015 AACTATCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (17 bp):
TTGACTAACAACTACTC
Found at i:2931608 original size:2 final size:2
Alignment explanation
Indices: 2931601--2931642 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2931591 ATATGTACAA
* *
2931601 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2931643 GTACATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2931647 original size:8 final size:8
Alignment explanation
Indices: 2931591--2931649 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
2931581 TAAAATAATG
*
2931591 ATATGTAC
1 ATATATAC
* *
2931599 AAATATAT
1 ATATATAC
*
2931607 ATATATAT
1 ATATATAC
2931615 ATATATAC
1 ATATATAC
*
2931623 ATATATAT
1 ATATATAC
2931631 ATATATAC
1 ATATATAC
*
2931639 ATATGTAC
1 ATATATAC
2931647 ATA
1 ATA
2931650 AAATATACAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (8 bp):
ATATATAC
Found at i:2932370 original size:34 final size:33
Alignment explanation
Indices: 2932327--2932419 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
2932317 GTTTTTTTAG
*
2932327 TTTTTTTTTGGGGTTA-GTTTTTCTTTTTTCTT
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
2932359 CTTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
1 -TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
***
2932393 TTTTTTTGGGGGGTTAGGTTTTT-TTTT
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTT
2932420 GGGGGGCTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 4 0.07
33 35 0.64
34 16 0.29
ACGTcount: A:0.03, C:0.05, G:0.19, T:0.72
Consensus pattern (33 bp):
TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
Found at i:2933278 original size:30 final size:30
Alignment explanation
Indices: 2933242--2933300 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2933232 TTGAAAAACA
2933242 AAATTAAAATA-CTCAACTCAACTCTCGCAG
1 AAATTAAAA-AGCTCAACTCAACTCTCGCAG
*
2933272 AAATTAAAAAGCTCAACTCACCTCTCGCA
1 AAATTAAAAAGCTCAACTCAACTCTCGCA
2933301 ATATGAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.42, C:0.29, G:0.07, T:0.22
Consensus pattern (30 bp):
AAATTAAAAAGCTCAACTCAACTCTCGCAG
Found at i:2933418 original size:14 final size:14
Alignment explanation
Indices: 2933395--2933429 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2933385 TGAGTTGATT
2933395 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
2933408 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
2933422 TTTGAAAA
1 TTTGAAAA
2933430 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:2933427 original size:88 final size:88
Alignment explanation
Indices: 2933324--2933485 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 88
2933314 TTTTTTGAAA
* *
2933324 AAAAACAGAAATTGAAAATAGCTC-AGCACGTGAACCAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCGA-CACGTGAACCAAGGCTCAACTCACATCTCGCAATATGA
2933388 GTTGATTTTTGAAAACAGAATTTG
65 GTTGATTTTTGAAAACAGAATTTG
** * *
2933412 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGACACGTGAACCAAGGCTCAACTCACATCTCGCAATATGAG
2933477 TTGATTTTT
66 TTGATTTTT
2933486 TTGAAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
88 66 0.99
89 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCGACACGTGAACCAAGGCTCAACTCACATCTCGCAATATGAG
TTGATTTTTGAAAACAGAATTTG
Found at i:2933641 original size:78 final size:77
Alignment explanation
Indices: 2933423--2933662 Score: 288
Period size: 78 Copynumber: 3.1 Consensus size: 77
2933413 AAAACAGATT
** *
2933423 TTGAAAATACCTC-GACATGTGACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAG-CGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
2933487 TGAAAAATATAAA
65 TGAAAGATAGAAA
* * ** *
2933500 TTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCACAATAT-AGTTGATTTT
1 TTG--AAAATACCTCAGCGCGTGA-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2933563 TTTGAAAGATAGAAA
63 TTTGAAAGATAGAAA
* *
2933578 TTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
**
2933643 TGAAAGGCAGAAA
65 TGAAAGATAGAAA
2933656 TTGAAAA
1 TTGAAAA
2933663 ACGGAAATTG
Statistics
Matches: 139, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
75 2 0.01
76 38 0.27
77 9 0.06
78 50 0.36
79 36 0.26
80 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (77 bp):
TTGAAAATACCTCAGCGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAGATAGAAA
Found at i:2933681 original size:168 final size:164
Alignment explanation
Indices: 2933505--2933826 Score: 441
Period size: 168 Copynumber: 1.9 Consensus size: 164
2933495 ATAAATTGAA
* * *
2933505 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATA-TAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGA-TTTTTTGAA
* *
2933569 AGATAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
65 A-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
**
2933633 TGATTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
126 TGA-TTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
* * * *
2933673 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTGACA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTGAAA
* * * *
2933738 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
66 ACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
2933803 TTTTTGAAAAACAGAAATTGAAAA
131 TTTTTGAAAAACAGAAATTGAAAA
2933827 TACCACAGCA
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
164 26 0.19
165 36 0.26
167 18 0.13
168 51 0.37
169 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (164 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTGAAA
ACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
Found at i:2933807 original size:75 final size:75
Alignment explanation
Indices: 2933656--2933881 Score: 287
Period size: 75 Copynumber: 3.0 Consensus size: 75
2933646 AAGGCAGAAA
* * * * *
2933656 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
2933721 GAGTTGA-TTTT
64 GAGTTGATTTTT
* * *
2933732 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
2933796 GTTGATTTTT
66 GTTGATTTTT
* *
2933806 TTGAAAAACAGAAATTGAAAATACCACAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
2933870 TGAGCTGATTTT
63 TGAGTTGATTTT
2933882 GAAAAAGTAT
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
73 32 0.24
74 7 0.05
75 49 0.37
76 3 0.02
77 38 0.29
78 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:2933868 original size:242 final size:245
Alignment explanation
Indices: 2933072--2933881 Score: 867
Period size: 252 Copynumber: 3.3 Consensus size: 245
2933062 AACAGATATT
* *
2933072 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * ** * ***
2933137 TTGA--TTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAG
66 TTGATTTTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAG
* * * * *
2933199 GTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACA-AAATT-AAAATACTCAACT
131 GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-A-T-ACCT
* * * ** *
2933260 CAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
193 C-A---GCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
2933321 AAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACTTCTCGCAATAT
1 ---AAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACCTCTCGCAATAT
* **
2933386 GAGTTGA---TTTTTGAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCC
63 GAGTTGATTTTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCC
* * * *
2933448 AAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
128 AAGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACC
* * *
2933513 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATAT-AGTTGATTTTTTTG
192 TCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
2933567 AAAGATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * **
2933632 TTGATTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGA
66 TTGATTTTTTTTGAAA-ACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAA
* * * *
2933697 GGCTCAACTCGCCTCTCACAATACGAGTTGA-TTTTTTG-ACAACAGAAATTG-AAATTACCTCA
130 GGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCA
* *
2933759 GCGTGT-CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG
195 GCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
2933809 AAAAACAGAAATTGAAAATACCACAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAG
*
2933874 CTGATTTT
66 TTGATTTT
2933882 GAAAAAGTAT
Statistics
Matches: 487, Mismatches: 59, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
241 25 0.05
242 78 0.16
243 79 0.16
245 10 0.02
246 25 0.05
247 71 0.15
248 24 0.05
249 1 0.00
250 3 0.01
251 6 0.01
252 137 0.28
253 1 0.00
254 16 0.03
255 6 0.01
256 1 0.00
257 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (245 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCAAG
GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
CGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:2933948 original size:54 final size:55
Alignment explanation
Indices: 2933850--2933955 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 55
2933840 GAACCGAGGC
* *
2933850 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTATAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCATAAATTGAAAAGGT
* *
2933904 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCATAAATTGAAAA
2933956 CAGAAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 35 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCATAAATTGAAAAGGT
Found at i:2934015 original size:139 final size:141
Alignment explanation
Indices: 2933810--2934347 Score: 910
Period size: 142 Copynumber: 3.8 Consensus size: 141
2933800 ATTTTTTTGA
*
2933810 AAAACAGAAATTGAAAATACCACAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACAGAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGC
*
2933875 TGATTTTGAAAAAGTATAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
65 TGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
2933940 CAACATAAATTG
130 CAACATAAATTG
2933952 AAAACAGAAATT-AAAATACCTCAGC-GTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACAGAAATTGAAAATACCTCAGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGC
2934014 TGATTTTGAAAAAG-AGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
65 TGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
*
2934078 CAACGTAAATTG
130 CAACATAAATTG
2934090 AAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACAGAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGC
2934155 TGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
65 TGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAA
2934220 CAACATAAATTG
130 CAACATAAATTG
** * *
2934232 AAAACAGAAATTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCT
* *
2934296 GATTTTGAAAAA-TAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAGT
66 GATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGT
2934348 CAATTTAAAA
Statistics
Matches: 379, Mismatches: 10, Indels: 17
0.93 0.02 0.04
Matches are distributed among these distances:
138 75 0.20
139 95 0.25
140 48 0.13
141 59 0.16
142 102 0.27
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (141 bp):
AAAACAGAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCT
GATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAC
AACATAAATTG
Found at i:2934230 original size:54 final size:55
Alignment explanation
Indices: 2934130--2934235 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
2934120 GAACCGAGGC
* *
2934130 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
2934184 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
2934236 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:2934242 original size:13 final size:13
Alignment explanation
Indices: 2934215--2934248 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2934205 GAGTTGATTC
*
2934215 TTGAACAACATAAA
1 TTGAA-AACAGAAA
2934229 TTGAAAACAGAAA
1 TTGAAAACAGAAA
2934242 TTGAAAA
1 TTGAAAA
2934249 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:2934462 original size:71 final size:70
Alignment explanation
Indices: 2934319--2934493 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
2934309 AAAAATTAAA
* * * * * *
2934319 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
2934383 CCCCG
66 CCCCG
* *
2934388 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
2934453 GTCTTG
65 GCCCCG
2934459 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
2934494 CCCTTGAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 60 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:2941679 original size:2 final size:2
Alignment explanation
Indices: 2941630--2941660 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2941620 GGTATTTAAA
*
2941630 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2941661 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2942273 original size:34 final size:31
Alignment explanation
Indices: 2942226--2942323 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 31
2942216 GTGGCTAGGG
**
2942226 TTTTTTTAGTTTTTTTTTTGGGTTAGGTTTT
1 TTTTTTTTTTTTTTTTTTTGGGTTAGGTTTT
*
2942257 TCTTTTTTCTTCTTTTTTTTTTGGGTTAGG--TG
1 T-TTTTTT-TT-TTTTTTTTTTGGGTTAGGTTTT
2942289 TTTTTTTTTTTTTTTTTTTGGGTTAGGTTTT
1 TTTTTTTTTTTTTTTTTTTGGGTTAGGTTTT
2942320 TTTT
1 TTTT
2942324 AGGGGGACTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
29 18 0.31
30 2 0.03
31 12 0.21
32 8 0.14
34 18 0.31
ACGTcount: A:0.04, C:0.03, G:0.17, T:0.76
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTTTTTGGGTTAGGTTTT
Found at i:2944985 original size:34 final size:33
Alignment explanation
Indices: 2944938--2945018 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
2944928 TAAGTATGTA
* * *
2944938 ATATATTATTTTATTAAAAT-TTTAATAAATGAAT
1 ATATATAAATTTATT-AAATGTTAAATAAAT-AAT
*
2944972 ATATATAAATTTATTAAATGTTAAATTAATAAT
1 ATATATAAATTTATTAAATGTTAAATAAATAAT
*
2945005 A-ATATAAACTTATT
1 ATATATAAATTTATT
2945019 CTTTTGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 12 0.29
33 8 0.20
34 21 0.51
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (33 bp):
ATATATAAATTTATTAAATGTTAAATAAATAAT
Found at i:2952307 original size:4 final size:4
Alignment explanation
Indices: 2952298--2952339 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
2952288 ATGTGTAGTT
*
2952298 TTAA TTAA TTAA TTAA TTAA TTGAT TTAA TT-A TTAAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TT-AA TTAA TTAA TT-AA TTAA T
2952340 ATTTCAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 24 0.73
5 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:2953323 original size:13 final size:12
Alignment explanation
Indices: 2953305--2953352 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
2953295 GATCTCATAG
2953305 GAGATGATCAACT
1 GAGATGATCAA-T
* *
2953318 GAGATGACCATAG
1 GAGATGATCA-AT
2953331 GAGATGATCAAGT
1 GAGATGATCAA-T
2953344 GAGATGATC
1 GAGATGATC
2953353 CTGACGAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 27 0.93
14 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (12 bp):
GAGATGATCAAT
Found at i:2953331 original size:26 final size:26
Alignment explanation
Indices: 2953300--2953350 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2953290 TCCATGATCT
2953300 CATAGGAGATGATCAACTGAGATGAC
1 CATAGGAGATGATCAACTGAGATGAC
*
2953326 CATAGGAGATGATCAAGTGAGATGA
1 CATAGGAGATGATCAACTGAGATGA
2953351 TCCTGACGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (26 bp):
CATAGGAGATGATCAACTGAGATGAC
Found at i:2955568 original size:62 final size:62
Alignment explanation
Indices: 2955483--2955627 Score: 200
Period size: 62 Copynumber: 2.3 Consensus size: 62
2955473 TGTTCATATC
* **
2955483 TTTCACTCAAATTTGGATTATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
1 TTTC-CTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
* * * *
2955546 TTTCCTCAAAATTGGACCATATTGTGGCACATTATGCTTTTGAAGTCTAAAATGCAACCCCA
1 TTTCCTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
* *
2955608 TCTCCTCAAGATTGGACCAT
1 TTTCCTCAAAATTGGACCAT
2955628 GATGGCCTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 69 0.95
63 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (62 bp):
TTTCCTCAAAATTGGACCATATTGTGACACATTATACTTTTAAAGCCTAAAATGCAACCCCA
Found at i:2963450 original size:30 final size:31
Alignment explanation
Indices: 2963414--2963485 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 31
2963404 AAATATACAA
2963414 ACATACAAA-GTAATAATTAAATAATGCATG
1 ACATACAAAGGTAATAATTAAATAATGCATG
*
2963444 ATATACAAAAAGGTAATAATTAAATAATGCATG
1 ACATAC--AAAGGTAATAATTAAATAATGCATG
2963477 ACATACAAA
1 ACATACAAA
2963486 AAAAGAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.14
31 3 0.08
32 3 0.08
33 26 0.70
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (31 bp):
ACATACAAAGGTAATAATTAAATAATGCATG
Found at i:2963462 original size:33 final size:33
Alignment explanation
Indices: 2963423--2963487 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
2963413 AACATACAAA
*
2963423 GTAATAATTAAATAATGCATGATATACAAAAAG
1 GTAATAATTAAATAATGCATGACATACAAAAAG
2963456 GTAATAATTAAATAATGCATGACATACAAAAA
1 GTAATAATTAAATAATGCATGACATACAAAAA
2963488 AAGAGTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (33 bp):
GTAATAATTAAATAATGCATGACATACAAAAAG
Found at i:2964372 original size:25 final size:23
Alignment explanation
Indices: 2964337--2964393 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
2964327 CAAGACTTTG
2964337 TTTTTGG-GGAGG-TGGGTTTTTGGT
1 TTTTTGGAGGAGGAT-GGTTTTT--T
*
2964361 TTTTTGGAGGAGGATTGTTTTTT
1 TTTTTGGAGGAGGATGGTTTTTT
2964384 TTTTTGGAGG
1 TTTTTGGAGG
2964394 TGTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 11 0.37
24 7 0.23
25 11 0.37
26 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.53
Consensus pattern (23 bp):
TTTTTGGAGGAGGATGGTTTTTT
Found at i:2964408 original size:23 final size:24
Alignment explanation
Indices: 2964353--2964414 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
2964343 GGGAGGTGGG
*
2964353 TTTTTGGTTTTTTGGAGGAGGATT
1 TTTTTGTTTTTTTGGAGGAGGATT
* * *
2964377 GTTTT-TTTTTTTGGAGG-TGTTT
1 TTTTTGTTTTTTTGGAGGAGGATT
2964399 TTTTTGTTTTTTTGGA
1 TTTTTGTTTTTTTGGA
2964415 AAGAAGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 7 0.22
23 21 0.66
24 4 0.12
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (24 bp):
TTTTTGTTTTTTTGGAGGAGGATT
Found at i:2964756 original size:3 final size:3
Alignment explanation
Indices: 2964742--2964824 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
2964732 GAGCTTTGTT
* *
2964742 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2964786 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
2964825 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2964802 original size:21 final size:18
Alignment explanation
Indices: 2964742--2964824 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
2964732 GAGCTTTGTT
*
2964742 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
2964762 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
2964780 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
2964801 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
2964819 -TATTAT
1 TTATTAT
2964825 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:2964827 original size:27 final size:26
Alignment explanation
Indices: 2964741--2964828 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
2964731 AGAGCTTTGT
* * *
2964741 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
2964768 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
2964793 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
2964819 TATTATATAT
1 T-TTATATAT
2964829 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:2966117 original size:3 final size:3
Alignment explanation
Indices: 2966109--2966205 Score: 53
Period size: 3 Copynumber: 32.7 Consensus size: 3
2966099 CAAGTAAAAT
* * * *
2966109 ATA ATA ATA AT- ATA AAA ATA ATG AT- GTA A-A ATA ATA ATA ATA ATTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* *
2966155 GTGA A-A AAA ATA ATA TATA ATAA ATA ATA ATA AT- ATA TATA ATA A-A
1 AT-A ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
2966201 ATA AT
1 ATA AT
2966206 CTTATAATGT
Statistics
Matches: 73, Mismatches: 10, Indels: 22
0.70 0.10 0.21
Matches are distributed among these distances:
2 11 0.15
3 52 0.71
4 10 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2966126 original size:19 final size:19
Alignment explanation
Indices: 2966067--2966128 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
2966057 ATGTAAGAAC
2966067 AATATATATAAATAAT-TAATA
1 AATATA-AT-AATAATATAA-A
2966088 AATAT-ATAATACA-AGT-AA
1 AATATAATAATA-ATA-TAAA
2966106 AATATAATAATAATATAAA
1 AATATAATAATAATATAAA
2966125 AATA
1 AATA
2966129 ATGATGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
18 12 0.34
19 17 0.49
20 1 0.03
21 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATAATAATAATATAAA
Found at i:2966162 original size:36 final size:33
Alignment explanation
Indices: 2966102--2966205 Score: 95
Period size: 36 Copynumber: 3.0 Consensus size: 33
2966092 TATAATACAA
*
2966102 GTAAAAT-ATAATAATAA-TATAAAAATAATGAT
1 GTAAAATAATAATAATAATTATAAAAA-AATAAT
*
2966134 GTAAAATAATAATAATAATTTGTGAAAAAAATAAT
1 GTAAAATAATAATAATAA-TTAT-AAAAAAATAAT
* *
2966169 ATATAATAAATAATAATAATATATATAATAAAATAAT
1 GTAAAAT-AATAATAATAAT-TATA-AA-AAAATAAT
2966206 CTTATAATGT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
32 7 0.12
33 10 0.17
35 14 0.24
36 20 0.34
37 8 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (33 bp):
GTAAAATAATAATAATAATTATAAAAAAATAAT
Found at i:2966211 original size:20 final size:22
Alignment explanation
Indices: 2966068--2966199 Score: 62
Period size: 22 Copynumber: 6.0 Consensus size: 22
2966058 TGTAAGAACA
2966068 ATATAT-ATAAATAATTAATAA-
1 ATATATAATAAATAA-TAATAAT
* *
2966089 ATATATAATACA-AGTAA-AAT
1 ATATATAATAAATAATAATAAT
*
2966109 ATA-ATAATAATATAAAAATAAT
1 ATATATAATAA-ATAATAATAAT
* *
2966131 GATGTAAAAT-AATAATAATAAT
1 -ATATATAATAAATAATAATAAT
* * *
2966153 TTGTGA-AAAAAATAATATATAAT
1 ATAT-ATAATAAATAATA-ATAAT
*
2966176 AAATAATAATAATATATATAATAA
1 ATAT-ATAATAA-ATA-ATAATAA
2966200 AATAATCTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
19 8 0.10
20 7 0.08
21 15 0.18
22 25 0.30
23 10 0.12
24 8 0.10
25 7 0.08
26 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATATAATAAATAATAATAAT
Found at i:2968881 original size:29 final size:29
Alignment explanation
Indices: 2968803--2968882 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 29
2968793 TTCAGAGTAT
*
2968803 ATTT-ATTTTTTTATTTAAAA-AATAAATA
1 ATTTAATTTTTTTA-TTAAAATAAAAAATA
* * *
2968831 AATTAATTTTTATATGTTAAATAAAAAATA
1 ATTTAATTTTTTTAT-TAAAATAAAAAATA
2968861 ATTTAATTTTTTTATTAAAATA
1 ATTTAATTTTTTTATTAAAATA
2968883 TTTATTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.10
29 18 0.43
30 20 0.48
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTAATTTTTTTATTAAAATAAAAAATA
Found at i:2971318 original size:22 final size:22
Alignment explanation
Indices: 2971267--2971327 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2971257 ATAAGTAAAT
* *
2971267 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
2971288 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
2971310 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
2971328 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:2971427 original size:3 final size:3
Alignment explanation
Indices: 2971419--2971559 Score: 101
Period size: 3 Copynumber: 46.7 Consensus size: 3
2971409 AAAGTAGTGC
2971419 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
2971467 TGA T-C TAT TAA GTTA TAA TGAA -AA TAA TGA TAA TGA TGA T-A TAT
1 TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
2971511 TAGA TAA TAA TAG TAA -AA TAA TAA GTAA CAA TGA TAAA TTA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA
2971558 TA
1 TA
2971560 GTGATGAGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
2 7 0.06
3 92 0.84
4 11 0.10
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2971580 original size:16 final size:16
Alignment explanation
Indices: 2971559--2971590 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2971549 TTATAATAAT
2971559 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
2971575 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
2971591 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:2971723 original size:16 final size:15
Alignment explanation
Indices: 2971694--2971736 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2971684 TATACGTATG
*
2971694 AAAAATAATGATAGT
1 AAAAATAATAATAGT
2971709 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
2971725 AATAATAATAAT
1 AAAAATAATAAT
2971737 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:2971837 original size:3 final size:3
Alignment explanation
Indices: 2971829--2971864 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2971819 ACACTACCAT
2971829 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2971865 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2971965 original size:3 final size:3
Alignment explanation
Indices: 2971957--2971994 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2971947 AAATATACAC
2971957 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2971995 TTAAAATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2972488 original size:30 final size:29
Alignment explanation
Indices: 2972452--2972528 Score: 113
Period size: 27 Copynumber: 2.7 Consensus size: 29
2972442 GATTTTTTGT
2972452 TCTTGAATCTCAAAAAAAAGAAAAATCCCC
1 TCTTGAATCTCAAAAAAAA-AAAAATCCCC
* *
2972482 TCTTGAATCTC--AAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAAATCCCC
2972509 TCTTGAATCTCAAAAAAAAA
1 TCTTGAATCTCAAAAAAAAA
2972529 TTCTTCTCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 19 0.44
28 6 0.14
29 7 0.16
30 11 0.26
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (29 bp):
TCTTGAATCTCAAAAAAAAAAAAATCCCC
Found at i:2973751 original size:205 final size:204
Alignment explanation
Indices: 2973047--2974450 Score: 2495
Period size: 205 Copynumber: 6.9 Consensus size: 204
2973037 AGATTTATTT
* * * * * * * * *
2973047 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
2973112 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
2973176 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCA-AAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2973241 AGATGCCAAA
195 AGATGCCAAA
2973251 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2973316 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
2973381 GGATCTGCTTCAGCAAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
131 GGATCTGCTTCAGCAAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
2973446 GATGCCAAA
196 GATGCCAAA
2973455 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2973520 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2973585 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGC-AAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2973650 AGATGCCAAA
195 AGATGCCAAA
2973660 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2973725 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2973790 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCA-AAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2973855 AGATGCCAAA
195 AGATGCCAAA
2973865 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2973930 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2973995 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGC-AAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2974060 AGATGCCAAA
195 AGATGCCAAA
*
2974070 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCATAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2974135 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2974200 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCA-AAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2974265 AGATGCCAAA
195 AGATGCCAAA
2974275 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2974340 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * *
2974405 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCTGCTTCAG-CAAAACATCTGAAGGTGAGATCTGCTATGTGT
2974451 GGCCTATTAC
Statistics
Matches: 1161, Mismatches: 33, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
204 278 0.24
205 881 0.76
206 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (204 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGCAAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAA
Found at i:2982521 original size:15 final size:14
Alignment explanation
Indices: 2982479--2982528 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
2982469 ATAACTTTGA
*
2982479 ATGCAAATGATGTG
1 ATGCAAATGATGAG
2982493 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
2982508 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
2982522 ATGCAAA
1 ATGCAAA
2982529 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:2986379 original size:22 final size:22
Alignment explanation
Indices: 2986328--2986388 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2986318 ATAAGTAAAT
* *
2986328 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
2986349 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
2986371 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
2986389 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:2986463 original size:3 final size:3
Alignment explanation
Indices: 2986457--2986516 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
2986447 TAATATATTA
*
2986457 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2986505 AAT AAT AAT AAT
1 AAT AAT AAT AAT
2986517 GATGATCTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2986632 original size:16 final size:16
Alignment explanation
Indices: 2986611--2986642 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2986601 TTATAATAAT
2986611 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
2986627 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
2986643 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:2986775 original size:16 final size:15
Alignment explanation
Indices: 2986746--2986788 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2986736 TATACGTATG
*
2986746 AAAAATAATGATAGT
1 AAAAATAATAATAGT
2986761 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
2986777 AATAATAATAAT
1 AAAAATAATAAT
2986789 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:2987012 original size:3 final size:3
Alignment explanation
Indices: 2987004--2987029 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2986994 AAATATACAC
2987004 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2987030 TTAAAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2987525 original size:31 final size:31
Alignment explanation
Indices: 2987487--2987572 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 31
2987477 GATTTTTTGT
*
2987487 TCTTGAATCTCAAAAAAAAAGAAAAATCCCC
1 TCTTGAATCTCAAAAAAAAAAAAAAATCCCC
* *
2987518 TCTTGAATCTCAAAAAAAAAAAAAAAAAAATCTCT
1 TCTTGAATCTC----AAAAAAAAAAAAAAATCCCC
2987553 TCTTGAATCTCAAAAAAAAA
1 TCTTGAATCTCAAAAAAAAA
2987573 TTCTTCTCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 20 0.42
35 28 0.58
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (31 bp):
TCTTGAATCTCAAAAAAAAAAAAAAATCCCC
Found at i:2987547 original size:35 final size:35
Alignment explanation
Indices: 2987498--2987572 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
2987488 CTTGAATCTC
*
2987498 AAAAAAAAAGAAAAATCCCCTCTTGAATCTCAAAA
1 AAAAAAAAAAAAAAATCCCCTCTTGAATCTCAAAA
* *
2987533 AAAAAAAAAAAAAAATCTCTTCTTGAATCTCAAAA
1 AAAAAAAAAAAAAAATCCCCTCTTGAATCTCAAAA
2987568 AAAAA
1 AAAAA
2987573 TTCTTCTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.61, C:0.16, G:0.04, T:0.19
Consensus pattern (35 bp):
AAAAAAAAAAAAAAATCCCCTCTTGAATCTCAAAA
Found at i:2989005 original size:15 final size:16
Alignment explanation
Indices: 2988978--2989007 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2988968 ATACCCATAC
2988978 TAATCGAATTAAAATT
1 TAATCGAATTAAAATT
2988994 TAATCG-ATTAAAAT
1 TAATCGAATTAAAAT
2989008 CTAGTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (16 bp):
TAATCGAATTAAAATT
Found at i:2997419 original size:18 final size:19
Alignment explanation
Indices: 2997396--2997442 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
2997386 ATTTCGTTTG
2997396 ATATTAATTGAATA-TAAT
1 ATATTAATTGAATAGTAAT
**
2997414 ATATTAATTTTATAGTTAAT
1 ATATTAATTGAATAG-TAAT
2997434 ATATTAATT
1 ATATTAATT
2997443 TTCCTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATTAATTGAATAGTAAT
Found at i:2998251 original size:30 final size:31
Alignment explanation
Indices: 2998216--2998275 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2998206 TTTTAGGGAT
2998216 AAATAT-CAAAATTATACATGAATTTTGATC
1 AAATATGCAAAATTATACATGAATTTTGATC
* * *
2998246 AAATATGTAATATTATACATTAATTTTGAT
1 AAATATGCAAAATTATACATGAATTTTGAT
2998276 TTTATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
AAATATGCAAAATTATACATGAATTTTGATC
Found at i:3000990 original size:23 final size:23
Alignment explanation
Indices: 3000964--3001008 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3000954 TCTATTTATA
* *
3000964 GTAACAAATCTTAATTTTAATTT
1 GTAACAAACCTTAATATTAATTT
**
3000987 GTAAGTAACCTTAATATTAATT
1 GTAACAAACCTTAATATTAATT
3001009 AAATGATAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (23 bp):
GTAACAAACCTTAATATTAATTT
Found at i:3002877 original size:12 final size:12
Alignment explanation
Indices: 3002860--3002884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3002850 AAAATGATGC
3002860 TATATTAATAAT
1 TATATTAATAAT
3002872 TATATTAATAAT
1 TATATTAATAAT
3002884 T
1 T
3002885 TGTAAGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTAATAAT
Found at i:3004658 original size:30 final size:30
Alignment explanation
Indices: 3004624--3004683 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
3004614 TATTTTATTA
3004624 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
3004654 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
3004684 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGTATTTG
Found at i:3006126 original size:12 final size:12
Alignment explanation
Indices: 3006109--3006133 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3006099 ATGAATTGGT
3006109 ACCTCAATATTG
1 ACCTCAATATTG
3006121 ACCTCAATATTG
1 ACCTCAATATTG
3006133 A
1 A
3006134 AAAAGAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
ACCTCAATATTG
Found at i:3013384 original size:2 final size:2
Alignment explanation
Indices: 3013377--3013410 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3013367 TAAGGGTATT
3013377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3013411 AATTCTGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3016726 original size:21 final size:20
Alignment explanation
Indices: 3016697--3016739 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3016687 CTTAATTGAA
3016697 TAAACAATTCAA-TAATAAAAT
1 TAAACAATT-AATTAA-AAAAT
*
3016718 TAAATAATTAATTAAAAAAT
1 TAAACAATTAATTAAAAAAT
3016738 TA
1 TA
3016740 TATATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAACAATTAATTAAAAAAT
Found at i:3017225 original size:18 final size:18
Alignment explanation
Indices: 3017199--3017233 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3017189 TCGGATCACC
*
3017199 TTTGTTTTAATAAAACGT
1 TTTGGTTTAATAAAACGT
*
3017217 TTTGGTTTACTAAAACG
1 TTTGGTTTAATAAAACG
3017234 GCATTTTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTGGTTTAATAAAACGT
Found at i:3018843 original size:27 final size:29
Alignment explanation
Indices: 3018812--3018879 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
3018802 ATATATGCAT
3018812 ATATATATAGAA-GTTTTAAAATAA-AAA
1 ATATATATAGAATGTTTTAAAATAAGAAA
* *
3018839 ATATATA-AAAATGTTTTAAAATAAGTAAT
1 ATATATATAGAATGTTTTAAAATAAG-AAA
3018868 ATATATATAGAA
1 ATATATATAGAA
3018880 AAATCAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.09
27 19 0.56
29 9 0.26
30 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (29 bp):
ATATATATAGAATGTTTTAAAATAAGAAA
Found at i:3023913 original size:30 final size:30
Alignment explanation
Indices: 3023875--3023987 Score: 129
Period size: 30 Copynumber: 3.8 Consensus size: 30
3023865 ATAGTAATTG
*
3023875 GCAGCCATCACATCCTGTCGCACACAATC-
1 GCAGCCATCACATCCTGTCGCACGCAATCA
** *
3023904 GCTAGCCATCGTATCCTGTCACACGCAATCA
1 GC-AGCCATCACATCCTGTCGCACGCAATCA
* *
3023935 GCAACCATCGCATCCTGTCGCACGCAATCA
1 GCAGCCATCACATCCTGTCGCACGCAATCA
* * *
3023965 GCAGCCACCATATCCTATCGCAC
1 GCAGCCATCACATCCTGTCGCAC
3023988 CCTGTGCGCC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 2 0.03
30 66 0.94
31 2 0.03
ACGTcount: A:0.27, C:0.40, G:0.15, T:0.19
Consensus pattern (30 bp):
GCAGCCATCACATCCTGTCGCACGCAATCA
Found at i:3024506 original size:71 final size:72
Alignment explanation
Indices: 3024357--3024498 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 72
3024347 TGTGATGGCG
* * * * * *
3024357 GAATATGCCAGTAGCATGTTTTTAATCTGTTAAAGTATATGTGCAATTAGCATGTTCTGATCTGT
1 GAATATGCCAATAGCATGTTTTTAACCTGTTAAACTATATGTGCAACTAGCATGTTCTAATCTAT
3024422 TTTATCC
66 TTTATCC
* *
3024429 GAATATGCCAATAGCAT-TTTTTTACCTGTTAAACTATATGTGCAACTAGTATGTTCTAATCTAT
1 GAATATGCCAATAGCATGTTTTTAACCTGTTAAACTATATGTGCAACTAGCATGTTCTAATCTAT
3024493 TTTATC
66 TTTATC
3024499 TATATATGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
71 46 0.74
72 16 0.26
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (72 bp):
GAATATGCCAATAGCATGTTTTTAACCTGTTAAACTATATGTGCAACTAGCATGTTCTAATCTAT
TTTATCC
Found at i:3026397 original size:18 final size:18
Alignment explanation
Indices: 3026371--3026405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3026361 TCGGATTACC
*
3026371 TTTATTTTAATAAAACGT
1 TTTAGTTTAATAAAACGT
*
3026389 TTTAGTTTATTAAAACG
1 TTTAGTTTAATAAAACG
3026406 GTGTTTTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (18 bp):
TTTAGTTTAATAAAACGT
Found at i:3027302 original size:18 final size:18
Alignment explanation
Indices: 3027260--3027302 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
3027250 TATGTTGAAG
3027260 TTATTTTTGTTTAGTGTT
1 TTATTTTTGTTTAGTGTT
* *
3027278 TTAATTTTTTTTTTGTGTT
1 TT-ATTTTTGTTTAGTGTT
3027297 TTATTT
1 TTATTT
3027303 CAATTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (18 bp):
TTATTTTTGTTTAGTGTT
Found at i:3029164 original size:14 final size:14
Alignment explanation
Indices: 3029143--3029195 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
3029133 AGTAAGTGAC
3029143 TAAAACATAATATT
1 TAAAACATAATATT
* *
3029157 TTAAACATAAGTGA-C
1 TAAAACATAA-T-ATT
3029172 TAAAACATAATATT
1 TAAAACATAATATT
*
3029186 TCAAACATAA
1 TAAAACATAA
3029196 GTGACTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 1 0.03
14 19 0.61
15 10 0.32
16 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (14 bp):
TAAAACATAATATT
Found at i:3029174 original size:29 final size:29
Alignment explanation
Indices: 3029135--3029205 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
3029125 CACAATAAAG
*
3029135 TAAGTGACTAAAACATAATATTTTAAACA
1 TAAGTGACTAAAACATAATATTTCAAACA
3029164 TAAGTGACTAAAACATAATATTTCAAACA
1 TAAGTGACTAAAACATAATATTTCAAACA
3029193 TAAGTGACTAAAA
1 TAAGTGACTAAAA
3029206 TGTAACCTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.28
Consensus pattern (29 bp):
TAAGTGACTAAAACATAATATTTCAAACA
Found at i:3032185 original size:45 final size:45
Alignment explanation
Indices: 3032121--3032282 Score: 254
Period size: 45 Copynumber: 3.6 Consensus size: 45
3032111 TATCGCACAG
3032121 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
3032166 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
3032211 TACCACTCGGGCCTTTGAGTCTAGCAGGTTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
3032256 TACTATTCGGG-CTTCGAGCCTAGCAGG
1 TACTATTCGGGCCTTTGAGCCTAGCAGG
3032283 TGAAATGCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 14 0.13
45 91 0.87
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:3034355 original size:26 final size:23
Alignment explanation
Indices: 3034211--3034339 Score: 120
Period size: 23 Copynumber: 5.5 Consensus size: 23
3034201 ATCAGGTAGT
*
3034211 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAGCC-TATCGGGAAGC
3034235 TCACAAAGAGCCTATCGGGAAGC
1 TCACAAAGAGCCTATCGGGAAGC
** * *
3034258 TC-CGGATAGCCATATATCGGGAAGT
1 TCACAAAGAGCC---TATCGGGAAGC
**
3034283 TCA-AGCG-GCACTATCGGGAAGC
1 TCACAAAGAGC-CTATCGGGAAGC
3034305 TCACAAAGAGCCTATCGGGAAGC
1 TCACAAAGAGCCTATCGGGAAGC
*
3034328 TCACGAAGAGCC
1 TCACAAAGAGCC
3034340 ATATATCGGG
Statistics
Matches: 86, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
22 19 0.22
23 38 0.44
24 15 0.17
25 14 0.16
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (23 bp):
TCACAAAGAGCCTATCGGGAAGC
Found at i:3036490 original size:18 final size:20
Alignment explanation
Indices: 3036465--3036511 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3036455 AAATAATAAT
* *
3036465 AAATAATAAAATATCTTATTA
1 AAATAAT-ATATATCTAATTA
3036486 AAATAATATATATCTAATT-
1 AAATAATATATATCTAATTA
3036505 AAATAAT
1 AAATAAT
3036512 CATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAATATATATCTAATTA
Found at i:3036498 original size:20 final size:20
Alignment explanation
Indices: 3036443--3036511 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 20
3036433 TTATACTAAA
* *
3036443 TAATT-AATAATTAAATA-A
1 TAATTAAATAATAAAATATC
3036461 TAA-TAAATAATAAAATATC
1 TAATTAAATAATAAAATATC
* *
3036480 TTATTAAAATAAT-ATATATC
1 TAATT-AAATAATAAAATATC
3036500 TAATTAAATAAT
1 TAATTAAATAAT
3036512 CATAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 14 0.33
19 9 0.21
20 11 0.26
21 7 0.17
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATTAAATAATAAAATATC
Found at i:3038286 original size:21 final size:19
Alignment explanation
Indices: 3038249--3038312 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
3038239 TTTTCTTAAA
*
3038249 AATTAATTTTG-GAAAATCT
1 AATTATTTTTGAGAAAAT-T
3038268 CAATTATTTTTGAGAAAATT
1 -AATTATTTTTGAGAAAATT
*
3038288 AATTTTGATTTTGAGAAAATT
1 AATTAT--TTTTGAGAAAATT
3038309 AATT
1 AATT
3038313 TTGATCAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.13
20 11 0.28
21 23 0.59
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (19 bp):
AATTATTTTTGAGAAAATT
Found at i:3038313 original size:21 final size:21
Alignment explanation
Indices: 3038275--3038317 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3038265 TCTCAATTAT
3038275 TTTTGAGAAAATTAATTTTGA
1 TTTTGAGAAAATTAATTTTGA
3038296 TTTTGAGAAAATTAATTTTGA
1 TTTTGAGAAAATTAATTTTGA
3038317 T
1 T
3038318 CAAGTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
TTTTGAGAAAATTAATTTTGA
Found at i:3038962 original size:17 final size:17
Alignment explanation
Indices: 3038940--3038976 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3038930 ATCTAATACT
3038940 TATCAAGATAAGTATTA
1 TATCAAGATAAGTATTA
3038957 TATCAAGATAAGTATTA
1 TATCAAGATAAGTATTA
3038974 TAT
1 TAT
3038977 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (17 bp):
TATCAAGATAAGTATTA
Found at i:3040202 original size:18 final size:17
Alignment explanation
Indices: 3040167--3040199 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3040157 CTTTTTATTC
3040167 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
3040184 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
3040200 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:3043175 original size:2 final size:2
Alignment explanation
Indices: 3043168--3043205 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
3043158 TATTTTTAAC
* *
3043168 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3043206 TTATGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3043306 original size:16 final size:16
Alignment explanation
Indices: 3043262--3043310 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3043252 TTCTAATGTG
3043262 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
3043278 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
3043292 TATGTATATATTATAT
1 TATGTATATATTATAT
3043308 TAT
1 TAT
3043311 ATTTTTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
14 6 0.23
15 8 0.31
16 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:3043323 original size:12 final size:13
Alignment explanation
Indices: 3043291--3043329 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
3043281 TAATACTATA
3043291 TTATGTATATATT
1 TTATGTATATATT
*
3043304 ATAT-TATAT-TT
1 TTATGTATATATT
3043315 TTATGTATATATT
1 TTATGTATATATT
3043328 TT
1 TT
3043330 TAATATCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 5 0.23
12 10 0.45
13 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (13 bp):
TTATGTATATATT
Found at i:3043512 original size:3 final size:3
Alignment explanation
Indices: 3043506--3043570 Score: 78
Period size: 3 Copynumber: 21.0 Consensus size: 3
3043496 TTAATTCATA
* *
3043506 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
3043553 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
3043571 CATCATTGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 48 0.89
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:3043521 original size:9 final size:9
Alignment explanation
Indices: 3043507--3043583 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
3043497 TAATTCATAT
3043507 ATTATTATC
1 ATTATTATC
*
3043516 ATTATTTTC
1 ATTATTATC
*
3043525 TACGTTA-TATT
1 -A--TTATTATC
*
3043536 ATTATTATT
1 ATTATTATC
*
3043545 ATTATTATT
1 ATTATTATC
*
3043554 ATTATTATT
1 ATTATTATC
3043563 ATTATTATC
1 ATTATTATC
* *
3043572 ATCATTGTC
1 ATTATTATC
3043581 ATT
1 ATT
3043584 GCCATTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
8 3 0.05
9 47 0.82
10 2 0.04
11 2 0.04
12 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.60
Consensus pattern (9 bp):
ATTATTATC
Found at i:3043827 original size:21 final size:21
Alignment explanation
Indices: 3043803--3043846 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3043793 TATGTTTTAC
3043803 TATAAATCACGTTATTTTTCT
1 TATAAATCACGTTATTTTTCT
3043824 TATAAATCACGTTATTTTTCT
1 TATAAATCACGTTATTTTTCT
3043845 TA
1 TA
3043847 CTCAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.52
Consensus pattern (21 bp):
TATAAATCACGTTATTTTTCT
Found at i:3051223 original size:5 final size:5
Alignment explanation
Indices: 3051213--3051245 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
3051203 TTGTGTGTTC
3051213 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
3051246 TACAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:3057403 original size:21 final size:21
Alignment explanation
Indices: 3057379--3057441 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 21
3057369 AGAAATACTA
3057379 TTTAGTAGGAAAATTCAAAAT
1 TTTAGTAGGAAAATTCAAAAT
* * **
3057400 TTTA-TA-AAAGAAAT-ACTA-
1 TTTAGTAGGAA-AATTCAAAAT
3057418 TTTAGTAGGAAAATTCAAAAT
1 TTTAGTAGGAAAATTCAAAAT
3057439 TTT
1 TTT
3057442 CTCAGCGCAT
Statistics
Matches: 29, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 9 0.31
21 7 0.24
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (21 bp):
TTTAGTAGGAAAATTCAAAAT
Found at i:3057418 original size:39 final size:39
Alignment explanation
Indices: 3057364--3057441 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3057354 GTGACTTGGA
3057364 ATAAAAGAAATACTATTTAGTAGGAAAATTCAAAATTTT
1 ATAAAAGAAATACTATTTAGTAGGAAAATTCAAAATTTT
3057403 ATAAAAGAAATACTATTTAGTAGGAAAATTCAAAATTTT
1 ATAAAAGAAATACTATTTAGTAGGAAAATTCAAAATTTT
3057442 CTCAGCGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (39 bp):
ATAAAAGAAATACTATTTAGTAGGAAAATTCAAAATTTT
Found at i:3057953 original size:9 final size:9
Alignment explanation
Indices: 3057939--3057983 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
3057929 TCTTTTTCTC
3057939 TGTCTTTTT
1 TGTCTTTTT
3057948 TGTCTTTTT
1 TGTCTTTTT
3057957 TGTCTTTTT
1 TGTCTTTTT
3057966 CTGTCTTTTT
1 -TGTCTTTTT
3057976 TGT-TTTTT
1 TGTCTTTTT
3057984 ATTTTTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.14
9 21 0.60
10 9 0.26
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (9 bp):
TGTCTTTTT
Done.