Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 27 of 313
Found at i:9227024 original size:30 final size:30
Alignment explanation
Indices: 9226980--9227068 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
9226970 CAAAGATAAT
9226980 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
9227009 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
9227039 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
9227069 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:9227028 original size:15 final size:15
Alignment explanation
Indices: 9226980--9227059 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
9226970 CAAAGATAAT
*
9226980 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
9226994 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
9227009 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
9227024 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
9227039 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
9227054 AAGAAA
1 AAGAAA
9227060 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:9227068 original size:15 final size:15
Alignment explanation
Indices: 9226991--9227068 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
9226981 AGAAAACCGA
9226991 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
9227006 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
9227020 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
9227035 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
9227051 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
9227066 ATA
1 ATA
9227069 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:9231408 original size:27 final size:27
Alignment explanation
Indices: 9231338--9231624 Score: 289
Period size: 27 Copynumber: 10.8 Consensus size: 27
9231328 CCTTAATCGA
* *
9231338 TAAAATGAATGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
9231365 T--AA-CACTATTTTGCCCTTATAAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
9231389 TAAAATGATTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
9231416 TAACATGATTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
9231443 T-AAATAACTGTTTTTCCCTT-TTAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
9231468 ATAAAATGACTGTTTTGCCCTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* * * * * *
9231496 TAAAATGATTATTTTTCCTTTTTGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
9231523 AAAAATGACTATTTTTCCCTTATG-GTG
1 TAAAATGACTGTTTTGCCCTTATGAG-G
* *
9231550 TAAAATGACTGTTTTTCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
9231577 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
9231604 TAAAATGGCTGTTTTGCCCTT
1 TAAAATGACTGTTTTGCCCTT
9231625 TTATGGTAAG
Statistics
Matches: 217, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
24 17 0.08
25 5 0.02
26 19 0.09
27 171 0.79
28 5 0.02
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:9231609 original size:81 final size:80
Alignment explanation
Indices: 9231338--9231645 Score: 325
Period size: 81 Copynumber: 3.9 Consensus size: 80
9231328 CCTTAATCGA
* * * *
9231338 TAAAATGAATGTTTTGCCCTTATGGGGT-AA-CACTATTTTGCCCTTATAAGGTAAAATGATTGT
1 TAAAATGATTGTTTTGCCCTTATGGGGTAAATGACTATTTTGCCCTTATAGGGTAAAATGACTGT
9231401 TTTGCCCTTATGGGG
66 TTTGCCCTTATGGGG
* * * * * *
9231416 TAACATGATTGTTTTGCCCTTATGGGGTAAATAACTGTTTTTCCCTTTTAGGATAAAATGACTGT
1 TAAAATGATTGTTTTGCCCTTATGGGGTAAATGACTATTTTGCCCTTATAGGGTAAAATGACTGT
*
9231481 TTTGCCCTTATGAGG
66 TTTGCCCTTATGGGG
* * * * ** *
9231496 TAAAATGATTATTTTTCCTTTTTGTGGAAAAATGACTATTTTTCCCTTAT-GGTGTAAAATGACT
1 TAAAATGATTGTTTTGCCCTTATG-GGGTAAATGACTATTTTGCCCTTATAGG-GTAAAATGACT
*
9231560 GTTTTTCCCTTATGGGG
64 GTTTTGCCCTTATGGGG
* * * * * * * *
9231577 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGGCTGTTTTGCCCTTTTATGGTAAGATGATTG
1 TAAAATGATTGTTTTGCCCTTATGGGGT-AAATGACTATTTTGCCCTTATAGGGTAAAATGACTG
9231642 TTTT
65 TTTT
9231646 ACCCCTTTGT
Statistics
Matches: 186, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
78 26 0.14
79 2 0.01
80 62 0.33
81 95 0.51
82 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (80 bp):
TAAAATGATTGTTTTGCCCTTATGGGGTAAATGACTATTTTGCCCTTATAGGGTAAAATGACTGT
TTTGCCCTTATGGGG
Found at i:9231992 original size:18 final size:18
Alignment explanation
Indices: 9231969--9232003 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9231959 ACTTGCATAA
*
9231969 TGTTTACTGTTACTGCAT
1 TGTTTACTATTACTGCAT
9231987 TGTTTACTATTACTGCA
1 TGTTTACTATTACTGCA
9232004 ATGGGCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (18 bp):
TGTTTACTATTACTGCAT
Found at i:9254662 original size:28 final size:28
Alignment explanation
Indices: 9254609--9254663 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
9254599 AAACGTATAG
* * *
9254609 TCCTTGGCAGACTTTCAATTTCAAATAA
1 TCCTTGGCAGACATTCAATGTAAAATAA
*
9254637 TCCTTGGCAGACATTCCATGTAAAATA
1 TCCTTGGCAGACATTCAATGTAAAATA
9254664 GTCTTTGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (28 bp):
TCCTTGGCAGACATTCAATGTAAAATAA
Found at i:9254748 original size:28 final size:28
Alignment explanation
Indices: 9254717--9254782 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
9254707 TCCACCTATA
* *
9254717 ATAGTCCTTCG-CGAATTTTCTACATACG
1 ATAGTCCTT-GACGAACTTTCTACATAAG
**
9254745 ATAGTCCTTGACGGGCTTTCTACATAAG
1 ATAGTCCTTGACGAACTTTCTACATAAG
9254773 ATAGTCCTTG
1 ATAGTCCTTG
9254783 TCAGACTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (28 bp):
ATAGTCCTTGACGAACTTTCTACATAAG
Found at i:9261394 original size:43 final size:42
Alignment explanation
Indices: 9261342--9261422 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
9261332 TTACATGGGA
* *
9261342 TCTCGTATCGATGCAAATAGCCCAGCTATGGTCTTACACAAAG
1 TCTCATATCGATGC-AATAGCCCAGATATGGTCTTACACAAAG
* *
9261385 TCTCATATCGATGCCATATCCCAGATATGGTCTTACAC
1 TCTCATATCGATGCAATAGCCCAGATATGGTCTTACAC
9261423 GTAATCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTCATATCGATGCAATAGCCCAGATATGGTCTTACACAAAG
Found at i:9261421 original size:42 final size:43
Alignment explanation
Indices: 9261310--9261422 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
9261300 TACCATACCA
* *** *
9261310 ATGCCATATCCCAAATATGGTCTTACA-TGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAGATCTCATATCG
* * *
9261352 ATGCAAATAGCCCAGCTATGGTCTTACACAAAG-TCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACAAAGATCTCATATCG
9261395 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
9261423 GTAATCTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 25 0.43
43 32 0.55
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAGATCTCATATCG
Found at i:9265969 original size:56 final size:56
Alignment explanation
Indices: 9265872--9265980 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
9265862 CATAGTATTT
* * * * *
9265872 TGATATATGTGTGCAAGTAAGACCACGTTTTGTACATTGGCATCGATATGTGACTC
1 TGATATATGTGTGCAAGTAAGACCACGTCTGGGACAGTGGCATCAATATGTGACTC
* *
9265928 TGATATATGTGTGCGAGTAAGACC-CTGTCTGGGATAGTGGCATCAATATGTGA
1 TGATATATGTGTGCAAGTAAGACCAC-GTCTGGGACAGTGGCATCAATATGTGA
9265981 TTACATGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 1 0.02
56 44 0.98
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (56 bp):
TGATATATGTGTGCAAGTAAGACCACGTCTGGGACAGTGGCATCAATATGTGACTC
Found at i:9270411 original size:22 final size:22
Alignment explanation
Indices: 9270386--9270432 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
9270376 CATGGTATTC
9270386 ATTTAATGATTAAACATCCTCA
1 ATTTAATGATTAAACATCCTCA
9270408 ATTTAATGATTAAACATCCTCA
1 ATTTAATGATTAAACATCCTCA
9270430 ATT
1 ATT
9270433 AAACCACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTTAATGATTAAACATCCTCA
Found at i:9272742 original size:30 final size:30
Alignment explanation
Indices: 9272708--9272768 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9272698 TCCTTAACTC
9272708 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
9272738 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
9272768 A
1 A
9272769 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:9282721 original size:14 final size:15
Alignment explanation
Indices: 9282696--9282737 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
9282686 TTTCCTACAA
* *
9282696 AAATACAAATAAAAT
1 AAATAAAAATAAAAC
*
9282711 AAA-ATAAATAAAAC
1 AAATAAAAATAAAAC
9282725 AAATAAAAATAAA
1 AAATAAAAATAAA
9282738 TATCTAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAC
Found at i:9283277 original size:35 final size:35
Alignment explanation
Indices: 9283238--9283305 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9283228 GTTAGTAAAA
* *
9283238 CATTTACATGGTGTCGCTCCGTAGAGCTAGTAGGT
1 CATTTACATGATGTCGCTCCGTAGAGCCAGTAGGT
* **
9283273 CATTTTCATGATGTCGCTTTGTAGAGCCAGTAG
1 CATTTACATGATGTCGCTCCGTAGAGCCAGTAG
9283306 ATCCTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (35 bp):
CATTTACATGATGTCGCTCCGTAGAGCCAGTAGGT
Found at i:9288460 original size:27 final size:28
Alignment explanation
Indices: 9288406--9288460 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9288396 TTAAATAATT
*
9288406 AAAATTAAATATTTTAATAATTTAAGTG
1 AAAATTAAATATTTTAATAATTAAAGTG
*
9288434 AAAATTAATTATTTT-ATAATTAAAGTG
1 AAAATTAAATATTTTAATAATTAAAGTG
9288461 TGAACTTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAATTAAATATTTTAATAATTAAAGTG
Found at i:9290808 original size:106 final size:106
Alignment explanation
Indices: 9290637--9290847 Score: 386
Period size: 106 Copynumber: 2.0 Consensus size: 106
9290627 CAAAATCACG
*
9290637 TCACTGCTACTGTCCAAAACAATTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATTAACC
1 TCACTACTACTGTCCAAAACAATTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATTAACC
9290702 TCATTTTAACATACATATCACAAATCATTTTCACCACATTA
66 TCATTTTAACATACATATCACAAATCATTTTCACCACATTA
* * *
9290743 TCACTACTACTGTCGAGAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATTAACC
1 TCACTACTACTGTCCAAAACAATTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATTAACC
9290808 TCATTTTAACATACATATCACAAATCATTTTCACCACATT
66 TCATTTTAACATACATATCACAAATCATTTTCACCACATT
9290848 TCATACATCA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (106 bp):
TCACTACTACTGTCCAAAACAATTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATTAACC
TCATTTTAACATACATATCACAAATCATTTTCACCACATTA
Found at i:9292049 original size:30 final size:30
Alignment explanation
Indices: 9292015--9292075 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9292005 TCCTTAACTC
9292015 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
9292045 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
9292075 A
1 A
9292076 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:9312244 original size:40 final size:40
Alignment explanation
Indices: 9312161--9312423 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
9312151 TTGAATGCTG
* * * * * *
9312161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
9312201 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
9312241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
9312281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
9312321 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
9312361 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
9312400 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9312424 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:9312443 original size:79 final size:80
Alignment explanation
Indices: 9312200--9312458 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
9312190 AAGTGAATAT
* * * * * *
9312200 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
9312264 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
9312280 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
9312345 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
9312360 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
9312424 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
9312439 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
9312459 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:9320196 original size:40 final size:40
Alignment explanation
Indices: 9320113--9320375 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
9320103 TTGAATGCTG
* * * * * *
9320113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
9320153 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
9320193 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
9320233 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
9320273 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
9320313 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
9320352 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9320376 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:9320395 original size:79 final size:80
Alignment explanation
Indices: 9320152--9320410 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
9320142 AAGTGAATAT
* * * * * *
9320152 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
9320216 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
9320232 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
9320297 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
9320312 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
9320376 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
9320391 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
9320411 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:9322130 original size:43 final size:43
Alignment explanation
Indices: 9322083--9322242 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
9322073 ATAACATATC
* * * *
9322083 GATGCCACTGTCCCAAACAGGGTCTTACATGAAATTG-ATTAAT
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCGCA-TAAT
*
9322126 GATGCCAATGTCCCAGACATGGTCTTACATGTAATCGCATAAT
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCGCATAAT
* * * * *
9322169 GATGCCAATGTCCCAGATATGGTCTTACA-CATAATCACAAAAC
1 GATGCCAATGTCCCAGACATGGTCTTACATGA-AATCGCATAAT
* * * *
9322212 AATGTCAATATCCCAGACATAGTCTTACATG
1 GATGCCAATGTCCCAGACATGGTCTTACATG
9322243 TAACCTTATC
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
43 96 0.99
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACATGAAATCGCATAAT
Found at i:9328632 original size:155 final size:155
Alignment explanation
Indices: 9328350--9328659 Score: 620
Period size: 155 Copynumber: 2.0 Consensus size: 155
9328340 TGTCCATTTG
9328350 GCAAGATTAAAGCACGACTTACACGGGTAGACTACATGCCCGTGCCTATTCAACAGCCTTGACCA
1 GCAAGATTAAAGCACGACTTACACGGGTAGACTACATGCCCGTGCCTATTCAACAGCCTTGACCA
9328415 CGGGGCTGGAGTAATCGCACACGGGCGTGCCGAGCCCAAGTGTAGCCCTATTCAGAAAAGGCCAC
66 CGGGGCTGGAGTAATCGCACACGGGCGTGCCGAGCCCAAGTGTAGCCCTATTCAGAAAAGGCCAC
9328480 TTTTGAGGGCTCTTAGGCATTCTAA
131 TTTTGAGGGCTCTTAGGCATTCTAA
9328505 GCAAGATTAAAGCACGACTTACACGGGTAGACTACATGCCCGTGCCTATTCAACAGCCTTGACCA
1 GCAAGATTAAAGCACGACTTACACGGGTAGACTACATGCCCGTGCCTATTCAACAGCCTTGACCA
9328570 CGGGGCTGGAGTAATCGCACACGGGCGTGCCGAGCCCAAGTGTAGCCCTATTCAGAAAAGGCCAC
66 CGGGGCTGGAGTAATCGCACACGGGCGTGCCGAGCCCAAGTGTAGCCCTATTCAGAAAAGGCCAC
9328635 TTTTGAGGGCTCTTAGGCATTCTAA
131 TTTTGAGGGCTCTTAGGCATTCTAA
9328660 AGCCTATTTA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (155 bp):
GCAAGATTAAAGCACGACTTACACGGGTAGACTACATGCCCGTGCCTATTCAACAGCCTTGACCA
CGGGGCTGGAGTAATCGCACACGGGCGTGCCGAGCCCAAGTGTAGCCCTATTCAGAAAAGGCCAC
TTTTGAGGGCTCTTAGGCATTCTAA
Found at i:9337921 original size:27 final size:27
Alignment explanation
Indices: 9337891--9338068 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
9337881 ATATCAAGTC
* * * *
9337891 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
9337918 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9337945 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9337973 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9338000 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9338027 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9338054 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9338069 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9338030 original size:82 final size:81
Alignment explanation
Indices: 9337912--9338067 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
9337902 TGCTATATAA
*
9337912 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9337977 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9337994 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9338058 CACTTAGTGC
65 CACTTAGTGC
9338068 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9338631 original size:13 final size:13
Alignment explanation
Indices: 9338613--9338637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9338603 TACTAAATTT
9338613 TCATGGATTCAAG
1 TCATGGATTCAAG
9338626 TCATGGATTCAA
1 TCATGGATTCAA
9338638 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:9345959 original size:27 final size:27
Alignment explanation
Indices: 9345929--9346106 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9345919 ATATTGAGTC
* * * *
9345929 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
9345956 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9345983 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9346011 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9346038 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9346065 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9346092 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9346107 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9346068 original size:82 final size:81
Alignment explanation
Indices: 9345950--9346105 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9345940 TGCTATATAA
* *
9345950 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9346015 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9346032 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9346096 CACTTAGTGC
65 CACTTAGTGC
9346106 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9349132 original size:40 final size:40
Alignment explanation
Indices: 9349058--9349279 Score: 286
Period size: 40 Copynumber: 5.6 Consensus size: 40
9349048 AACCCAAGTA
* * *
9349058 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
9349097 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
9349137 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
9349177 CCTTCGAGACTTCGACCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
9349217 CCTTCGGGACTTAGCCTGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
9349257 CCTTCGGGACTTAACTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
9349280 CATTCGAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.08
40 143 0.91
41 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:9357613 original size:40 final size:40
Alignment explanation
Indices: 9357539--9357760 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
9357529 AACCCAAGTA
* * *
9357539 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
9357578 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
9357618 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
9357658 CCTTCGAGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * **
9357698 CCTTCGGAACTTAGCCCGGATATAATCACTAGCATGAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
9357738 CCTTCGGGACTTACCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
9357761 CATTCGAATA
Statistics
Matches: 161, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 12 0.07
40 146 0.91
41 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:9363350 original size:24 final size:23
Alignment explanation
Indices: 9363323--9363375 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
9363313 ACATAAAATT
*
9363323 TTAAAATTAATAATTTAAAAAAAA
1 TTAAAAATAAT-ATTTAAAAAAAA
*
9363347 TTAAAAATCATATTT--AAAAAA
1 TTAAAAATAATATTTAAAAAAAA
9363368 TTAAAAAT
1 TTAAAAAT
9363376 TATAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 14 0.52
23 4 0.15
24 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAAAAATAATATTTAAAAAAAA
Found at i:9363629 original size:27 final size:29
Alignment explanation
Indices: 9363569--9363633 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
9363559 TGGACAATCC
* *
9363569 ATATTATTCTAGTAATTAAATATTTTTTT
1 ATATTATTCTAGTAAATAAATATTTTTCT
9363598 ATATTATTCTAGTAAAT-AAT-TTTTTCT
1 ATATTATTCTAGTAAATAAATATTTTTCT
9363625 ATATTATTC
1 ATATTATTC
9363634 AAGAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 15 0.44
28 3 0.09
29 16 0.47
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (29 bp):
ATATTATTCTAGTAAATAAATATTTTTCT
Found at i:9368378 original size:41 final size:41
Alignment explanation
Indices: 9368265--9368361 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
9368255 TGTGTGTGTG
* ** *
9368265 TGTGGCACTTAGTGTGCGATTCGGAG-TAGCTTTGGCTATA
1 TGTGGCACTTAGTGTGCAAGACTGAGATAGCTTTGGCTATA
*
9368305 TGTGGCACTTAGTGTGCAAGACTGAGATAGCTTTGGCTATG
1 TGTGGCACTTAGTGTGCAAGACTGAGATAGCTTTGGCTATA
9368346 TGAT-GCACTTAGTGTG
1 TG-TGGCACTTAGTGTG
9368362 TGAGATTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 22 0.44
41 27 0.54
42 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (41 bp):
TGTGGCACTTAGTGTGCAAGACTGAGATAGCTTTGGCTATA
Found at i:9368407 original size:40 final size:41
Alignment explanation
Indices: 9368263--9368407 Score: 115
Period size: 41 Copynumber: 3.6 Consensus size: 41
9368253 TGTGTGTGTG
* * *
9368263 TGTG-TGGCACTTAGTGTGCGA-TTCG-GAGTAGCTTTGGCTA
1 TGTGATGGCACTTAGTGTGCGAGAT-GAGA-TAGCTTCGACTA
* * * *
9368303 TATG-TGGCACTTAGTGTGCAAGACTGAGATAGCTTTGGCTA
1 TGTGATGGCACTTAGTGTGCGAGA-TGAGATAGCTTCGACTA
* *
9368344 TGTGAT-GCACTTAGTGTGTGAGATTATGATAGCTTCGACTA
1 TGTGATGGCACTTAGTGTGCGAGATGA-GATAGCTTCGACTA
*
9368385 T-T-ATGGCACTTATTGTGCGAGAT
1 TGTGATGGCACTTAGTGTGCGAGAT
9368408 ATCGAATAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.02
40 38 0.43
41 44 0.50
42 4 0.05
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (41 bp):
TGTGATGGCACTTAGTGTGCGAGATGAGATAGCTTCGACTA
Found at i:9368641 original size:30 final size:30
Alignment explanation
Indices: 9368605--9368664 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
9368595 ATGTTGATGA
9368605 TTAGATAATTCTATATCATACGAACTTACT
1 TTAGATAATTCTATATCATACGAACTTACT
9368635 TTAGATAATTCTATATCATACGAACTTACT
1 TTAGATAATTCTATATCATACGAACTTACT
9368665 AAGCTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (30 bp):
TTAGATAATTCTATATCATACGAACTTACT
Found at i:9371068 original size:30 final size:30
Alignment explanation
Indices: 9371023--9371082 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9371013 ATTTAATACG
*
9371023 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
9371053 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
9371083 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:9379951 original size:29 final size:28
Alignment explanation
Indices: 9379915--9379992 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
9379905 TCATGAGATT
9379915 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
9379945 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
9379972 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
9379993 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:9380210 original size:174 final size:174
Alignment explanation
Indices: 9379945--9380272 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
9379935 AAATTGTACA
9379945 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
9380010 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
9380075 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
9380119 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
9380184 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
9380249 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
9380273 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:9391938 original size:50 final size:49
Alignment explanation
Indices: 9391770--9391947 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 49
9391760 GGTATAATGC
*
9391770 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-ATCAAGT-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATC-CGTGT
* * * * *
9391818 -GATGCCATGTCCCAGACATGATCTTACA-TTGACTATCGA-AAT-CGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCCG-TGT
* *
9391866 CGACGCCATGTCCCAGATATGGTCTTACACTAGCTCTCACATATCCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCCGTGT
*
9391916 CGATGCCATGTCCCGGACATGGTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
9391948 ACACATCTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
46 5 0.05
47 29 0.28
48 3 0.03
49 30 0.29
50 34 0.33
51 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCCGTGT
Found at i:9391964 original size:96 final size:96
Alignment explanation
Indices: 9391768--9391990 Score: 237
Period size: 96 Copynumber: 2.3 Consensus size: 96
9391758 AGGGTATAAT
9391768 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCCAG
* * *
9391833 ACATGATCTTACATTGACTATCGAAATCGAG
66 ACATGATCTTACACTAACTATCGAAATCGAA
* * *
9391864 GCCGACGCCATGTCCCAGATATGGTCTTACACTAGCTC-TCACAT-ATCCGTGTCGATGCCATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT-T-GATGCCATGT
* * **
9391927 CCCGGACATGGTCTTACACTAAC-A-C-ATCTC-ATA
61 CCCAGACATGATCTTACACTAACTATCGAAATCGA-A
*
9391960 GCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
9391991 GGGATACATC
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
94 10 0.09
95 16 0.15
96 48 0.44
97 3 0.03
98 2 0.02
99 29 0.27
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCCAG
ACATGATCTTACACTAACTATCGAAATCGAA
Found at i:9392002 original size:46 final size:44
Alignment explanation
Indices: 9391768--9392042 Score: 151
Period size: 46 Copynumber: 5.8 Consensus size: 44
9391758 AGGGTATAAT
* *
9391768 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACAT-C-TCGAA
** * * ** *
9391815 GTTGATGCCATGTCCCAGACATGATCTTACATTGACTATCGAAATCGAG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAAC-A-C-ATCTCGAA
* * * * *
9391864 GCCGACGCCATGTCCCAGATATGGTCTTACACTAGCTCTCACATATCCG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTA----ACACATCT-CGAA
* *
9391914 GTCGATGCCATGTCCCGGACATGGTCTTACACTAACACATCTC-ATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCGA-A
* * * *
9391960 GCCGATGCATGTCCTAGACATGTCTTACACTGGGATACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACT--AACACATCTCGAA
*
9392006 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACACA
9392043 CAAATAACCT
Statistics
Matches: 177, Mismatches: 35, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
44 13 0.07
45 13 0.07
46 51 0.29
47 30 0.17
48 2 0.01
49 28 0.16
50 35 0.20
51 3 0.02
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGAA
Found at i:9396047 original size:48 final size:48
Alignment explanation
Indices: 9395975--9396355 Score: 350
Period size: 48 Copynumber: 7.9 Consensus size: 48
9395965 AAAGGGTAAG
* * * * *
9395975 ATGCCAATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCATATAA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * *
9396023 ATGCCAATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* ** * ** *
9396071 AGGCTGATGCCATGTCCCAAACATGGTCTTACACTAACTCTGATATAA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * * *
9396119 ATGCCGATGCTATGTTCCAAACATGGTCTTACA-TTGACTCAGATATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAG-CTCACATATCA
* ** * * * * * *
9396167 AGGCTGATGCCATGTCCTAGACATAGTCTTACACTAACTCTCATATAA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
9396215 ATGCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * * *
9396263 AGGTCAATGCCATGTCCCAGACATGGTCTTGCATTAGCTCTCATATCA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* *
9396311 ATGGCAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
9396356 ACCCTAGTAT
Statistics
Matches: 263, Mismatches: 68, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
47 1 0.00
48 261 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
Found at i:9396145 original size:96 final size:96
Alignment explanation
Indices: 9395981--9396355 Score: 536
Period size: 96 Copynumber: 3.9 Consensus size: 96
9395971 TAAGATGCCA
* * * *
9395981 ATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCTAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAAATGCCAATGCCATGTTCCAAACA
9396046 TGGTCTTACACTGGCTCACATATCGAGGCTG
66 TGGTCTTACACTGGCTCACATATCGAGGCTG
* * * *
9396077 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTGATATAAATGCCGATGCTATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAAATGCCAATGCCATGTTCCAAACA
* * *
9396142 TGGTCTTACATTGACTCAGATATCGAGGCTG
66 TGGTCTTACACTGGCTCACATATCGAGGCTG
* * * *
9396173 ATGCCATGTCCTAGACATAGTCTTACACTAACTCTCATATAAATGCCGATGCCATGTTCTAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAAATGCCAATGCCATGTTCCAAACA
*
9396238 TGGTCTTACACTGGCTCACATATCGAGG-TCA
66 TGGTCTTACACTGGCTCACATATCGAGGCT-G
* * * * *
9396269 ATGCCATGTCCCAGACATGGTCTTGCATTAGCTCTCATATCAATGGCAATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAAATGCCAATGCCATGTTCCAAACA
*
9396334 TGGTCTTACACTAGCTCACATA
66 TGGTCTTACACTGGCTCACATA
9396356 ACCCTAGTAT
Statistics
Matches: 247, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
95 1 0.00
96 246 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATAAATGCCAATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATCGAGGCTG
Found at i:9399136 original size:22 final size:22
Alignment explanation
Indices: 9399111--9399154 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9399101 AATGAATGAG
*
9399111 TAATGA-AAATATGAATTGATTT
1 TAATGACAAA-ATGAATAGATTT
*
9399133 TAATTACAAAATGAATAGATTT
1 TAATGACAAAATGAATAGATTT
9399155 GGTATATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (22 bp):
TAATGACAAAATGAATAGATTT
Found at i:9407904 original size:18 final size:16
Alignment explanation
Indices: 9407872--9407905 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
9407862 CTTGTCATGG
9407872 CATGGTTTTGGTTTAT
1 CATGGTTTTGGTTTAT
9407888 CATGTGTTTTCGGTTTAT
1 CATG-GTTTT-GGTTTAT
9407906 GTGTCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.12, C:0.09, G:0.24, T:0.56
Consensus pattern (16 bp):
CATGGTTTTGGTTTAT
Found at i:9415104 original size:14 final size:15
Alignment explanation
Indices: 9415085--9415114 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9415075 TTTGAGTTTA
9415085 TTATGTGTG-AATTT
1 TTATGTGTGAAATTT
9415099 TTATGTGTGAAATTT
1 TTATGTGTGAAATTT
9415114 T
1 T
9415115 CGTTCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (15 bp):
TTATGTGTGAAATTT
Found at i:9428409 original size:19 final size:19
Alignment explanation
Indices: 9428385--9428421 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9428375 ACACATATCG
9428385 AAATCACAGATCGATGCCA
1 AAATCACAGATCGATGCCA
9428404 AAATCACAGATCGATGCC
1 AAATCACAGATCGATGCC
9428422 TTGGACTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (19 bp):
AAATCACAGATCGATGCCA
Found at i:9432717 original size:32 final size:32
Alignment explanation
Indices: 9432676--9432740 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9432666 AGGATCATCA
9432676 ATCATTTGATAATTATTGAAATGACTAACAAG
1 ATCATTTGATAATTATTGAAATGACTAACAAG
9432708 ATCATTTGATAATTATTGAAATGACTAACAAG
1 ATCATTTGATAATTATTGAAATGACTAACAAG
9432740 A
1 A
9432741 AATTTCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
ATCATTTGATAATTATTGAAATGACTAACAAG
Found at i:9435090 original size:41 final size:41
Alignment explanation
Indices: 9434975--9435124 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
9434965 CTCTGACTCA
* * *
9434975 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
9435016 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
9435056 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
9435097 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
9435125 TAAACCCCGA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:9442293 original size:18 final size:18
Alignment explanation
Indices: 9442270--9442305 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9442260 ATATCAATGT
9442270 CCATAAAAAAAAATATGC
1 CCATAAAAAAAAATATGC
*
9442288 CCATAAAAAATAATATGC
1 CCATAAAAAAAAATATGC
9442306 ATTTGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (18 bp):
CCATAAAAAAAAATATGC
Found at i:9442464 original size:15 final size:15
Alignment explanation
Indices: 9442431--9442468 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9442421 ATGTGATATT
*
9442431 TAATAA-TATAATAA
1 TAATAATTATAAGAA
*
9442445 AAATAATTATAAGAA
1 TAATAATTATAAGAA
9442460 TAATAATTA
1 TAATAATTA
9442469 CATAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TAATAATTATAAGAA
Found at i:9442774 original size:19 final size:18
Alignment explanation
Indices: 9442742--9442952 Score: 69
Period size: 19 Copynumber: 11.2 Consensus size: 18
9442732 TAATATATAG
*
9442742 ATAAAAATAGATAATAAT
1 ATAAAAATACATAATAAT
9442760 ATAAAAATGACATAATAAT
1 ATAAAAAT-ACATAATAAT
* *
9442779 ATATAATATA-ATTATAAT
1 ATA-AAAATACATAATAAT
* * *
9442797 TTATAATATAAAAGTATATATAT
1 ATA-AAAAT-ACA-TA-ATA-AT
*
9442820 ATAAATAATATATAATATAT
1 ATAAA-AATACATAATA-AT
*
9442840 AATTAACAAATATATAAT-AT
1 -A-TAA-AAATACATAATAAT
* *
9442860 AATAATATATAAATAATAAT
1 -ATAA-AAATACATAATAAT
*
9442880 GT-AAAATA-ATAATAAT
1 ATAAAAATACATAATAAT
* *
9442896 TTATGAAA-A-ATAATACAT
1 ATA-AAAATACATAATA-AT
*
9442914 -TATAAATA-ATAATAAT
1 ATAAAAATACATAATAAT
* *
9442930 ATAAATAATATATAATAAA
1 ATAAA-AATACATAATAAT
9442949 ATAA
1 ATAA
9442953 TTATATAACA
Statistics
Matches: 156, Mismatches: 18, Indels: 37
0.74 0.09 0.18
Matches are distributed among these distances:
16 14 0.09
17 23 0.15
18 33 0.21
19 38 0.24
20 17 0.11
21 4 0.03
22 20 0.13
23 7 0.04
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAAAATACATAATAAT
Found at i:9442837 original size:22 final size:22
Alignment explanation
Indices: 9442812--9442946 Score: 79
Period size: 22 Copynumber: 6.1 Consensus size: 22
9442802 ATATAAAAGT
9442812 ATATATATATAAATAATATATA
1 ATATATATATAAATAATATATA
*
9442834 ATATATAATTAACAAATATATAATATA
1 ATATAT-A-T-ATAAATA-AT-ATATA
*
9442861 ATA-ATATATAAATAATAATGTA
1 ATATATATATAAATAAT-ATATA
*
9442883 A-A-ATA-AT-AATAATTTATGA
1 ATATATATATAAATAATATAT-A
* * * *
9442902 A-AAATA-ATACATTATAAATA
1 ATATATATATAAATAATATATA
9442922 ATAATA-ATATAAATAATATATA
1 AT-ATATATATAAATAATATATA
9442944 ATA
1 ATA
9442947 AAATAATTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
18 2 0.02
19 9 0.10
20 9 0.10
21 12 0.13
22 29 0.33
23 7 0.08
24 2 0.02
25 7 0.08
26 4 0.04
27 8 0.09
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (22 bp):
ATATATATATAAATAATATATA
Found at i:9442864 original size:37 final size:37
Alignment explanation
Indices: 9442730--9442960 Score: 142
Period size: 37 Copynumber: 6.1 Consensus size: 37
9442720 CTTTAATGAT
* * *
9442730 AATAATATATAGATAAAAATAGATA-ATAATATAAAAATGA
1 AATAATA-ATA-ATATAAATA-ATATATAATAT-ATAATTA
* *
9442770 CATAATAAT-ATATAATATAAT-TATAATTTATAATATA
1 AATAATAATAATATAA-ATAATATATAATATATAAT-TA
*
9442807 AA-AGTATATATATATAAATAATATATAATATATAATTA
1 AATAATA-ATA-ATATAAATAATATATAATATATAATTA
9442845 ACA-AATATATAATAT-AATAATATATAA-ATAATAATGTAA
1 A-ATAATA-ATAATATAAATAATATATAATAT-ATAAT-T-A
* * * *
9442884 AATAATAATAAT-T-TATGAA-AAATAATACATTA-TA
1 AATAATAATAATATAAAT-AATATATAATATATAATTA
*
9442918 AATAATAATAATATAAATAATATATAATAAAATAATTA
1 AATAATAATAATATAAATAATATATAAT-ATATAATTA
*
9442956 TATAA
1 AATAA
9442961 CATAAAAAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
34 13 0.08
35 4 0.03
36 17 0.11
37 49 0.32
38 31 0.20
39 34 0.22
40 6 0.04
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (37 bp):
AATAATAATAATATAAATAATATATAATATATAATTA
Found at i:9442867 original size:30 final size:29
Alignment explanation
Indices: 9442771--9442960 Score: 110
Period size: 30 Copynumber: 6.5 Consensus size: 29
9442761 TAAAAATGAC
*
9442771 ATAATAATATATAA-T-ATAAT-TATAAT
1 ATAATAATATATAATTAAAAATATATAAT
* * * * *
9442797 -TTATAATATAAAAGTATATATATATAAAT
1 ATAATAATATATAATTAAAAATATAT-AAT
9442826 AATATATAATATATAATTAACAAATATATAAT
1 -ATA-ATAATATATAATTAA-AAATATATAAT
* * *
9442858 ATAATAATATATAAATAATAATGTA-AA-
1 ATAATAATATATAATTAAAAATATATAAT
* *
9442885 ATAATAATA-ATTTATGAAAAATA-ATACATT
1 ATAATAATATA-TAATTAAAAATATATA-A-T
9442915 ATAAATAATA-ATAATATAAATAATATATAAT
1 AT-AATAATATATAAT-TAAA-AATATATAAT
*
9442946 AAAATAATTATATAA
1 ATAATAA-TATATAA
9442961 CATAAAAAAT
Statistics
Matches: 124, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
25 11 0.09
26 3 0.02
27 19 0.15
28 6 0.05
29 8 0.06
30 24 0.19
31 19 0.15
32 24 0.19
33 10 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (29 bp):
ATAATAATATATAATTAAAAATATATAAT
Found at i:9442869 original size:54 final size:54
Alignment explanation
Indices: 9442752--9442955 Score: 167
Period size: 54 Copynumber: 3.8 Consensus size: 54
9442742 ATAAAAATAG
* * * *
9442752 ATAATAATATA-AAAATGACATAATA-ATATATAATATAATT--ATAATTTATAAT
1 ATAATAATATATAATAT-AAATAATATATA-ATAATATAATTAAAAAATATATAAT
*
9442804 ATAA-AAGTATATATATATAAATAATATATAAT-ATATAATTAACAAATATATAAT
1 ATAATAA-TATATA-ATATAAATAATATATAATAATATAATTAAAAAATATATAAT
* *
9442858 ATAATAATATATAA-AT-AATAATGTAAAATAATAATAATTTATGAAAAATA-ATACATT
1 ATAATAATATATAATATAAATAATATATAATAAT-ATAA-TTA--AAAAATATATA-A-T
*
9442915 ATAAATAATA-ATAATATAAATAATATATAATAAAATAATTA
1 AT-AATAATATATAATATAAATAATATATAATAATATAATTA
9442956 TATAACATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 29
0.76 0.07 0.18
Matches are distributed among these distances:
51 13 0.10
52 20 0.16
53 15 0.12
54 28 0.23
55 5 0.04
56 7 0.06
57 10 0.08
58 13 0.10
59 13 0.10
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (54 bp):
ATAATAATATATAATATAAATAATATATAATAATATAATTAAAAAATATATAAT
Found at i:9442871 original size:76 final size:76
Alignment explanation
Indices: 9442735--9442885 Score: 166
Period size: 76 Copynumber: 2.0 Consensus size: 76
9442725 ATGATAATAA
* * *
9442735 TATATAGATAAAAATAGATAATAATATAAAAATGACATAATAATATATAATATAATTATAATTTA
1 TATATAGATAAAAATAGATAATAATATAAAAATAACATAATAATATATAATATAATTATAAATAA
9442800 TAATATAAAAG
66 TAATATAAAAG
* * * *
9442811 TATATATATATAAATA-ATATATAATATATAATTAACA-AAT-ATATA-ATATAATAATATATAA
1 TATATAGATAAAAATAGATA-ATAATATAAAAATAACATAATAATATATA-AT-ATAAT-TATAA
*
9442872 ATAATAATGTAAAA
62 ATAATAATATAAAA
9442886 TAATAATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
73 1 0.02
74 7 0.11
75 11 0.17
76 44 0.70
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (76 bp):
TATATAGATAAAAATAGATAATAATATAAAAATAACATAATAATATATAATATAATTATAAATAA
TAATATAAAAG
Found at i:9442893 original size:64 final size:65
Alignment explanation
Indices: 9442799--9442972 Score: 159
Period size: 64 Copynumber: 2.8 Consensus size: 65
9442789 ATTATAATTT
* * *
9442799 ATAATATAAA-AGTATATATATATAAATAAT-ATATA-ATAT-ATAATTAACAAATATATAATAT
1 ATAATATAAATAATATATA-ATA-AAATAATAATATATATATGAAAAATAACAAAT-TATAA-AT
9442860 AATA
62 AATA
* * * *
9442864 AT-ATATAAATAATA-AT-GTAAAATAATAATA-ATTTATGAAAAATAATACATTATAAATAATA
1 ATAATATAAATAATATATAATAAAATAATAATATATATATGAAAAATAACAAATTATAAATAATA
* * *
9442925 ATAATATAAATAATATATAATAAAATAATTATATA-ACATAAAAAATAA
1 ATAATATAAATAATATATAATAAAATAATAATATATATATGAAAAATAA
9442973 GGTTAAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 17
0.75 0.10 0.14
Matches are distributed among these distances:
61 16 0.18
62 25 0.28
63 11 0.12
64 31 0.35
65 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (65 bp):
ATAATATAAATAATATATAATAAAATAATAATATATATATGAAAAATAACAAATTATAAATAATA
Found at i:9442967 original size:18 final size:15
Alignment explanation
Indices: 9442816--9442960 Score: 111
Period size: 15 Copynumber: 9.5 Consensus size: 15
9442806 AAAAGTATAT
9442816 ATATATAAATAATATATA
1 ATATAT-AATAA-A-ATA
*
9442834 ATATATAATTAACA-A
1 ATATATAA-TAAAATA
*
9442849 ATATATAATATAATA
1 ATATATAATAAAATA
*
9442864 ATATATAA-ATAATA
1 ATATATAATAAAATA
* *
9442878 ATGTAAAATAATAATA
1 ATATATAATAA-AATA
* *
9442894 ATTTATGA-AAAATA
1 ATATATAATAAAATA
* *
9442908 ATACATTAT-AAATA
1 ATATATAATAAAATA
9442922 ATA-ATAATATAAATA
1 ATATATAATA-AAATA
9442937 ATATATAATAAAATA
1 ATATATAATAAAATA
9442952 ATTATATAA
1 A-TATATAA
9442961 CATAAAAAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
13 4 0.04
14 32 0.30
15 35 0.33
16 23 0.22
17 2 0.02
18 9 0.09
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (15 bp):
ATATATAATAAAATA
Found at i:9446830 original size:38 final size:38
Alignment explanation
Indices: 9446744--9446984 Score: 251
Period size: 38 Copynumber: 6.4 Consensus size: 38
9446734 TGCGCAATAC
*
9446744 TCAGTATAATCAG-AGAACTTTTGCTCGATT--G-AACAT
1 TCAGTATATTCAGTAG-A-TTTTGCTCGATTGAGCAACAT
* * *
9446780 TCAGTGTGTTCAGTAGATTTTGCTGGATTGAGCAACAT
1 TCAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
* * *
9446818 TCAGTATATTCAGTAGAATTTGATCAATTGAGCAACAT
1 TCAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
* ** *
9446856 T-TGATATATTTGGTAGGTTTTGCTCGATTGAGCAACACT
1 TCAG-TATATTCAGTAGATTTTGCTCGATTGAGCAACA-T
* * * *
9446895 T-AGTGTGTTTAGTAGATTTTGCTCGATTGAGCGACAT
1 TCAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
*
9446932 TTAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
1 TCAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
*
9446970 TCAATATATTCAGTA
1 TCAGTATATTCAGTA
9446985 TTTCATTTTC
Statistics
Matches: 169, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
35 11 0.07
36 11 0.07
37 6 0.04
38 138 0.82
39 3 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (38 bp):
TCAGTATATTCAGTAGATTTTGCTCGATTGAGCAACAT
Found at i:9446914 original size:114 final size:111
Alignment explanation
Indices: 9446762--9446979 Score: 312
Period size: 114 Copynumber: 1.9 Consensus size: 111
9446752 ATCAGAGAAC
*
9446762 TTTTGCTCGATTGAACATTCAGTGTGTTCAGTAGATTTTGCTGGATTGAGCAACATTCAGTATAT
1 TTTTGCTCGATTGAACATTCAGTGTGTTCAGTAGATTTTGCTCGATTGAGCAACATTCAGTATAT
**
9446827 TCAGTAGAATTTGATCAATTGAGCAACATTTGATATATTTGGTAGG
66 TCAGTAGAATTTGATCAATTGAGCAACATTCAATATATTTGGTAGG
* * *
9446873 TTTTGCTCGATTGAGCAACACTT-AGTGTGTTTAGTAGATTTTGCTCGATTGAGCGACATTTAGT
1 TTTTGCTCGATT--G-AACA-TTCAGTGTGTTCAGTAGATTTTGCTCGATTGAGCAACATTCAGT
* * *
9446937 ATATTCAGTAGATTTTGCTCGATTGAGCAACATTCAATATATT
62 ATATTCAGTAGAATTTGATCAATTGAGCAACATTCAATATATT
9446980 CAGTATTTCA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
111 12 0.13
113 1 0.01
114 79 0.84
115 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (111 bp):
TTTTGCTCGATTGAACATTCAGTGTGTTCAGTAGATTTTGCTCGATTGAGCAACATTCAGTATAT
TCAGTAGAATTTGATCAATTGAGCAACATTCAATATATTTGGTAGG
Found at i:9447759 original size:27 final size:27
Alignment explanation
Indices: 9447728--9447787 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
9447718 CAGGACCACA
9447728 TATTTGAGTTAGAAAATATTTTAATAT
1 TATTTGAGTTAGAAAATATTTTAATAT
**
9447755 TATTTTTTGTTAGAAAATATTTTAATAT
1 TA-TTTGAGTTAGAAAATATTTTAATAT
9447783 TATTT
1 TATTT
9447788 TTCATGCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (27 bp):
TATTTGAGTTAGAAAATATTTTAATAT
Found at i:9447767 original size:28 final size:28
Alignment explanation
Indices: 9447735--9447789 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
9447725 ACATATTTGA
9447735 GTTAGAAAATATTTTAATATTATTTTTT
1 GTTAGAAAATATTTTAATATTATTTTTT
9447763 GTTAGAAAATATTTTAATATTATTTTT
1 GTTAGAAAATATTTTAATATTATTTTT
9447790 CATGCCTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (28 bp):
GTTAGAAAATATTTTAATATTATTTTTT
Found at i:9452655 original size:28 final size:28
Alignment explanation
Indices: 9452590--9452799 Score: 341
Period size: 28 Copynumber: 7.5 Consensus size: 28
9452580 CATGAGATTG
* * *
9452590 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
9452619 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9452647 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9452675 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9452703 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9452731 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9452759 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9452786 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9452800 GACTTAATAT
Statistics
Matches: 175, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.14
28 133 0.76
29 18 0.10
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9459691 original size:93 final size:93
Alignment explanation
Indices: 9459532--9459702 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
9459522 GGATGGTTGA
* * * *
9459532 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
9459597 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
9459625 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
9459690 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
9459703 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9459705 original size:46 final size:46
Alignment explanation
Indices: 9459536--9459707 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
9459526 GGTTGAGCAT
* * * *
9459536 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
9459582 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
9459627 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
9459675 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
9459708 GGGGCAGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.57
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:9465628 original size:40 final size:40
Alignment explanation
Indices: 9465580--9465726 Score: 267
Period size: 40 Copynumber: 3.7 Consensus size: 40
9465570 GCAAACACAT
* *
9465580 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
9465620 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9465660 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9465700 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
9465727 ATCCAATGCT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:9479932 original size:82 final size:82
Alignment explanation
Indices: 9479788--9479944 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
9479778 ATTTGAATGT
* * * *
9479788 TTTCTTTTTGTACATTTTCCGGTAATGATATTTCCAATGGTGGAATAAATAGACAGTTGAGTTGC
1 TTTCTTTTTGTACATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCGAGTTGC
9479853 TTCGTGATCACTAGTGA
66 TTCGTGATCACTAGTGA
** * *
9479870 TTTCTTTTTGTGTATTTTTCGGTAATAATATGTCCAATGGTGTAATAAATAGACAATCGAGTTGC
1 TTTCTTTTTGTACATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCGAGTTGC
9479935 TTCGTGATCA
66 TTCGTGATCA
9479945 TTGGCGGAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (82 bp):
TTTCTTTTTGTACATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCGAGTTGC
TTCGTGATCACTAGTGA
Found at i:9494188 original size:117 final size:117
Alignment explanation
Indices: 9493982--9494216 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 117
9493972 AGGAGCTATG
*
9493982 GAGTCCCCCAAACATTGGTATTATTAATATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
1 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
*
9494047 ACTCTATTACACCAGTTTTAGCTAGAAATTTTGAAAGTGAAATCGTAGGGGC
66 ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
*
9494099 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACGCATCTTTTCAAAGTGACTCTAGAA
1 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
* *
9494164 ACTTTATTACATCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
66 ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
9494216 G
1 G
9494217 TGTACTTACC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (117 bp):
GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
Found at i:9496463 original size:19 final size:18
Alignment explanation
Indices: 9496425--9496466 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9496415 ATTGGGTTTG
* *
9496425 TTTTGTTTTTTTGTTGTA
1 TTTTGGTTTTTTGTTATA
9496443 TTTTGGTTTTTTGTTTATA
1 TTTTGGTTTTTTG-TTATA
9496462 TTTTG
1 TTTTG
9496467 TTATTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (18 bp):
TTTTGGTTTTTTGTTATA
Found at i:9497109 original size:92 final size:92
Alignment explanation
Indices: 9496986--9497261 Score: 543
Period size: 92 Copynumber: 3.0 Consensus size: 92
9496976 TATGATTGTC
9496986 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
1 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
9497051 ATTTTGATGGATTAGTATGATTAATAG
66 ATTTTGATGGATTAGTATGATTAATAG
9497078 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
1 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
9497143 ATTTTGATGGATTAGTATGATTAATAG
66 ATTTTGATGGATTAGTATGATTAATAG
9497170 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
1 GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
*
9497235 ATTTTGATGGATTAGTATGATAAATAG
66 ATTTTGATGGATTAGTATGATTAATAG
9497262 AGAATATATA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 183 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (92 bp):
GTGTTATTTGTATGAGAAATGATTGCTTTATGTTCTTCTGCTATAATGTTACATCTCTACAATGA
ATTTTGATGGATTAGTATGATTAATAG
Found at i:9501245 original size:79 final size:81
Alignment explanation
Indices: 9501143--9501326 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
9501133 GCTCCTCGTT
* *
9501143 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
9501205 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
9501223 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
9501287 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
9501303 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9501327 CAACATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:9501260 original size:39 final size:41
Alignment explanation
Indices: 9501143--9501326 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
9501133 GCTCCTCGTT
* *
9501143 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
9501183 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
9501223 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
9501262 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
9501303 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9501327 CAACATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:9504228 original size:85 final size:85
Alignment explanation
Indices: 9504080--9504246 Score: 307
Period size: 85 Copynumber: 2.0 Consensus size: 85
9504070 GAAGGCACTT
* *
9504080 GATGTTCCGCTTTCACTTGTCGACATATTAAACATCTCGAAACAAGGTCGGAGATGTCTCGTTTC
1 GATGTTCCGCTTTCACTTGTCGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
9504145 ATACCATGCCACCAAAACCA
66 ATACCATGCCACCAAAACCA
*
9504165 GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
1 GATGTTCCGCTTTCACTTGTCGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
9504230 ATACCATGCCACCAAAA
66 ATACCATGCCACCAAAA
9504247 TCGACGTTTC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
GATGTTCCGCTTTCACTTGTCGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
ATACCATGCCACCAAAACCA
Found at i:9509209 original size:40 final size:40
Alignment explanation
Indices: 9509165--9509296 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
9509155 GCTCCTCGTT
*
9509165 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
9509205 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * *
9509245 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGCATCTCGTA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
9509284 CAAATGCCTTCGG
1 CAAATGCCTTCGG
9509297 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.40
40 47 0.57
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:9518879 original size:16 final size:18
Alignment explanation
Indices: 9518853--9518885 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9518843 TGTCTTTTAT
9518853 TATGCAAAAGG-AATGAG
1 TATGCAAAAGGTAATGAG
9518870 TATG-AAAAGGTAATGA
1 TATGCAAAAGGTAATGA
9518886 AAAATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.27, T:0.21
Consensus pattern (18 bp):
TATGCAAAAGGTAATGAG
Found at i:9519082 original size:15 final size:16
Alignment explanation
Indices: 9519052--9519085 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9519042 AAGCTAAAGT
*
9519052 AAGTAAATGCAATGGA
1 AAGTAAATGAAATGGA
9519068 AAGTAAAT-AAATGGA
1 AAGTAAATGAAATGGA
9519083 AAG
1 AAG
9519086 GTTCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.18
Consensus pattern (16 bp):
AAGTAAATGAAATGGA
Found at i:9544074 original size:39 final size:40
Alignment explanation
Indices: 9543870--9544092 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
9543860 TTGAATGCTG
* * * * * *
9543870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
9543910 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
9543950 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
9543990 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
9544030 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9544069 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9544093 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:9544112 original size:79 final size:80
Alignment explanation
Indices: 9543945--9544127 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
9543935 GTGCGAGATA
* * *
9543945 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
9544010 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
9544025 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
9544089 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
9544104 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
9544128 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:9551739 original size:40 final size:39
Alignment explanation
Indices: 9551708--9551917 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
9551698 GGACTAAGAT
* *
9551708 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
9551748 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
9551788 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
9551828 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
9551868 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
9551907 CCGAAGGCATT
1 CCGAAGGCATT
9551918 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:9551871 original size:120 final size:120
Alignment explanation
Indices: 9551655--9551917 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
9551645 TTGAATGCTG
* *
9551655 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
9551719 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
9551775 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
9551838 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
9551894 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
9551918 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:9551937 original size:79 final size:80
Alignment explanation
Indices: 9551656--9551952 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
9551646 TGAATGCTGT
* ** * * * **
9551656 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
9551719 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
9551736 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
9551800 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
9551816 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
9551880 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
9551895 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
9551953 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:9557330 original size:27 final size:27
Alignment explanation
Indices: 9557300--9557371 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
9557290 GTAGGCTAGC
9557300 ATTACTGAAATACCCTTGCAGGGTAGA
1 ATTACTGAAATACCCTTGCAGGGTAGA
* * *
9557327 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCTTGCAGGGTAGA
* **
9557354 ATTGCCAAAATACCCTTG
1 ATTACTGAAATACCCTTG
9557372 GTTTATAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGCAGGGTAGA
Found at i:9557383 original size:27 final size:27
Alignment explanation
Indices: 9557353--9557614 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
9557343 TGTAGGGTAG
* * *
9557353 AATTGCCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
9557380 AATTTCCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* ** * *
9557407 AATTACTAAAATACCTTTTGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
9557434 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
9557461 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
9557488 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
9557515 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
** * ***
9557542 AATTATTAAAATACCCCCGACCTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*** **
9557569 AATTATTGAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
*
9557596 AATTACCAAAGTACCCCTG
1 AATTACCAAAATACCCCTG
9557615 ATTTACAGAA
Statistics
Matches: 197, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.02
27 190 0.96
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:9557668 original size:27 final size:27
Alignment explanation
Indices: 9557353--9557665 Score: 256
Period size: 27 Copynumber: 11.6 Consensus size: 27
9557343 TGTAGGGTAG
* * * *
9557353 AATTGCCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
9557380 AATTTCCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* ** *
9557407 AATTACTAAAATACCTTTTG-TTTATAA
1 AATTACCAAAATACC-CCTGATTTGTAA
*
9557434 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
9557461 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
9557488 AATTATCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
*
9557515 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
** * **
9557542 AATTATTAAAATACCCCCGACCTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*** *
9557569 AATTATTGAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
* ** *
9557596 AATTACCAAAGTACCCCTGATTTACAG
1 AATTACCAAAATACCCCTGATTTGTAA
*** * **
9557623 AATTACCATTTTACCCTTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
9557650 AATTACCGAAATACCC
1 AATTACCAAAATACCC
9557666 TTGTAGGGTA
Statistics
Matches: 233, Mismatches: 45, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
26 5 0.02
27 222 0.95
28 6 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:9557953 original size:27 final size:27
Alignment explanation
Indices: 9557653--9557939 Score: 439
Period size: 27 Copynumber: 10.6 Consensus size: 27
9557643 TTTACAAAAT
9557653 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
9557680 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
9557707 TACTGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
9557734 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
9557761 TACTGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
9557788 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
9557815 TACTGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
9557842 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
9557869 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
9557896 TACAGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
9557923 TACCGAGATACCCTTGT
1 TACCGAAATACCCTTGT
9557940 GGGCTAAAAT
Statistics
Matches: 239, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:9558374 original size:31 final size:31
Alignment explanation
Indices: 9558329--9558408 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
9558319 TCACATTCTA
* *
9558329 ATTTTTATTTTGTTACCTGATACTAATTATG
1 ATTTTGATTCTGTTACCTGATACTAATTATG
* *
9558360 ATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTTTGATTCTGTTACCTGATACTAATTATG
* *
9558391 ATTCTGATTCTGTCACCT
1 ATTTTGATTCTGTTACCT
9558409 AATTCTGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTTTGATTCTGTTACCTGATACTAATTATG
Found at i:9558385 original size:6 final size:6
Alignment explanation
Indices: 9558358--9558432 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
9558348 ATACTAATTA
* * *
9558358 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
* *
9558408 TAATTC TGATTC TGATTC TAATTC T
1 TGATTC TGATTC TGATTC TGATTC T
9558433 AGTGCTGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.05
6 45 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:9558417 original size:31 final size:31
Alignment explanation
Indices: 9558343--9558432 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
9558333 TTATTTTGTT
* * * * *
9558343 ACCTGATACTAATTATGATTTTGATTCTGTT
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
*
9558374 ACCTGATACTGATTCTGATTCTGATTCTGTC
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
* *
9558405 ACCTAATTCTGATTCTGATTCTAATTCT
1 ACCTAATACTGATTCTGATTCTGATTCT
9558433 AGTGCTGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
ACCTAATACTGATTCTGATTCTGATTCTGTC
Found at i:9559031 original size:17 final size:18
Alignment explanation
Indices: 9558988--9559031 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9558978 ATTATTAAGA
9558988 AGGGTTTTTAATGGAAAC
1 AGGGTTTTTAATGGAAAC
9559006 AGGGTTTTTAATGGAAAC
1 AGGGTTTTTAATGGAAAC
*
9559024 ATGGTTTT
1 AGGGTTTT
9559032 CAAAAAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.39
Consensus pattern (18 bp):
AGGGTTTTTAATGGAAAC
Found at i:9561915 original size:41 final size:42
Alignment explanation
Indices: 9561801--9561939 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 42
9561791 GTGTTCTCGC
* *
9561801 GTAAGACCACGTCTGGGAT-GTTGGCATCGATATATGTGGTTACAGT
1 GTAAGACCATGTCTGGGATAG-TGGCATCGATAT-T-TGATT-C-GT
* * * *
9561847 GTAAGACCATGTCTAGGACATTAGCATC-ATATTTGATTCGT
1 GTAAGACCATGTCTGGGATAGTGGCATCGATATTTGATTCGT
* * * *
9561888 GTAAGACCATGTTTGGGATAGTGGCATCGATATGTGATAGCAT
1 GTAAGACCATGTCTGGGATAGTGGCATCGATATTTGAT-TCGT
9561931 GTAAGACCA
1 GTAAGACCA
9561940 CAACTGGGAC
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
41 25 0.33
42 9 0.12
43 15 0.20
44 1 0.01
45 4 0.05
46 22 0.29
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGATAGTGGCATCGATATTTGATTCGT
Found at i:9562302 original size:14 final size:14
Alignment explanation
Indices: 9562280--9562309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9562270 GAAATGATTC
9562280 ATGAATATATGTAT
1 ATGAATATATGTAT
*
9562294 ATGAGTATATGTAT
1 ATGAATATATGTAT
9562308 AT
1 AT
9562310 TCGGTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
ATGAATATATGTAT
Found at i:9566119 original size:150 final size:150
Alignment explanation
Indices: 9565848--9566147 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
9565838 AGGTATGCTT
9565848 TGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCATCCAAG
1 TGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCATCCAAG
9565913 TCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTAAATTCAATAGTCTTGCTTTTGCA
66 TCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTAAATTCAATAGTCTTGCTTTTGCA
9565978 ATTCACAACCGCATCATGCA
131 ATTCACAACCGCATCATGCA
9565998 TGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCATCCAAG
1 TGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCATCCAAG
*
9566063 TCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTCAATTCAATAGTCTTGCTTTTGCA
66 TCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTAAATTCAATAGTCTTGCTTTTGCA
9566128 ATTCACAACCGCATCATGCA
131 ATTCACAACCGCATCATGCA
9566148 CGGTCAACCA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (150 bp):
TGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGCTGGCAACCCATCCAAG
TCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTAAATTCAATAGTCTTGCTTTTGCA
ATTCACAACCGCATCATGCA
Found at i:9569798 original size:17 final size:17
Alignment explanation
Indices: 9569776--9569808 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9569766 AACTAACATT
*
9569776 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
9569793 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
9569809 GTGCACTAAC
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:9570260 original size:15 final size:15
Alignment explanation
Indices: 9570242--9570276 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9570232 TATCAGTGGA
9570242 TTCTTTCTCAATATT
1 TTCTTTCTCAATATT
*
9570257 TTCTGTCTCAATATT
1 TTCTTTCTCAATATT
9570272 TTCTT
1 TTCTT
9570277 CCTCGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (15 bp):
TTCTTTCTCAATATT
Found at i:9572758 original size:27 final size:27
Alignment explanation
Indices: 9572641--9572815 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
9572631 TTAGTTTACC
* *
9572641 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
9572667 AAATTAAC--AAAGTACCCCCGGTTTATA
1 AAATT-ACTGAAA-TACCCTCGATTTGTA
* *
9572694 AAATTACTGAAATATCATCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
9572720 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
9572747 AAATTA-TCGAAATATCCTC-AGTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
9572774 AAATTATTGAAATACCCAT-GATTTGTA
1 AAATTACTGAAATACCC-TCGATTTGTA
*
9572801 AAATTACTAAAATAC
1 AAATTACTGAAATAC
9572816 TCCTGTAAGA
Statistics
Matches: 123, Mismatches: 15, Indels: 21
0.77 0.09 0.13
Matches are distributed among these distances:
25 3 0.02
26 37 0.30
27 77 0.63
28 6 0.05
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:9572814 original size:54 final size:53
Alignment explanation
Indices: 9572641--9572819 Score: 179
Period size: 53 Copynumber: 3.3 Consensus size: 53
9572631 TTAGTTTACC
* * * * *
9572641 AAATTACTGAAATA-CCCCCAGTTGTAAAATTAAC--AAAGTACCCCCGGTTTATA
1 AAATTACTGAAATATCCTCGA-TTGTAAAATT-ACTGAAA-TACCCTCGATTTGTA
*
9572694 AAATTACTGAAATATCATCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATATCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
9572747 AAATTA-TCGAAATATCCTCAGTTTGTAAAATTATTGAAATACCCAT-GATTTGTA
1 AAATTACT-GAAATATCCTC-GATTGTAAAATTACTGAAATACCC-TCGATTTGTA
*
9572801 AAATTACTAAAATACTCCT
1 AAATTACTGAAATA-TCCT
9572820 GTAAGATAGA
Statistics
Matches: 108, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
52 3 0.03
53 52 0.48
54 47 0.44
55 6 0.06
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATTACTGAAATATCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:9572857 original size:27 final size:27
Alignment explanation
Indices: 9572827--9572942 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
9572817 CCTGTAAGAT
*
9572827 AGAATTACCATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
** *
9572854 AGAATTATTATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
9572881 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
9572908 AGAATGACCATTGTACCCTCGGTTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
9572935 AAAATTAC
1 AGAATTAC
9572943 TGAAATACCT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:9572860 original size:54 final size:54
Alignment explanation
Indices: 9572802--9572912 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 54
9572792 TGATTTGTAA
9572802 AATTACTAAAATACTCCT-G-TAAGATAGAATTACCATTTTACCCTCAATTTACAG
1 AATTACTAAAATAC-CCTCGAT-AGATAGAATTACCATTTTACCCTCAATTTACAG
* *** ** * *
9572856 AATTATTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAG
1 AATTACTAAAATACCCTCGATAGATAGAATTACCATTTTACCCTCAATTTACAG
9572910 AAT
1 AAT
9572913 GACCATTGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
53 3 0.06
54 43 0.91
55 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (54 bp):
AATTACTAAAATACCCTCGATAGATAGAATTACCATTTTACCCTCAATTTACAG
Found at i:9572951 original size:27 final size:27
Alignment explanation
Indices: 9572921--9573033 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 27
9572911 ATGACCATTG
**
9572921 TACCCTCGGTTTACAAAATTACTGAAA
1 TACCCTCGGTTTACAAAATTACCAAAA
* *
9572948 TACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGGTTTACAAAATTACCAAAA
** ** *
9572975 TACCCTCAATCAATAAAATTACCAAAA
1 TACCCTCGGTTTACAAAATTACCAAAA
* ** *
9573002 TACCC-CTAGTTTGTAAAATTACCGAAA
1 TACCCTC-GGTTTACAAAATTACCAAAA
9573029 TACCC
1 TACCC
9573034 CTAATTTGTA
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
26 1 0.01
27 68 0.99
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
TACCCTCGGTTTACAAAATTACCAAAA
Found at i:9573034 original size:27 final size:26
Alignment explanation
Indices: 9572988--9573087 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
9572978 CCTCAATCAA
*
9572988 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCGAAATACCCCTA-TTTG
9573015 TAAAATTACCGAAATACCCCTAATTTG
1 TAAAATTACCGAAATACCCCT-ATTTG
* * **
9573042 TAAAATTATCGAAATATCCCTATAGG
1 TAAAATTACCGAAATACCCCTATTTG
*
9573068 TTAGAATTACCGAAATACCC
1 -TAAAATTACCGAAATACCC
9573088 TTGTAGCGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.05
27 59 0.94
28 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
TAAAATTACCGAAATACCCCTATTTG
Found at i:9573046 original size:54 final size:55
Alignment explanation
Indices: 9572962--9573087 Score: 132
Period size: 54 Copynumber: 2.3 Consensus size: 55
9572952 TTTGGTTTAC
* **
9572962 AAAATTACCAAAATA-CCCTCAATCAATAAAATTACCAAAATACCCCTAGTTTG-T
1 AAAATTACCGAAATACCCCTCAATCAATAAAATTACCAAAATACCCCTA-TAGGTT
*** * * *
9573016 AAAATTACCGAAATACCCCT-AATTTGTAAAATTATCGAAATATCCCTATAGGTT
1 AAAATTACCGAAATACCCCTCAATCAATAAAATTACCAAAATACCCCTATAGGTT
*
9573070 AGAATTACCGAAATACCC
1 AAAATTACCGAAATACCC
9573088 TTGTAGCGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 54 0.90
55 4 0.07
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (55 bp):
AAAATTACCGAAATACCCCTCAATCAATAAAATTACCAAAATACCCCTATAGGTT
Found at i:9573099 original size:27 final size:27
Alignment explanation
Indices: 9573045--9573401 Score: 434
Period size: 27 Copynumber: 13.3 Consensus size: 27
9573035 TAATTTGTAA
* * *
9573045 AATTATCGAAATATCCC-TATAGGTTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
*
9573072 AATTACCGAAATACCCTTGTAGCGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
9573099 AATTATTGGAATA-CCTCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
*
9573126 AATTACC-AGAATACCCTTGTAGGGTGG
1 AATTACCGA-AATACCCTTGTAGGGTAG
* *
9573153 AATTACCGGAATACCCTTGTAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAG
9573180 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
9573207 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
9573234 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
9573261 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
9573288 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
9573315 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
9573342 AATTACCAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
9573369 AATTACCGAGATA-CATTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
9573395 AATTACC
1 AATTACC
9573402 ATTTTACCCT
Statistics
Matches: 292, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.07
27 268 0.92
28 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:9573103 original size:81 final size:80
Alignment explanation
Indices: 9572991--9573374 Score: 432
Period size: 81 Copynumber: 4.8 Consensus size: 80
9572981 CAATCAATAA
* ** * * ** *
9572991 AATTACCAAAATACCCCTAGT-TTGTAAAATTACCGAAATACCCCT-AATTTGTAAAATTATCGA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTGTA-GGGTAGAATTA-CGA
*
9573054 AATATCCC-TATAGGTTAG
63 AATA-CCCTTATAGGGTAG
* * ** * * *
9573072 AATTACCGAAATACCCTTGTAGCGTAGAATTATTGGAATACCTCTGTAGGGTAGAATTACCAGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACGA-AA
* *
9573137 TACCCTTGTAGGGTGG
65 TACCCTTATAGGGTAG
* * * *
9573153 AATTACCGGAATACCCTTGTAGGGTGGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CGAAA
*
9573218 TACCCTTGTAGGGTAG
65 TACCCTTATAGGGTAG
* *
9573234 AATTATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC-GAAA
*
9573299 TACCCCTATAGGGTAG
65 TACCCTTATAGGGTAG
* *
9573315 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTGGAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
9573375 CGAGATACAT
Statistics
Matches: 260, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
80 8 0.03
81 249 0.96
82 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAT
ACCCTTATAGGGTAG
Found at i:9573880 original size:22 final size:22
Alignment explanation
Indices: 9573828--9573892 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9573818 TTAAAGCCTT
* *
9573828 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
9573850 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
9573872 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
9573893 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:9574081 original size:27 final size:27
Alignment explanation
Indices: 9574051--9574152 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
9574041 ATTCTGTTAA
* *
9574051 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
9574078 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
9574105 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
9574132 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
9574153 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:9574319 original size:31 final size:31
Alignment explanation
Indices: 9574284--9574363 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
9574274 TTGCATTCAC
* *
9574284 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
9574315 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
* *
9574346 ATTCTGATTCTAATTCTG
1 ATTCTGATTTTGATTCTG
9574364 ATTCTAGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:9574323 original size:6 final size:6
Alignment explanation
Indices: 9574284--9574377 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
9574274 TTGCATTCAC
* * * *
9574284 ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
9574333 -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
9574378 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:9574340 original size:25 final size:24
Alignment explanation
Indices: 9574287--9574368 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
9574277 CATTCACATT
*
9574287 CTGATTTTGATTTTG-TTACCTGATA
1 CTGATTCTGATTTTGATT--CTGATA
*
9574312 CTGATTCTGATTTTGATTCTGTTA
1 CTGATTCTGATTTTGATTCTGATA
* * * * *
9574336 CCTGATACTAATTCTGATTCTAATT
1 -CTGATTCTGATTTTGATTCTGATA
9574361 CTGATTCT
1 CTGATTCT
9574369 AGTTCTGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.26
25 32 0.70
26 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (24 bp):
CTGATTCTGATTTTGATTCTGATA
Found at i:9576168 original size:53 final size:53
Alignment explanation
Indices: 9576090--9576237 Score: 147
Period size: 53 Copynumber: 2.8 Consensus size: 53
9576080 TTAGTTTACC
* * * *
9576090 AAATTACTGAAATACCCCCAG-TTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCGAAAAACCCTCAGATTGTAAAATTACCAAA-TACCCCCGATTTATA
* * * *
9576143 AAATTACCGAAAAACCGTC-GATTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAAAACCCTCAGATTGTAAAATTAC-CAAATACCCCCGATTTATA
* * * *
9576196 AAATTATCGAAATACCCTCAGTTTGCAAAATTACCGAAATAC
1 AAATTACCGAAAAACCCTCAGATTGTAAAATTACC-AAATAC
9576238 TCTTGTAAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
52 1 0.01
53 55 0.71
54 21 0.27
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (53 bp):
AAATTACCGAAAAACCCTCAGATTGTAAAATTACCAAATACCCCCGATTTATA
Found at i:9576201 original size:27 final size:27
Alignment explanation
Indices: 9576090--9576237 Score: 135
Period size: 27 Copynumber: 5.6 Consensus size: 27
9576080 TTAGTTTACC
* *
9576090 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
9576116 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *
9576143 AAATTACCGAAAAACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
9576169 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
9576196 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
9576223 AAATTACCGAAATAC
1 AAATTACTGAAATAC
9576238 TCTTGTAAGA
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
25 3 0.03
26 36 0.36
27 57 0.58
28 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:9576277 original size:27 final size:27
Alignment explanation
Indices: 9576249--9576390 Score: 214
Period size: 27 Copynumber: 5.3 Consensus size: 27
9576239 CTTGTAAGAT
*
9576249 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
9576276 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
9576303 AAAATTACCGTCTTACCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
9576330 AGAATTACCATTTTACCC-CGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
9576356 AGAATTACCATTTTACCATCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
9576383 AAAATTAC
1 AGAATTAC
9576391 TGAAATACCT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 25 0.24
27 78 0.76
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:9576378 original size:80 final size:81
Alignment explanation
Indices: 9576249--9576419 Score: 263
Period size: 80 Copynumber: 2.1 Consensus size: 81
9576239 CTTGTAAGAT
* * *
9576249 AGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACCGA
**
9576314 CTTACCTTCGATTTAC
66 AATACCTTCGATTTAC
*
9576330 AGAATTACCATTTTACCC-CGATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACTGA
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACCGA
*
9576394 AATACCTTTGATTTAC
66 AATACCTTCGATTTAC
*
9576410 AAAATTACCA
1 AGAATTACCA
9576420 AAATACCCTC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 64 0.78
81 18 0.22
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACCGA
AATACCTTCGATTTAC
Found at i:9576399 original size:27 final size:27
Alignment explanation
Indices: 9576262--9576426 Score: 98
Period size: 27 Copynumber: 6.1 Consensus size: 27
9576252 ATTACCATTT
* * * ***
9576262 TACCCTCGATTTATAGAATTACCATTT
1 TACCATCGATTTACAAAATTACCAAAA
* ****
9576289 TACCCTCGATTTACAAAATTACCGTCT
1 TACCATCGATTTACAAAATTACCAAAA
* * ***
9576316 TACCTTCGATTTACAGAATTACCATTT
1 TACCATCGATTTACAAAATTACCAAAA
* * ***
9576343 TACC-CCGATTTACAGAATTACCATTT
1 TACCATCGATTTACAAAATTACCAAAA
**
9576369 TACCATCGATTTACAAAATTACTGAAA
1 TACCATCGATTTACAAAATTACCAAAA
* *
9576396 TACCTTTGATTTACAAAATTACCAAAA
1 TACCATCGATTTACAAAATTACCAAAA
9576423 TACC
1 TACC
9576427 CTCAACCAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 25 0.21
27 92 0.79
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCATCGATTTACAAAATTACCAAAA
Found at i:9576466 original size:27 final size:27
Alignment explanation
Indices: 9576448--9576536 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
9576438 AAATTTCCAG
*
9576448 AATACCCCTAGTTTGTAAAATTACCGA
1 AATACCCCTAATTTGTAAAATTACCGA
9576475 AATACCCCTAATTTGTAAAATTACCGA
1 AATACCCCTAATTTGTAAAATTACCGA
** *
9576502 AATACCCCT-ATGGGTAGAATTACCGA
1 AATACCCCTAATTTGTAAAATTACCGA
9576528 AATACCCCT
1 AATACCCCT
9576537 GTAGGGTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 23 0.40
27 35 0.60
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
AATACCCCTAATTTGTAAAATTACCGA
Found at i:9576551 original size:27 final size:27
Alignment explanation
Indices: 9576466--9576740 Score: 376
Period size: 27 Copynumber: 10.3 Consensus size: 27
9576456 TAGTTTGTAA
* ** *
9576466 AATTACCGAAATACCCCT-AATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
*
9576493 AATTACCGAAATACCCCTAT-GGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
9576519 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9576546 AATTACCGGAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
9576573 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9576600 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9576627 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9576654 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9576681 AATTACCAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
9576708 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
9576734 AATTACC
1 AATTACC
9576741 ATTTTACCCC
Statistics
Matches: 223, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 38 0.17
27 185 0.83
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:9577219 original size:22 final size:22
Alignment explanation
Indices: 9577167--9577231 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9577157 TTAAAGCCTT
* *
9577167 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
9577189 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
9577211 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
9577232 ACATATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:9577429 original size:27 final size:27
Alignment explanation
Indices: 9577397--9577491 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
9577387 TAAGTCGCTT
* *
9577397 TGCCACATTATCTGTTTCTGGTGGTTA
1 TGCCACAATATCTGTTTCTGGTGGCTA
*
9577424 TGCCACAAATATCTG-TTCTGGTGGCTC
1 TGCCAC-AATATCTGTTTCTGGTGGCTA
* * *
9577451 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTTTCTGGTGGCTA
*
9577478 TGTCACAATATCTG
1 TGCCACAATATCTG
9577492 ATAACTGATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.13
27 45 0.75
28 7 0.12
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTTTCTGGTGGCTA
Found at i:9577665 original size:6 final size:6
Alignment explanation
Indices: 9577627--9577721 Score: 70
Period size: 6 Copynumber: 15.3 Consensus size: 6
9577617 TTGCATTCAC
* * *
9577627 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
9577677 -TTACTTG ATACTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
9577722 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
5 5 0.07
6 51 0.73
7 12 0.17
8 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Done.