Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 96 of 109
Found at i:30635356 original size:83 final size:83
Alignment explanation
Indices: 30635189--30635386 Score: 299
Period size: 83 Copynumber: 2.4 Consensus size: 83
30635179 TTTTTAAACA
* * *
30635189 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGGTCTATAGCGGCGTTTTCGTCTAAGTG
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATACTCGGGTCTATAGCGGCGTTTTCGCCTAAGCG
30635254 CCGCTAATGCTCCGAGTC
66 CCGCTAATGCTCCGAGTC
* *
30635272 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATACTCTGGGTCTATAGCGGCGTTTTCGCCTATGC
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATACTC-GGGTCTATAGCGGCGTTTTCGCCTAAGC
*
30635337 GCCGCTAATGCT-CGGGTC
65 GCCGCTAATGCTCCGAGTC
* * *
30635355 TTTAGCGGCGTTTTTATATATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
30635387 TCTCCTGTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
83 67 0.64
84 37 0.36
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (83 bp):
TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATACTCGGGTCTATAGCGGCGTTTTCGCCTAAGCG
CCGCTAATGCTCCGAGTC
Found at i:30635407 original size:41 final size:41
Alignment explanation
Indices: 30635332--30635428 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 41
30635322 CGTTTTCGCC
* * * *
30635332 TATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTATA
1 TATGCGCCGCTAATGCTCCGGTATTCAGCGGCGTTTGTATA
* * * *
30635373 TATGCGCCGCTAATTCTCCTGTATTCAGCTGCGTTTGTATC
1 TATGCGCCGCTAATGCTCCGGTATTCAGCGGCGTTTGTATA
* *
30635414 TACGCGCCGCGAATG
1 TATGCGCCGCTAATG
30635429 TATTAACCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (41 bp):
TATGCGCCGCTAATGCTCCGGTATTCAGCGGCGTTTGTATA
Found at i:30636298 original size:16 final size:16
Alignment explanation
Indices: 30636277--30636307 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30636267 AGGGTTATGC
*
30636277 TTTAGGGGTTAGGGGA
1 TTTAGGGGTAAGGGGA
30636293 TTTAGGGGTAAGGGG
1 TTTAGGGGTAAGGGG
30636308 CTAGGGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.29
Consensus pattern (16 bp):
TTTAGGGGTAAGGGGA
Found at i:30637357 original size:14 final size:15
Alignment explanation
Indices: 30637321--30637359 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
30637311 TTTCCCCCAA
*
30637321 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
30637336 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
30637351 TTTCCCCAA
1 TTTCCCCAA
30637360 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:30637623 original size:33 final size:33
Alignment explanation
Indices: 30637581--30637648 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
30637571 CATCTATGTT
*
30637581 ATTCGAGTTAAATGAGATGAGTGTTGGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
*
30637614 ATTCGAGTTAAATGAGATTAGTGTTAGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
30637647 AT
1 AT
30637649 ATATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (33 bp):
ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
Found at i:30637910 original size:17 final size:17
Alignment explanation
Indices: 30637888--30637925 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30637878 ATCCTAGGAA
30637888 CTTGCAACCTCTACTTC
1 CTTGCAACCTCTACTTC
* *
30637905 CTTGCAGCCTTTACTTC
1 CTTGCAACCTCTACTTC
30637922 CTTG
1 CTTG
30637926 TGAACTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.37, G:0.11, T:0.39
Consensus pattern (17 bp):
CTTGCAACCTCTACTTC
Found at i:30651218 original size:22 final size:23
Alignment explanation
Indices: 30651186--30651228 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
30651176 TTGCGGCGCT
*
30651186 AAAAAGTGCCGCTAAAGGCCTAA
1 AAAAAGTGCCGCTAAAAGCCTAA
30651209 AAAAAG-GCCGCTAAAAGCCT
1 AAAAAGTGCCGCTAAAAGCCT
30651229 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.12
Consensus pattern (23 bp):
AAAAAGTGCCGCTAAAAGCCTAA
Found at i:30652545 original size:20 final size:19
Alignment explanation
Indices: 30652508--30652547 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
30652498 ACAAAAAAGA
30652508 TTTGTTCTTTTCTTGTTGT
1 TTTGTTCTTTTCTTGTTGT
30652527 TTTGTTGCTATTT-TTGTTGT
1 TTTGTT-CT-TTTCTTGTTGT
30652547 T
1 T
30652548 GTTTTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 10 0.53
21 3 0.16
ACGTcount: A:0.03, C:0.07, G:0.17, T:0.72
Consensus pattern (19 bp):
TTTGTTCTTTTCTTGTTGT
Found at i:30655191 original size:24 final size:24
Alignment explanation
Indices: 30655164--30655215 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30655154 TTAGTAAGTC
*
30655164 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30655188 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30655212 AAAT
1 AAAT
30655216 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30656928 original size:24 final size:24
Alignment explanation
Indices: 30656901--30656952 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30656891 TTAGTAAGTC
*
30656901 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30656925 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30656949 AAAT
1 AAAT
30656953 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30657924 original size:24 final size:24
Alignment explanation
Indices: 30657892--30657943 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30657882 AGCCAAAGTC
* *
30657892 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
30657916 AAATATATTTTACTCATAAATACT
1 AAATATATTATACTAATAAATACT
30657940 AAAT
1 AAAT
30657944 CTTCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:30659511 original size:17 final size:17
Alignment explanation
Indices: 30659489--30659525 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30659479 TATATATATA
*
30659489 TTTTATTTTATTTCATT
1 TTTTATCTTATTTCATT
*
30659506 TTTTATCTTATTTTATT
1 TTTTATCTTATTTCATT
30659523 TTT
1 TTT
30659526 ATAATTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATCTTATTTCATT
Found at i:30660825 original size:24 final size:24
Alignment explanation
Indices: 30660793--30660844 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30660783 AACCAAAGTC
* *
30660793 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
30660817 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
30660841 AAAT
1 AAAT
30660845 CTTCTAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:30662133 original size:20 final size:20
Alignment explanation
Indices: 30662108--30662148 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30662098 CAATTTGGTC
*
30662108 ACTTTTTGACATTTTTACAA
1 ACTTTTTGAAATTTTTACAA
30662128 ACTTTTTGAAATTTTTACAA
1 ACTTTTTGAAATTTTTACAA
30662148 A
1 A
30662149 TTTACCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
ACTTTTTGAAATTTTTACAA
Found at i:30666152 original size:49 final size:49
Alignment explanation
Indices: 30666099--30666367 Score: 538
Period size: 49 Copynumber: 5.5 Consensus size: 49
30666089 CAAAGCCATG
30666099 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
1 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
30666148 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
1 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
30666197 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
1 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
30666246 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
1 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
30666295 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
1 TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
30666344 TCCCAGATATGGTCTTACATGGGA
1 TCCCAGATATGGTCTTACATGGGA
30666368 GTTCTCATAT
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 220 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (49 bp):
TCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATATCATA
Found at i:30666431 original size:50 final size:49
Alignment explanation
Indices: 30666346--30666476 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 49
30666336 ATATCATATC
* * ** * **
30666346 CCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGT
1 CCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGT
* *
30666395 CACAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCATGT
1 C-CAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGT
* **
30666445 CCTAGACATGGTCTTACATGAAACCTCTCATA
1 CC-AGACATGGTCTTACAGGGGACCTCTCATA
30666477 ATCTCAATGA
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
49 2 0.03
50 64 0.97
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
CCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGT
Found at i:30670721 original size:17 final size:17
Alignment explanation
Indices: 30670688--30670721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30670678 TTGTGTTTTG
*
30670688 TGCAAAAAGGGCTAAAT
1 TGCAAAAAGGGCAAAAT
*
30670705 TGCAAAAAGTGCAAAAT
1 TGCAAAAAGGGCAAAAT
30670722 GTTAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGGCAAAAT
Found at i:30671582 original size:41 final size:41
Alignment explanation
Indices: 30671520--30671639 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
30671510 TGATCGAATG
* *
30671520 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
30671561 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * * * *
30671602 CATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG
30671640 TACTGAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:30671935 original size:13 final size:13
Alignment explanation
Indices: 30671919--30671943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30671909 ATATTAAATA
30671919 TATATGCATTTGG
1 TATATGCATTTGG
30671932 TATATGCATTTG
1 TATATGCATTTG
30671944 ATAAGCAATT
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:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TATATGCATTTGG
Found at i:30671962 original size:2 final size:2
Alignment explanation
Indices: 30671955--30671984 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30671945 TAAGCAATTG
30671955 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
30671985 TCGGCAAATG
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:30673005 original size:24 final size:24
Alignment explanation
Indices: 30672990--30673041 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30672980 AATCAAAGTC
30672990 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
30673014 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
30673038 AAAT
1 AAAT
30673042 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:30682701 original size:2 final size:2
Alignment explanation
Indices: 30682694--30682721 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30682684 ACAAATTTAA
30682694 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
30682722 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30684222 original size:18 final size:19
Alignment explanation
Indices: 30684192--30684228 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
30684182 TTGATCACTC
30684192 ATTTTATCATTTTA-AATT
1 ATTTTATCATTTTAGAATT
30684210 ATTTTAT-ATTTTTAGAATT
1 ATTTTATCA-TTTTAGAATT
30684229 TGTTTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTATCATTTTAGAATT
Found at i:30684833 original size:17 final size:18
Alignment explanation
Indices: 30684800--30684834 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30684790 GCATAAGCCC
30684800 TCGGTTAACAGGCAGAAA
1 TCGGTTAACAGGCAGAAA
30684818 TCGGTTAACA-GCAGAAA
1 TCGGTTAACAGGCAGAAA
30684835 AAAGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
TCGGTTAACAGGCAGAAA
Found at i:30691339 original size:21 final size:21
Alignment explanation
Indices: 30691313--30691393 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 21
30691303 TAAAAATTGC
30691313 AAAAATTATAAAATATCCT-AA
1 AAAAATTATAAAA-ATCCTAAA
**
30691334 AAAAATTATAAAAATTTGTAAA
1 AAAAATTATAAAAA-TCCTAAA
30691356 AGAAAATTATAAAAATCCTGAAA
1 A-AAAATTATAAAAATCCT-AAA
*
30691379 AAAATTTATAAAAAT
1 AAAAATTATAAAAAT
30691394 TATCATATCC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 18 0.35
23 17 0.33
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATTATAAAAATCCTAAA
Found at i:30691347 original size:22 final size:22
Alignment explanation
Indices: 30691313--30691391 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
30691303 TAAAAATTGC
30691313 AAAAATTATAAAATATCCT-AA
1 AAAAATTATAAAATATCCTAAA
**
30691334 AAAAATTATAAAA-ATTTGTAAA
1 AAAAATTATAAAATA-TCCTAAA
30691356 AGAAAATTATAAAA-ATCCTGAAA
1 A-AAAATTATAAAATATCCT-AAA
*
30691379 AAAATTTATAAAA
1 AAAAATTATAAAA
30691392 ATTATCATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
20 1 0.02
21 15 0.31
22 16 0.33
23 17 0.35
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAATTATAAAATATCCTAAA
Found at i:30691392 original size:22 final size:21
Alignment explanation
Indices: 30691313--30691393 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 21
30691303 TAAAAATTGC
30691313 AAAAATTATAAAATATCCT-AA
1 AAAAATTATAAAA-ATCCTGAA
*
30691334 AAAAATTATAAAAAT-TTGTAAA
1 AAAAATTATAAAAATCCTG--AA
30691356 AGAAAATTATAAAAATCCTGAA
1 A-AAAATTATAAAAATCCTGAA
30691378 AAAAATTTATAAAAAT
1 AAAAA-TTATAAAAAT
30691394 TATCATATCC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 17 0.33
22 16 0.31
23 14 0.27
24 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATTATAAAAATCCTGAA
Found at i:30711930 original size:12 final size:12
Alignment explanation
Indices: 30711896--30711934 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
30711886 TGGCCATCAT
30711896 ACTGTCTTCTTC
1 ACTGTCTTCTTC
*
30711908 ATCTTTCTTCTTC
1 A-CTGTCTTCTTC
30711921 ACTGTCTTCTTC
1 ACTGTCTTCTTC
30711933 AC
1 AC
30711935 CTCTTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.10, C:0.33, G:0.05, T:0.51
Consensus pattern (12 bp):
ACTGTCTTCTTC
Found at i:30742241 original size:41 final size:41
Alignment explanation
Indices: 30742196--30742327 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
30742186 TTTTTAACTG
*
30742196 ATATATCTTTATCATATCGATCTAAAATATTTTATATATTA
1 ATATATATTTATCATATCGATCTAAAATATTTTATATATTA
** * *
30742237 ATATATATTTAT--TAGTC-ATACATGTAAT-TTTT-TA-ACTG
1 ATATATATTTATCATA-TCGAT-C-TAAAATATTTTATATATTA
*
30742275 ATATATCTTTATCATATCGATCTAAAATATTTTATATATTA
1 ATATATATTTATCATATCGATCTAAAATATTTTATATATTA
30742316 ATATATATTTAT
1 ATATATATTTAT
30742328 TAAACAGTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
38 17 0.24
39 13 0.18
40 13 0.18
41 28 0.39
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (41 bp):
ATATATATTTATCATATCGATCTAAAATATTTTATATATTA
Found at i:30742286 original size:38 final size:39
Alignment explanation
Indices: 30742171--30742286 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 39
30742161 AATTGGATTT
30742171 GTCATACATGTAAATTTTTTAACTGATATATCTTTATCATA
1 GTCATACATGT-AATTTTTTAACTGATATATCTTTAT-ATA
** * * *
30742212 -TCGAT-C-TAAAATATTTTATATATTAATATATATTTAT-TA
1 GTC-ATACATGTAAT-TTTT-TA-ACTGATATATCTTTATATA
30742251 GTCATACATGTAATTTTTTAACTGATATATCTTTAT
1 GTCATACATGTAATTTTTTAACTGATATATCTTTAT
30742287 CATATCGATC
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
38 16 0.28
39 11 0.19
40 12 0.21
41 19 0.33
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.49
Consensus pattern (39 bp):
GTCATACATGTAATTTTTTAACTGATATATCTTTATATA
Found at i:30742289 original size:79 final size:80
Alignment explanation
Indices: 30742171--30742329 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 80
30742161 AATTGGATTT
30742171 GTCATACATGTAAATTTTTTAACTGATATATCTTTATCATATCGATCTAAAATATTTTATATATT
1 GTCATACATGTAAATTTTTTAACTGATATATCTTTATCATATCGATCTAAAATATTTTATATATT
30742236 AATATATATTTATTA
66 AATATATATTTATTA
30742251 GTCATACATGT-AATTTTTTAACTGATATATCTTTATCATATCGATCTAAAATATTTTATATATT
1 GTCATACATGTAAATTTTTTAACTGATATATCTTTATCATATCGATCTAAAATATTTTATATATT
30742315 AATATATATTTATTA
66 AATATATATTTATTA
30742330 AACAGTTAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 68 0.86
80 11 0.14
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (80 bp):
GTCATACATGTAAATTTTTTAACTGATATATCTTTATCATATCGATCTAAAATATTTTATATATT
AATATATATTTATTA
Found at i:30742308 original size:38 final size:38
Alignment explanation
Indices: 30742182--30742308 Score: 116
Period size: 38 Copynumber: 3.3 Consensus size: 38
30742172 TCATACATGT
*
30742182 AAATTTTTTAACTGATATATCTTTATCATATCGATCTA
1 AAATATTTTAACTGATATATCTTTATCATATCGATCTA
* * * *
30742220 AAATATTTTATATATTAATATATATTTAT--TAGTC-ATACATG
1 AAATA-TTT-TA-ACTGATATATCTTTATCATA-TCGAT-C-TA
* *
30742261 TAATTTTTTAACTGATATATCTTTATCATATCGATCTA
1 AAATATTTTAACTGATATATCTTTATCATATCGATCTA
30742299 AAATATTTTA
1 AAATATTTTA
30742309 TATATTAATA
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
38 26 0.39
39 12 0.18
40 12 0.18
41 17 0.25
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (38 bp):
AAATATTTTAACTGATATATCTTTATCATATCGATCTA
Found at i:30759525 original size:43 final size:43
Alignment explanation
Indices: 30759459--30759549 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
30759449 CACATTGCAA
* * * *
30759459 GGTAATAAAACATACAATGCATTTTCTTAATGAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
30759502 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
30759545 -GTAAT
1 GGTAAT
30759550 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:30762710 original size:15 final size:16
Alignment explanation
Indices: 30762685--30762714 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30762675 TTTTATATAT
30762685 TATAGAATATAAATAA
1 TATAGAATATAAATAA
30762701 TATA-AATATAAATA
1 TATAGAATATAAATA
30762715 TGGAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATAGAATATAAATAA
Found at i:30764034 original size:36 final size:36
Alignment explanation
Indices: 30763987--30764055 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
30763977 TAAATTTTCT
30763987 CTAGTTTTAGTGGGAAGGCCAACCAATATGTCACTG
1 CTAGTTTTAGTGGGAAGGCCAACCAATATGTCACTG
*
30764023 CTAGTTTTAGTGGGAAGGCCAATCAATATGTCA
1 CTAGTTTTAGTGGGAAGGCCAACCAATATGTCA
30764056 GTGAACCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (36 bp):
CTAGTTTTAGTGGGAAGGCCAACCAATATGTCACTG
Found at i:30767266 original size:16 final size:16
Alignment explanation
Indices: 30767240--30767291 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
30767230 AAAAAATACG
* *
30767240 AAAACATAAATCAACA
1 AAAAAATAAATAAACA
*
30767256 AACAAATAAATAAACA
1 AAAAAATAAATAAACA
*
30767272 AAAAAAT--ATAAAGA
1 AAAAAATAAATAAACA
30767286 AAAAAA
1 AAAAAA
30767292 AGTGCATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.39
16 19 0.61
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAAATAAATAAACA
Found at i:30768583 original size:8 final size:8
Alignment explanation
Indices: 30768550--30768583 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
30768540 ATTTGGACCC
*
30768550 TATTTTTC
1 TATTTTTT
30768558 TATTTTTT
1 TATTTTTT
30768566 TATTTTTT
1 TATTTTTT
*
30768574 TATTTGTT
1 TATTTTTT
30768582 TA
1 TA
30768584 CTAAGAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (8 bp):
TATTTTTT
Found at i:30782360 original size:9 final size:9
Alignment explanation
Indices: 30782336--30782369 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
30782326 ATCCCTTAAC
30782336 TGATTTTTA
1 TGATTTTTA
*
30782345 T-AATTTTA
1 TGATTTTTA
30782353 TGATTTTTA
1 TGATTTTTA
30782362 TGATTTTT
1 TGATTTTT
30782370 TTATTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (9 bp):
TGATTTTTA
Found at i:30782377 original size:17 final size:17
Alignment explanation
Indices: 30782336--30782368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30782326 ATCCCTTAAC
30782336 TGATTTTTATAATTTTA
1 TGATTTTTATAATTTTA
*
30782353 TGATTTTTATGATTTT
1 TGATTTTTATAATTTT
30782369 TTTATTTTTG
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:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (17 bp):
TGATTTTTATAATTTTA
Found at i:30784652 original size:47 final size:47
Alignment explanation
Indices: 30784590--30784696 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 47
30784580 TTTCTCAAAA
* * *
30784590 ACACATTTTTAACACATTAAAAAAAAATCTATTAAGGTATGAT-AAGT
1 ACACATTTTTAACACACTAAAAAAAAATATATTAAGATATGATGAA-T
* * ** *
30784637 ACACCTTTCTAACACACTCGAAAAAAATATATTATGATATGATGAAT
1 ACACATTTTTAACACACTAAAAAAAAATATATTAAGATATGATGAAT
30784684 ACACATTTTTAAC
1 ACACATTTTTAAC
30784697 GCAAATATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
47 47 0.96
48 2 0.04
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (47 bp):
ACACATTTTTAACACACTAAAAAAAAATATATTAAGATATGATGAAT
Found at i:30786738 original size:56 final size:56
Alignment explanation
Indices: 30786676--30786785 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
30786666 ATATTATTTT
* * * * *
30786676 TATATATTATGTAATTTATAATACATTAAAAATATAAACTTATACTAAATATATGA
1 TATATATTATGTAATTTAGAACACATTAAAAAAATAAACCTATACGAAATATATGA
30786732 TATATATTATGTAATTTAGAACACATTAAAAAAATAAACCTATACGAAATATAT
1 TATATATTATGTAATTTAGAACACATTAAAAAAATAAACCTATACGAAATATAT
30786786 AATACTATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (56 bp):
TATATATTATGTAATTTAGAACACATTAAAAAAATAAACCTATACGAAATATATGA
Found at i:30786865 original size:27 final size:28
Alignment explanation
Indices: 30786828--30786886 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
30786818 CTAAGATGAC
* *
30786828 TATATAAAAATTTTCAATAATAAAA-AA
1 TATATAAAAATATTAAATAATAAAATAA
*
30786855 TATATAAAAATATTAAATATTAAAATAA
1 TATATAAAAATATTAAATAATAAAATAA
30786883 TATA
1 TATA
30786887 ATATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
TATATAAAAATATTAAATAATAAAATAA
Found at i:30787639 original size:13 final size:14
Alignment explanation
Indices: 30787623--30787671 Score: 66
Period size: 13 Copynumber: 3.6 Consensus size: 14
30787613 TTACTTATTT
*
30787623 AATTAATTTAA-TT
1 AATTAATTTAACTA
*
30787636 AATTACTTTAACTA
1 AATTAATTTAACTA
30787650 AATTAA-TTAACTA
1 AATTAATTTAACTA
30787663 AATTAATTT
1 AATTAATTT
30787672 TCCAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 23 0.74
14 8 0.26
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTAATTTAACTA
Found at i:30789305 original size:9 final size:9
Alignment explanation
Indices: 30789287--30789317 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30789277 TTTGGGTAAA
30789287 AATTAACCG
1 AATTAACCG
*
30789296 AATTACCCG
1 AATTAACCG
30789305 AATTAACCG
1 AATTAACCG
30789314 AATT
1 AATT
30789318 GAATCAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:30789443 original size:18 final size:18
Alignment explanation
Indices: 30789420--30789454 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30789410 AATTTTTATG
30789420 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
30789438 ATTGGGTTGGGTTGGGT
1 ATTGGGTTGGGTTGGGT
30789455 TGAATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:30789465 original size:23 final size:23
Alignment explanation
Indices: 30789421--30789468 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30789411 ATTTTTATGA
**
30789421 TTGGGTTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTTGAATAATTGGG
*
30789444 TTGGGTTGGGTTGAATACTTGGG
1 TTGGGTTGGGTTGAATAATTGGG
30789467 TT
1 TT
30789469 TGGATTGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.46, T:0.42
Consensus pattern (23 bp):
TTGGGTTGGGTTGAATAATTGGG
Found at i:30790032 original size:30 final size:31
Alignment explanation
Indices: 30789991--30790072 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
30789981 GTTCAAGGAT
* *
30789991 TAAAAT-TTATC-ACCTTAATATCAAATTAA
1 TAAAATATTATCAACATAAATATCAAATTAA
*
30790020 TAAAATATTATCAAGATAAATATCAAATTAA
1 TAAAATATTATCAACATAAATATCAAATTAA
* * *
30790051 -ATAATATTATAAAGATAAATAT
1 TAAAATATTATCAACATAAATAT
30790073 TTAATTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.13
30 25 0.54
31 15 0.33
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.35
Consensus pattern (31 bp):
TAAAATATTATCAACATAAATATCAAATTAA
Found at i:30790043 original size:31 final size:30
Alignment explanation
Indices: 30790007--30790072 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
30789997 TTATCACCTT
*
30790007 AATATCAAATTAATAAAATATTATCAAGATA
1 AATATCAAATTAA-AAAATATTATAAAGATA
*
30790038 AATATCAAATTAAATAATATTATAAAGATA
1 AATATCAAATTAAAAAATATTATAAAGATA
30790068 AATAT
1 AATAT
30790073 TTAATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AATATCAAATTAAAAAATATTATAAAGATA
Found at i:30794542 original size:14 final size:14
Alignment explanation
Indices: 30794523--30794552 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30794513 GACTAGAAGA
30794523 TATAAAATAAAAAC
1 TATAAAATAAAAAC
30794537 TATAAAATAAAAAC
1 TATAAAATAAAAAC
30794551 TA
1 TA
30794553 AACATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
TATAAAATAAAAAC
Found at i:30795210 original size:111 final size:111
Alignment explanation
Indices: 30795068--30795300 Score: 448
Period size: 111 Copynumber: 2.1 Consensus size: 111
30795058 ATACTAGGGA
30795068 AATATTTCAAGCAAGTAGAAAAGATTAAGAAGATATGCCATAGGTTGTAAAAGCAGTAGAAATTT
1 AATA-TTCAAGCAAGTAGAAAAGATTAAGAAGATATGCCATAGGTTGTAAAAGCAGTAGAAATTT
30795133 AGCTATTTAGATGTTAGTGCCATCGATAACAAATAGCTACATCTATG
65 AGCTATTTAGATGTTAGTGCCATCGATAACAAATAGCTACATCTATG
*
30795180 AATATTCAAGCAAGTAGAAAAGATTGAGAAGATATGCCATAGGTTGTAAAAGCAGTAGAAATTTA
1 AATATTCAAGCAAGTAGAAAAGATTAAGAAGATATGCCATAGGTTGTAAAAGCAGTAGAAATTTA
30795245 GCTATTTAGATGTTAGTGCCATCGATAACAAATAGCTACATCTATG
66 GCTATTTAGATGTTAGTGCCATCGATAACAAATAGCTACATCTATG
30795291 AATATTCAAG
1 AATATTCAAG
30795301 AAGCTTCTTT
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
111 116 0.97
112 4 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (111 bp):
AATATTCAAGCAAGTAGAAAAGATTAAGAAGATATGCCATAGGTTGTAAAAGCAGTAGAAATTTA
GCTATTTAGATGTTAGTGCCATCGATAACAAATAGCTACATCTATG
Found at i:30803014 original size:151 final size:150
Alignment explanation
Indices: 30802740--30803187 Score: 727
Period size: 151 Copynumber: 3.0 Consensus size: 150
30802730 CCTAATGAGG
* *
30802740 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCAAAAATGGGTCTA
1 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
30802805 CGGTAAGTCCAACACGAATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTATT
66 CGGTAAGTCCAACAC-AATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTATT
30802870 TGATTTGATTTGATTTTTAAA
130 TGATTTGATTTGATTTTTAAA
30802891 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
1 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
** ****** * *
30802956 CGGTTGATTTTTTGTTC-CTTAATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTAT
66 CGG-T-AAGTCCAACACAATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTAT
30803020 TTGATTTGATTTGATTTTTAAA
129 TTGATTTGATTTGATTTTTAAA
30803042 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
1 TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
* *
30803107 CGGTAAGTCCAACACGAATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGCATC
66 CGGTAAGTCCAACAC-AATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTATT
30803172 TGATTTGATTTGATTT
130 TGATTTGATTTGATTT
30803188 GATTTTTAAA
Statistics
Matches: 269, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
149 3 0.01
150 1 0.00
151 261 0.97
152 1 0.00
153 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (150 bp):
TTGGGGGGCACCGCACGATGTGGGCGACACGAAATGTTCGAACCGGTCGGGCCAAAATGGGCCTA
CGGTAAGTCCAACACAATTTATTTATCCTCAACAGACATAATCTGCTTATATATGGACAGTATTT
GATTTGATTTGATTTTTAAA
Found at i:30804427 original size:51 final size:51
Alignment explanation
Indices: 30804331--30804427 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
30804321 TCGAACATAT
** *
30804331 CAAGTCAATGGTTGTATCCTTCATGAAATTCTCCAATTGTATAATCTTAGG
1 CAAGTCAACAGTTGTATCCTTCATGAAATTCTCCAATTGCATAATCTTAGG
* * *
30804382 CAAGTCAACAGTTGTA-CCTTTTATGAAATTCTCTAATTGCGTAATC
1 CAAGTCAACAGTTGTATCC-TTCATGAAATTCTCCAATTGCATAATC
30804428 AAACCTGTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.05
51 37 0.95
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (51 bp):
CAAGTCAACAGTTGTATCCTTCATGAAATTCTCCAATTGCATAATCTTAGG
Found at i:30804694 original size:28 final size:27
Alignment explanation
Indices: 30804641--30804695 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
30804631 TTCATCCCTT
*
30804641 TAAGGGTACAACTCTTTCACCCTTCCAC
1 TAAGGGTACAACTCTTT-ACCATTCCAC
30804669 TAAGGGTACAACCCTCTTT-CCATTCCA
1 TAAGGGTACAA--CTCTTTACCATTCCA
30804696 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 18 0.75
30 6 0.25
ACGTcount: A:0.25, C:0.35, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAGGGTACAACTCTTTACCATTCCAC
Found at i:30809025 original size:30 final size:31
Alignment explanation
Indices: 30808986--30809045 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
30808976 AGAGGTGTGA
*
30808986 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
30809017 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
30809046 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:30809515 original size:20 final size:20
Alignment explanation
Indices: 30809490--30809527 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30809480 CGTGATCCGA
30809490 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
30809510 TTAAAACACGAGAATTTT
1 TTAAAACACGAGAATTTT
30809528 GGAAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:30809560 original size:34 final size:34
Alignment explanation
Indices: 30809502--30809569 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
30809492 AAAACACGAG
* * *
30809502 AATTTTTTTTAAAACACGAGAATTT-TGGAAACAC
1 AATTTTGTTTAAAAAACGAAAATTTAT-GAAACAC
*
30809536 AATTTTGTTTAAAAAATGAAAATTTATGAAACAC
1 AATTTTGTTTAAAAAACGAAAATTTATGAAACAC
30809570 GAGATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (34 bp):
AATTTTGTTTAAAAAACGAAAATTTATGAAACAC
Found at i:30809671 original size:18 final size:18
Alignment explanation
Indices: 30809579--30809706 Score: 75
Period size: 18 Copynumber: 7.2 Consensus size: 18
30809569 CGAGATTTTT
*
30809579 TTTTGAAAACA-CAAAAA
1 TTTTGAAAACATGAAAAA
*
30809596 TTTTCAAAACATCG-AAAA
1 TTTTGAAAACAT-GAAAAA
* ** *
30809614 TTTTGAAAACACGAGGAT
1 TTTTGAAAACATGAAAAA
* * **
30809632 TTTTG-AAACACGGGAATT
1 TTTTGAAAACA-TGAAAAA
30809650 TTTTGAAAACATGAAAAA
1 TTTTGAAAACATGAAAAA
* * **
30809668 TTTTGAAAA-TTGGAATT
1 TTTTGAAAACATGAAAAA
*
30809685 TTTTGAAAACACGAAAAA
1 TTTTGAAAACATGAAAAA
30809703 TTTT
1 TTTT
30809707 CTAATTTTTT
Statistics
Matches: 80, Mismatches: 25, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
17 29 0.36
18 46 0.57
19 5 0.06
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTGAAAACATGAAAAA
Found at i:30809690 original size:35 final size:35
Alignment explanation
Indices: 30809577--30809706 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 35
30809567 CACGAGATTT
* *
30809577 TTTTTTGAAAACAC-AAAAATTTTCAAAACATCGAA
1 TTTTTTGAAAACACGAAAAATTTTGAAAA-ATGGAA
** ** * **
30809612 AATTTTGAAAACACGAGGATTTTTGAAACACGGGAA
1 TTTTTTGAAAACACGAAAAATTTTGAAA-AATGGAA
* *
30809648 TTTTTTGAAAACATGAAAAATTTTGAAAATTGGAA
1 TTTTTTGAAAACACGAAAAATTTTGAAAAATGGAA
30809683 TTTTTTGAAAACACGAAAAATTTT
1 TTTTTTGAAAACACGAAAAATTTT
30809707 CTAATTTTTT
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
35 40 0.53
36 34 0.45
37 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTTTTGAAAACACGAAAAATTTTGAAAAATGGAA
Found at i:30809838 original size:21 final size:20
Alignment explanation
Indices: 30809812--30809853 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
30809802 CGTTACTTTA
30809812 TTTTTG-AGAACACGAGAAATT
1 TTTTTGAAG-ACACGA-AAATT
30809833 TTTTTGAAGACACGAAAATT
1 TTTTTGAAGACACGAAAATT
30809853 T
1 T
30809854 CGAAACGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 12 0.60
22 2 0.10
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (20 bp):
TTTTTGAAGACACGAAAATT
Found at i:30810221 original size:11 final size:11
Alignment explanation
Indices: 30810205--30810253 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
30810195 CCAATTGAAA
30810205 TTTTCTTTTCT
1 TTTTCTTTTCT
*
30810216 TTTTC-TCTCT
1 TTTTCTTTTCT
*
30810226 TTTT-TTTCTTT
1 TTTTCTTT-TCT
30810237 TTTTCTTTTCT
1 TTTTCTTTTCT
30810248 TTTTCT
1 TTTTCT
30810254 GCTGGGCTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 9 0.29
11 19 0.61
12 3 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:30810234 original size:19 final size:18
Alignment explanation
Indices: 30810205--30810253 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
30810195 CCAATTGAAA
*
30810205 TTTTCTTTTCTTTTTCTC
1 TTTTTTTTTCTTTTTCTC
*
30810223 TCTTTTTTTTCTTTTTTTC
1 T-TTTTTTTTCTTTTTCTC
30810242 TTTTCTTTTTCT
1 TTTT-TTTTTCT
30810254 GCTGGGCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTC
Found at i:30810444 original size:13 final size:14
Alignment explanation
Indices: 30810395--30810445 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
30810385 GCCTGCCCCC
30810395 TTTTTTTTGCTGCTT-
1 TTTTTTTTGCT--TTA
*
30810410 TTTTTTTTGCTTTG
1 TTTTTTTTGCTTTA
30810424 TTTTTTTT-CTTTA
1 TTTTTTTTGCTTTA
30810437 TTTTTTTTG
1 TTTTTTTTG
30810446 GGCTGCTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
13 14 0.42
14 8 0.24
15 11 0.33
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.80
Consensus pattern (14 bp):
TTTTTTTTGCTTTA
Found at i:30810560 original size:6 final size:6
Alignment explanation
Indices: 30810549--30810640 Score: 69
Period size: 6 Copynumber: 14.5 Consensus size: 6
30810539 TGCTTTATTA
* *
30810549 TTTTTC TTTTTCC TTTTTC TTTTT- TTTCTC TTTTTCTC TTTTTC TTACTTC
1 TTTTTC TTTTT-C TTTTTC TTTTTC TTTTTC -TTTT-TC TTTTTC TT-TTTC
* * * *
30810600 TTCTTTC TTCTTTC TTCTTC TTCTTC TTCTTC TTCTTC TTT
1 TT-TTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
30810641 ACGCCTTGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
5 4 0.05
6 38 0.51
7 30 0.41
8 2 0.03
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:30810573 original size:8 final size:8
Alignment explanation
Indices: 30810549--30810593 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
30810539 TGCTTTATTA
30810549 TTTT-TCT
1 TTTTCTCT
30810556 TTTTC-CT
1 TTTTCTCT
*
30810563 TTTTCTTTT
1 TTTTC-TCT
30810572 TTTTCTCT
1 TTTTCTCT
30810580 TTTTCTCT
1 TTTTCTCT
30810588 TTTTCT
1 TTTTCT
30810594 TACTTCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 11 0.33
8 16 0.48
9 6 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTCT
Found at i:30810581 original size:17 final size:17
Alignment explanation
Indices: 30810555--30810591 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30810545 ATTATTTTTC
30810555 TTTTTCCTTTTTCT-TT
1 TTTTTCCTTTTTCTCTT
30810571 TTTTTCTCTTTTTCTCTT
1 TTTTTC-CTTTTTCTCTT
30810589 TTT
1 TTT
30810592 CTTACTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 8 0.42
18 5 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCCTTTTTCTCTT
Found at i:30810604 original size:3 final size:3
Alignment explanation
Indices: 30810585--30810639 Score: 74
Period size: 3 Copynumber: 17.3 Consensus size: 3
30810575 TCTCTTTTTC
*
30810585 TCT TTT TCT TACT TCT TCTT TCT TCTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT T-CT TCT TC-T TCT TC-T TCT TCT TCT TCT TCT TCT TCT
30810633 TCT TCT T
1 TCT TCT T
30810640 TACGCCTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:30811027 original size:29 final size:28
Alignment explanation
Indices: 30810989--30811103 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
30810979 CAAAATTTTG
* *
30810989 AAAAAGTTTAGGTGTCAAAACGTAATTTC
1 AAAAAGTTTAGG-GTCAAAATGCAATTTC
*
30811018 AAAAAGTTTATGGGTCAAAATGCAATTTT
1 AAAAAGTTTA-GGGTCAAAATGCAATTTC
* *
30811047 ATGAAA-TTTAAGGGTTAAAATGCAATTTC
1 A-AAAAGTTT-AGGGTCAAAATGCAATTTC
* *
30811076 AAAAAGTTTAGGGGTTAAAATGTAATTT
1 AAAAAGTTTA-GGGTCAAAATGCAATTT
30811104 TTTATTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.05
29 63 0.86
30 6 0.08
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (28 bp):
AAAAAGTTTAGGGTCAAAATGCAATTTC
Found at i:30811320 original size:9 final size:9
Alignment explanation
Indices: 30811306--30811342 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30811296 TATACTTTGA
30811306 TATTCGAAT
1 TATTCGAAT
30811315 TATTCGAAT
1 TATTCGAAT
*
30811324 TATTCGAGT
1 TATTCGAAT
*
30811333 TATTCAAAT
1 TATTCGAAT
30811342 T
1 T
30811343 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30813758 original size:21 final size:21
Alignment explanation
Indices: 30813719--30813758 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30813709 AGCCTAAAAA
* *
30813719 CCTATATAAACTATTCTAAAT
1 CCTATACAAACTATACTAAAT
*
30813740 CCTATACAAAGTATACTAA
1 CCTATACAAACTATACTAA
30813759 CACATGTACC
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:0.20, G:0.03, T:0.33
Consensus pattern (21 bp):
CCTATACAAACTATACTAAAT
Found at i:30815841 original size:25 final size:25
Alignment explanation
Indices: 30815813--30815864 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
30815803 AAAATTGGTA
30815813 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
30815838 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
30815863 AG
1 AG
30815865 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:30820049 original size:14 final size:14
Alignment explanation
Indices: 30820030--30820057 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30820020 ACAATTTATT
30820030 AATATATATTAATA
1 AATATATATTAATA
30820044 AATATATATTAATA
1 AATATATATTAATA
30820058 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:30820181 original size:20 final size:20
Alignment explanation
Indices: 30820156--30820195 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30820146 AATATTTTCC
*
30820156 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30820176 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
30820196 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30820197 original size:34 final size:35
Alignment explanation
Indices: 30820144--30820210 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30820134 CAAACACCAG
*
30820144 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
30820179 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30820211 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30820202 original size:14 final size:14
Alignment explanation
Indices: 30820179--30820218 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30820169 ACAGAAAAGT
*
30820179 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
30820193 AAATCATTTTACGG
1 AAAACATTTTACAG
30820207 AAAACATTTTAC
1 AAAACATTTTAC
30820219 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:30821162 original size:21 final size:21
Alignment explanation
Indices: 30821119--30821163 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30821109 AAAATATTTA
*
30821119 TTTTAAAAATAATAATTAAAT
1 TTTTAAAAATAATAATAAAAT
*
30821140 TTTTGAAAATAATAA-AAATAT
1 TTTTAAAAATAATAATAAA-AT
30821161 TTT
1 TTT
30821164 AATCTGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTAAAAATAATAATAAAAT
Found at i:30829646 original size:3 final size:3
Alignment explanation
Indices: 30829638--30829666 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30829628 TAGTACTAAT
30829638 AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
30829667 TATAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:30831062 original size:31 final size:31
Alignment explanation
Indices: 30831025--30831085 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
30831015 TTTGATTATT
*
30831025 GAACTATTTGAAAGTTTTCATTTAACTTACC
1 GAACTATTTAAAAGTTTTCATTTAACTTACC
* *
30831056 GAACTATTTAAAAGTTTTTATTTAAGTTAC
1 GAACTATTTAAAAGTTTTCATTTAACTTAC
30831086 TAAGTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
GAACTATTTAAAAGTTTTCATTTAACTTACC
Found at i:30831838 original size:102 final size:102
Alignment explanation
Indices: 30831662--30831858 Score: 376
Period size: 102 Copynumber: 1.9 Consensus size: 102
30831652 GAAGATGATA
30831662 AGAATGAAATAGGTACTGAAAATACTGCATTTGTGCATGGGAAACCACCTCAAGATGCTGCTGGA
1 AGAATGAAATAGGTACTGAAAATACTGCATTTGTGCATGGGAAACCACCTCAAGATGCTGCTGGA
30831727 CCTCCGAAAGTTGAATCTGATATGGAAATTGTTGAGG
66 CCTCCGAAAGTTGAATCTGATATGGAAATTGTTGAGG
* *
30831764 AGAATGAAATAGTTACTGAAAATACTGCATTTGTGCATGGGGAACCACCTCAAGATGCTGCTGGA
1 AGAATGAAATAGGTACTGAAAATACTGCATTTGTGCATGGGAAACCACCTCAAGATGCTGCTGGA
30831829 CCTCCGAAAGTTGAATCTGATATGGAAATT
66 CCTCCGAAAGTTGAATCTGATATGGAAATT
30831859 CTTCATGAAG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (102 bp):
AGAATGAAATAGGTACTGAAAATACTGCATTTGTGCATGGGAAACCACCTCAAGATGCTGCTGGA
CCTCCGAAAGTTGAATCTGATATGGAAATTGTTGAGG
Found at i:30835180 original size:30 final size:31
Alignment explanation
Indices: 30835146--30835206 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
30835136 TTTAAATTTG
* **
30835146 TTTGAAAAGTATA-GGGTTAAAATTGATCAA
1 TTTGAAAAGTATATAGACTAAAATTGATCAA
30835176 TTTGAAAAGTATATAGACTAAAATTGATCAA
1 TTTGAAAAGTATATAGACTAAAATTGATCAA
30835207 ATAAAAGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (31 bp):
TTTGAAAAGTATATAGACTAAAATTGATCAA
Found at i:30843688 original size:18 final size:17
Alignment explanation
Indices: 30843647--30843688 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
30843637 ACTCACCTTT
30843647 AAAAAAAGTAAAGTTGA
1 AAAAAAAGTAAAGTTGA
30843664 AAGAAAAAGTGAAATGTT-A
1 AA-AAAAAGT-AAA-GTTGA
30843683 AAAAAA
1 AAAAAA
30843689 CCCCCTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 11 0.50
19 6 0.27
20 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAAAAAGTAAAGTTGA
Found at i:30845716 original size:3 final size:3
Alignment explanation
Indices: 30845710--30845912 Score: 406
Period size: 3 Copynumber: 67.7 Consensus size: 3
30845700 TATCTTCTTC
30845710 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
30845758 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
30845806 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
30845854 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
30845902 TAA TAA TAA TA
1 TAA TAA TAA TA
30845913 TTAGAGCACA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 200 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30846058 original size:3 final size:3
Alignment explanation
Indices: 30846050--30846081 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30846040 TCGAATGCCC
30846050 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30846082 TTAGAGCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30846081 original size:169 final size:169
Alignment explanation
Indices: 30845881--30846219 Score: 678
Period size: 169 Copynumber: 2.0 Consensus size: 169
30845871 ATAATAATAA
30845881 TAATAATAATAATAATAATAATAATAATAATATTAGAGCACACATCTTGAAAGCACCGCATACCC
1 TAATAATAATAATAATAATAATAATAATAATATTAGAGCACACATCTTGAAAGCACCGCATACCC
30845946 CAATACAACAATCAATCCCAACAAACCTATAACCTGATTCAGGATAGAGAAGTACCGTGACTACT
66 CAATACAACAATCAATCCCAACAAACCTATAACCTGATTCAGGATAGAGAAGTACCGTGACTACT
30846011 AGAAGACACCCCATGGGACCAGTCACAGCTCGAATGCCC
131 AGAAGACACCCCATGGGACCAGTCACAGCTCGAATGCCC
30846050 TAATAATAATAATAATAATAATAATAATAATATTAGAGCACACATCTTGAAAGCACCGCATACCC
1 TAATAATAATAATAATAATAATAATAATAATATTAGAGCACACATCTTGAAAGCACCGCATACCC
30846115 CAATACAACAATCAATCCCAACAAACCTATAACCTGATTCAGGATAGAGAAGTACCGTGACTACT
66 CAATACAACAATCAATCCCAACAAACCTATAACCTGATTCAGGATAGAGAAGTACCGTGACTACT
30846180 AGAAGACACCCCATGGGACCAGTCACAGCTCGAATGCCC
131 AGAAGACACCCCATGGGACCAGTCACAGCTCGAATGCCC
30846219 T
1 T
30846220 GATGAAATAA
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 170 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (169 bp):
TAATAATAATAATAATAATAATAATAATAATATTAGAGCACACATCTTGAAAGCACCGCATACCC
CAATACAACAATCAATCCCAACAAACCTATAACCTGATTCAGGATAGAGAAGTACCGTGACTACT
AGAAGACACCCCATGGGACCAGTCACAGCTCGAATGCCC
Found at i:30848481 original size:14 final size:14
Alignment explanation
Indices: 30848452--30848484 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30848442 CCTAAAATTT
30848452 TTTAATTTTTATAA
1 TTTAATTTTTATAA
30848466 TTTACATTTTTA-AA
1 TTTA-ATTTTTATAA
30848480 TTTAA
1 TTTAA
30848485 AAGTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 10 0.56
15 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:30851164 original size:29 final size:30
Alignment explanation
Indices: 30851130--30851188 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
30851120 TTTAATCAAA
30851130 TGTGCAAAGTCATACATG-AATTTTGATTT
1 TGTGCAAAGTCATACATGAAATTTTGATTT
** *
30851159 TGTGCAATTTGATACATGAAATTTTGATTT
1 TGTGCAAAGTCATACATGAAATTTTGATTT
30851189 GGTTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (30 bp):
TGTGCAAAGTCATACATGAAATTTTGATTT
Found at i:30853045 original size:2 final size:2
Alignment explanation
Indices: 30853038--30853068 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30853028 TCTCTATCTT
30853038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30853069 TTGTATATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30860310 original size:126 final size:127
Alignment explanation
Indices: 30860162--30860414 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 127
30860152 AATTTAATTG
30860162 GTATAATAACAAATTTAACCTTCAAAATCTATAAATGATGCGGTCTATTTTATATATATATATAT
1 GTATAATAACAAATTTAACCTTCAAAATCTATAAATGATGCGGTCTATTTTATATATATATATAT
30860227 ATATATTTGAAGATAAAGTTTTTTTAATATATATTCTTTTTGAATTTTTTTTATATTTAAGA
66 ATATATTTGAAGATAAAGTTTTTTTAATATATATTCTTTTTGAATTTTTTTTATATTTAAGA
30860289 GTATAATAAC-AATTTAACCTTCAAAATCTATAAATGATGCGGTCTATTTTATATATATATATAT
1 GTATAATAACAAATTTAACCTTCAAAATCTATAAATGATGCGGTCTATTTTATATATATATATAT
30860353 ATATATTTGAAGATAAAGTTTTTTTAATATATATTCTTTTTGAATTTTTTTTATATTTAAGA
66 ATATATTTGAAGATAAAGTTTTTTTAATATATATTCTTTTTGAATTTTTTTTATATTTAAGA
30860415 AAAGTATAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 116 0.92
127 10 0.08
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (127 bp):
GTATAATAACAAATTTAACCTTCAAAATCTATAAATGATGCGGTCTATTTTATATATATATATAT
ATATATTTGAAGATAAAGTTTTTTTAATATATATTCTTTTTGAATTTTTTTTATATTTAAGA
Found at i:30867906 original size:46 final size:46
Alignment explanation
Indices: 30867846--30868030 Score: 208
Period size: 46 Copynumber: 4.0 Consensus size: 46
30867836 AGTTTTTCCC
* * *
30867846 AGGTTCCGAACTCCTACATATGTTGCGGACTCGAGAATACATGAAT
1 AGGTTTCGAGCTCCTACATATGTTGCGGACTCGAGAATACAGGAAT
* * *
30867892 AGGTTTCGAGCTCCTATATATGTTGTGGATTCGAGAATACAGGAAT
1 AGGTTTCGAGCTCCTACATATGTTGCGGACTCGAGAATACAGGAAT
* * * * **
30867938 AGGTTTCGAGCTTCTGCATATGTTGCAGACTTGAGAATACAGGTTT
1 AGGTTTCGAGCTCCTACATATGTTGCGGACTCGAGAATACAGGAAT
* * * * * *
30867984 AGGTTTTGAGCTCCTGCATATGTTGTGGGCTTGAGAATACATGAAT
1 AGGTTTCGAGCTCCTACATATGTTGCGGACTCGAGAATACAGGAAT
30868030 A
1 A
30868031 TTAAGCCCTG
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (46 bp):
AGGTTTCGAGCTCCTACATATGTTGCGGACTCGAGAATACAGGAAT
Found at i:30867975 original size:92 final size:92
Alignment explanation
Indices: 30867862--30868030 Score: 232
Period size: 92 Copynumber: 1.8 Consensus size: 92
30867852 CGAACTCCTA
* * *
30867862 CATATGTTGCGGACTCGAGAATACATGAATAGGTTTCGAGCTCCTATATATGTTGT-GGATTCGA
1 CATATGTTGCAGACTCGAGAATACAGGAATAGGTTTCGAGCTCCTACATATGTTGTGGGATT-GA
30867926 GAATACAGGAATAGGTTTCGAGCTTCTG
65 GAATACAGGAATAGGTTTCGAGCTTCTG
* ** * * *
30867954 CATATGTTGCAGACTTGAGAATACAGGTTTAGGTTTTGAGCTCCTGCATATGTTGTGGGCTTGAG
1 CATATGTTGCAGACTCGAGAATACAGGAATAGGTTTCGAGCTCCTACATATGTTGTGGGATTGAG
*
30868019 AATACATGAATA
66 AATACAGGAATA
30868031 TTAAGCCCTG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
92 62 0.94
93 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (92 bp):
CATATGTTGCAGACTCGAGAATACAGGAATAGGTTTCGAGCTCCTACATATGTTGTGGGATTGAG
AATACAGGAATAGGTTTCGAGCTTCTG
Found at i:30871014 original size:13 final size:13
Alignment explanation
Indices: 30870998--30871033 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30870988 CAATGCTTTT
30870998 GAAAAGTGCTGCG
1 GAAAAGTGCTGCG
* *
30871011 GAAAAGTGTTGTG
1 GAAAAGTGCTGCG
30871024 GAAAAGTGCT
1 GAAAAGTGCT
30871034 TTTGAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.36, T:0.22
Consensus pattern (13 bp):
GAAAAGTGCTGCG
Found at i:30871943 original size:16 final size:16
Alignment explanation
Indices: 30871924--30871954 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30871914 CCCTTTCTTT
*
30871924 TTCTTTTTTTTTTCCA
1 TTCTATTTTTTTTCCA
30871940 TTCTATTTTTTTTCC
1 TTCTATTTTTTTTCC
30871955 TCTTTCGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTATTTTTTTTCCA
Found at i:30872137 original size:27 final size:27
Alignment explanation
Indices: 30872099--30872153 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30872089 ACTTTGTGAG
30872099 ATTGAATGCTACTATTAACGGTTCCAA
1 ATTGAATGCTACTATTAACGGTTCCAA
30872126 ATTGAATGCTACTATTAACGGTTCCAA
1 ATTGAATGCTACTATTAACGGTTCCAA
30872153 A
1 A
30872154 CTCTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (27 bp):
ATTGAATGCTACTATTAACGGTTCCAA
Found at i:30872869 original size:25 final size:24
Alignment explanation
Indices: 30872841--30872900 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
30872831 ATAAAAAAAT
* *
30872841 TAAAATATATTCTTTAAAATTTTTA
1 TAAAATATAAT-TTTAAAAATTTTA
*
30872866 TAAATTTATAATTTTAAAAATTTTA
1 TAAA-ATATAATTTTAAAAATTTTA
30872891 -AAAA-ATAATT
1 TAAAATATAATT
30872901 AATTGCTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 6 0.20
24 3 0.10
25 16 0.53
26 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATATAATTTTAAAAATTTTA
Found at i:30873693 original size:2 final size:2
Alignment explanation
Indices: 30873686--30873712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30873676 ATCAACCCCC
30873686 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30873713 AAGTACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30874165 original size:18 final size:19
Alignment explanation
Indices: 30874125--30874176 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
30874115 TTATTTATAT
*
30874125 ATTATTTTAGAATTTTTATAA
1 ATTATTTT-GAA-TTTTAAAA
*
30874146 A-TATTTTTAATTTTAAAA
1 ATTATTTTGAATTTTAAAA
30874164 ATTATTTTGAATT
1 ATTATTTTGAATT
30874177 ATTTTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 12 0.44
20 6 0.22
21 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTATTTTGAATTTTAAAA
Found at i:30880204 original size:7 final size:7
Alignment explanation
Indices: 30880194--30880220 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30880184 AAATAAAAAT
30880194 TGAATAG
1 TGAATAG
30880201 TGAATAG
1 TGAATAG
30880208 TGAATAG
1 TGAATAG
30880215 TGAATA
1 TGAATA
30880221 ATTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
TGAATAG
Found at i:30880511 original size:11 final size:11
Alignment explanation
Indices: 30880492--30880540 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 11
30880482 AATTAAAATT
30880492 TTAATAAATTAA
1 TTAA-AAATTAA
30880504 TTAAAAATTAA
1 TTAAAAATTAA
30880515 TTATTTTAAAATTAA
1 TTA----AAAATTAA
30880530 TTAAAAATTAA
1 TTAAAAATTAA
30880541 ATACTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 18 0.55
12 4 0.12
15 11 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAAATTAA
Found at i:30880530 original size:26 final size:25
Alignment explanation
Indices: 30880497--30880553 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
30880487 AAATTTTAAT
* *
30880497 AAATTAATTAAAAATTAATTATTTTA
1 AAATTAATTAAAAATTAAATA-CTTA
30880523 AAATTAATTAAAAATTAAATACTTA
1 AAATTAATTAAAAATTAAATACTTA
30880548 AAATTA
1 AAATTA
30880554 CATGCAACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATTAATTAAAAATTAAATACTTA
Found at i:30881696 original size:146 final size:146
Alignment explanation
Indices: 30881432--30881716 Score: 570
Period size: 146 Copynumber: 2.0 Consensus size: 146
30881422 CCATAGTCTA
30881432 TTTCTCTTGTAATGAATTCAAATTCGACATAGTAAATTTTCTTCTCCTCTGCCCGTGGTTTTTTC
1 TTTCTCTTGTAATGAATTCAAATTCGACATAGTAAATTTTCTTCTCCTCTGCCCGTGGTTTTTTC
30881497 CCGAAAGGATTTCCACGTAAAATCTCTGTGTTCTTTATTTTTCTATTTCTAATTTCTTTGCGATA
66 CCGAAAGGATTTCCACGTAAAATCTCTGTGTTCTTTATTTTTCTATTTCTAATTTCTTTGCGATA
30881562 TATTGTCATAGTGAAT
131 TATTGTCATAGTGAAT
30881578 TTTCTCTTGTAATGAATTCAAATTCGACATAGTAAATTTTCTTCTCCTCTGCCCGTGGTTTTTTC
1 TTTCTCTTGTAATGAATTCAAATTCGACATAGTAAATTTTCTTCTCCTCTGCCCGTGGTTTTTTC
30881643 CCGAAAGGATTTCCACGTAAAATCTCTGTGTTCTTTATTTTTCTATTTCTAATTTCTTTGCGATA
66 CCGAAAGGATTTCCACGTAAAATCTCTGTGTTCTTTATTTTTCTATTTCTAATTTCTTTGCGATA
30881708 TATTGTCAT
131 TATTGTCAT
30881717 TATCGATATT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 139 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (146 bp):
TTTCTCTTGTAATGAATTCAAATTCGACATAGTAAATTTTCTTCTCCTCTGCCCGTGGTTTTTTC
CCGAAAGGATTTCCACGTAAAATCTCTGTGTTCTTTATTTTTCTATTTCTAATTTCTTTGCGATA
TATTGTCATAGTGAAT
Found at i:30887383 original size:58 final size:58
Alignment explanation
Indices: 30887316--30887433 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
30887306 ATATAAGTTA
30887316 TTTTTTTAATTAGGGAACCAAATCTCAAGCTATGATATTTAATGATGTATGGGCCTAT
1 TTTTTTTAATTAGGGAACCAAATCTCAAGCTATGATATTTAATGATGTATGGGCCTAT
*
30887374 TTTTTTTAATTAGGGAACCAAATCTCAGGCTATGATATTTAATGATGTATGGGCCTAT
1 TTTTTTTAATTAGGGAACCAAATCTCAAGCTATGATATTTAATGATGTATGGGCCTAT
30887432 TT
1 TT
30887434 GGTTGTGAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (58 bp):
TTTTTTTAATTAGGGAACCAAATCTCAAGCTATGATATTTAATGATGTATGGGCCTAT
Found at i:30887713 original size:17 final size:18
Alignment explanation
Indices: 30887687--30887725 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
30887677 TTTGGTTAAA
30887687 AATTAACCGAATT-ACTG
1 AATTAACCGAATTAACTG
*
30887704 AATTACCCGAATTAACTG
1 AATTAACCGAATTAACTG
30887722 AATT
1 AATT
30887726 GAATCACTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:30892036 original size:42 final size:43
Alignment explanation
Indices: 30891989--30892097 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 43
30891979 TTTCGAGGTG
* *
30891989 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
*
30892031 TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
* ** * *
30892074 TTATAACATGTAACACCATATCTG
1 TGATTTCATGTAAGACCATGTCTG
30892098 AGATATGGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 35 0.61
43 22 0.39
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
Found at i:30892722 original size:48 final size:48
Alignment explanation
Indices: 30892651--30892808 Score: 244
Period size: 48 Copynumber: 3.3 Consensus size: 48
30892641 AATGATAAGA
* * *
30892651 TGCTGTCCATTTTTTAGCATATTAATGCTGTCCAAATTGATGGTTAAT
1 TGCTGTCCATTTTTGAGTATATTAATGCTGTCCAAATTGATGCTTAAT
*
30892699 TGCTGTCTATTTTTGAGTATATTAATGCTGTCCAAATTGATGCTTAAT
1 TGCTGTCCATTTTTGAGTATATTAATGCTGTCCAAATTGATGCTTAAT
* * * *
30892747 TGCTGCCCATTTTTGAGTATATTAATGTTGTCCAAATTGGTGCTTAAA
1 TGCTGTCCATTTTTGAGTATATTAATGCTGTCCAAATTGATGCTTAAT
30892795 TGCTGTCCATTTTT
1 TGCTGTCCATTTTT
30892809 TGTACAAATC
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (48 bp):
TGCTGTCCATTTTTGAGTATATTAATGCTGTCCAAATTGATGCTTAAT
Found at i:30892772 original size:26 final size:26
Alignment explanation
Indices: 30892651--30892780 Score: 80
Period size: 25 Copynumber: 5.3 Consensus size: 26
30892641 AATGATAAGA
* *
30892651 TGCTGTCCATTTTTTAGCATATTAA-
1 TGCTGTCCATTTTTGAGTATATTAAT
** **
30892676 TGCTGTCCA-AATTGA-T-GGTTAAT
1 TGCTGTCCATTTTTGAGTATATTAAT
*
30892699 TGCTGTCTATTTTTGAGTATATTAA-
1 TGCTGTCCATTTTTGAGTATATTAAT
** **
30892724 TGCTGTCCA-AATTGA-T-GCTTAAT
1 TGCTGTCCATTTTTGAGTATATTAAT
*
30892747 TGCTGCCCATTTTTGAGTATATTAA-
1 TGCTGTCCATTTTTGAGTATATTAAT
*
30892772 TGTTGTCCA
1 TGCTGTCCA
30892781 AATTGGTGCT
Statistics
Matches: 74, Mismatches: 23, Indels: 16
0.65 0.20 0.14
Matches are distributed among these distances:
22 8 0.11
23 17 0.23
24 15 0.20
25 26 0.35
26 8 0.11
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.45
Consensus pattern (26 bp):
TGCTGTCCATTTTTGAGTATATTAAT
Found at i:30895563 original size:21 final size:21
Alignment explanation
Indices: 30895548--30895593 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
30895538 AATAATTACT
30895548 TATATAAATTAAATAAATTAAAA
1 TATAT-AATTAAAT-AATTAAAA
30895571 TATATAATTAAATAATTAAAA
1 TATATAATTAAATAATTAAAA
30895592 TA
1 TA
30895594 ATTAAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
22 8 0.35
23 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATATAATTAAATAATTAAAA
Found at i:30907119 original size:27 final size:27
Alignment explanation
Indices: 30907086--30907171 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
30907076 TATATAGTTC
30907086 TTCTATAATTTTATAATTTTTTTATTT
1 TTCTATAATTTTATAATTTTTTTATTT
* * *
30907113 TTCTATAATTTTTACCAATTTTTTGA-AT
1 TTCTATAA-TTTTA-TAATTTTTTTATTT
30907141 TTCTATCATATTTT-TAATATTTTTTATTT
1 TTCTAT-A-ATTTTATAAT-TTTTTTATTT
30907170 TT
1 TT
30907172 AAGAATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
27 11 0.23
28 18 0.38
29 17 0.36
30 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (27 bp):
TTCTATAATTTTATAATTTTTTTATTT
Found at i:30908831 original size:14 final size:15
Alignment explanation
Indices: 30908809--30908885 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30908799 CAATCAAACA
30908809 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
30908823 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
30908838 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
30908858 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
30908872 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
30908886 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:30908850 original size:20 final size:20
Alignment explanation
Indices: 30908825--30908864 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30908815 AATATTTTCC
*
30908825 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30908845 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30908865 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30908870 original size:34 final size:35
Alignment explanation
Indices: 30908813--30908879 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30908803 CAAACACCAG
*
30908813 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30908848 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30908880 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30912721 original size:19 final size:19
Alignment explanation
Indices: 30912697--30912735 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30912687 AGCTGGACTT
30912697 ATGCATTCCTCTGCACTGA
1 ATGCATTCCTCTGCACTGA
30912716 ATGCATTCCTCTGCACTGA
1 ATGCATTCCTCTGCACTGA
30912735 A
1 A
30912736 CTTGTCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGCATTCCTCTGCACTGA
Found at i:30919209 original size:2 final size:2
Alignment explanation
Indices: 30919202--30919236 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30919192 AGGACTCATA
30919202 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
30919237 TGCCTAAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:30922766 original size:29 final size:30
Alignment explanation
Indices: 30922688--30922766 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
30922678 CTTTTTTTCT
*
30922688 TCAAAATTATTTCTTCAGAA-CTCATCTCG
1 TCAAAATTATTTTTTCAGAACCTCATCTCG
* * *
30922717 -AAAAATTATTTTTTCAAAACCT-ATCTTG
1 TCAAAATTATTTTTTCAGAACCTCATCTCG
*
30922745 TCAAAATTATTTTTTTAGAACC
1 TCAAAATTATTTTTTCAGAACC
30922767 CCTAAACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (30 bp):
TCAAAATTATTTTTTCAGAACCTCATCTCG
Found at i:30923747 original size:22 final size:24
Alignment explanation
Indices: 30923709--30923754 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
30923699 ATATGTAAGT
*
30923709 AATATGTTTAAATGATATTTTTAA
1 AATATGTTTAAATGATATTATTAA
30923733 AATAT-TTT-AATGATATTATTAA
1 AATATGTTTAAATGATATTATTAA
30923755 TATCTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (24 bp):
AATATGTTTAAATGATATTATTAA
Found at i:30924565 original size:16 final size:17
Alignment explanation
Indices: 30924495--30924571 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 17
30924485 TCAGTATATG
*
30924495 GCTCGCACACAACATAGA
1 GCTCGCACAC-ATATAGA
*
30924513 GCTCGCACATGTATATAG-
1 GCTCGCACA--CATATAGA
* *
30924531 GCTCGCATA-ATACAGA
1 GCTCGCACACATATAGA
30924547 GCTCGCACACATATA-A
1 GCTCGCACACATATAGA
*
30924563 GCTCACACA
1 GCTCGCACA
30924572 ATTGTAAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.10
16 17 0.35
17 4 0.08
18 17 0.35
19 5 0.10
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (17 bp):
GCTCGCACACATATAGA
Found at i:30932583 original size:6 final size:7
Alignment explanation
Indices: 30932568--30932593 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30932558 TTTAAAAATA
30932568 TTTTATT
1 TTTTATT
30932575 TTTTATT
1 TTTTATT
30932582 TTTTATT
1 TTTTATT
30932589 TTTTA
1 TTTTA
30932594 CTTTGAATTT
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:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:30938854 original size:19 final size:19
Alignment explanation
Indices: 30938830--30938868 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30938820 GGATAAAAGA
30938830 TAGATTTTAGGTTCATGCT
1 TAGATTTTAGGTTCATGCT
30938849 TAGATTTTAGGTTCATGCT
1 TAGATTTTAGGTTCATGCT
30938868 T
1 T
30938869 CGCATGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (19 bp):
TAGATTTTAGGTTCATGCT
Found at i:30942049 original size:22 final size:22
Alignment explanation
Indices: 30942024--30942068 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30942014 GATTTTGAAA
30942024 TGTGCATGAATTCTTGAAGACC
1 TGTGCATGAATTCTTGAAGACC
30942046 TGTGCATGAATTCTTGAAGACC
1 TGTGCATGAATTCTTGAAGACC
30942068 T
1 T
30942069 TACTCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (22 bp):
TGTGCATGAATTCTTGAAGACC
Found at i:30948402 original size:1 final size:1
Alignment explanation
Indices: 30948396--30948420 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
30948386 AAGGATACCC
30948396 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
30948421 CAGAAACGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:30949280 original size:21 final size:23
Alignment explanation
Indices: 30949247--30949288 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
30949237 TCTCGATTAG
*
30949247 AATACAACTTCTTCA-TCAATCA
1 AATACAACCTCTTCATTCAATCA
30949269 AATA-AACCTCTTCATTCAAT
1 AATACAACCTCTTCATTCAAT
30949289 TTTGTGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (23 bp):
AATACAACCTCTTCATTCAATCA
Found at i:30951629 original size:26 final size:26
Alignment explanation
Indices: 30951599--30951650 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30951589 AGAAAGACTA
30951599 AGAGAAAACCTAGAGAAAACTAAGGC
1 AGAGAAAACCTAGAGAAAACTAAGGC
30951625 AGAGAAAACCTAGAGAAAACTAAGGC
1 AGAGAAAACCTAGAGAAAACTAAGGC
30951651 TAAAACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.23, T:0.08
Consensus pattern (26 bp):
AGAGAAAACCTAGAGAAAACTAAGGC
Done.