Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 33 of 362
Found at i:9661358 original size:15 final size:15
Alignment explanation
Indices: 9661320--9661354 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9661310 ATTATTTTAA
*
9661320 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
9661335 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
9661349 GGTTTA
1 GGTTTA
9661355 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:9661427 original size:7 final size:7
Alignment explanation
Indices: 9661373--9661480 Score: 67
Period size: 7 Copynumber: 15.1 Consensus size: 7
9661363 TTAATGGTTG
9661373 GGGTTTA
1 GGGTTTA
*
9661380 AGGTTTA
1 GGGTTTA
9661387 -GGTGTTA
1 GGGT-TTA
*
9661394 GGGGTTAA
1 -GGGTTTA
9661402 GGG-TTA
1 GGGTTTA
*
9661408 GGGGTTCA
1 -GGGTTTA
*
9661416 TGGTTTA
1 GGGTTTA
9661423 GGGTTTA
1 GGGTTTA
* *
9661430 TGTTTTA
1 GGGTTTA
*
9661437 GGATTTA
1 GGGTTTA
* *
9661444 TGATTTA
1 GGGTTTA
9661451 GGGTTTA
1 GGGTTTA
* *
9661458 GAGATTA
1 GGGTTTA
9661465 GGAGTTTA
1 GG-GTTTA
9661473 GGGTTTA
1 GGGTTTA
9661480 G
1 G
9661481 ATTAATTAGC
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
6 5 0.06
7 59 0.77
8 10 0.13
9 3 0.04
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:9661709 original size:7 final size:7
Alignment explanation
Indices: 9661699--9661739 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
9661689 GTTTTAAGAT
9661699 TTTAGGG
1 TTTAGGG
*
9661706 TTTAGAG
1 TTTAGGG
9661713 TTTAGGG
1 TTTAGGG
*
9661720 ATTAGTGG
1 TTTAG-GG
9661728 TTTAGGG
1 TTTAGGG
9661735 TTTAG
1 TTTAG
9661740 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:9661709 original size:15 final size:14
Alignment explanation
Indices: 9661699--9661740 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9661689 GTTTTAAGAT
9661699 TTTAGGGTTTAGAG
1 TTTAGGGTTTAGAG
* *
9661713 TTTAGGGATTAGTGG
1 TTTAGGGTTTAG-AG
9661728 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
9661741 TTAATTAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:9662036 original size:20 final size:19
Alignment explanation
Indices: 9662007--9662044 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
9661997 TATTAGATTT
9662007 TAAAAAAAACATTGATAAA
1 TAAAAAAAACATTGATAAA
9662026 TAAATAAAAACATTGATAA
1 TAAA-AAAAACATTGATAA
9662045 CAATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAAAAAAACATTGATAAA
Found at i:9662052 original size:19 final size:20
Alignment explanation
Indices: 9662011--9662054 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9662001 AGATTTTAAA
*
9662011 AAAAACATTGATAAATAAAT
1 AAAAACATTGATAAACAAAT
*
9662031 AAAAACATTGAT-AACAATT
1 AAAAACATTGATAAACAAAT
9662050 AAAAA
1 AAAAA
9662055 TGAAATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAACATTGATAAACAAAT
Found at i:9662071 original size:19 final size:19
Alignment explanation
Indices: 9662049--9662085 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9662039 TGATAACAAT
9662049 TAAAAATGAAATACAAAAA
1 TAAAAATGAAATACAAAAA
*
9662068 TAAAAATGAAATATAAAA
1 TAAAAATGAAATACAAAA
9662086 TGGAGATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
TAAAAATGAAATACAAAAA
Found at i:9666019 original size:40 final size:40
Alignment explanation
Indices: 9665972--9666116 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
9665962 CTCGCACAAG
* * * * *
9665972 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
9666012 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
9666052 GCCTT-TGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
9666093 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
9666117 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:9674043 original size:39 final size:40
Alignment explanation
Indices: 9673998--9674165 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
9673988 CGGGGTTTAG
* * *
9673998 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
9674037 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
9674077 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
9674117 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
9674158 CCGGATAT
1 CCGGATAT
9674166 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:9674148 original size:41 final size:40
Alignment explanation
Indices: 9674021--9674165 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
9674011 CTCGCACAAG
* * * * *
9674021 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
9674061 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
9674101 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
9674142 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
9674166 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:9676279 original size:23 final size:23
Alignment explanation
Indices: 9676253--9676299 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9676243 TTGGTTGATA
9676253 TAATTTTCAGGTAGTTGTTTCTT
1 TAATTTTCAGGTAGTTGTTTCTT
*
9676276 TAATTTTCAGTTAGTTGTTTCTT
1 TAATTTTCAGGTAGTTGTTTCTT
9676299 T
1 T
9676300 TCTTCCTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.60
Consensus pattern (23 bp):
TAATTTTCAGGTAGTTGTTTCTT
Found at i:9679840 original size:43 final size:43
Alignment explanation
Indices: 9679727--9679906 Score: 238
Period size: 43 Copynumber: 4.2 Consensus size: 43
9679717 GGTCTTGTTC
* * * *
9679727 TTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAGGTCA-GCTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
* * *
9679769 TATAGCGGCGTTTGTGGGGAAAGTGCCGCTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
* *
9679812 TTTAGCAGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
* *
9679855 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCAT-GTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
9679897 CTTTAGCGGC
1 -TTTAGCGGC
9679907 TTTTTTTATA
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.29
43 85 0.71
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
Found at i:9684044 original size:138 final size:138
Alignment explanation
Indices: 9683882--9684153 Score: 456
Period size: 138 Copynumber: 2.0 Consensus size: 138
9683872 TTTTAAAATT
9683882 TTAAATAAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATAAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
9683947 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
9684011 ATCCAGACG
130 ATCCAGACG
* * *
9684020 TTAAATCAAATAAGTTGCATAATAACATCACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATAAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
9684085 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
9684150 TCCA
131 TCCA
9684154 TACATTATTA
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 1 0.01
138 124 0.99
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATAAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAGACG
Found at i:9685782 original size:7 final size:7
Alignment explanation
Indices: 9685772--9685796 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9685762 ATATGAACTA
9685772 AAATATT
1 AAATATT
9685779 AAATATT
1 AAATATT
9685786 AAATATT
1 AAATATT
9685793 AAAT
1 AAAT
9685797 TTTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:9685814 original size:14 final size:14
Alignment explanation
Indices: 9685795--9685831 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9685785 TAAATATTAA
9685795 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
9685810 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
9685824 ATTTTTAA
1 ATTTTTAA
9685832 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:9685830 original size:6 final size:7
Alignment explanation
Indices: 9685804--9685829 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9685794 AATTTTTAAG
9685804 TTTTTTA
1 TTTTTTA
9685811 TTTTTTA
1 TTTTTTA
9685818 TTTTTTA
1 TTTTTTA
9685825 TTTTT
1 TTTTT
9685830 AAAATTTTAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:9686279 original size:15 final size:15
Alignment explanation
Indices: 9686255--9686296 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
9686245 CACTAACTAA
9686255 TCTAAACCCTAAACT
1 TCTAAACCCTAAACT
* *
9686270 TCTAATCCCTAAACC
1 TCTAAACCCTAAACT
*
9686285 T-TAAACCTTAAA
1 TCTAAACCCTAAA
9686297 ACATAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTAAACCCTAAACT
Found at i:9686327 original size:7 final size:7
Alignment explanation
Indices: 9686316--9686359 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
9686306 CTGAACCATG
9686316 AACCCCT
1 AACCCCT
* *
9686323 CACCCTT
1 AACCCCT
9686330 AACCCCT
1 AACCCCT
9686337 AACCCCT
1 AACCCCT
9686344 AACCCCT
1 AACCCCT
*
9686351 AACACCT
1 AACCCCT
9686358 AA
1 AA
9686360 ATCTTAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:9686644 original size:41 final size:40
Alignment explanation
Indices: 9686567--9686653 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
9686557 TCAAATACAT
9686567 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATA
* * * **
9686608 TTAAAACAATTATTAAAACAATAGACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
9686648 ATAAAA
1 TTAAAA
9686654 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.20
41 32 0.80
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:9687140 original size:41 final size:41
Alignment explanation
Indices: 9686879--9687139 Score: 357
Period size: 41 Copynumber: 6.4 Consensus size: 41
9686869 TTATATGACT
* * *
9686879 TTTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
9686920 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTTATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
9686961 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
9687002 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
9687043 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCCAATGCTCT-A
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*** *
9687083 TTTTTAGCGGCGTTTTTTGTTAAAA-CGCCGCTATTGCTCT-G
1 TTTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGG
*
9687124 TTTTTAGCGGCATTTT
1 TTTTTAGCGGCGTTTT
9687140 TGGTAAAACG
Statistics
Matches: 199, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 4 0.02
40 11 0.06
41 176 0.88
42 8 0.04
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:9687159 original size:12 final size:12
Alignment explanation
Indices: 9687144--9687169 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9687134 CATTTTTGGT
9687144 AAAACGCCGCTA
1 AAAACGCCGCTA
9687156 AAAACGCCGCTA
1 AAAACGCCGCTA
9687168 AA
1 AA
9687170 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:9691419 original size:10 final size:10
Alignment explanation
Indices: 9691387--9691467 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
9691377 TTAAATTCTA
9691387 AAAGATAAAT
1 AAAGATAAAT
*
9691397 ACAA-TTAAAT
1 A-AAGATAAAT
*
9691407 AAAGATAATT
1 AAAGATAAAT
9691417 AAAGATAAAT
1 AAAGATAAAT
*
9691427 AAGGATAAAT
1 AAAGATAAAT
9691437 AAAGATAAA-
1 AAAGATAAAT
*
9691446 AGCTAGGATAAAT
1 A---AAGATAAAT
9691459 AAAGATAAA
1 AAAGATAAA
9691468 AGCTAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.05
10 44 0.77
11 2 0.04
12 7 0.12
13 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9691456 original size:22 final size:22
Alignment explanation
Indices: 9691428--9691472 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9691418 AAGATAAATA
9691428 AGGATAAATAAAGATAAAAGCT
1 AGGATAAATAAAGATAAAAGCT
9691450 AGGATAAATAAAGATAAAAGCT
1 AGGATAAATAAAGATAAAAGCT
9691472 A
1 A
9691473 AAATTAAATC
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:0.60, C:0.04, G:0.18, T:0.18
Consensus pattern (22 bp):
AGGATAAATAAAGATAAAAGCT
Found at i:9701750 original size:11 final size:11
Alignment explanation
Indices: 9701734--9701765 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
9701724 ACAATTAATG
9701734 AATTCACAATC
1 AATTCACAATC
9701745 AATTCACAATC
1 AATTCACAATC
9701756 AATTCACAAT
1 AATTCACAAT
9701766 AGACATACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTCACAATC
Found at i:9705880 original size:27 final size:27
Alignment explanation
Indices: 9705850--9705908 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
9705840 ATTATGAACT
9705850 AAACCCCTTAGATACCTAAGGGGGTTG
1 AAACCCCTTAGATACCTAAGGGGGTTG
9705877 AAACCCCTTAGATACCTAAGGGGGTTG
1 AAACCCCTTAGATACCTAAGGGGGTTG
9705904 AAACC
1 AAACC
9705909 TGTGATGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
AAACCCCTTAGATACCTAAGGGGGTTG
Found at i:9710086 original size:14 final size:14
Alignment explanation
Indices: 9710069--9710099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9710059 TATATACAAA
9710069 TATATATATGTGTT
1 TATATATATGTGTT
*
9710083 TATATATGTGTGTT
1 TATATATATGTGTT
9710097 TAT
1 TAT
9710100 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
TATATATATGTGTT
Found at i:9710557 original size:24 final size:24
Alignment explanation
Indices: 9710530--9710639 Score: 116
Period size: 24 Copynumber: 4.6 Consensus size: 24
9710520 ATAACTTTGG
9710530 CACTATGTGTGCGGATTTGAATGA
1 CACTATGTGTGCGGATTTGAATGA
* * *
9710554 CACTATGTGTGCAGATTTGTATGG
1 CACTATGTGTGCGGATTTGAATGA
*
9710578 CACTATGTGTGCGGATTTGAATGT
1 CACTATGTGTGCGGATTTGAATGA
* * * *
9710602 CAATACGTGTGTGGATTACT-AAGGA
1 CACTATGTGTGCGGATT--TGAATGA
9710627 -ACTATGTGTGCGG
1 CACTATGTGTGCGG
9710640 GTTAACATGG
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
24 66 0.94
25 3 0.04
26 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.34
Consensus pattern (24 bp):
CACTATGTGTGCGGATTTGAATGA
Found at i:9710612 original size:48 final size:48
Alignment explanation
Indices: 9710527--9710639 Score: 145
Period size: 48 Copynumber: 2.4 Consensus size: 48
9710517 GAAATAACTT
* * **
9710527 TGGCACTATGTGTGCGGATTTGAATGACACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
* **
9710575 TGGCACTATGTGTGCGGATTTGAATGTCAATACGTGTGTGGATTACTA
1 TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
* *
9710623 AGGAACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
9710640 GTTAACATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (48 bp):
TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
Found at i:9714370 original size:6 final size:6
Alignment explanation
Indices: 9714336--9714369 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9714326 TCCTCCTATC
* *
9714336 TTTTTA TTTTTA TTTTTA TTTTCA TTTTAA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
9714370 ATTATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:9717326 original size:13 final size:13
Alignment explanation
Indices: 9717308--9717336 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9717298 TTTAGTTTAA
9717308 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9717321 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9717334 TTA
1 TTA
9717337 ATAAACAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:9726036 original size:26 final size:26
Alignment explanation
Indices: 9726005--9726112 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9725995 TGAAATGCCC
*
9726005 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9726031 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9726057 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9726083 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9726109 ATCA
1 ATCA
9726113 ATTTGTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9734170 original size:26 final size:26
Alignment explanation
Indices: 9734139--9734246 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9734129 TGAAATGCCC
*
9734139 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9734165 ATCATGGAACATCTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9734191 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9734217 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9734243 ATCA
1 ATCA
9734247 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9735692 original size:19 final size:18
Alignment explanation
Indices: 9735653--9735704 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
9735643 CTAGGACTAC
*
9735653 TTTTTATTTTTCTTTAATT
1 TTTTTATTTTT-ATTAATT
9735672 TTTTTATTTTTATTAAGTT
1 TTTTTATTTTTATTAA-TT
* *
9735691 TTATAATTTTTATT
1 TTTTTATTTTTATT
9735705 TAACAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTATTTTTATTAATT
Found at i:9739390 original size:54 final size:52
Alignment explanation
Indices: 9739184--9739387 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 52
9739174 ATCATACCGG
* * * * *
9739184 TGCCATATCCCGGATATGGTCTTACACGGAAGCACTTATCACTTTTCTCCGA
1 TGCCATAGCCCAGCTATGGTCTTACACGGAATCACTTATCACTTTTATCCGA
* * * * * *
9739236 TGCCATAGCCCAGCTGTGATCTTATACAG-ATCGCTTGTATCACTTTAATCCGA
1 TGCCATAGCCCAGCTATGGTCTTACACGGAATCAC-T-TATCACTTTTATCCGA
* * * * *
9739289 AGCCATAACCCAACTATGGTCTTACACGGGAATCACTTATCACTTGTTTTTCGA
1 TGCCATAGCCCAGCTATGGTCTTACAC-GGAATCACTTATCACTT-TTATCCGA
* *
9739343 TGCCATAGCCCAGCTATGGTCTTATACGGATATCGCTTATCACTT
1 TGCCATAGCCCAGCTATGGTCTTACACGGA-ATCACTTATCACTT
9739388 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
51 3 0.03
52 23 0.19
53 46 0.39
54 43 0.36
55 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (52 bp):
TGCCATAGCCCAGCTATGGTCTTACACGGAATCACTTATCACTTTTATCCGA
Found at i:9751664 original size:64 final size:64
Alignment explanation
Indices: 9751559--9751766 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
9751549 CATCATGTGT
* * *
9751559 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
9751624 TAG
62 TAG
* * * * *
9751627 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
9751692 AG
63 AG
* * * *
9751694 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG
9751756 TACAAGAGAGC
1 -ACAAGAGAGC
9751767 CAAACTATAT
Statistics
Matches: 118, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 26 0.22
65 2 0.02
66 24 0.20
67 33 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:9754898 original size:13 final size:13
Alignment explanation
Indices: 9754880--9754906 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9754870 GAAGTAATCA
9754880 CACACGGGCGTGT
1 CACACGGGCGTGT
9754893 CACACGGGCGTGT
1 CACACGGGCGTGT
9754906 C
1 C
9754907 CCTGCAGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:9762013 original size:16 final size:17
Alignment explanation
Indices: 9761992--9762030 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
9761982 CTTTTATTAA
9761992 GTTTTTAAGACTCATTT
1 GTTTTTAAGACTCATTT
*
9762009 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCATTT
9762026 GTTTT
1 GTTTT
9762031 CCTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGACTCATTT
Found at i:9764009 original size:52 final size:52
Alignment explanation
Indices: 9763950--9764053 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
9763940 AGCCGGATTC
9763950 ATCATCAAGACTGAAGATCTCTCCTCAATTTCCTTTCAGGAGTTTTGGGTTT
1 ATCATCAAGACTGAAGATCTCTCCTCAATTTCCTTTCAGGAGTTTTGGGTTT
9764002 ATCATCAAGACTGAAGATCTCTCCTCAATTTCCTTTCAGGAGTTTTGGGTTT
1 ATCATCAAGACTGAAGATCTCTCCTCAATTTCCTTTCAGGAGTTTTGGGTTT
9764054 TCTTTAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (52 bp):
ATCATCAAGACTGAAGATCTCTCCTCAATTTCCTTTCAGGAGTTTTGGGTTT
Found at i:9783660 original size:93 final size:93
Alignment explanation
Indices: 9783548--9783719 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
9783538 GCCCATAAGT
*
9783548 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9783612 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
9783641 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
9783706 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
9783720 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:9783710 original size:46 final size:46
Alignment explanation
Indices: 9783540--9783715 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
9783530 TGTAACCCGC
*
9783540 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
*
9783586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
9783636 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
9783679 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
9783716 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 63 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:9793389 original size:21 final size:21
Alignment explanation
Indices: 9793340--9793389 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
9793330 GCGTGTGCCC
9793340 CCTCCACACAGGCATGTAGGG
1 CCTCCACACAGGCATGTAGGG
* *
9793361 CTTTCACAC-GAGCATGT-GAGG
1 CCTCCACACAG-GCATGTAG-GG
9793382 CCTCCACA
1 CCTCCACA
9793390 TGGGCGTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.18
Consensus pattern (21 bp):
CCTCCACACAGGCATGTAGGG
Found at i:9802064 original size:26 final size:26
Alignment explanation
Indices: 9801955--9802056 Score: 170
Period size: 26 Copynumber: 3.9 Consensus size: 26
9801945 CATGAAATTC
9801955 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9801981 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9802007 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9802033 TTATCAT-AGAACATTTACCTAACC
1 TTATCATGA-AACATTTACCTAACC
9802057 TTTTATCAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9802573 original size:35 final size:35
Alignment explanation
Indices: 9802507--9802573 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
9802497 TTTTTTTATT
* *
9802507 CTTTACATGTTTATGTAAATTATGGTAATCATAAA
1 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
* *
9802542 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAATTATGATAATCAT
9802574 TTTTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAATTATGATAATCATAAA
Found at i:9803649 original size:63 final size:64
Alignment explanation
Indices: 9803570--9803689 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 64
9803560 TAATCTTCTC
* * *
9803570 AAAACATATAACTTGAATAAACAATTTTACTTAATATCGAAACTCAATAAATTGAACCTTTTTA
1 AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAACCTTTTTA
** *
9803634 AAAACACATAA-TTGAATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAAC
1 AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAAC
9803690 TAAATTAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 40 0.80
64 10 0.20
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (64 bp):
AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAACCTTTTTA
Found at i:9805511 original size:27 final size:27
Alignment explanation
Indices: 9805481--9805621 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
9805471 GTGACGAAGT
9805481 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
9805508 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
9805535 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
9805562 CACCAGA-ACAGATATATATGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
9805589 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
9805616 CACCAG
1 CACCAG
9805622 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:9805541 original size:54 final size:54
Alignment explanation
Indices: 9805481--9805621 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
9805471 GTGACGAAGT
* *
9805481 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
9805535 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
9805589 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
9805622 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:9807265 original size:26 final size:26
Alignment explanation
Indices: 9807234--9807341 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9807224 TGAAATGCCC
*
9807234 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9807260 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9807286 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9807312 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9807338 ATCA
1 ATCA
9807342 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9812648 original size:27 final size:27
Alignment explanation
Indices: 9812606--9812712 Score: 164
Period size: 27 Copynumber: 4.0 Consensus size: 27
9812596 GTCACTAGAT
*
9812606 ACAGATAT-TGTGGCAGAACCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
9812632 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
9812659 TCAGATA-ATCGTGGCATAGCCACCAGA
1 ACAGATATAT-GTGGCAGAGCCACCAGA
9812686 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
9812713 TTAGACAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 10 0.14
27 61 0.84
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:9812684 original size:54 final size:54
Alignment explanation
Indices: 9812602--9812738 Score: 204
Period size: 54 Copynumber: 2.5 Consensus size: 54
9812592 CGAAGTCACT
* *
9812602 AGATACAGAT-ATTGTGGCAGAACCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
*
9812656 AGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
* * *
9812710 AGATTAGACAATTATGGCATAGCCACCAG
1 AGATCAGATAATTGTGGCATAGCCACCAG
9812739 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 5 0.07
54 70 0.93
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
Found at i:9812727 original size:27 final size:26
Alignment explanation
Indices: 9812602--9812738 Score: 130
Period size: 27 Copynumber: 5.1 Consensus size: 26
9812592 CGAAGTCACT
* *
9812602 AGATACAGATATTGTGGCAGAACCACC
1 AGAT-CAGAAATTGTGGCAGAGCCACC
* *
9812629 AGAACAGATATATGTGGCAGAGCCACC
1 AGATCAGAAAT-TGTGGCAGAGCCACC
* *
9812656 AGATCAGATAATCGTGGCATAGCCACC
1 AGATCAGA-AATTGTGGCAGAGCCACC
* *
9812683 AGAACAGATATATGTGGCAGAGCCACC
1 AGATCAGAAAT-TGTGGCAGAGCCACC
* * *
9812710 AGATTAGACAATTATGGCATAGCCACC
1 AGATCAGA-AATTGTGGCAGAGCCACC
9812737 AG
1 AG
9812739 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 9 0.10
27 78 0.86
28 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
AGATCAGAAATTGTGGCAGAGCCACC
Found at i:9814391 original size:26 final size:26
Alignment explanation
Indices: 9814360--9814441 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
9814350 TGAAATGCCC
9814360 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
9814386 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
9814412 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
9814438 ATCA
1 ATCA
9814442 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:9815931 original size:15 final size:15
Alignment explanation
Indices: 9815911--9815942 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9815901 TGTAAAGCAC
*
9815911 ATATATTTTTCTAAA
1 ATATATTTTTATAAA
9815926 ATATATTTTTATAAA
1 ATATATTTTTATAAA
9815941 AT
1 AT
9815943 TTAATGCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATTTTTATAAA
Found at i:9819044 original size:28 final size:28
Alignment explanation
Indices: 9819004--9819059 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9818994 GCATTCAAAG
9819004 AAAGATTCAAACATTAAATAAACTCATT
1 AAAGATTCAAACATTAAATAAACTCATT
9819032 AAAGATTCAAACATTAAATAAACTCATT
1 AAAGATTCAAACATTAAATAAACTCATT
9819060 CATTCGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAGATTCAAACATTAAATAAACTCATT
Found at i:9819423 original size:75 final size:75
Alignment explanation
Indices: 9819335--9819499 Score: 208
Period size: 75 Copynumber: 2.2 Consensus size: 75
9819325 ATGTGCTCAG
* * *
9819335 CACTAGTCAGATAAACTAACGAAAGTTGTG-CCTAGCCCTAGTCGAATAAACTGAA-AAATGTAA
1 CACTAGTCAGATAAACTAACGAAAGTTGTGTCC-AGCACTAGTCGAATAAA-TCAACAAATATAA
9819398 TGGTGTGCCCTA
64 TGGTGTGCCCTA
* * * * *
9819410 CACTAGTTAGATAAACTGATGAAAGTTGTGTCCATCACTAGTCGAATAAATCAACAAATATAATT
1 CACTAGTCAGATAAACTAACGAAAGTTGTGTCCAGCACTAGTCGAATAAATCAACAAATATAATG
* *
9819475 GTGTTCCCTG
66 GTGTGCCCTA
9819485 CACTAGTCAGATAAA
1 CACTAGTCAGATAAA
9819500 TTTACGAAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 3 0.04
75 72 0.94
76 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (75 bp):
CACTAGTCAGATAAACTAACGAAAGTTGTGTCCAGCACTAGTCGAATAAATCAACAAATATAATG
GTGTGCCCTA
Found at i:9831540 original size:27 final size:27
Alignment explanation
Indices: 9831471--9831578 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
9831461 AGCATGGCTG
* * *
9831471 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
* *
9831497 CTAGATACAGATATTGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
* * *
9831524 CCAG-AATAGATATTTGTTGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAAAGCCA
*
9831551 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
9831578 C
1 C
9831579 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.14
27 49 0.75
28 7 0.11
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAAAGCCA
Found at i:9831731 original size:27 final size:27
Alignment explanation
Indices: 9831701--9831752 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9831691 AGTCATCAAA
*
9831701 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATACGTTAGGCACGA-AGCCATAGGT
*
9831728 AAATACGTTTGGCACGAAGCCATAG
1 AAATACGTTAGGCACGAAGCCATAG
9831753 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
AAATACGTTAGGCACGAAGCCATAGGT
Found at i:9831784 original size:22 final size:22
Alignment explanation
Indices: 9831736--9831794 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
9831726 GTAAATACGT
*
9831736 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
9831758 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
9831780 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
9831795 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:9831941 original size:27 final size:26
Alignment explanation
Indices: 9831902--9831984 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
9831892 TCGATCGGTC
* *
9831902 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
9831928 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
9831955 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
9831982 AAC
1 AAC
9831985 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:9832328 original size:81 final size:81
Alignment explanation
Indices: 9832209--9832488 Score: 310
Period size: 81 Copynumber: 3.5 Consensus size: 81
9832199 GGGTAAAATG
* * * * * *
9832209 GTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTATAAGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACC
9832274 CTACAAGGGTATTTCA
66 CTACAAGGGTATTTCA
* * * * * * *
9832290 GTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGAAATTTTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACC
* *
9832355 CTACTAGGGTATTTTA
66 CTACAAGGGTATTTCA
* * * *
9832371 GTAATTCTACCCTATAAGGGTATTTCGGTATTTTTACCCTACAAAGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACC
*
9832436 CTACAGGGGTATTTCA
66 CTACAAGGGTATTTCA
* * ** **
9832452 GCAATTTTA-CAAATTGAGGGTATTTCAGTAATTTTAC
1 GTAATTCTACCCTA-CAAGGGTATTTCAGTAATTTTAC
9832489 AAATTGAGGG
Statistics
Matches: 162, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 2 0.01
81 160 0.99
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTCA
Found at i:9832447 original size:27 final size:27
Alignment explanation
Indices: 9832209--9832457 Score: 300
Period size: 27 Copynumber: 9.2 Consensus size: 27
9832199 GGGTAAAATG
* * * *
9832209 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
9832236 GTAATTTTACCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
9832263 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
9832290 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
9832317 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
9832344 GAAATTTTACCCTACTAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
9832371 GTAATTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
9832398 GTATTTTTACCCTACAAAGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
9832425 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
9832452 GCAATT
1 GTAATT
9832458 TTACAAATTG
Statistics
Matches: 188, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:9832472 original size:27 final size:27
Alignment explanation
Indices: 9832442--9832755 Score: 289
Period size: 27 Copynumber: 11.7 Consensus size: 27
9832432 TACCCTACAG
* *
9832442 GGGTATTTCAGCAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
9832469 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
9832496 GGGTATTTTTGTAATTTTAGAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
9832523 GGGTATTTCAATAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * *
9832549 CGGTATTTCGGTAATTTTATAAATCAGG
1 GGGTATTTCAGTAATTTTACAAATC-GA
* * *
9832577 GGGTACTTT-GGCAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
9832604 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTACAAATC-GA
** **
9832631 GGGTATTTTGGTAATTTTATGAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
9832658 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * * *
9832684 CGGTATTTCGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
9832711 GGGTACTTT-GGTAATTTTACAACTAG-
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
9832737 GGGTATTTTAGTAATTTTA
1 GGGTATTTCAGTAATTTTA
9832756 GTAAACTAAA
Statistics
Matches: 234, Mismatches: 44, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 63 0.27
27 143 0.61
28 22 0.09
29 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:9832472 original size:108 final size:108
Alignment explanation
Indices: 9832252--9832484 Score: 333
Period size: 108 Copynumber: 2.2 Consensus size: 108
9832242 TTACCCTATA
* ** *
9832252 AGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 AGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCA
**
9832317 GTAATTCTACCCTACAGGGGTATTTCAGAAATTTTACCCTACT
66 GTAATTCTACCCTACAGGGGTATTTCAGAAATTTTACCAAACT
* * * *
9832360 AGGGTATTTTAGTAATTCTACCCTATAAGGGTATTTCGGTATTTTTACCCTACAAAGGTATTTCA
1 AGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCA
* *
9832425 GTAATTCTACCCTACAGGGGTATTTCAGCAATTTTA-CAAATT
66 GTAATTCTACCCTACAGGGGTATTTCAGAAATTTTACCAAACT
*
9832467 GAGGGTATTTCAGTAATT
1 -AGGGTATTTTAGTAATT
9832485 TTACAAATTG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 3 0.03
108 108 0.97
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (108 bp):
AGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCA
GTAATTCTACCCTACAGGGGTATTTCAGAAATTTTACCAAACT
Found at i:9832526 original size:135 final size:133
Alignment explanation
Indices: 9832252--9832755 Score: 385
Period size: 135 Copynumber: 3.8 Consensus size: 133
9832242 TTACCCTATA
* * * *
9832252 AGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 AGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTA-TTTA
* * ** * * ** *
9832317 GTAATTCTAC-CCTACAGGGGTATTTCAGAAATTTTACCCTACTAGGGTATTTTAGTAATTCTAC
65 GCAATTTTACAAATAGA-GGGTATTTCAGTAATTTTA-CAAACTAGGGTATTTTAGTAATTTTA-
** *
9832381 CCTAT-A
127 CGAATCG
* * *
9832387 AGGGTATTTCGGTATTTTTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
1 AGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTATTT-A
* * *
9832452 GCAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTA-G
65 GCAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAACT-AGGGTATTTTAGTAATTTTACG
9832516 AAATCG
129 -AATCG
* ** * * * * * *
9832522 AGGGTATTTCAATAATTTTACAAT-CGACGGTATTTCGGTAATTTTA-TAAATCAGGGGGTACTT
1 AGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTCAGTAATTCTACCATA-CA-GGGGTA-TT
* * * * *
9832585 TGGCAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTTGGTAATTTTA
63 TAGCAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAACT-AGGGTATTTTAGTAATTTTA
*
9832650 TGAATCG
127 CGAATCG
** * * * * * * *
9832657 AGGGTATTTCAGTAATTTTACAAT-CGACGGTATTTCGGTAATTTTA-TAAACCGGGGGTACTTT
1 AGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTCAGTAATTCTACCATA-CAGGGGTA-TTT
* * * *
9832720 GGTAATTTTACAACTAG-GGGTATTTTAGTAATTTTA
64 AGCAATTTTACAAATAGAGGGTATTTCAGTAATTTTA
9832756 GTAAACTAAA
Statistics
Matches: 312, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
133 18 0.06
134 52 0.17
135 236 0.76
136 6 0.02
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (133 bp):
AGGGTATTTCAGTAATTTTACCCTACAAAGGTATTTCAGTAATTCTACCATACAGGGGTATTTAG
CAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAACTAGGGTATTTTAGTAATTTTACGAA
TCG
Found at i:9832947 original size:17 final size:18
Alignment explanation
Indices: 9832925--9832958 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9832915 AAATTATCTA
9832925 ATTGGGCCCATA-GGCCT
1 ATTGGGCCCATATGGCCT
9832942 ATTGGGCCCATATGGCC
1 ATTGGGCCCATATGGCC
9832959 CCTTTCGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (18 bp):
ATTGGGCCCATATGGCCT
Found at i:9840378 original size:30 final size:31
Alignment explanation
Indices: 9840332--9840395 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
9840322 TTCAAGAGCA
*
9840332 AATATTATTATTTTTAATTATTATATAAGAC
1 AATAATATTATTTTTAATTATTATATAAGAC
9840363 AATAATATT-TTTTTAATTATTATATAAGAC
1 AATAATATTATTTTTAATTATTATATAAGAC
9840393 AAT
1 AAT
9840396 TTTTGTGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
AATAATATTATTTTTAATTATTATATAAGAC
Found at i:9846022 original size:6 final size:6
Alignment explanation
Indices: 9846000--9846116 Score: 96
Period size: 6 Copynumber: 19.0 Consensus size: 6
9845990 ATCAAAACTG
* * *
9846000 GAATCA AAATGA GAATCA GAATCA GAATCA G-GTGACA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA
* * * *
9846049 GTATCA GAATCA GAATCA GAATTA GGCGA-CA GAATCA GAATCA GTATCA
1 GAATCA GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATCA
9846098 GGTAA-CA GAATCA GAATCA
1 -G-AATCA GAATCA GAATCA
9846117 AAAAGTGAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.05
6 73 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GAATCA
Found at i:9846041 original size:25 final size:25
Alignment explanation
Indices: 9846011--9846116 Score: 127
Period size: 25 Copynumber: 4.5 Consensus size: 25
9846001 AATCAAAATG
9846011 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
9846036 AGAATCAGAATCAG--T-A--T--C
1 AGAATCAGAATCAGAATCAGGTGAC
* *
9846054 AGAATCAGAATCAGAATTAGGCGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
9846079 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
9846104 AGAATCAGAATCA
1 AGAATCAGAATCA
9846117 AAAAGTGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.22
20 2 0.03
21 1 0.01
22 1 0.01
23 1 0.01
25 49 0.71
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:9846048 original size:43 final size:43
Alignment explanation
Indices: 9846000--9846116 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
9845990 ATCAAAACTG
* *
9846000 GAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATCA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACAGAATCA
** *
9846043 GAATCAGTATCAGAATCAGAATCAGAATTAGGCGACAGAATCA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACAGAATCA
**
9846086 GAATCAGTATCAGGTAA-CAGAATCAGAATCA
1 GAATCAAAATCA-G-AATCAGAATCAGAATCA
9846117 AAAAGTGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 50 0.76
44 14 0.21
45 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (43 bp):
GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACAGAATCA
Found at i:9846292 original size:27 final size:27
Alignment explanation
Indices: 9846262--9846318 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
9846252 GTAGCGAAGT
* * * *
9846262 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGAAACAGATAATATGGCAAAGC
*
9846289 CACCAGAAATAGATAATATGGCAAAGC
1 CACCAGAAACAGATAATATGGCAAAGC
9846316 CAC
1 CAC
9846319 TTAACAGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGAAACAGATAATATGGCAAAGC
Found at i:9846989 original size:26 final size:27
Alignment explanation
Indices: 9846929--9847035 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
9846919 GGTGCCAAAT
* *
9846929 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
9846956 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
9846983 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
9847010 GTTAATTCTACCCTACAGGGGTATTT
1 GGTAATTTTACCCTACAAGGGTATTT
9847036 TAGTAACTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
26 4 0.06
27 64 0.90
28 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:9846995 original size:54 final size:53
Alignment explanation
Indices: 9846933--9847035 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
9846923 CCAAATGGTA
*
9846933 ATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
9846986 ATTTCTACCCTACAAGGGTATTTCGTTAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
9847036 TAGTAACTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:9847046 original size:27 final size:27
Alignment explanation
Indices: 9846930--9847062 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 27
9846920 GTGCCAAATG
* * * * **
9846930 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
9846957 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
9846984 GTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
9847010 GTTAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTTA
* * * *
9847038 GTAACTCTAGCCTATAGGTGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
9847063 CAATAATTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.03
27 82 0.92
28 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:9847063 original size:54 final size:54
Alignment explanation
Indices: 9846937--9847051 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
9846927 ATGGTAATTT
* * * * **
9846937 TACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAACTC
* *
9846991 TACCCTACAAGGGTATTTCGTTAATTCTACCCTACAGGGGTATTTTAGTAACTC
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAACTC
*
9847045 TAGCCTA
1 TACCCTA
9847052 TAGGTGTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAACTC
Found at i:9847070 original size:54 final size:54
Alignment explanation
Indices: 9846937--9847070 Score: 135
Period size: 54 Copynumber: 2.5 Consensus size: 54
9846927 ATGGTAATTT
* * ** * * **
9846937 TACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAACTC
** *
9846991 TACCCTACAAGGGTATTTCGTTAATTCTACCCTACAGGGGTATTTTAGTAACTC
1 TACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAACTC
* *
9847045 TAGCCTA-TAGGTGTATTTCAATAATT
1 TACCCTACAAGG-GTATTTCAATAATT
9847071 TTGTAAATCA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 3 0.04
54 64 0.96
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAACTC
Found at i:9857363 original size:3 final size:3
Alignment explanation
Indices: 9857355--9857397 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
9857345 AATAGGTATA
* *
9857355 AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT CAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9857398 GTAAAGACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9859131 original size:49 final size:48
Alignment explanation
Indices: 9859074--9859311 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 48
9859064 AACCGAAACT
* *
9859074 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* * *
9859122 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAC
** * * * *
9859173 ATCTAATACACTTAGTAACCTGCACTTAGTACTACACACGTGATC-AC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* * * *
9859220 AGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 A----TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA-C
* *
9859273 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
9859312 ATGACCTCAC
Statistics
Matches: 156, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 72 0.46
50 39 0.25
51 39 0.25
52 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
Found at i:9859208 original size:26 final size:25
Alignment explanation
Indices: 9859129--9859209 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
9859119 AACAGTCTGG
*
9859129 TACACGTAGTAGCCTGCACTTAGTAC
1 TACAC-TAGTAACCTGCACTTAGTAC
* * * *
9859155 TACAC-ACGTGACCT-CAC-CATCTAA
1 TACACTA-GTAACCTGCACTTA-GTAC
9859179 TACACTTAGTAACCTGCACTTAGTAC
1 TACAC-TAGTAACCTGCACTTAGTAC
9859205 TACAC
1 TACAC
9859210 ACGTGATCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 11 0.28
26 16 0.40
27 1 0.03
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (25 bp):
TACACTAGTAACCTGCACTTAGTAC
Found at i:9859259 original size:101 final size:98
Alignment explanation
Indices: 9859086--9859311 Score: 265
Period size: 101 Copynumber: 2.3 Consensus size: 98
9859076 CTGGTACGCA
* * *
9859086 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
* * * *
9859151 GTACTACACACGTGACCTCACCATCTAATACACT
66 GTACTACACACGCGACC-AACCATCCAATACACG
* * * *
9859185 TAGTAACCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
* ** **
9859249 TTAGTACTACACATGCGACCAATTATCCGGTACACG
63 TTAGTACTACACACGCGACCAACCATCCAATACACG
9859285 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
9859312 ATGACCTCAC
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 4 0.04
99 29 0.27
100 35 0.33
101 39 0.36
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCAATACACG
Found at i:9864421 original size:17 final size:17
Alignment explanation
Indices: 9864399--9864432 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9864389 CACTCCTTAA
9864399 ACCTATTCAAAATGCAC
1 ACCTATTCAAAATGCAC
9864416 ACCTATTCAAAATGCAC
1 ACCTATTCAAAATGCAC
9864433 CAAAAGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (17 bp):
ACCTATTCAAAATGCAC
Found at i:9867044 original size:66 final size:66
Alignment explanation
Indices: 9866938--9867260 Score: 324
Period size: 66 Copynumber: 4.9 Consensus size: 66
9866928 GTGCAAGAAC
* * * *
9866938 TACTTCTGTTTATTCAATGAGGCACTGGGTGCCAAATACATTGATGAGCACTGGGCGCAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
9867003 T
66 T
* * * * * * *
9867004 TACTTTGGTTTATCCAATAAGGCATTGGGTGCCAAATACATCGATAAGCATTGGGCACAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
9867069 T
66 T
* ** * * * * * * *
9867070 TGCTTCAATTTATCCGATGAGGAACTGGATGCCAAATACATCAATGAACAATAGGCGCAATCGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
9867135 T
66 T
* * * * * * ** *
9867136 TACTTCGGCTTGTCCGATGAGGCATTAGGTGCCAAATACATTGACGAGTGCTGGGCGTAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
9867201 T
66 T
* * * * *
9867202 TATTTC-GTTTATCCGATGAGGCACTGGGTGTCAAATATATCGATGAACACTGGACGCAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAA
9867261 ACTAATACTT
Statistics
Matches: 199, Mismatches: 58, Indels: 1
0.77 0.22 0.00
Matches are distributed among these distances:
65 40 0.20
66 159 0.80
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (66 bp):
TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
T
Found at i:9869669 original size:25 final size:25
Alignment explanation
Indices: 9869640--9869712 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
9869630 ATGGGACTGA
*
9869640 AATTGCTCATACGAGCTGTGAATAT
1 AATTGCTCATACGAGCTGTAAATAT
* *
9869665 AATTGCTCACACGAGCTATAAATAT
1 AATTGCTCATACGAGCTGTAAATAT
* *
9869690 AATTTCTCATATGAGCTGTAAAT
1 AATTGCTCATACGAGCTGTAAAT
9869713 CGGGAAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (25 bp):
AATTGCTCATACGAGCTGTAAATAT
Found at i:9871683 original size:17 final size:17
Alignment explanation
Indices: 9871661--9871695 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9871651 TAAAGTATCG
9871661 ATACTCTATATTAGGGT
1 ATACTCTATATTAGGGT
9871678 ATACTCTATATTAGGGT
1 ATACTCTATATTAGGGT
9871695 A
1 A
9871696 CCAATACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (17 bp):
ATACTCTATATTAGGGT
Found at i:9876747 original size:17 final size:17
Alignment explanation
Indices: 9876725--9876758 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9876715 ATCCACTAAT
*
9876725 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
9876742 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
9876759 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:9881385 original size:17 final size:17
Alignment explanation
Indices: 9881363--9881396 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9881353 ATCCACTAAT
*
9881363 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
9881380 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
9881397 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:9893466 original size:22 final size:22
Alignment explanation
Indices: 9893438--9893480 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9893428 TATAAAATAC
9893438 AAAAAAAAATATCATATCATCA
1 AAAAAAAAATATCATATCATCA
*
9893460 AAAAAAATATATCATATCATC
1 AAAAAAAAATATCATATCATC
9893481 TATCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAAAAATATCATATCATCA
Found at i:9896036 original size:30 final size:30
Alignment explanation
Indices: 9896000--9896087 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
9895990 GTTTTTAGGT
*
9896000 TCCACACGGGCTGGGCACACGCCCATGTGA
1 TCCACACGGGCTGGCCACACGCCCATGTGA
* *
9896030 TCCACACGAG-TAGGCCACATGCCCATGTGA
1 TCCACACGGGCT-GGCCACACGCCCATGTGA
*
9896060 TCCACACGGGCAGGCCACACGCCCATGT
1 TCCACACGGGCTGGCCACACGCCCATGT
9896088 ACCAATCGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.14
Consensus pattern (30 bp):
TCCACACGGGCTGGCCACACGCCCATGTGA
Found at i:9900101 original size:30 final size:30
Alignment explanation
Indices: 9900055--9900145 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
9900045 ATTATGTTTT
*
9900055 TGACCCACATGGCCTGGCCACACGGGTGTG
1 TGACCCACACGGCCTGGCCACACGGGTGTG
* * * ***
9900085 TGGA-GCACACGGCCTGGCGACATGGCCATG
1 T-GACCCACACGGCCTGGCCACACGGGTGTG
*
9900115 TGACCCACACGGCCTGGACACACGGGTGTG
1 TGACCCACACGGCCTGGCCACACGGGTGTG
9900145 T
1 T
9900146 CCTAGGCCGT
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
29 2 0.04
30 41 0.91
31 2 0.04
ACGTcount: A:0.19, C:0.32, G:0.34, T:0.15
Consensus pattern (30 bp):
TGACCCACACGGCCTGGCCACACGGGTGTG
Found at i:9900251 original size:30 final size:30
Alignment explanation
Indices: 9900195--9900251 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9900185 TCAGAGAGTT
* * **
9900195 ACACAGCCTGGCCACACGGGTGTGTGGAGC
1 ACACAGCCTAGCCACACGAGCCTGTGGAGC
9900225 ACACAGCCTAGCCACACGAGCCTGTGG
1 ACACAGCCTAGCCACACGAGCCTGTGG
9900252 GATCTCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.32, T:0.12
Consensus pattern (30 bp):
ACACAGCCTAGCCACACGAGCCTGTGGAGC
Found at i:9900399 original size:4 final size:5
Alignment explanation
Indices: 9900378--9900429 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
9900368 AATCACCCCA
*
9900378 ATTTT ATTTT ATTTT A-TTT ATTTT AATTGTT ATATT A-TTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATT-TT ATTTT ATTTT A-TTTT
9900424 ATTTT A
1 ATTTT A
9900430 CTAATTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 22 0.55
6 9 0.22
7 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:9900415 original size:21 final size:19
Alignment explanation
Indices: 9900378--9900429 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
9900368 AATCACCCCA
*
9900378 ATTTTATTTTATTTTATTT
1 ATTTTATTTTATATTATTT
9900397 ATTTTAATTGTTATATTATTT
1 ATTTT-ATT-TTATATTATTT
9900418 ATTTTTATTTTA
1 A-TTTTATTTTA
9900430 CTAATTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 14 0.48
22 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTATATTATTT
Found at i:9900477 original size:28 final size:27
Alignment explanation
Indices: 9900438--9900507 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
9900428 TACTAATTGA
*
9900438 TTAATTTATTAT-T-CTTATACTTATATTT
1 TTAATTTTTTATATACTTATA-TT-T-TTT
9900466 TTAATTTTTTATATACTTATATTTTTT
1 TTAATTTTTTATATACTTATATTTTTT
*
9900493 TTATTTTTTTATATA
1 TTAATTTTTTATATA
9900508 TTTTAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 17 0.45
28 12 0.32
29 3 0.08
30 6 0.16
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTAATTTTTTATATACTTATATTTTTT
Found at i:9900491 original size:17 final size:17
Alignment explanation
Indices: 9900469--9900537 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 17
9900459 TATATTTTTA
9900469 ATTTTTTATATACTTAT
1 ATTTTTTATATACTTAT
9900486 ATTTTTT-T-TA-TT-T
1 ATTTTTTATATACTTAT
* *
9900499 -TTTTATATAT-TTTA-
1 ATTTTTTATATACTTAT
*
9900513 ATTTTTTATATACTTTT
1 ATTTTTTATATACTTAT
9900530 ATTATTTT
1 ATT-TTTT
9900538 TATTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
12 5 0.12
13 2 0.05
14 5 0.12
15 11 0.28
16 3 0.08
17 10 0.25
18 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTTATATACTTAT
Found at i:9900501 original size:27 final size:26
Alignment explanation
Indices: 9900463--9900552 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
9900453 TATACTTATA
* *
9900463 TTTTTAATTTTTTATATACTTATATTT
1 TTTTTATTTTTTTATATA-TTTTATTT
9900490 TTTTTATTTTTTTATATATTTTAATTT
1 TTTTTATTTTTTTATATATTTT-ATTT
* ** *
9900517 TTTATATACTTTTAT-TATTTTTATTA
1 TTTTTATTTTTTTATATA-TTTTATTT
9900543 TTTTTATTTT
1 TTTTTATTTT
9900553 GCTATTTCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
26 15 0.29
27 37 0.71
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTATTTTTTTATATATTTTATTT
Found at i:9900504 original size:19 final size:19
Alignment explanation
Indices: 9900482--9900552 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
9900472 TTTTATATAC
9900482 TTATATTTTTTTTATTTTT
1 TTATATTTTTTTTATTTTT
* *
9900501 TTATA-TATTTTAATTTTT
1 TTATATTTTTTTTATTTTT
* *
9900519 TATATACTTTTATTATTTTT
1 T-TATATTTTTTTTATTTTT
9900539 ATTAT-TTTTATTTT
1 -TTATATTTT-TTTT
9900553 GCTATTTCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 12 0.29
19 12 0.29
20 16 0.39
21 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATATTTTTTTTATTTTT
Found at i:9900518 original size:44 final size:44
Alignment explanation
Indices: 9900458--9900549 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
9900448 ATTCTTATAC
*
9900458 TTATATTTTTAATTTTTTATATACTTATATTTTTTTTATT-TTT
1 TTATATTTTTAATTTTTTATATACTTATATTATTTTTATTATTT
*
9900501 TTATATATTTTAATTTTTTATATACTTTTATTATTTTTATTATTT
1 TTATAT-TTTTAATTTTTTATATACTTATATTATTTTTATTATTT
9900546 TTAT
1 TTAT
9900550 TTTGCTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 6 0.13
44 32 0.71
45 7 0.16
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (44 bp):
TTATATTTTTAATTTTTTATATACTTATATTATTTTTATTATTT
Found at i:9900641 original size:3 final size:3
Alignment explanation
Indices: 9900633--9900661 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9900623 ATCATTGAGT
9900633 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9900662 ATTTTTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9900652 original size:14 final size:14
Alignment explanation
Indices: 9900633--9900659 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9900623 ATCATTGAGT
9900633 TTATTATTATTATA
1 TTATTATTATTATA
9900647 TTATTATTATTAT
1 TTATTATTATTAT
9900660 TAATTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:9904460 original size:13 final size:14
Alignment explanation
Indices: 9904442--9904470 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9904432 GACACATTCA
9904442 TTAGTTAA-TTTAG
1 TTAGTTAATTTTAG
9904455 TTAGTTAATTTTAG
1 TTAGTTAATTTTAG
9904469 TT
1 TT
9904471 TTAATCAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAGTTAATTTTAG
Found at i:9904713 original size:12 final size:12
Alignment explanation
Indices: 9904696--9904724 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9904686 GAAAATCCTA
9904696 ATGCTACAAGTC
1 ATGCTACAAGTC
9904708 ATGCTACAAGTC
1 ATGCTACAAGTC
9904720 ATGCT
1 ATGCT
9904725 TTATATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (12 bp):
ATGCTACAAGTC
Found at i:9911022 original size:26 final size:25
Alignment explanation
Indices: 9910993--9911047 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
9910983 AGAGGCTACA
9910993 AATAAAGGAGTTTGAGTCAATCAAAG
1 AATAAA-GAGTTTGAGTCAATCAAAG
*
9911019 AATACAGAGTTTGAGTCAATCAAAG
1 AATAAAGAGTTTGAGTCAATCAAAG
9911044 AATA
1 AATA
9911048 CTCGGACTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (25 bp):
AATAAAGAGTTTGAGTCAATCAAAG
Found at i:9911028 original size:25 final size:25
Alignment explanation
Indices: 9911000--9911048 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9910990 ACAAATAAAG
9911000 GAGTTTGAGTCAATCAAAGAATACA
1 GAGTTTGAGTCAATCAAAGAATACA
9911025 GAGTTTGAGTCAATCAAAGAATAC
1 GAGTTTGAGTCAATCAAAGAATAC
9911049 TCGGACTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
GAGTTTGAGTCAATCAAAGAATACA
Found at i:9914618 original size:20 final size:21
Alignment explanation
Indices: 9914582--9914621 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9914572 AAAAATAAGG
*
9914582 CTAAGTCTTAGGGAGATTTGA
1 CTAAGTCCTAGGGAGATTTGA
9914603 CTAAGTCCTA-GGAGATTTG
1 CTAAGTCCTAGGGAGATTTG
9914622 TTAGCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (21 bp):
CTAAGTCCTAGGGAGATTTGA
Found at i:9917895 original size:28 final size:28
Alignment explanation
Indices: 9917855--9917912 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
9917845 GTTGTGTTAC
9917855 TTTCTTCTTTCTTCTTCTCAAATTAACA
1 TTTCTTCTTTCTTCTTCTCAAATTAACA
*
9917883 TTTCTTCTTTCTTCTTTTCAAATTAACA
1 TTTCTTCTTTCTTCTTCTCAAATTAACA
9917911 TT
1 TT
9917913 ATAATATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTCTTCTTTCTTCTTCTCAAATTAACA
Found at i:9920690 original size:23 final size:24
Alignment explanation
Indices: 9920664--9920717 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
9920654 TCGGATACAA
* *
9920664 ATTCTTCAAAATTATCTCCAATT-
1 ATTCTTCAAAATCATCCCCAATTC
9920687 ATTCTTCAAAATCATCCCCAATTC
1 ATTCTTCAAAATCATCCCCAATTC
9920711 ATTCTTC
1 ATTCTTC
9920718 TTAGTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTCTTCAAAATCATCCCCAATTC
Found at i:9924881 original size:15 final size:15
Alignment explanation
Indices: 9924863--9924898 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
9924853 CAGACTGTGT
9924863 GTCACACG-TGGCTGA
1 GTCACACGCT-GCTGA
9924878 GTCACACGCTGCTGA
1 GTCACACGCTGCTGA
9924893 GTCACA
1 GTCACA
9924899 TGCCCGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (15 bp):
GTCACACGCTGCTGA
Found at i:9925859 original size:36 final size:37
Alignment explanation
Indices: 9925791--9925871 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 37
9925781 CTCACACAAA
9925791 GTGTGCTTATATATATAATTGTAACCTTTCCTTTACATC
1 GTGTGCTTATATATATAA-T-TAACCTTTCCTTTACATC
9925830 GTGTGCTTATATATATAA-TAACCTTTCCTTTACATC
1 GTGTGCTTATATATATAATTAACCTTTCCTTTACATC
9925866 GT-TGCT
1 GTGTGCT
9925872 CACACGAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 4 0.10
36 20 0.48
39 18 0.43
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.46
Consensus pattern (37 bp):
GTGTGCTTATATATATAATTAACCTTTCCTTTACATC
Found at i:9935739 original size:26 final size:26
Alignment explanation
Indices: 9935703--9935756 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9935693 CCAAGTCTAG
9935703 GTATTACTTTGAATTGGAATTCACAA
1 GTATTACTTTGAATTGGAATTCACAA
9935729 GTATTACTTTGAATTGGAATTCACAA
1 GTATTACTTTGAATTGGAATTCACAA
9935755 GT
1 GT
9935757 CTTAACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (26 bp):
GTATTACTTTGAATTGGAATTCACAA
Found at i:9936261 original size:32 final size:32
Alignment explanation
Indices: 9936225--9936288 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
9936215 GCTTCAGAAG
*
9936225 TTAAATTCCATCGTCTGAGAAGAAGCTCTGTT
1 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
9936257 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
1 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
9936289 GTACGCAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (32 bp):
TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
Found at i:9937280 original size:22 final size:21
Alignment explanation
Indices: 9937249--9937294 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
9937239 TTACTCCAAG
*
9937249 GAAGTCGATTGATTCATCTCA
1 GAAGCCGATTGATTCATCTCA
9937270 GAAGCCG---GATTCATCTCA
1 GAAGCCGATTGATTCATCTCA
9937288 GAAGCCG
1 GAAGCCG
9937295 GATTCATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 18 0.75
21 6 0.25
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
GAAGCCGATTGATTCATCTCA
Found at i:9937282 original size:18 final size:18
Alignment explanation
Indices: 9937259--9937302 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
9937249 GAAGTCGATT
9937259 GATTCATCTCAGAAGCCG
1 GATTCATCTCAGAAGCCG
9937277 GATTCATCTCAGAAGCCG
1 GATTCATCTCAGAAGCCG
9937295 GATTCATC
1 GATTCATC
9937303 ATCAAGACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (18 bp):
GATTCATCTCAGAAGCCG
Found at i:9948218 original size:20 final size:19
Alignment explanation
Indices: 9948186--9948235 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
9948176 TCATACTTAT
* *
9948186 TTTAATAGT-ATTTTATTAA
1 TTTAATATTAATTTGATT-A
9948205 TTTAATATTAATTTGATTA
1 TTTAATATTAATTTGATTA
9948224 TCTTAATATTAA
1 T-TTAATATTAA
9948236 ATTAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTAATATTAATTTGATTA
Found at i:9958902 original size:130 final size:130
Alignment explanation
Indices: 9958664--9958902 Score: 327
Period size: 130 Copynumber: 1.8 Consensus size: 130
9958654 CTGTGTGATT
* *
9958664 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAATTAACCCATAGAAGATTGTTCATGA
1 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACCCATAGAAGATTATTCATGA
* * * * *
9958729 TCGTAAATCAATTAATTTAGGCTATGATTGTAAATTAGGGAGTCTTAATGATATTAAATGTAATC
66 TCGTAAACCAATTAACTTAGGCTATAATTGTAAATCAGCGAGTCTTAATGATATTAAATGTAATC
* * * * * * *
9958794 GTAAATCAGCGAGCTGTTTAGAGTAGCGATAGTAAATCAGCTATCTCATAGAAGATTATTCATGA
1 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACCCATAGAAGATTATTCATGA
*
9958859 TCGTAAACCAATTAACTTAGGCTGTAATCT-TAAATCAGCGAGTC
66 TCGTAAACCAATTAACTTAGGCTATAAT-TGTAAATCAGCGAGTC
9958903 GTTTTGCATG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
130 92 0.99
131 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (130 bp):
GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACCCATAGAAGATTATTCATGA
TCGTAAACCAATTAACTTAGGCTATAATTGTAAATCAGCGAGTCTTAATGATATTAAATGTAATC
Found at i:9961816 original size:5 final size:5
Alignment explanation
Indices: 9961800--9961832 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
9961790 TCTTTAGCTT
9961800 ATATA TATATA ATATA ATATA ATATA ATATA AT
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT
9961833 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:9962065 original size:11 final size:10
Alignment explanation
Indices: 9962017--9962066 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
9962007 TAGTCATTTT
*
9962017 ACTTAATTAC
1 ACTTAATTAA
*
9962027 TCTTAATTAA
1 ACTTAATTAA
9962037 A-TTAAATT-A
1 ACTT-AATTAA
9962046 ACTTAATTAA
1 ACTTAATTAA
9962056 ACTCTAATTAA
1 ACT-TAATTAA
9962067 CCACTCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 8 0.24
10 18 0.55
11 7 0.21
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (10 bp):
ACTTAATTAA
Found at i:9966272 original size:18 final size:18
Alignment explanation
Indices: 9966249--9966531 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
9966239 GAATAATTAT
9966249 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
9966267 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * * * *
9966285 ATATCCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
*
9966303 TTATTCAGTATCGATCAATCGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
9966329 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
9966347 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
9966364 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
9966383 TTATTTAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
9966400 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
9966419 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
9966437 TTATTCAGAAATATTCAG
1 TTATTCAGTAACAGTCAG
9966455 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
9966473 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
9966491 TTA-TCCGTTAACAGTCAA
1 TTATTCAG-TAACAGTCAG
* *
9966509 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
9966527 TTATT
1 TTATT
9966532 TTATACCTTT
Statistics
Matches: 196, Mismatches: 51, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
17 19 0.10
18 139 0.71
19 21 0.11
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:9966756 original size:45 final size:45
Alignment explanation
Indices: 9966699--9966802 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
9966689 ATCCGGAACA
* *
9966699 GTAACAGT-ACAGTAACAATATCCTACACACAAAGTGAGGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
* * *
9966743 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
*
9966788 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
9966803 GCGGTAACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 7 0.13
45 45 0.87
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
Found at i:9968377 original size:5 final size:5
Alignment explanation
Indices: 9968367--9968393 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9968357 ATATATATTT
9968367 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
9968394 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:9984647 original size:41 final size:41
Alignment explanation
Indices: 9984526--9984701 Score: 144
Period size: 35 Copynumber: 4.6 Consensus size: 41
9984516 GCGCCCAACG
*** * *
9984526 CTAGTTGGATAAATTGATGAATGTATTTAGTGAGCCAAGCT
1 CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
*
9984567 CTAGTTGGATAAACCAACG-A--TA-TT--TGCGCCCAG-T
1 CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
* *
9984601 GCTAGTCGGATAGACCAACGAATGTATTTAGTGAGCCCAGCT
1 -CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
* *
9984643 CTAGTTGGATAAACCAACG-A--TATTT-G-CA-CCTAGCT
1 CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
**
9984678 CTAGTTGGATAAACTGACGAATGT
1 CTAGTTGGATAAACCAACGAATGT
9984702 GTGCCGAGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
34 1 0.01
35 47 0.43
36 3 0.03
37 3 0.03
38 10 0.09
39 2 0.02
40 2 0.02
41 40 0.37
42 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (41 bp):
CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
Found at i:9984698 original size:76 final size:76
Alignment explanation
Indices: 9984525--9984701 Score: 257
Period size: 76 Copynumber: 2.3 Consensus size: 76
9984515 TGCGCCCAAC
* *
9984525 GCTAGTTGGATAAATTGATGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAAACCAACGATAT
1 GCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAAACCAACGATAT
*
9984590 TTGCGCCCAGT
66 TTGCACCCAGT
* * ** *
9984601 GCTAGTCGGATAGACCAACGAATGTATTTAGTGAGCCCAGCTCTAGTTGGATAAACCAACGATAT
1 GCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAAACCAACGATAT
*
9984666 TTGCACCTAGCT
66 TTGCACCCAG-T
9984678 -CTAGTTGGATAAACTGACGAATGT
1 GCTAGTTGGATAAACTGACGAATGT
9984702 GTGCCGAGTA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
76 86 0.99
77 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (76 bp):
GCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAAACCAACGATAT
TTGCACCCAGT
Found at i:9989113 original size:46 final size:46
Alignment explanation
Indices: 9989044--9989350 Score: 273
Period size: 46 Copynumber: 6.7 Consensus size: 46
9989034 GTACTTAAAA
* **
9989044 ACTTCAATTTATAGCATCCAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * *
9989090 ACTTCAATTTACAGTATTTAAACACTTTAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * * * * * * **
9989136 GCCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAAC
* * ** * *
9989181 A-TCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAC
1 ACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * *
9989227 ACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCA-TTTAAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AAC
* *
9989273 ACTTTAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
* * * *
9989319 A-TCTCAATTAACAACATTTATACACCTCAATT
1 ACT-TCAATTTACAGCATTTAAACACTTCAATT
9989351 ACATGAGTTG
Statistics
Matches: 202, Mismatches: 51, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
45 32 0.16
46 166 0.82
47 4 0.02
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (46 bp):
ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAAC
Done.