Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 26 of 226
Found at i:9116467 original size:14 final size:15
Alignment explanation
Indices: 9116448--9116476 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9116438 GATATTTGTG
9116448 AATTTAT-AATTTAT
1 AATTTATAAATTTAT
9116462 AATTTATAAATTTAT
1 AATTTATAAATTTAT
9116477 GTAACATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTATAAATTTAT
Found at i:9117612 original size:21 final size:22
Alignment explanation
Indices: 9117583--9117629 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9117573 CTTCTTTAAA
*
9117583 TATCATAAAGTTAATA-TTATT
1 TATCATAAAGTTAAAATTTATT
* *
9117604 TATCTTAAATTTAAAATTTATT
1 TATCATAAAGTTAAAATTTATT
9117626 TATC
1 TATC
9117630 CCTTCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (22 bp):
TATCATAAAGTTAAAATTTATT
Found at i:9117693 original size:15 final size:16
Alignment explanation
Indices: 9117673--9117702 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9117663 TTAGTATATC
9117673 ATTTTAA-ATTTATTA
1 ATTTTAATATTTATTA
9117688 ATTTTAATATTTATT
1 ATTTTAATATTTATT
9117703 TTAAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTAATATTTATTA
Found at i:9118901 original size:6 final size:7
Alignment explanation
Indices: 9118875--9118900 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9118865 ATAAATTTAT
9118875 ATTTTTC
1 ATTTTTC
9118882 ATTTTTC
1 ATTTTTC
9118889 ATTTTTC
1 ATTTTTC
9118896 ATTTT
1 ATTTT
9118901 CCTCATGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTC
Found at i:9127317 original size:45 final size:45
Alignment explanation
Indices: 9127205--9127318 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
9127195 TAGGATATCG
* *
9127205 TAGCATTTTTCAGCTATTGTCTTAATCATGTTTACCATGATGCCA
1 TAGCATCTTTCAGCTATTGTCTTAATCATGTTCACCATGATGCCA
* * * * * *
9127250 TAGCGTCTTTCAACCATGGTCTTACTCAT-TTCCATCATGATGCCA
1 TAGCATCTTTCAGCTATTGTCTTAATCATGTT-CACCATGATGCCA
9127295 TAGCATCTTTCAGCTATTGTCTTA
1 TAGCATCTTTCAGCTATTGTCTTA
9127319 GCCATTTTAG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 2 0.04
45 54 0.96
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (45 bp):
TAGCATCTTTCAGCTATTGTCTTAATCATGTTCACCATGATGCCA
Found at i:9130060 original size:100 final size:100
Alignment explanation
Indices: 9129887--9130071 Score: 334
Period size: 100 Copynumber: 1.9 Consensus size: 100
9129877 TCTAAATATA
* *
9129887 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAGAA
1 TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
9129952 AAACATTTTTATTTTTTTAACATATAGAAATAATT
66 AAACATTTTTATTTTTTTAACATATAGAAATAATT
*
9129987 TTGTTTCAACCAAGGTTAAGTTTTTATTTGGTTTTTAAGAATATTATTTATTTTTATTTCTAAAA
1 TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
*
9130052 AAACATTTTTCTTTTTTTAA
66 AAACATTTTTATTTTTTTAA
9130072 TTATGTTTGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (100 bp):
TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
AAACATTTTTATTTTTTTAACATATAGAAATAATT
Found at i:9131163 original size:43 final size:43
Alignment explanation
Indices: 9130955--9131160 Score: 297
Period size: 43 Copynumber: 4.8 Consensus size: 43
9130945 GCGTCGCTAA
*
9130955 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** * * *
9130998 CTTTAATGGCGCTTATCCCATAAACGCCACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
9131041 TTTTAGCGGCG-TATTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCT-TTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
9131084 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAAACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
**
9131127 CTTTAGCGGTACTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
9131161 AACATGACTT
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 141 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:9131384 original size:18 final size:18
Alignment explanation
Indices: 9131361--9131420 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
9131351 TTAAAACAAG
9131361 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
9131379 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
9131396 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
9131414 TTACATT
1 TTACATT
9131421 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:9135857 original size:7 final size:7
Alignment explanation
Indices: 9135841--9135894 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
9135831 TCTTAACCTT
*
9135841 TAACCTC
1 TAACCAC
9135848 TAACCAC
1 TAACCAC
9135855 TAACC-C
1 TAACCAC
*
9135861 TAAACCCC
1 T-AACCAC
9135869 TAACCAC
1 TAACCAC
*
9135876 TAACTAC
1 TAACCAC
*
9135883 TAACCCC
1 TAACCAC
9135890 TAACC
1 TAACC
9135895 CCCAACCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 2 0.05
7 36 0.90
8 2 0.05
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCAC
Found at i:9135858 original size:21 final size:21
Alignment explanation
Indices: 9135842--9135907 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
9135832 CTTAACCTTT
*
9135842 AACCTCTAACCACTAACCCTA
1 AACCCCTAACCACTAACCCTA
*
9135863 AACCCCTAACCACTAACTACT-
1 AACCCCTAACCACTAAC-CCTA
* *
9135884 AACCCCTAACCCCCAACCCTA
1 AACCCCTAACCACTAACCCTA
9135905 AAC
1 AAC
9135908 ATTATTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAACCACTAACCCTA
Found at i:9135895 original size:7 final size:7
Alignment explanation
Indices: 9135841--9135902 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
9135831 TCTTAACCTT
*
9135841 TAACCTC
1 TAACCCC
*
9135848 TAACCAC
1 TAACCCC
9135855 TAA-CCC
1 TAACCCC
9135861 TAAACCCC
1 T-AACCCC
*
9135869 TAACCAC
1 TAACCCC
**
9135876 TAACTAC
1 TAACCCC
9135883 TAACCCC
1 TAACCCC
9135890 TAACCCC
1 TAACCCC
*
9135897 CAACCC
1 TAACCC
9135903 TAAACATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.07
7 39 0.85
8 4 0.09
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCC
Found at i:9136071 original size:14 final size:15
Alignment explanation
Indices: 9136052--9136084 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
9136042 CTTAAACTAG
9136052 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
9136066 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
9136081 AATC
1 AATC
9136085 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:9136469 original size:20 final size:19
Alignment explanation
Indices: 9136428--9136471 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9136418 AATTTTAATT
*
9136428 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
9136447 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
9136467 AATAT
1 AATAT
9136472 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:9136542 original size:41 final size:41
Alignment explanation
Indices: 9136476--9136751 Score: 338
Period size: 41 Copynumber: 6.7 Consensus size: 41
9136466 AAATATTTTT
* * *
9136476 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTTTGAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
9136518 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
9136559 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGGGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
9136600 GCGGCGCTTTTTCC-AAAACGCCACTAAAAGTCTAAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
** * * *
9136641 GCGGCGCTTTTTTATAAACGCCACTAAAGGTCTGAACATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * ** *
9136682 GCGGCGCTTTTCCATAAACGTCGCTAAATTTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
9136723 GCGGCGCTTTTTCAAAAATGCCACTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
9136752 CCTCGAAAGG
Statistics
Matches: 202, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
40 4 0.02
41 185 0.92
42 13 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:9136721 original size:123 final size:123
Alignment explanation
Indices: 9136476--9136750 Score: 388
Period size: 123 Copynumber: 2.2 Consensus size: 123
9136466 AAATATTTTT
* * * * * *
9136476 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTTTGAGCATTAGCGGCGCTTTTCCATAAACGCCG
1 GCGGCGCTTTTTC-AAAAACGCCACTAAAAGTCTAAGCATTAGCGGCGCTTTTCCATAAACGCCA
* **
9136541 CTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGGGCATTA
65 CTAAAGGTCTGAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTAAGCATTA
* **
9136600 GCGGCGCTTTTTCCAAAACGCCACTAAAAGTCTAAGCATTAGCGGCGCTTTTTTATAAACGCCAC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAAGTCTAAGCATTAGCGGCGCTTTTCCATAAACGCCAC
* * **
9136665 TAAAGGTCTGAACATTAGCGGCGCTTTTCCATAAACGTCGCTAAATTTCTAAGCATTA
66 TAAAGGTCTGAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTAAGCATTA
*
9136723 GCGGCGCTTTTTCAAAAATGCCACTAAA
1 GCGGCGCTTTTTCAAAAACGCCACTAAA
9136751 GCCTCGAAAG
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
123 120 0.90
124 13 0.10
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (123 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAAAGTCTAAGCATTAGCGGCGCTTTTCCATAAACGCCAC
TAAAGGTCTGAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTAAGCATTA
Found at i:9136944 original size:41 final size:40
Alignment explanation
Indices: 9136802--9136929 Score: 150
Period size: 41 Copynumber: 3.2 Consensus size: 40
9136792 TTTGCGATGC
* * * *
9136802 TTTTCTAAAAAACGCCACTAATGC-TCATTTTTAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
* * * *
9136841 TTTTCTTAAAAAGCGCCGTTAATGCTGGATCTTTAGTGGCG
1 TTTT-TTAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
*
9136882 ATTTTTTAAAAAGCACCGCTAATGCTTGATTTTTAGCGGCG
1 -TTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
9136923 TTTTTTA
1 TTTTTTA
9136930 TTCAAACGCC
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 4 0.05
40 23 0.32
41 42 0.58
42 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG
Found at i:9141495 original size:9 final size:9
Alignment explanation
Indices: 9141466--9141503 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
9141456 GTAGTGATTC
9141466 AATTCGGTT
1 AATTCGGTT
* *
9141475 AATTTGGGT
1 AATTCGGTT
9141484 AATTCGGTT
1 AATTCGGTT
9141493 AATTCGGTT
1 AATTCGGTT
9141502 AA
1 AA
9141504 CCGATCGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9143144 original size:110 final size:110
Alignment explanation
Indices: 9142776--9143289 Score: 572
Period size: 110 Copynumber: 4.5 Consensus size: 110
9142766 ATATACGAAA
* **
9142776 GAAAAAAAACAAAAAAAAA-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATGTACAGTA
1 GAAAAAAAA-AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
**** * * * **
9142840 --ACAAATTTTTTTTTATTTTTTGTGTCAGAATCAGATTTAAAAATAC
65 CGA-AAAAAAATTATT-TTTTTCGTGTAAGAATCAGATAAAAAAATAC
* *
9142886 GAAAAAAAATAAAAAAAA-TTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 GAAAAAAAAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
*
9142950 GAAGAAAAAAAATTTATTTTTTTTCGTGTCAA-AATTAGATAAAAAAATAC
66 ---GAAAAAAAA-TTA-TTTTTTTCGTGT-AAGAATCAGATAAAAAAATAC
9143000 GAAAAAAATAAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 GAAAAAAA-AAAAAAAAAA-TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
9143065 ACGAAAAAAAATTATTTTTTTCGTGTAAGAATCAGATAAAAAAATAC
64 ACGAAAAAAAATTATTTTTTTCGTGTAAGAATCAGATAAAAAAATAC
** *
9143112 GAAAAAAATTAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 GAAAAAAAAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
**** * *
9143177 GAAATTTTTTATTTTTTATTTTTTTTGTGTTAGAATCAGAT-AAAAAATAC
66 GAAA------AAAAATTATTTTTTTCGTGTAAGAATCAGATAAAAAAATAC
9143227 GAAAAAAAACAAAAAAAAAACAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
1 G---AAAAA-AAAAAAAAAA-AATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
9143290 CCAAAAAAAT
Statistics
Matches: 351, Mismatches: 30, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
109 49 0.14
110 60 0.17
111 9 0.03
112 37 0.11
113 6 0.02
114 44 0.13
115 22 0.06
116 25 0.07
117 45 0.13
118 5 0.01
119 8 0.02
120 41 0.12
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (110 bp):
GAAAAAAAAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
GAAAAAAAATTATTTTTTTCGTGTAAGAATCAGATAAAAAAATAC
Found at i:9143243 original size:226 final size:224
Alignment explanation
Indices: 9142776--9143289 Score: 642
Period size: 226 Copynumber: 2.3 Consensus size: 224
9142766 ATATACGAAA
* * **
9142776 GAAAAAAAACAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATGTACAGTAA
1 GAAAAAAAACAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAA
**** * * * **
9142841 CAAATTTTTTTTTATTTTTTGTGTCAGAATCAGATTTAAAAATACGAAAAAAAATAAAAAAAATT
66 CAAAAAAATTATTATTTTTCGTGTAAGAATCAGATAAAAAAATACGAAAAAAAATAAAAAAAATT
*
9142906 TTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAATTTATTTTT
131 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAATTTATTTTT
*
9142971 TTTCGTGTCAAAATTAGATAAAAAAATAC
196 TTTCGTGTCAAAATCAGATAAAAAAATAC
*
9143000 GAAAAAAATAAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 GAAAAAAA-ACAAAAAAAA-TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
*
9143065 -ACGAAAAAAAATTATT-TTTTTCGTGTAAGAATCAGATAAAAAAATACGAAAAAAATTAAAAAA
64 AAC--AAAAAAATTATTATTTTTCGTGTAAGAATCAGATAAAAAAATACGAAAAAAAATAAAAAA
* *** ***
9143128 ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAA-ATTTTTTATTTT
127 A-ATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGA---AAAAAAAT
* *
9143192 TTATTTTTTTT-GTGTTAGAATCAGAT-AAAAAATAC
188 TTATTTTTTTTCGTGTCAAAATCAGATAAAAAAATAC
9143227 GAAAAAAAACAAAAAAAAAACAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
1 GAAAAAAAAC----AAAAAA-AATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
9143290 CCAAAAAAAT
Statistics
Matches: 250, Mismatches: 27, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
224 8 0.03
225 11 0.04
226 86 0.34
227 72 0.29
228 12 0.05
229 13 0.05
230 46 0.18
231 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (224 bp):
GAAAAAAAACAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAA
CAAAAAAATTATTATTTTTCGTGTAAGAATCAGATAAAAAAATACGAAAAAAAATAAAAAAAATT
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAATTTATTTTT
TTTCGTGTCAAAATCAGATAAAAAAATAC
Found at i:9143648 original size:118 final size:113
Alignment explanation
Indices: 9143304--9143761 Score: 640
Period size: 112 Copynumber: 4.0 Consensus size: 113
9143294 AAAAATTGTT
9143304 TTTTTATTATTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTT
1 TTTTT-TT-TTATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAA-TTTT
*
9143368 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAA
63 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-CAAAA
* *
9143420 TTTTTTTTTAAAATTTTTTTCGTATTTTTTTATCTGATTCTTACACG--AAAAAAATAAA-TTTT
1 TTTTTTTTT--ATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTT
9143482 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
64 TTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
9143532 TTTTTTTAATTATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTT
1 TTTTTTT--TTATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAA--TTT
9143597 TTTTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
62 TTTT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* ** *****
9143650 ATTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTGACAC-AAAAAAATAA-AAAAAAAAT
1 TTTTTTTTTATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAA-AATAAATTTTTT
* **
9143713 TTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
65 TTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
9143762 AAAAATTTTT
Statistics
Matches: 314, Mismatches: 16, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
112 90 0.29
113 51 0.16
114 15 0.05
115 23 0.07
116 54 0.17
117 27 0.09
118 54 0.17
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (113 bp):
TTTTTTTTTATTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTTTT
TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
Found at i:9144176 original size:27 final size:27
Alignment explanation
Indices: 9144137--9144211 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
9144127 GACATTACCA
*
9144137 TTTTATGAT-TTTTTTTAAATTTAAAAT
1 TTTTAT-ATATTTTTTAAAATTTAAAAT
* *
9144164 TTTTATATA-TTTTTAAAATTTTCATAT
1 TTTTATATATTTTTTAAAA-TTTAAAAT
*
9144191 TTTT-TTTATTTTTTAAAATTT
1 TTTTATATATTTTTTAAAATTT
9144212 TTATATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 16 0.39
27 25 0.61
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTTATATATTTTTTAAAATTTAAAAT
Found at i:9144196 original size:19 final size:19
Alignment explanation
Indices: 9144156--9144195 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9144146 TTTTTTTAAA
*
9144156 TTTAAAATTTTTATATATT
1 TTTAAAATTTTCATATATT
9144175 TTTAAAATTTTCATAT-TT
1 TTTAAAATTTTCATATATT
9144193 TTT
1 TTT
9144196 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTAAAATTTTCATATATT
Found at i:9144204 original size:37 final size:37
Alignment explanation
Indices: 9144163--9144259 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
9144153 AAATTTAAAA
* * *
9144163 TTTTTATATATTTTTAAAATTTTCAT-ATTTTTTTTAT
1 TTTTTA-ATATTTTTAAAATTTTAATCATATTCTTTAT
* *
9144200 TTTTTAAAATTTTTATATATTTTAATCATATTCTTTAT
1 TTTTTAATATTTTTA-AAATTTTAATCATATTCTTTAT
9144238 TTTTTAAT-TTTTTAAATATTTT
1 TTTTTAATATTTTTAAA-ATTTT
9144260 TTTATCATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
36 9 0.18
37 25 0.50
38 16 0.32
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTTTAATATTTTTAAAATTTTAATCATATTCTTTAT
Found at i:9144209 original size:46 final size:47
Alignment explanation
Indices: 9144156--9144271 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 47
9144146 TTTTTTTAAA
*
9144156 TTTAAAATTTTTATATATTTTTAA-AATTTTCATATT-TTTTTT-ATTT
1 TTTAAAATTTTTATATATTTTTAATAATATTC-T-TTATTTTTTAATTT
*
9144202 TTTAAAATTTTTATATA-TTTTAATCATATTCTTTATTTTTTAATTT
1 TTTAAAATTTTTATATATTTTTAATAATATTCTTTATTTTTTAATTT
*
9144248 TTTAAATATTTTTTTATCATTTTT
1 TTTAAA-ATTTTTATAT-ATTTTT
9144272 CGTCATATGT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
44 2 0.03
45 13 0.21
46 32 0.52
47 9 0.15
48 1 0.02
49 4 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (47 bp):
TTTAAAATTTTTATATATTTTTAATAATATTCTTTATTTTTTAATTT
Found at i:9144212 original size:18 final size:19
Alignment explanation
Indices: 9144191--9144245 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
9144181 ATTTTCATAT
9144191 TTTTTTTATTTTTTAA-AA
1 TTTTTTTATTTTTTAATAA
* * *
9144209 TTTTTATATATTTTAATCA
1 TTTTTTTATTTTTTAATAA
*
9144228 TATTCTTTATTTTTTAAT
1 T-TTTTTTATTTTTTAAT
9144246 TTTTTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 14 0.48
19 2 0.07
20 13 0.45
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTATTTTTTAATAA
Found at i:9144212 original size:27 final size:28
Alignment explanation
Indices: 9144163--9144223 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
9144153 AAATTTAAAA
9144163 TTTTTATATATTTTTAAAATTTTCATAT
1 TTTTTATATATTTTTAAAATTTTCATAT
* *
9144191 TTTTTTTAT-TTTTTAAAATTTTTATAT
1 TTTTTATATATTTTTAAAATTTTCATAT
*
9144218 ATTTTA
1 TTTTTA
9144224 ATCATATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATATATTTTTAAAATTTTCATAT
Found at i:9144244 original size:20 final size:17
Alignment explanation
Indices: 9144193--9144245 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
9144183 TTTCATATTT
9144193 TTTTTATTTTTTAA-AA
1 TTTTTATTTTTTAATAA
9144209 TTTTTATATATTTTAATCATA
1 TTTTTAT-T-TTTTAAT-A-A
9144230 TTCTTTATTTTTTAAT
1 TT-TTTATTTTTTAAT
9144246 TTTTTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 6 0.19
20 8 0.26
21 4 0.13
22 5 0.16
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATTTTTTAATAA
Found at i:9149055 original size:13 final size:13
Alignment explanation
Indices: 9149021--9149058 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9149011 TTACAAGACT
9149021 TGTTATAATTG-A
1 TGTTATAATTGAA
9149033 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
9149046 TGTTATAATTGAA
1 TGTTATAATTGAA
9149059 AATGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:9149813 original size:9 final size:10
Alignment explanation
Indices: 9149784--9149828 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
9149774 TTTACATACA
9149784 TAATAAATA-
1 TAATAAATAT
*
9149793 TAA-ATATAT
1 TAATAAATAT
9149802 TAATAAAT-T
1 TAATAAATAT
9149811 TAATAAATAT
1 TAATAAATAT
9149821 ATAATAAA
1 -TAATAAA
9149829 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.13
9 15 0.50
10 4 0.13
11 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAAATAT
Found at i:9153709 original size:3 final size:3
Alignment explanation
Indices: 9153701--9153760 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
9153691 TATATATTAC
* *
9153701 ATT ATT ATT ACTGA ATT ATT ATT AGT -TT ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
9153747 ATT TTT ATT ATT AT
1 ATT ATT ATT ATT AT
9153761 ACTTACCGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9153744 original size:14 final size:14
Alignment explanation
Indices: 9153715--9153760 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9153705 TTATTACTGA
9153715 ATTATTATTAGT-TT
1 ATTATTATTA-TATT
9153729 ATTATTATTATATT
1 ATTATTATTATATT
9153743 ATATATT-TT-TATT
1 AT-TATTATTATATT
9153756 ATTAT
1 ATTAT
9153761 ACTTACCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:9154868 original size:18 final size:18
Alignment explanation
Indices: 9154834--9154880 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9154824 ATAAGAATAT
9154834 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
9154852 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
*
9154870 TTGAATTATAT
1 TTAAATTATAT
9154881 TTAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:9155132 original size:46 final size:44
Alignment explanation
Indices: 9155040--9155132 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
9155030 TTACACCTCT
* *
9155040 ATTCCATTCAACCAAACACAAGAATACCATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAAAATACCATTACGCCTCTATTCC
*
9155084 ATTCCATTCAACCAAACAAAAAAATTACCTATTACGCCTTTATTCC
1 ATTCCATTCAACCAAACAAAAAAA-TACC-ATTACGCCTCTATTCC
9155130 ATT
1 ATT
9155133 ACAGCGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.50
45 4 0.09
46 18 0.41
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.29
Consensus pattern (44 bp):
ATTCCATTCAACCAAACAAAAAAATACCATTACGCCTCTATTCC
Found at i:9155143 original size:46 final size:44
Alignment explanation
Indices: 9155048--9155146 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 44
9155038 CTATTCCATT
* * * *
9155048 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTCCATT
1 CAACCAAACAAAAAAATACCATTACGCCTCTATTCCATTACATG
*
9155092 CAACCAAACAAAAAAATTACCTATTACGCCTTTATTCCATTACA-G
1 CAACCAAACAAAAAAA-TACC-ATTACGCCTCTATTCCATTACATG
9155137 CGAACCAAAC
1 C-AACCAAAC
9155147 GCACCCTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 14 0.30
45 5 0.11
46 28 0.60
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.23
Consensus pattern (44 bp):
CAACCAAACAAAAAAATACCATTACGCCTCTATTCCATTACATG
Found at i:9155858 original size:30 final size:31
Alignment explanation
Indices: 9155814--9155878 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
9155804 ATAAATTCAA
*
9155814 AAAAAAAATATTTTTAAGGTTTGAGAAAAGT
1 AAAAAAAATATTTTTAAGGATTGAGAAAAGT
* * * *
9155845 AAAAAGAAT-TTTTTTAGGATTGGGGAAAGT
1 AAAAAAAATATTTTTAAGGATTGAGAAAAGT
9155875 AAAA
1 AAAA
9155879 GTTGTAGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAAAAAATATTTTTAAGGATTGAGAAAAGT
Found at i:9167705 original size:20 final size:22
Alignment explanation
Indices: 9167672--9167715 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
9167662 TGTAAAAAAT
9167672 TATTTTCTAAGAA-TA-AATTC
1 TATTTTCTAAGAATTACAATTC
* *
9167692 TATTTTTTAGGAATTACAATTC
1 TATTTTCTAAGAATTACAATTC
9167714 TA
1 TA
9167716 CCAGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (22 bp):
TATTTTCTAAGAATTACAATTC
Found at i:9169349 original size:3 final size:3
Alignment explanation
Indices: 9169343--9169398 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
9169333 GTAGAAGAAC
9169343 AAT AAT AAT 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
9169391 AAT AAT AA
1 AAT AAT AA
9169399 AGGAAAAGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9189273 original size:66 final size:66
Alignment explanation
Indices: 9189195--9189318 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
9189185 TTTCTGCACT
* * * *
9189195 AATGTCGTTGCATGAGTTAATTCCAAATTGCGTCCAAAATTTTCGCTGCAGGTGACAGATTTTCG
1 AATGTCGCTGCATGAGTTAATTCCAAATTGCATCCAAAATTATCGCCGCAGGTGACAGATTTTCG
9189260 C
66 C
* *
9189261 AATGTCGCTGCATGAGTTAATTCCAGATTGCATCCAAAATTATCGCCGCAGTTGACAG
1 AATGTCGCTGCATGAGTTAATTCCAAATTGCATCCAAAATTATCGCCGCAGGTGACAG
9189319 TCGTCTGATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATTCCAAATTGCATCCAAAATTATCGCCGCAGGTGACAGATTTTCG
C
Found at i:9192233 original size:15 final size:15
Alignment explanation
Indices: 9192207--9192244 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9192197 ATCTTGTGTG
9192207 TATAAGTTTTAAATAT
1 TATAA-TTTTAAATAT
*
9192223 TATAATTTTAATTAT
1 TATAATTTTAAATAT
9192238 TATAATT
1 TATAATT
9192245 AGTGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATAATTTTAAATAT
Found at i:9197833 original size:23 final size:23
Alignment explanation
Indices: 9197802--9197875 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
9197792 ACCTACTTTC
*
9197802 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
*
9197825 TTACAGTAGTAATTTTCGGTGTA
1 TTACAGTAGTAATTTTCGGGGTA
* *
9197848 TTACAGTAGTAATTTCCGGGATA
1 TTACAGTAGTAATTTTCGGGGTA
9197871 TTACA
1 TTACA
9197876 TGCTCAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:9200215 original size:19 final size:20
Alignment explanation
Indices: 9200181--9200219 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
9200171 ATGGAGGATA
9200181 AATAATTTAAATTTTATCAAC
1 AATAATTT-AATTTTATCAAC
9200202 AATAATTT-ATTTTATCAA
1 AATAATTTAATTTTATCAA
9200220 TGAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTAATTTTATCAAC
Found at i:9203777 original size:7 final size:7
Alignment explanation
Indices: 9203767--9203794 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9203757 AAAAATTAGA
9203767 AATAAAT
1 AATAAAT
9203774 AATAAAT
1 AATAAAT
9203781 AATAAAT
1 AATAAAT
9203788 AATAAAT
1 AATAAAT
9203795 TTTAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAAAT
Found at i:9204162 original size:17 final size:16
Alignment explanation
Indices: 9204123--9204171 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
9204113 TTACTTTATA
*
9204123 AAATTTTATATTTCTAT
1 AAATTTTATATTT-TTT
*
9204140 ATATTTTATATTTTTT
1 AAATTTTATATTTTTT
9204156 ACAATTTT-TATTTTTT
1 A-AATTTTATATTTTTT
9204172 TCCAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
AAATTTTATATTTTTT
Found at i:9204172 original size:17 final size:19
Alignment explanation
Indices: 9204143--9204183 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
9204133 TTTCTATATA
9204143 TTTTATATTTTTTAC-AAT
1 TTTTATATTTTTTACAAAT
*
9204161 TTTTAT-TTTTTTCCAAAT
1 TTTTATATTTTTTACAAAT
9204179 TTTTA
1 TTTTA
9204184 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTTACAAAT
Found at i:9204504 original size:90 final size:90
Alignment explanation
Indices: 9204277--9204514 Score: 351
Period size: 91 Copynumber: 2.7 Consensus size: 90
9204267 ATAAAAGCAA
* ** *
9204277 GGGCTTAATTACTTTTTTTGAAAAGGTTT---TTC-TTTTTGATGCATTTTAAAAGTTTAAATAC
1 GGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAAATAC
9204338 CCAATTGAGTGCAAAAAAATAGTAG
66 CCAATTGAGTGCAAAAAAATAGTAG
*
9204363 GGGATTAATTGCTTTTTTTTGAAAAGGTTTGAGGG-TCTTTTTGATGCATTTTAAAAGTTCAAAT
1 GGGCTTAATTGC-TTTTTTTGAAAAGGTTTGAGGGCT-TTTTTGATGCATTTTAAAAGTTCAAAT
9204427 ACCCAATTGAGTGCAAAAAAATAGTAG
64 ACCCAATTGAGTGCAAAAAAATAGTAG
* * *
9204454 GGGCTTAATTGGTTTTTTTGAAAAGGTTTGAGGGCTTTTTTTATGTATTTTAAAAGTTCAA
1 GGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAA
9204515 GTGCACAAAT
Statistics
Matches: 136, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
86 10 0.07
87 17 0.12
90 45 0.33
91 64 0.47
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (90 bp):
GGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAAATAC
CCAATTGAGTGCAAAAAAATAGTAG
Found at i:9204727 original size:31 final size:29
Alignment explanation
Indices: 9204691--9204779 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
9204681 ATTTTAAAAA
*
9204691 TATACATGAATTTT-AGTTTAATGTGCAATTG
1 TATACATGAATTTTGA-TTT--TATGCAATTG
* *
9204722 TATACATGAACTTTGATTTTATGCAATTT
1 TATACATGAATTTTGATTTTATGCAATTG
* *
9204751 TATACATGAAATTTTGATTTGATTCAATT
1 TATACATG-AATTTTGATTTTATGCAATT
9204780 TTCACAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.32
30 17 0.34
31 16 0.32
32 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (29 bp):
TATACATGAATTTTGATTTTATGCAATTG
Found at i:9204754 original size:29 final size:30
Alignment explanation
Indices: 9204714--9204781 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
9204704 TAGTTTAATG
* *
9204714 TGCAATTGTATACATG-AACTTTGATTTTA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
9204743 TGCAATTTTATACATGAAATTTTGATTTGA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
9204773 TTCAATTTT
1 TGCAATTTT
9204782 CACAAATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (30 bp):
TGCAATTTTATACATGAAACTTTGATTTGA
Found at i:9206659 original size:24 final size:24
Alignment explanation
Indices: 9206586--9206697 Score: 77
Period size: 24 Copynumber: 4.6 Consensus size: 24
9206576 CTTTGTGAGC
* *
9206586 CTCTCCGGAGCTTCCTGATATTAAG
1 CTCTTCGGAGCTTCCTGATATT-GG
* * *
9206611 TTATTCGGAGCTTCCTG-TGAATGG
1 CTCTTCGGAGCTTCCTGAT-ATTGG
*
9206635 CTCTTCGGAGCTACCTGATATTGG
1 CTCTTCGGAGCTTCCTGATATTGG
* *
9206659 CTC-GCATGAGCTTCCTGGATA-TGG
1 CTCTTC-GGAGCTTCCT-GATATTGG
**
9206683 CTCTTATGAGCTTCC
1 CTCTTCGGAGCTTCC
9206698 CATTAAAAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 46 0.68
25 21 0.31
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (24 bp):
CTCTTCGGAGCTTCCTGATATTGG
Found at i:9206753 original size:25 final size:25
Alignment explanation
Indices: 9206725--9206772 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9206715 AAGCTCCCGC
*
9206725 TACATGGCTCACATTAGCTTCCCTT
1 TACATGGCTCACATGAGCTTCCCTT
*
9206750 TACATGGCTTACATGAGCTTCCC
1 TACATGGCTCACATGAGCTTCCC
9206773 GATTAATGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (25 bp):
TACATGGCTCACATGAGCTTCCCTT
Found at i:9206781 original size:25 final size:25
Alignment explanation
Indices: 9206725--9206784 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
9206715 AAGCTCCCGC
* *
9206725 TACATGGCTCACATTAGCTTCCCTT
1 TACATGGCTCACATGAGCTTCCCAT
*
9206750 TACATGGCTTACATGAGCTTCCCGAT
1 TACATGGCTCACATGAGCTTCCC-AT
9206776 TA-ATGGCTC
1 TACATGGCTC
9206785 GAAAGAGTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
TACATGGCTCACATGAGCTTCCCAT
Found at i:9212483 original size:2 final size:2
Alignment explanation
Indices: 9212476--9212505 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9212466 ATAAACACAA
9212476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9212506 TTCATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9213193 original size:21 final size:21
Alignment explanation
Indices: 9213167--9213206 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9213157 TTTAAAATAT
9213167 TTTATTAAATTAGTGTTACCC
1 TTTATTAAATTAGTGTTACCC
9213188 TTTATTAAATTAGTGTTAC
1 TTTATTAAATTAGTGTTAC
9213207 GAGTTAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTATTAAATTAGTGTTACCC
Found at i:9213602 original size:16 final size:16
Alignment explanation
Indices: 9213581--9213622 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9213571 AATAATTTGA
*
9213581 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9213597 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9213613 TAGTTTTAAT
1 TAATTTTAAT
9213623 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9213648 original size:6 final size:6
Alignment explanation
Indices: 9213637--9213665 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9213627 TTAAAAAAAC
9213637 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
9213666 AAAAACAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:9214404 original size:107 final size:106
Alignment explanation
Indices: 9214249--9214445 Score: 272
Period size: 108 Copynumber: 1.8 Consensus size: 106
9214239 GAAATTCAAG
* * *
9214249 AGGATATTTGGCTATTTGGTTAAATGAGAAATCGAGACCCAGCACATTA-AGGCACG-TTCCTCG
1 AGGATATTCGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGA-GCACGTTTCCTCG
*
9214312 AATTTCCAAACGCAAAACATTGCCTTATTTGAAATTTTTGAA
65 AATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGAA
* * *
9214354 AGGATATTCGGTTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTC
1 AGGATATTCGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGAGCACGTTTCCTC
* *
9214419 GAATTTTCAAACGCAAAATATTACCTT
64 GAATTTCCAAACGCAAAACATTACCTT
9214446 TATTATTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
105 24 0.30
107 25 0.32
108 30 0.38
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
AGGATATTCGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGA
ATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGAA
Found at i:9215131 original size:17 final size:18
Alignment explanation
Indices: 9215109--9215145 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9215099 ATGAAGTGTA
9215109 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
9215126 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
9215144 AA
1 AA
9215146 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:9215194 original size:23 final size:23
Alignment explanation
Indices: 9215161--9215238 Score: 124
Period size: 23 Copynumber: 3.5 Consensus size: 23
9215151 ATAAAAAGGT
9215161 TATGTACGTATATATATTATAAA
1 TATGTACGTATATATATTATAAA
*
9215184 TATGTA--TGTATATATTATAAA
1 TATGTACGTATATATATTATAAA
9215205 TATGTACGTATATATATTATAAA
1 TATGTACGTATATATATTATAAA
*
9215228 TATGTATGTAT
1 TATGTACGTAT
9215239 GCAAATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 20 0.40
23 30 0.60
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (23 bp):
TATGTACGTATATATATTATAAA
Found at i:9215197 original size:21 final size:21
Alignment explanation
Indices: 9215171--9215238 Score: 109
Period size: 21 Copynumber: 3.1 Consensus size: 21
9215161 TATGTACGTA
9215171 TATATATTATAAATATGTATG
1 TATATATTATAAATATGTATG
*
9215192 TATATATTATAAATATGTACGTA
1 TATATATTATAAATATGTA--TG
9215215 TATATATTATAAATATGTATG
1 TATATATTATAAATATGTATG
9215236 TAT
1 TAT
9215239 GCAAATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 23 0.53
23 20 0.47
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATATTATAAATATGTATG
Found at i:9215777 original size:36 final size:36
Alignment explanation
Indices: 9215724--9215817 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
9215714 CGCGCGAGTC
*
9215724 AGGGCCAAAACGGCGTCGTTTTGGCACCTGATCCCTA
1 AGGG-CAAAACGGCGTCGTTTTGGCACCTGACCCCTA
*
9215761 AGGGCAAAACGACGTCGTTTTGGCACCTGACCCCTA
1 AGGGCAAAACGGCGTCGTTTTGGCACCTGACCCCTA
9215797 AGGGCAAAACGGCGTCGTTTT
1 AGGGCAAAACGGCGTCGTTTT
9215818 AAAAAGTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 50 0.93
37 4 0.07
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (36 bp):
AGGGCAAAACGGCGTCGTTTTGGCACCTGACCCCTA
Found at i:9220788 original size:60 final size:58
Alignment explanation
Indices: 9220715--9220828 Score: 142
Period size: 57 Copynumber: 1.9 Consensus size: 58
9220705 GAAACCTGCT
*
9220715 AGTTCAAATACCTAATT-GAACCAAAATAAACTTTAAGTACCAAATTGAACC-TGAAAGTCA
1 AGTTCAAACACCTAATTAG-A-CAAAA-AAAC-TTAAGTACCAAATTGAACCATGAAAGTCA
* * *
9220775 AGTTCAAGCACCTAATTAGATAAAAAAACTTAAGTACCAATTTGAACCATGAAA
1 AGTTCAAACACCTAATTAGACAAAAAAACTTAAGTACCAAATTGAACCATGAAA
9220829 CCAAGTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
57 18 0.38
58 9 0.19
59 4 0.08
60 16 0.33
61 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.25
Consensus pattern (58 bp):
AGTTCAAACACCTAATTAGACAAAAAAACTTAAGTACCAAATTGAACCATGAAAGTCA
Found at i:9229271 original size:26 final size:27
Alignment explanation
Indices: 9229237--9229293 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
9229227 AAGTTAATTT
*
9229237 ATATATTTTTATA-TATATGTATGTATA
1 ATATATTTTT-TACTATAAGTATGTATA
9229264 ATAT-TTTTTTACTATAAGTATGTAT-
1 ATATATTTTTTACTATAAGTATGTATA
9229289 ATATA
1 ATATA
9229294 ATAATACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 17 0.63
27 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (27 bp):
ATATATTTTTTACTATAAGTATGTATA
Found at i:9229288 original size:30 final size:27
Alignment explanation
Indices: 9229237--9229296 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
9229227 AAGTTAATTT
*
9229237 ATATATTTTTATATATATGTATGTATA
1 ATATATTTTTATATATATGTATATATA
*
9229264 ATATTTTTTTACTATAAGTATGTATATATA
1 ATATATTTTTA-TAT-A-TATGTATATATA
9229294 ATA
1 ATA
9229297 ATACATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 3 0.11
29 1 0.04
30 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (27 bp):
ATATATTTTTATATATATGTATATATA
Found at i:9230945 original size:19 final size:20
Alignment explanation
Indices: 9230923--9230961 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9230913 AAAAAAAACA
*
9230923 ATTTTTAAAAATTT-AAAAT
1 ATTTATAAAAATTTCAAAAT
9230942 ATTTATAAAAATTTCAAAAT
1 ATTTATAAAAATTTCAAAAT
9230962 TTATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTATAAAAATTTCAAAAT
Found at i:9230951 original size:18 final size:17
Alignment explanation
Indices: 9230926--9230996 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 17
9230916 AAAAACAATT
9230926 TTTA-AAAATTTAAAATA
1 TTTATAAAATTTAAAA-A
*
9230943 TTTATAAAAATTTCAAAA
1 TTTAT-AAAATTTAAAAA
***
9230961 TTTATATTTTTTAAAAAA
1 TTTATAAAATTT-AAAAA
*
9230979 ATTATAATAATTTAAAAA
1 TTTATAA-AATTTAAAAA
9230997 AAATCTAAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
17 8 0.20
18 20 0.49
19 13 0.32
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTATAAAATTTAAAAA
Found at i:9234133 original size:21 final size:21
Alignment explanation
Indices: 9234100--9234139 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9234090 GCGACGGCGG
* *
9234100 CAACGACATCAACACCACCAT
1 CAACAACAACAACACCACCAT
*
9234121 CAACAACAACAACGCCACC
1 CAACAACAACAACACCACC
9234140 TACAGCAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.45, G:0.05, T:0.05
Consensus pattern (21 bp):
CAACAACAACAACACCACCAT
Found at i:9239959 original size:4 final size:4
Alignment explanation
Indices: 9239950--9239977 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9239940 CCTTACAGAT
9239950 GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG
9239978 AGATTAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:9245191 original size:19 final size:19
Alignment explanation
Indices: 9245169--9245209 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9245159 ACGAAATAGT
9245169 ATATTAACCCAAAAGCTAA
1 ATATTAACCCAAAAGCTAA
9245188 ATATTAACCCAAAAGCTAA
1 ATATTAACCCAAAAGCTAA
9245207 ATA
1 ATA
9245210 CATGGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.20, G:0.05, T:0.22
Consensus pattern (19 bp):
ATATTAACCCAAAAGCTAA
Found at i:9260887 original size:3 final size:3
Alignment explanation
Indices: 9260879--9260916 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
9260869 CTACAAGGGC
*
9260879 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9260917 AGGCGGGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9261446 original size:16 final size:16
Alignment explanation
Indices: 9261425--9261455 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9261415 CAAAGCTTAG
9261425 ATAGTATAAGAAAAGA
1 ATAGTATAAGAAAAGA
9261441 ATAGTATAAGAAAAG
1 ATAGTATAAGAAAAG
9261456 TAGGGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
ATAGTATAAGAAAAGA
Found at i:9264368 original size:8 final size:7
Alignment explanation
Indices: 9264355--9264443 Score: 69
Period size: 8 Copynumber: 12.0 Consensus size: 7
9264345 TATCGAAAAA
9264355 AATAAAGT
1 AATAAA-T
9264363 AATAAAT
1 AATAAAT
9264370 AATAAAAT
1 AAT-AAAT
9264378 AAAATAAAGT
1 --AATAAA-T
9264388 AATAAAT
1 AATAAAT
9264395 AATAAAAT
1 AAT-AAAT
9264403 AAAATAAAGT
1 --AATAAA-T
9264413 AATAAAT
1 AATAAAT
9264420 AAT-AA-
1 AATAAAT
9264425 AATAAAT
1 AATAAAT
9264432 AA-AAAT
1 AATAAAT
9264438 AA-AAAT
1 AATAAAT
9264444 TGGGTTGCCT
Statistics
Matches: 71, Mismatches: 0, Indels: 22
0.76 0.00 0.24
Matches are distributed among these distances:
5 3 0.04
6 14 0.20
7 14 0.20
8 26 0.37
9 6 0.08
10 8 0.11
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (7 bp):
AATAAAT
Found at i:9264376 original size:20 final size:19
Alignment explanation
Indices: 9264353--9264439 Score: 84
Period size: 20 Copynumber: 4.9 Consensus size: 19
9264343 AATATCGAAA
9264353 AAAATAAAGTAATAAATAAT
1 AAAATAAA-TAATAAATAAT
*
9264373 AAAAT-AA-AAT-AA-AGT
1 AAAATAAATAATAAATAAT
9264388 --AATAAATAAT-AA-AAT
1 AAAATAAATAATAAATAAT
9264403 AAAATAAAGTAATAAATAAT
1 AAAATAAA-TAATAAATAAT
9264423 AAAATAAATAA-AAATAA
1 AAAATAAATAATAAATAA
9264440 AAATTGGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.05
14 2 0.03
15 9 0.16
16 2 0.03
17 9 0.16
18 10 0.17
19 7 0.12
20 16 0.28
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATAATAAATAAT
Found at i:9264380 original size:5 final size:5
Alignment explanation
Indices: 9264370--9264441 Score: 60
Period size: 5 Copynumber: 14.4 Consensus size: 5
9264360 AGTAATAAAT
* * * *
9264370 AATAA AATAA AATAA AGTAA TAA-AT AATAA AATAA AATAA AGTAA TAA-AT
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA -AATAA
9264420 AATAA AAT-A AATAAA AATAA AA
1 AATAA AATAA AAT-AA AATAA AA
9264442 ATTGGGTTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 8 0.15
5 39 0.74
6 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:9264386 original size:25 final size:25
Alignment explanation
Indices: 9264353--9264434 Score: 157
Period size: 25 Copynumber: 3.3 Consensus size: 25
9264343 AATATCGAAA
9264353 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
9264378 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
9264403 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
9264428 -AAATAAA
1 AAAATAAA
9264435 AATAAAAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 7 0.12
25 50 0.88
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATAAAGTAATAAATAATAAAAT
Found at i:9264443 original size:12 final size:12
Alignment explanation
Indices: 9264352--9264443 Score: 54
Period size: 12 Copynumber: 7.5 Consensus size: 12
9264342 TAATATCGAA
9264352 AAAAATAAAGTAAT
1 AAAAATAAA--AAT
9264366 AAATAAT-AAAAT
1 AAA-AATAAAAAT
9264378 -AAAATAAAGTAAT
1 AAAAATAAA--AAT
9264391 AAATAAT-AAAAT
1 AAA-AATAAAAAT
9264403 -AAAATAAAGTAAT
1 AAAAATAAA--AAT
9264416 AAATAAT-AAAAT
1 AAA-AATAAAAAT
9264428 --AAATAAAAAT
1 AAAAATAAAAAT
9264438 AAAAAT
1 AAAAAT
9264444 TGGGTTGCCT
Statistics
Matches: 64, Mismatches: 0, Indels: 30
0.68 0.00 0.32
Matches are distributed among these distances:
9 3 0.05
10 12 0.19
11 8 0.12
12 13 0.20
13 6 0.09
14 13 0.20
15 9 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:9270295 original size:31 final size:31
Alignment explanation
Indices: 9270260--9270334 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
9270250 TAGCCAAATG
*
9270260 AATTTGAAAAGTACAAGGATTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
* *
9270291 AATTTGAAGAGTACATGGACTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
*
9270322 AATTTAAAAAGTA
1 AATTTGAAAAGTA
9270335 AATAGACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (31 bp):
AATTTGAAAAGTACAAGGACTAAAATTGATT
Found at i:9270343 original size:31 final size:31
Alignment explanation
Indices: 9270280--9270345 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
9270270 GTACAAGGAT
* * * *
9270280 TAAAATTGATTAATTTGAAGAGTACATGGAC
1 TAAAATTGATTAATTTAAAAAGTAAATAGAC
9270311 TAAAATTGATTAATTTAAAAAGTAAATAGAC
1 TAAAATTGATTAATTTAAAAAGTAAATAGAC
9270342 TAAA
1 TAAA
9270346 TTTACAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (31 bp):
TAAAATTGATTAATTTAAAAAGTAAATAGAC
Found at i:9280119 original size:16 final size:16
Alignment explanation
Indices: 9280100--9280151 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
9280090 TTATATTATA
9280100 AAAATATTATTAAATT
1 AAAATATTATTAAATT
9280116 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
9280131 ---ATATTAATTAAAATT
1 AAAATATT-ATT-AAATT
9280146 AAAATA
1 AAAATA
9280152 ATATATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 1 0.03
15 11 0.37
16 9 0.30
18 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:9280135 original size:25 final size:26
Alignment explanation
Indices: 9280092--9280144 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
9280082 TTCTTGATTT
9280092 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
9280119 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
9280143 AT
1 AT
9280145 TAAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:9280147 original size:30 final size:27
Alignment explanation
Indices: 9280092--9280156 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
9280082 TTCTTGATTT
9280092 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
*
9280119 ATATTATAAATTATATTAATTAAAATTAAA
1 ATATTATAAA-AATATT-ATT-AAATTAAA
*
9280149 ATAATATA
1 ATATTATA
9280157 TTATAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 3 0.09
30 15 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:9280296 original size:3 final size:3
Alignment explanation
Indices: 9280288--9280329 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
9280278 GTGAATAAAA
* *
9280288 TAT TAT TA- TAT GAT TAT TA- TAA TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9280330 ACTAATGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:9280305 original size:11 final size:10
Alignment explanation
Indices: 9280287--9280327 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
9280277 TGTGAATAAA
9280287 ATATTATTAT
1 ATATTATTAT
9280297 ATGATTATTAT
1 AT-ATTATTAT
9280308 AATATTATTAT
1 -ATATTATTAT
9280319 -TATTATTAT
1 ATATTATTAT
9280328 TAACTAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
10 2 0.07
11 16 0.55
12 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
ATATTATTAT
Found at i:9280307 original size:14 final size:14
Alignment explanation
Indices: 9280288--9280324 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9280278 GTGAATAAAA
9280288 TATTATTATATGAT
1 TATTATTATATGAT
* *
9280302 TATTATAATATTAT
1 TATTATTATATGAT
9280316 TATTATTAT
1 TATTATTAT
9280325 TATTAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TATTATTATATGAT
Found at i:9280413 original size:22 final size:22
Alignment explanation
Indices: 9280374--9280421 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
9280364 AACAAAAAGA
9280374 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
9280396 AAAAGAAAC-AAAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
9280418 AAAA
1 AAAA
9280422 CAGGGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:9281384 original size:44 final size:41
Alignment explanation
Indices: 9281333--9281419 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
9281323 GGCTTTGCCG
* *
9281333 ATCAGGCACTTTATGTGTCGTATCTCAAGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTC--ATCTCAAGCAC-TTATGTGTCGT
* * *
9281377 ATCAGGCACCTCGTGTGTCATTTCAGGCACTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCATCTCAAGCACTTATGTGTCGT
9281418 AT
1 AT
9281420 ACTGATTAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 13 0.34
42 9 0.24
44 16 0.42
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCATCTCAAGCACTTATGTGTCGT
Found at i:9281393 original size:21 final size:20
Alignment explanation
Indices: 9281333--9281419 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 20
9281323 GGCTTTGCCG
*
9281333 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCAC-TCATGTGTCGT
* *
9281354 ATCTCAAGCACTTTATGTGTCGT
1 A--TCAGGCAC-TCATGTGTCGT
* *
9281377 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCA-CTCATGTGTCGT
* *
9281398 TTCAGGCACTTATGTGTCGT
1 ATCAGGCACTCATGTGTCGT
9281418 AT
1 AT
9281420 ACTGATTAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 10 0.19
21 22 0.42
22 1 0.02
23 20 0.38
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
ATCAGGCACTCATGTGTCGT
Found at i:9283159 original size:25 final size:25
Alignment explanation
Indices: 9283131--9283216 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
9283121 GAGCTCCTCT
9283131 GAGCTGAATAATGGGAAGCTCATGC
1 GAGCTGAATAATGGGAAGCTCATGC
* *
9283156 GAGCTAAAT-ATCGAGAAGCTCATGC
1 GAGCTGAATAAT-GGGAAGCTCATGC
** ** *
9283181 GAGCTGTGTAACAGAAAGCTCATGC
1 GAGCTGAATAATGGGAAGCTCATGC
*
9283206 GAGCTGTATAA
1 GAGCTGAATAA
9283217 CAGAAATCTC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 2 0.04
25 46 0.94
26 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAATGGGAAGCTCATGC
Found at i:9283217 original size:25 final size:25
Alignment explanation
Indices: 9283146--9283227 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
9283136 GAATAATGGG
** *
9283146 AAGCTCATGCGAGCTAAATATC-GA
1 AAGCTCATGCGAGCTGTATAACAGA
*
9283170 GAAGCTCATGCGAGCTGTGTAACAGA
1 -AAGCTCATGCGAGCTGTATAACAGA
9283196 AAGCTCATGCGAGCTGTATAACAGA
1 AAGCTCATGCGAGCTGTATAACAGA
*
9283221 AATCTCA
1 AAGCTCA
9283228 AGTGAGTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 48 0.96
26 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGTATAACAGA
Found at i:9285634 original size:415 final size:415
Alignment explanation
Indices: 9284864--9285690 Score: 1591
Period size: 415 Copynumber: 2.0 Consensus size: 415
9284854 TAGGCAACAT
*
9284864 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTATGAACTCGAAGCATATTG
1 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
9284929 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAAAAGAGGAAAAAGTCT
66 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAAAAGAGGAAAAAGTCT
9284994 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
131 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
*
9285059 TAAATAAAATTTAAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
196 TAAATAAAATTTAAAAGGGTAATTGAAATATAGGATGAGTTGACACAAATCATACGAAAACGTTT
9285124 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
261 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
* *
9285189 CTGTTGATGAGTACTTTACGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATTAA
326 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
9285254 GAGACTATAATGGTGCAGTTTGCAG
391 GAGACTATAATGGTGCAGTTTGCAG
9285279 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
1 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
*
9285344 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
66 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAAAAGAGGAAAAAGTCT
*
9285409 TATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
131 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
*
9285474 TAAATAAAATTTTAAAGGGTAATTGAAATATAGGATGAGTTGACACAAATCATACGAAAACGTTT
196 TAAATAAAATTTAAAAGGGTAATTGAAATATAGGATGAGTTGACACAAATCATACGAAAACGTTT
9285539 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
261 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
9285604 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
326 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
9285669 GAGACTATAATGGTGCAGTTTG
391 GAGACTATAATGGTGCAGTTTG
9285691 TAGATGGCTT
Statistics
Matches: 405, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
415 405 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (415 bp):
TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAAAAGAGGAAAAAGTCT
CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
TAAATAAAATTTAAAAGGGTAATTGAAATATAGGATGAGTTGACACAAATCATACGAAAACGTTT
TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
GAGACTATAATGGTGCAGTTTGCAG
Found at i:9288257 original size:13 final size:13
Alignment explanation
Indices: 9288239--9288272 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9288229 ACAAAATATT
*
9288239 AAATTTATTCATA
1 AAATTTATTCAAA
*
9288252 AAATTTATTTAAA
1 AAATTTATTCAAA
9288265 AAATTTAT
1 AAATTTAT
9288273 ACATTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTATTCAAA
Found at i:9288462 original size:10 final size:10
Alignment explanation
Indices: 9288440--9288472 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9288430 GTTAAAGTGT
9288440 TTTTAAATT-
1 TTTTAAATTA
9288449 TTTTAAATTA
1 TTTTAAATTA
*
9288459 TTTTAAATAA
1 TTTTAAATTA
9288469 TTTT
1 TTTT
9288473 TTATACTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTAAATTA
Found at i:9291875 original size:29 final size:29
Alignment explanation
Indices: 9291833--9291900 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
9291823 GAGCCTATTT
* *
9291833 TTTTAAAACGCATCAAATTCAAACAATTC
1 TTTTAATAGGCATCAAATTCAAACAATTC
9291862 TTTTAATAGGCATCAAATTCAAACAATTC
1 TTTTAATAGGCATCAAATTCAAACAATTC
9291891 TTTTAATAGG
1 TTTTAATAGG
9291901 TACATACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (29 bp):
TTTTAATAGGCATCAAATTCAAACAATTC
Found at i:9294938 original size:20 final size:20
Alignment explanation
Indices: 9294913--9294950 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9294903 GCAGACCAGG
*
9294913 AAAAAAAGGTAAAAAGAGAA
1 AAAAAAAGGAAAAAAGAGAA
*
9294933 AAAAAAATGAAAAAAGAG
1 AAAAAAAGGAAAAAAGAG
9294951 GGGTCCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAAAAAGGAAAAAAGAGAA
Found at i:9298340 original size:13 final size:13
Alignment explanation
Indices: 9298322--9298346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9298312 TAATAATACA
9298322 ATAATTTATTAAT
1 ATAATTTATTAAT
9298335 ATAATTTATTAA
1 ATAATTTATTAA
9298347 AATTTTATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTTATTAAT
Found at i:9298914 original size:18 final size:18
Alignment explanation
Indices: 9298877--9298918 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9298867 TATGATATTG
**
9298877 ATTATCACAAAATATTAT
1 ATTATCACAAAATAAAAT
*
9298895 ATTATTACAAAATAAAAT
1 ATTATCACAAAATAAAAT
9298913 ATTATC
1 ATTATC
9298919 CATTGGGGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATCACAAAATAAAAT
Found at i:9301061 original size:25 final size:24
Alignment explanation
Indices: 9301033--9301080 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9301023 ATCAGGAAAA
9301033 TATAACGGGAAACTCACAAAGAGCC
1 TATAACGGGAAACTC-CAAAGAGCC
* *
9301058 TATAACGGGTAGCTCCAAAGAGC
1 TATAACGGGAAACTCCAAAGAGC
9301081 AATTAACAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAACTCCAAAGAGCC
Found at i:9301087 original size:24 final size:24
Alignment explanation
Indices: 9301060--9301110 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9301050 AAAGAGCCTA
*
9301060 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACAGGTAGCTCCAAAGAGCAAT
* *
9301084 TAACAGGTAGCTCCGAAGAGCACT
1 TAACAGGTAGCTCCAAAGAGCAAT
9301108 TAA
1 TAA
9301111 ACAGAAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
TAACAGGTAGCTCCAAAGAGCAAT
Found at i:9301120 original size:25 final size:24
Alignment explanation
Indices: 9301068--9301121 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9301058 TATAACGGGT
**
9301068 AGCTCCAAAGAGCAATTAACAGGT
1 AGCTCCAAAGAGCAATTAACAGAA
* *
9301092 AGCTCCGAAGAGCACTTAAACAGAA
1 AGCTCCAAAGAGCAATT-AACAGAA
9301117 AGCTC
1 AGCTC
9301122 TCACTCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACAGAA
Found at i:9301241 original size:24 final size:24
Alignment explanation
Indices: 9301214--9301260 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9301204 AGCCTATAAC
9301214 GGGTAGATCCAAAGAGCAATTAAT
1 GGGTAGATCCAAAGAGCAATTAAT
* *
9301238 GGGTAGCTCCGAAGAGCAATTAA
1 GGGTAGATCCAAAGAGCAATTAA
9301261 CGGGAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (24 bp):
GGGTAGATCCAAAGAGCAATTAAT
Found at i:9301243 original size:150 final size:148
Alignment explanation
Indices: 9300952--9301260 Score: 503
Period size: 150 Copynumber: 2.1 Consensus size: 148
9300942 CTACTTTTAT
* * *
9300952 GAGCACTTAAACAGAAAGTCTCACTCAAGCATTATAACAGGAAGGTTATTGAGCCTTGTAACGGG
1 GAGCACTTAAACAGAAAGTCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGGG
*
9301017 AAGCTTATCAGGAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGCTCCAAAGAGCA
66 AAGCTTATCA-GAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAGCA
9301082 ATTAACAGGTAGCTCCGAA
130 ATTAACAGGTAGCTCCGAA
*
9301101 GAGCACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAACGG
1 GAGCACTTAAACAGAAAG-TCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGG
9301166 GAAGCTTATTC-GAACAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAG
65 GAAGCTTA-TCAGAA-AATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAG
**
9301230 CAATTAATGGGTAGCTCCGAA
128 CAATTAACAGGTAGCTCCGAA
*
9301251 GAGCAATTAA
1 GAGCACTTAA
9301261 CGGGAAGCAC
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
149 21 0.14
150 126 0.85
151 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (148 bp):
GAGCACTTAAACAGAAAGTCTCACTCAAGCACTATAACAGGAAGCTCATTGAGCCTTGTAACGGG
AAGCTTATCAGAAAATATAACGGGAAACTCACAAAGAGCCTATAACGGGTAGATCCAAAGAGCAA
TTAACAGGTAGCTCCGAA
Found at i:9304487 original size:12 final size:12
Alignment explanation
Indices: 9304472--9304496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9304462 AATATTTTTT
9304472 TTAAAATTCAAG
1 TTAAAATTCAAG
9304484 TTAAAATTCAAG
1 TTAAAATTCAAG
9304496 T
1 T
9304497 AGATATTTTT
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:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTAAAATTCAAG
Found at i:9309451 original size:17 final size:17
Alignment explanation
Indices: 9309431--9309489 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
9309421 TCAATATGAT
*
9309431 TAAATAATTCAATAATA
1 TAAATAATTCAATAATG
*
9309448 TAAATAATACAA-AATG
1 TAAATAATTCAATAATG
9309464 TGAAATTTAATTCAATAATG
1 T-AAA--TAATTCAATAATG
9309484 TAAATA
1 TAAATA
9309490 GTAAACACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.11
17 16 0.46
19 10 0.29
20 5 0.14
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (17 bp):
TAAATAATTCAATAATG
Found at i:9310908 original size:18 final size:19
Alignment explanation
Indices: 9310869--9310912 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
9310859 GTAGATGTAA
9310869 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
9310889 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
9310907 TAAAAT
1 TAAAAT
9310913 AAAGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:9311530 original size:42 final size:41
Alignment explanation
Indices: 9311484--9311595 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
9311474 ATAAACGCCA
*
9311484 CTAAAGGTCATGTTCTTTAGCGGCGCTTAGAAAAAAAAGCAG
1 CTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAAAAAAGCAG
* * * *
9311526 CTAAAGATCATGTTCTTTAGCGACGCTTTAAGAAAAACGCCG
1 CTAAAGATCATGTTCTTTAGCGGCGC-TTAAAAAAAAAGCAG
* * *
9311568 CGAAAGAACATGATCTTTAGCGGCGCTT
1 CTAAAGATCATGTTCTTTAGCGGCGCTT
9311596 TCTTCACAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 55 0.92
43 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (41 bp):
CTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAAGCAG
Found at i:9311650 original size:43 final size:43
Alignment explanation
Indices: 9311528--9311652 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
9311518 AAAAGCAGCT
* * * **
9311528 AAAGATCATGTTCTTTAGCGACGCTTT-AAGAAAAACGCCGCG
1 AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
* * *
9311570 AAAGAACATGATCTTTAGCGGCGCTTTCTTCACAAACGCCGCT
1 AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
* *
9311613 ATAGAATATGA-CTTTTAGCGGCGCTTT-TGTGAAAAACGCC
1 AAAGAACATGATC-TTTAGCGGCGCTTTCT-TGAAAAACGCC
9311653 ACTAATTTGG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 26 0.38
43 42 0.62
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAGAACATGATCTTTAGCGGCGCTTTCTTGAAAAACGCCGCG
Found at i:9312051 original size:66 final size:66
Alignment explanation
Indices: 9311959--9312093 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 66
9311949 TTCTGCTCTG
* * * *
9311959 CTCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAG
1 CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
9312024 C
66 C
* * *
9312025 CTCTGCTTCTCTCGCTGCAGCCTCTGCTCTAAGTTGTAGTTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
9312090 C
66 C
9312091 CTC
1 CTC
9312094 AACTGTGGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
CTCTGCTTCTCTCGATGCAGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
C
Found at i:9314472 original size:19 final size:20
Alignment explanation
Indices: 9314423--9314478 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
9314413 GAATGGAAAG
9314423 TAAACAAATT-AATA-TAAA
1 TAAACAAATTAAATAGTAAA
* *
9314441 TAAAAAAACTAAATAGTAAA
1 TAAACAAATTAAATAGTAAA
9314461 T-AACAAATTAAATAGTAA
1 TAAACAAATTAAATAGTAA
9314479 CCTATTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 19 0.59
20 5 0.16
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAACAAATTAAATAGTAAA
Found at i:9314829 original size:115 final size:112
Alignment explanation
Indices: 9314624--9315180 Score: 587
Period size: 114 Copynumber: 4.9 Consensus size: 112
9314614 AAAGGTTTTT
* * ** * * * * *
9314624 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCTAAAAGTTTAGAAAATGACGCCGTTGGGCTTAG
1 GCGGCGC-TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-
* * * *
9314689 GGTTTTTTTGCGGCGC-TTCAACAAAAACGCTGCTAAAGACCTAAGCATTA
64 -GTTTTTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
9314739 GCGGCGCATTCTTAAAAACGCCGCTAAAGCCCACGAATTG-TCAGAAAACGGTGTCGTTGGGCTT
1 GCGGCGC-TTCTTAAAAACGCCGCTAAATCCC-CGAA-AGCTCAGAAAACGGCGTCGTTGGGCTT
* *
9314803 AGTTTTTGTTGCGGCGGTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTA
63 AGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
9314854 GCGGCACTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTCTG
1 GCGGCGCTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT-TA
* * **
9314919 GTTTTTTTGTGGCACTTTCTCAAAAACGATGCTAAAGCCCTGAGCATTA
64 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
9314968 GCGGCGCTTACTTAATAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTTG
1 GCGGCGCTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC-TTA
* * *
9315033 GTTTTTTTGTGGCGCTTTCTCGAAAACGCCGCGAAAGCCCTGAGCATTA
64 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * * *
9315082 GCGGCGCTTTCTTAAAATCGCAGCTAAATCCCCTAAGGCTCGGGAAACGGTGTCGTTGGGCTTAG
1 GCGGCGC-TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * **
9315147 GTTTTTTGCGGCGCTTTATGGAAAACGCCGCTAA
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
9315181 TGCTTTTTTT
Statistics
Matches: 379, Mismatches: 54, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
113 33 0.09
114 221 0.58
115 99 0.26
116 25 0.07
117 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (112 bp):
GCGGCGCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGT
TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:9319437 original size:19 final size:19
Alignment explanation
Indices: 9319415--9319465 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
9319405 CTCTTACAAA
9319415 AATTTAAAAAAATCAAAAT
1 AATTTAAAAAAATCAAAAT
* * *
9319434 AATTTTTAAAAATTTAAAAT
1 AA-TTTAAAAAAATCAAAAT
*
9319454 -ATTTATAAAAAT
1 AATTTAAAAAAAT
9319466 TTCAAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 14 0.56
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTTAAAAAAATCAAAAT
Found at i:9319466 original size:19 final size:18
Alignment explanation
Indices: 9319412--9319478 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
9319402 TCTCTCTTAC
* **
9319412 AAAAATTTAAAAAAATCA
1 AAAAATTTATAAAAATTT
*
9319430 AAATAATTTTTAAAAATTT
1 AAA-AATTTATAAAAATTT
9319449 AAAATATTTATAAAAATTT
1 AAAA-ATTTATAAAAATTT
*
9319468 CAAAATTTATA
1 AAAAATTTATA
9319479 TATATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 11 0.27
19 30 0.73
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTTATAAAAATTT
Found at i:9319628 original size:3 final size:3
Alignment explanation
Indices: 9319620--9319645 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9319610 CTAAAGTATC
9319620 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9319646 TACTTTGAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9319767 original size:22 final size:22
Alignment explanation
Indices: 9319717--9319768 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
9319707 GTTATACTAT
*
9319717 AACAATATTTTAATTTAACATG
1 AACAATTTTTTAATTTAACATG
*** *
9319739 TTTAATTTTTTAATTTAACTTG
1 AACAATTTTTTAATTTAACATG
9319761 AACAATTT
1 AACAATTT
9319769 CACTTGATTC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (22 bp):
AACAATTTTTTAATTTAACATG
Found at i:9321335 original size:24 final size:25
Alignment explanation
Indices: 9321306--9321371 Score: 109
Period size: 24 Copynumber: 2.7 Consensus size: 25
9321296 TTTAAAATAT
9321306 TTTTAAAATACTTTTTA-TTTTTTA
1 TTTTAAAATACTTTTTATTTTTTTA
9321330 TTTTAAAATACTTTTTTATTTTTTTA
1 TTTTAAAATAC-TTTTTATTTTTTTA
9321356 TTTTAAAATA-TTTTTA
1 TTTTAAAATACTTTTTA
9321372 AAATACTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 17 0.43
25 6 0.15
26 17 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAAAATACTTTTTATTTTTTTA
Found at i:9321353 original size:26 final size:25
Alignment explanation
Indices: 9321306--9321370 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 25
9321296 TTTAAAATAT
9321306 TTTTAAAATAC-TTTTTATTTTTTA
1 TTTTAAAATACTTTTTTATTTTTTA
9321330 TTTTAAAATACTTTTTTATTTTTTTA
1 TTTTAAAATACTTTTTTA-TTTTTTA
9321356 TTTTAAAATA-TTTTT
1 TTTTAAAATACTTTTT
9321371 AAAATACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 11 0.28
25 11 0.28
26 17 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTAAAATACTTTTTTATTTTTTA
Found at i:9321369 original size:61 final size:67
Alignment explanation
Indices: 9321282--9321405 Score: 206
Period size: 61 Copynumber: 1.9 Consensus size: 67
9321272 AATAAATATA
9321282 TTTATTTTTTTAATTTTAAAATATTTTTAAAATAC-T-TTTT-A-TTTTTTA-TTTTAAAATACT
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTATTTTAATTTTTTTATTTTTAAAATACT
9321342 TT
66 TT
9321344 TTTATTTTTTT-ATTTTAAAATATTTTTAAAATACTTATTTTAATTTTTTTATTTTTAAAATA
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTATTTTAATTTTTTTATTTTTAAAATA
9321406 AATTTTTGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
61 23 0.40
62 12 0.21
63 4 0.07
64 1 0.02
65 7 0.12
66 10 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (67 bp):
TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTATTTTAATTTTTTTATTTTTAAAATACT
TT
Found at i:9327362 original size:37 final size:37
Alignment explanation
Indices: 9327305--9327408 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
9327295 TATGACTTGT
* ** *
9327305 ATAAAAAACAAATATACTTTTTGACTCATACTTTTATG
1 ATAACAAACAAACCTACTTTTTGACTCATACTTTTA-C
* * *
9327343 AT-TCAAACAAACCTGCTTTTTGACTTATACTTTTAC
1 ATAACAAACAAACCTACTTTTTGACTCATACTTTTAC
*
9327379 ATAAGAAACAAACCTACTTTTATGACTCAT
1 ATAACAAACAAACCTACTTTT-TGACTCAT
9327409 TTAACAAACA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 2 0.04
37 42 0.79
38 9 0.17
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (37 bp):
ATAACAAACAAACCTACTTTTTGACTCATACTTTTAC
Found at i:9338171 original size:49 final size:49
Alignment explanation
Indices: 9338114--9338217 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
9338104 TCATGTGTTA
* * * *
9338114 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
9338163 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
9338212 TAATTT
1 TAATTT
9338218 GTTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:9339708 original size:61 final size:61
Alignment explanation
Indices: 9339643--9339959 Score: 312
Period size: 61 Copynumber: 5.3 Consensus size: 61
9339633 ATTTTATAGT
* *
9339643 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * * * *
9339704 ATTATATATTTTAATTAAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTTATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
*
9339763 ATTATATATTATAATTTTAGTAAATTTATATAAGAATATTTATTATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * * * *
9339824 ATTATATATTTTAATTAAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTTATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
* *
9339883 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
*
9339944 ATTATATATTTTAATT
1 ATTATATATTATAATT
9339960 AAAATATATT
Statistics
Matches: 200, Mismatches: 40, Indels: 32
0.74 0.15 0.12
Matches are distributed among these distances:
58 13 0.06
59 66 0.33
60 28 0.14
61 80 0.40
62 13 0.06
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (61 bp):
ATTATATATTATAATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:9339720 original size:18 final size:17
Alignment explanation
Indices: 9339694--9339728 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9339684 AATATTAAGA
*
9339694 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9339711 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9339729 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9339728 original size:16 final size:16
Alignment explanation
Indices: 9339694--9339747 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9339684 AATATTAAGA
9339694 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9339711 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9339727 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9339741 ATTTTAA
1 ATTTTAA
9339748 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9339743 original size:120 final size:120
Alignment explanation
Indices: 9339602--9339989 Score: 728
Period size: 120 Copynumber: 3.3 Consensus size: 120
9339592 AAGTAGATTA
9339602 TAAAATATA-TT--TAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9339664 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
*
9339719 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* *
9339784 AAATTTATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
9339839 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
9339904 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
9339959 TAAAATATATTTAATAATAATTATTTTAAAT
1 TAAAATATATTTAATAATAATTATTTTAAAT
9339990 ATGATTAAAT
Statistics
Matches: 262, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
117 9 0.03
118 2 0.01
120 251 0.96
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAAT
Done.