Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 61 of 75
Found at i:19601218 original size:22 final size:23
Alignment explanation
Indices: 19601146--19601223 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
19601136 GACATAGGTG
19601146 ATGTG-GATAGAGTAGGTTGACT
1 ATGTGAGATAGAGTAGGTTGACT
* * *
19601168 ATGTGAGATATTA-TGGGTGGAAGC-
1 ATGTGAGATA-GAGTAGGTTG-A-CT
19601192 ATGTG-GATAGAGTAGGTTGACT
1 ATGTGAGATAGAGTAGGTTGACT
19601214 ATGTGAGATA
1 ATGTGAGATA
19601224 TTATGGGTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
21 1 0.02
22 12 0.28
23 22 0.51
24 7 0.16
25 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (23 bp):
ATGTGAGATAGAGTAGGTTGACT
Found at i:19605001 original size:24 final size:24
Alignment explanation
Indices: 19604955--19605001 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19604945 TTTTAATTAC
* *
19604955 ACCATGAGAAATTTGAATGATTTT
1 ACCATGAAAAATTTGAATAATTTT
19604979 ACCATGAAAAA-TTGTAATAATTT
1 ACCATGAAAAATTTG-AATAATTT
19605002 GATTGTGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (24 bp):
ACCATGAAAAATTTGAATAATTTT
Found at i:19614137 original size:3 final size:3
Alignment explanation
Indices: 19614131--19614175 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
19614121 TCATCATCAT
* * * *
19614131 CTC CTC CTC TTC CTC TTC CTC TTC CTC TTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
19614176 TTTTATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (3 bp):
CTC
Found at i:19614144 original size:6 final size:6
Alignment explanation
Indices: 19614135--19614177 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
19614125 CATCATCTCC
* *
19614135 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCC TCCTCC TCCTCT T
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT T
19614178 TTATTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCTCT
Found at i:19614158 original size:18 final size:18
Alignment explanation
Indices: 19614131--19614177 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
19614121 TCATCATCAT
*
19614131 CTCCTCCTCTTCCTCTTC
1 CTCCTCCTCTTCCTCCTC
*
19614149 CTCTTCCTCTTCCTCCTC
1 CTCCTCCTCTTCCTCCTC
19614167 CTCCTCCTCTT
1 CTCCTCCTCTT
19614178 TTATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
CTCCTCCTCTTCCTCCTC
Found at i:19620154 original size:16 final size:16
Alignment explanation
Indices: 19620133--19620169 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
19620123 TTGGTTCACT
19620133 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
19620149 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
19620165 GTAAT
1 GTAAT
19620170 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:19620238 original size:44 final size:46
Alignment explanation
Indices: 19620149--19620239 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
19620139 GAATAGAGGC
*
19620149 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
19620195 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
19620239 G
1 G
19620240 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:19620240 original size:39 final size:44
Alignment explanation
Indices: 19620149--19620256 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
19620139 GAATAGAGGC
*
19620149 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
19620195 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
19620235 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
19620257 CATAATGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:19625494 original size:35 final size:35
Alignment explanation
Indices: 19625453--19625525 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
19625443 TACATAATTA
19625453 ACTAAATTACATAGTATTTACTACAAATTATTTAT
1 ACTAAATTACATAGTATTTACTACAAATTATTTAT
* * **
19625488 ACTAAATTATATAGTATTTATTATTAATTATTTAT
1 ACTAAATTACATAGTATTTACTACAAATTATTTAT
19625523 ACT
1 ACT
19625526 TGGTAAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (35 bp):
ACTAAATTACATAGTATTTACTACAAATTATTTAT
Found at i:19630834 original size:3 final size:3
Alignment explanation
Indices: 19630828--19630927 Score: 175
Period size: 3 Copynumber: 33.3 Consensus size: 3
19630818 AATCAATAAT
19630828 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
19630876 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A GTGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA
19630921 AGA AGA A
1 AGA AGA A
19630928 AGTGAAAATG
Statistics
Matches: 93, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 1 0.01
3 91 0.98
4 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:19634302 original size:9 final size:9
Alignment explanation
Indices: 19634277--19634449 Score: 75
Period size: 9 Copynumber: 18.0 Consensus size: 9
19634267 GGATATAAGC
19634277 TTATAAAAA
1 TTATAAAAA
*
19634286 GTATTAAAAA
1 TTA-TAAAAA
*
19634296 TTATAAATA
1 TTATAAAAA
19634305 TTATAAAAA
1 TTATAAAAA
*
19634314 TCTA-ATAAA
1 T-TATAAAAA
*
19634323 TTGTAAAAGAA
1 TTAT-AAA-AA
19634334 TTAT-AAAA
1 TTATAAAAA
19634342 TTAATACAATATA
1 TT-ATA-AA-A-A
*
19634355 TT-TAAAAT
1 TTATAAAAA
19634363 TGTATAAAAA
1 T-TATAAAAA
*
19634373 TGTATTAAAAT
1 T-TA-TAAAAA
19634384 TCTATAAAAA
1 T-TATAAAAA
*
19634394 TCATAAAAA
1 TTATAAAAA
* *
19634403 GTATTAAAA
1 TTATAAAAA
*
19634412 GTACT-AAAA
1 TTA-TAAAAA
*
19634421 TTGATATAAAC
1 TT-ATA-AAAA
*
19634432 TTATAACAA
1 TTATAAAAA
19634441 TTATAAAAA
1 TTATAAAAA
19634450 ATTTAATTGG
Statistics
Matches: 125, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
8 6 0.05
9 59 0.47
10 34 0.27
11 22 0.18
12 1 0.01
13 3 0.02
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:19635669 original size:24 final size:24
Alignment explanation
Indices: 19635642--19635712 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
19635632 CCTCCAAAAC
19635642 AATATGTGAACAAATCGCCAGAAT
1 AATATGTGAACAAATCGCCAGAAT
** *
19635666 AATATGCAAACAAATCGCTAGAAT
1 AATATGTGAACAAATCGCCAGAAT
*
19635690 AAAATGTGAACAAATCGCCAGAA
1 AATATGTGAACAAATCGCCAGAA
19635713 CTCCAGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.18
Consensus pattern (24 bp):
AATATGTGAACAAATCGCCAGAAT
Found at i:19638878 original size:28 final size:28
Alignment explanation
Indices: 19638847--19638933 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
19638837 TTTATTAGAT
*
19638847 TTTTTTATATTTTTATAATATTTATAAG
1 TTTTTAATATTTTTATAATATTTATAAG
* * *
19638875 TTTTTAACTTTTTTTATAA-GTTTATATG
1 TTTTTAA-TATTTTTATAATATTTATAAG
* * *
19638903 CTTTTAATATTTTT-T-ATTTTTATAAT
1 TTTTTAATATTTTTATAATATTTATAAG
19638929 TTTTT
1 TTTTT
19638934 TCTGATTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 1 0.02
26 11 0.23
27 6 0.13
28 19 0.40
29 10 0.21
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
TTTTTAATATTTTTATAATATTTATAAG
Found at i:19638933 original size:18 final size:20
Alignment explanation
Indices: 19638907--19638944 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
19638897 TATATGCTTT
19638907 TAATATTTTT-T-ATTTTTA
1 TAATATTTTTCTGATTTTTA
*
19638925 TAATTTTTTTCTGATTTTTA
1 TAATATTTTTCTGATTTTTA
19638945 ATCATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TAATATTTTTCTGATTTTTA
Found at i:19641168 original size:17 final size:17
Alignment explanation
Indices: 19641146--19641190 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
19641136 TTAGATTGAG
19641146 AAAATTATTTAAT-TAAA
1 AAAATTATTT-ATCTAAA
19641163 AAAATTAATTTATCTAAA
1 AAAATT-ATTTATCTAAA
*
19641181 TAAATTATTT
1 AAAATTATTT
19641191 TAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTATTTATCTAAA
Found at i:19641180 original size:18 final size:17
Alignment explanation
Indices: 19641146--19641197 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
19641136 TTAGATTGAG
19641146 AAAATT-ATTTAATTAAA
1 AAAATTAATTT-ATTAAA
19641163 AAAATTAATTTATCTAAA
1 AAAATTAATTTAT-TAAA
* * *
19641181 TAAATTATTTTAATAAA
1 AAAATTAATTTATTAAA
19641198 TAATATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTATTAAA
Found at i:19644862 original size:102 final size:102
Alignment explanation
Indices: 19644686--19644960 Score: 356
Period size: 102 Copynumber: 2.7 Consensus size: 102
19644676 TTCACCTTCA
* * * * * * *
19644686 CCTTCACCTTCGTCTACTTCCGGATCCATCGTGTTGCCATGGCCACCATACTCCGCTCCAGCGTT
1 CCTTCATCTTCGTCTATTTCAGGCTCCATCGTGTTGCCATGGCCACCATCCTCTGCTCCTGCGTT
* *
19644751 AATATAGTTATAAAGCTCGATTCCGATGAGAT-AAGCT
66 AATATAGTTATAAAGCGCCATTCCGATGAGATCAA-CT
* * * * * *
19644788 CCTTCATCTTCCTCTATTTCAGGCTCCCTCGTGTTTCCATGGCCGCCATCCTCTACACCTGCGTT
1 CCTTCATCTTCGTCTATTTCAGGCTCCATCGTGTTGCCATGGCCACCATCCTCTGCTCCTGCGTT
*
19644853 AATATAGTTATAAAGCGCCATTCCGATGAGCTCAACT
66 AATATAGTTATAAAGCGCCATTCCGATGAGATCAACT
**
19644890 CCTTCATCTTCGTCTATTTCAGGCTCTGTCGTGTTGCCATGGCCACCATCCTCTGCTCCAT-CGT
1 CCTTCATCTTCGTCTATTTCAGGCTCCATCGTGTTGCCATGGCCACCATCCTCTGCTCC-TGCGT
19644954 TAATATA
65 TAATATA
19644961 ATTTGGGATG
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
102 145 0.98
103 3 0.02
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (102 bp):
CCTTCATCTTCGTCTATTTCAGGCTCCATCGTGTTGCCATGGCCACCATCCTCTGCTCCTGCGTT
AATATAGTTATAAAGCGCCATTCCGATGAGATCAACT
Found at i:19646016 original size:19 final size:17
Alignment explanation
Indices: 19645994--19646036 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
19645984 CCAAATCCTT
19645994 TTTTGTTCATTTTTATTTA
1 TTTTGTTCA-TTTT-TTTA
*
19646013 TTTTATTCATTTTTTTA
1 TTTTGTTCATTTTTTTA
19646030 TTTTGTT
1 TTTTGTT
19646037 TTTGTGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTGTTCATTTTTTTA
Found at i:19646711 original size:3 final size:3
Alignment explanation
Indices: 19646705--19646840 Score: 95
Period size: 3 Copynumber: 45.7 Consensus size: 3
19646695 TTAGTAGCAA
* * * * *
19646705 TAT TAT T-T ATAT TAT TAA TAG CAT TAT TAT TAT TAT TAT TAA TGT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
19646750 CAT CAT TAC TA- TAG TAT TAT TACT T-T TAT TACT T-T TAT TACT T-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TA-T TAT
*
19646794 TAT TACT T-T TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19646839 TA
1 TA
19646841 CTACTACTAT
Statistics
Matches: 107, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
2 11 0.10
3 87 0.81
4 9 0.08
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:19646711 original size:24 final size:24
Alignment explanation
Indices: 19646683--19646747 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
19646673 TATTTTATCG
*
19646683 TTATTTTTATTATTAGTAGCAATA
1 TTATTTTTATTATTAATAGCAATA
* *
19646707 TTATTTATATTATTAATAGCATTA
1 TTATTTTTATTATTAATAGCAATA
*
19646731 TTATTATTATTATTAAT
1 TTATTTTTATTATTAAT
19646748 GTCATCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATTTTTATTATTAATAGCAATA
Found at i:19646757 original size:24 final size:24
Alignment explanation
Indices: 19646683--19646771 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 24
19646673 TATTTTATCG
* *
19646683 TTATTTTTATTATTAGTAGCAAT-A
1 TTATTATTATTATTAATAGC-ATCA
*
19646707 TTATT-TATATTATTAATAGCATTA
1 TTATTAT-TATTATTAATAGCATCA
19646731 TTATTATTATTATTAAT-GTCATCA
1 TTATTATTATTATTAATAG-CATCA
*
19646755 TTACTATAGTATTATTA
1 TTA-T-TATTATTATTA
19646772 CTTTTATTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
23 4 0.07
24 40 0.71
25 2 0.04
26 10 0.18
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
TTATTATTATTATTAATAGCATCA
Found at i:19652857 original size:203 final size:204
Alignment explanation
Indices: 19652508--19652914 Score: 807
Period size: 203 Copynumber: 2.0 Consensus size: 204
19652498 AGTACATTCT
19652508 CTATTGCTTTTTTTGTTTTTTATTATCTCCATCTCTCTTTATTTTATAACAAAATTTAATTTAAA
1 CTATTGCTTTTTTTGTTTTTTATTATCTCCATCTCTCTTTATTTTATAACAAAATTTAATTTAAA
19652573 ACAATTTATTTTTTTCTAGAATTTATATTTTTTGAAAATTTAAGTTTTCTTTTTTCAATTTTTTA
66 ACAATTTATTTTTTTCTAGAATTTATATTTTTTGAAAATTTAAGTTTTCTTTTTTCAATTTTTTA
19652638 AAATTCAAATACCTTTTTTTAATTTTTTTATAAAAATCAATTTTTATATATTATTTTGA-TTTTT
131 AAATTCAAATACCTTTTTTTAATTTTTTTATAAAAATCAATTTTTATATATTATTTTGATTTTTT
19652702 AAATTTTAA
196 AAATTTTAA
19652711 CTATTGCTTTTTTTGTTTTTTATTATCTCCATCTCTCTTTATTTTATAACAAAATTTAATTTAAA
1 CTATTGCTTTTTTTGTTTTTTATTATCTCCATCTCTCTTTATTTTATAACAAAATTTAATTTAAA
19652776 ACAATTTATTTTTTTCTAGAATTTATATTTTTTGAAAATTTAAGTTTTCTTTTTTCAATTTTTTA
66 ACAATTTATTTTTTTCTAGAATTTATATTTTTTGAAAATTTAAGTTTTCTTTTTTCAATTTTTTA
19652841 AAATTCAAATACCTTTTTTTAATTTTTTTATAAAAATCAATTTTTATATATTATTTTGATTTTTT
131 AAATTCAAATACCTTTTTTTAATTTTTTTATAAAAATCAATTTTTATATATTATTTTGATTTTTT
19652906 AAATTTTAA
196 AAATTTTAA
19652915 ATTTATATAT
Statistics
Matches: 203, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
203 189 0.93
204 14 0.07
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.58
Consensus pattern (204 bp):
CTATTGCTTTTTTTGTTTTTTATTATCTCCATCTCTCTTTATTTTATAACAAAATTTAATTTAAA
ACAATTTATTTTTTTCTAGAATTTATATTTTTTGAAAATTTAAGTTTTCTTTTTTCAATTTTTTA
AAATTCAAATACCTTTTTTTAATTTTTTTATAAAAATCAATTTTTATATATTATTTTGATTTTTT
AAATTTTAA
Found at i:19652918 original size:35 final size:35
Alignment explanation
Indices: 19652879--19652994 Score: 90
Period size: 41 Copynumber: 3.1 Consensus size: 35
19652869 TATAAAAATC
19652879 AATTTTTATATATTATTTTGATTTTTTAAATTTTA
1 AATTTTTATATATTATTTTGATTTTTTAAATTTTA
* * * *
19652914 AATTTATATATTTTAGAATTTTTTTAGTTTTTTTAAA-TTTG
1 AATTT-T-TA---TA-TATTATTTT-GATTTTTTAAATTTTA
* *
19652955 AATTATTTATATATTATATATGATTTTTTACATTTTA
1 AATT-TTTATATATTAT-TTTGATTTTTTAAATTTTA
19652992 AAT
1 AAT
19652995 CAATATAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
35 5 0.08
36 14 0.23
37 12 0.20
40 4 0.07
41 15 0.25
42 11 0.18
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (35 bp):
AATTTTTATATATTATTTTGATTTTTTAAATTTTA
Found at i:19663401 original size:18 final size:17
Alignment explanation
Indices: 19663375--19663408 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19663365 CAACCTTAAC
19663375 ATTACATTTTTCAACATA
1 ATTACA-TTTTCAACATA
*
19663393 ATTATATTTTCAACAT
1 ATTACATTTTCAACAT
19663409 GTAACAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTACATTTTCAACATA
Found at i:19669444 original size:38 final size:38
Alignment explanation
Indices: 19669402--19669475 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
19669392 AATCCTGAAC
19669402 GTAGGCTAGAAATGCCTCACACCCTTTCCGAACTAAAT
1 GTAGGCTAGAAATGCCTCACACCCTTTCCGAACTAAAT
* *
19669440 GTAGGCTAGAAATGCCTCACACCTTTTCTGAACTAA
1 GTAGGCTAGAAATGCCTCACACCCTTTCCGAACTAA
19669476 CTTCTTAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (38 bp):
GTAGGCTAGAAATGCCTCACACCCTTTCCGAACTAAAT
Found at i:19671348 original size:20 final size:20
Alignment explanation
Indices: 19671323--19671369 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
19671313 AAGAACCGTA
*
19671323 AAAGATTGATTAATCAAATG
1 AAAGATTGATTAATCAAACG
19671343 AAAGATTGATTAATCAAACG
1 AAAGATTGATTAATCAAACG
19671363 AAAGATT
1 AAAGATT
19671370 AGCGTCGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAGATTGATTAATCAAACG
Found at i:19672398 original size:18 final size:18
Alignment explanation
Indices: 19672358--19672398 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19672348 AATAAAATTA
*
19672358 AAAAAAACAAAAAAATGG
1 AAAAAAACAAAAAAATAG
* *
19672376 GAAAAAATAAAAAAATAG
1 AAAAAAACAAAAAAATAG
19672394 AAAAA
1 AAAAA
19672399 TTTAGGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAAAACAAAAAAATAG
Found at i:19674232 original size:4 final size:4
Alignment explanation
Indices: 19674223--19674256 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
19674213 TTAGATCACC
19674223 ATTA ATTA ATTA ATTA ATTA ATTA ATTA TATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATTA A
19674257 ATTTCATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:19674390 original size:16 final size:18
Alignment explanation
Indices: 19674355--19674392 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
19674345 ATATATTTGG
*
19674355 ATTTGATAATTTGTATTT
1 ATTTGATAATTTGAATTT
19674373 ATTTGAT-ATTT-AATTT
1 ATTTGATAATTTGAATTT
19674389 ATTT
1 ATTT
19674393 TTAGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
ATTTGATAATTTGAATTT
Found at i:19676387 original size:22 final size:23
Alignment explanation
Indices: 19676356--19676404 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
19676346 ATAGGTGAAG
*
19676356 TAAATAAAAATA-ATAATAATAAA
1 TAAATAAAAA-ACAGAATAATAAA
*
19676379 TAAAT-AAAAACAGAATCATAAA
1 TAAATAAAAAACAGAATAATAAA
19676401 TAAA
1 TAAA
19676405 ACTGTCTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
TAAATAAAAAACAGAATAATAAA
Found at i:19677968 original size:44 final size:41
Alignment explanation
Indices: 19677920--19678078 Score: 122
Period size: 44 Copynumber: 3.7 Consensus size: 41
19677910 GTTTTAATCC
* *
19677920 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GT-GATTCA-TCT
* * * *
19677964 GCTCCACTGCAATTTAAGGGAGATAAGACTG-GATGTGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGAT-TCATCT
* * * * * * *
19678005 ACTCTACTGCAACTTCAGAGAGATAAGTTTTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAG-ATTGT-G-ATTCATCT
*
19678049 GCTCCACTGCAACTTCAGGGAGATAGGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
19678079 CGCCATTGCG
Statistics
Matches: 89, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
41 27 0.30
42 4 0.04
43 3 0.03
44 54 0.61
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGTGATTCATCT
Found at i:19678188 original size:50 final size:50
Alignment explanation
Indices: 19678116--19678945 Score: 312
Period size: 50 Copynumber: 16.7 Consensus size: 50
19678106 AGGGAACACA
* * * * *
19678116 ATTCGCAGTCGTAGCTTTAATCTATTCCACTGCACTGCCAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * ** * * **
19678166 ATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAAC-GTCGGGGAAACAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ACTGTCAGGGAAGTAAG
* * * *
19678216 ATTCGCCCTTGTAGCTTCAATTTGTTCCACTGCA-TCGCCATGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACT-GTCAGGGAAGTAAG
* ** * * ** * * * * *
19678266 ATTTGCCGTTACAGCTTCAATTTTTTAAATTGCAATATCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * * *
19678316 ATTCACCGTTGTAGCTTTC-ATATGCTCCACTGTACTGTCAGGGAAGTTAG
1 ATTCGCCGTTGTAGC-TTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * ** * * * * *
19678366 ATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAA
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * * *
19678416 ATTCGCCGTTGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * ** * * * *
19678466 ATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * ** * *
19678515 ATTCACCGTTGTAGCTTCAATCTGTTCCACCGCA-TCACTAAGAAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAG
* * ** ** * * * *
19678565 ATTCACCATTGCGGCTTCAATCT-TTTAATTGCAATGTCGGGGAA-CAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * * ** * * * *
19678613 ATTCACCATTGTAGCTTCAATCTGATCCATTGCA-TCACCATGAAAATAAA
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACT-GTCAGGGAAGTAAG
** * ** * * * * *
19678663 ATTCGCCGTTCCAGCTTCAATCTTTTAAATTGTAATATCAGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * * * * *
19678713 ATTCGCTGTCGTAGCTTTAATCTGCTCCACT-CTACTGCCAGGGGAGTGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ACTGTCAGGGAAGTAAG
* * * * * ** * * * *
19678763 ATTTGCCGTTATGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
*** * * * * * * * *
19678813 ATTTATCGTCGTAGTTTTAATCTGCTCCATTGTACTGCCAGGGAAGTGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * ** * * * *
19678863 ATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
* * * *
19678912 ATTCGCTGTTGTAGCTTTAATCTGATCTACTGCA
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA
19678946 TCGCCAGGAA
Statistics
Matches: 538, Mismatches: 227, Indels: 31
0.68 0.29 0.04
Matches are distributed among these distances:
48 27 0.05
49 84 0.16
50 419 0.78
51 8 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAG
Found at i:19678247 original size:100 final size:100
Alignment explanation
Indices: 19678094--19678953 Score: 812
Period size: 100 Copynumber: 8.7 Consensus size: 100
19678084 TTGCGGCTTC
* * * * * **
19678094 AATTGCAATGTCAGGG-AACACA-ATTCGCAGTCGTAGCTTTAATCTATTCCACTGCACTGCCAG
1 AATTGCAATGTCGGGGAAACA-AGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAG
*
19678157 GGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTT
65 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * * *
19678193 AATTGCAACGTCGGGGAAACAAGATTCGCCCTTGTAGCTTCAATTTGTTCCACTGCA-TCGCCAT
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACT-GCCAG
* ***
19678257 GGAAGTAAGATTTGCCGTTACAGCTTCAAT-TTTTT
65 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * *
19678292 AAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTTC-ATATGCTCCACTGTACTGTCA
1 -AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGC-TTCAATCTGCTCCACTGCACTGCCA
*
19678356 GGGAAGTTAGATTCGCCGTTGTGGCTTCAATCTTTTT
64 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * *
19678393 AATTGCAATGTCGGGGAAGCAAAATTCGCCGTTGTAGCTTTAATCTGCTCCACTGTACTGCCAGG
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAGG
* *
19678458 GAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* *
19678493 AATTGCAATGTCGGGG-AACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACCGCA-T-CACTA
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGC-C-A
* * * * *
19678555 AGAAAGTAAGATTCACCATTGCGGCTTCAATC-TTTT
64 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * *
19678591 AATTGCAATGTCGGGG-AACAAGATTCACCATTGTAGCTTCAATCTGATCCATTGCA-TCACCAT
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACT-GCCAG
* * * *** *
19678654 GAAAATAAAATTCGCCGTTCCAGCTTCAATCTTTTA
65 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * * * * *
19678690 AATTGTAATATCAGGGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCCACT-CTACTGCCAG
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC-ACTGCCAG
* * * * * *
19678754 GGGAGTGAGATTTGCCGTTATGGCTTCAATATTTTA
65 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * * * * * * *
19678790 AATTGCAATATCAGGGAAGCAAGATTTATCGTCGTAGTTTTAATCTGCTCCATTGTACTGCCAGG
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAGG
* *
19678855 GAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
* * * * *
19678890 AATTGCAATGTCGGGG-AACAAGATTCGCTGTTGTAGCTTTAATCTGATCTACTGCA-TCGCCAG
1 AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACT-GCCAG
19678953 G
65 G
19678954 AAAGGTAACT
Statistics
Matches: 632, Mismatches: 111, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.00
98 86 0.14
99 137 0.22
100 398 0.63
101 10 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (100 bp):
AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTGCCAGG
GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
Found at i:19678834 original size:397 final size:399
Alignment explanation
Indices: 19678094--19678935 Score: 1163
Period size: 397 Copynumber: 2.1 Consensus size: 399
19678084 TTGCGGCTTC
* * * * *
19678094 AATTGCAATGTCAGGGAACACA-ATTCGCAGTCGTAGCTTTAATCTATTCCACTGCACTGCCAGG
1 AATTGCAATGTCGGGGAACA-AGATTCGCAGTTGTAGCTTTAATCTGTTCCACCGCACTGCCAAG
* ** * * *
19678158 GAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCGCC
65 AAAGTAAGATTCACCATTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCACC
* * * * * * * * *
19678223 CTTGTAGCTTCAATTTGTTCCACTGCATCGCCATGGAAGTAAGATTTGCCGTTACAGCTTCAATT
130 ATTGTAGCTTCAATCTGATCCACTGCATCACCATGAAAATAAAATTCGCCGTTACAGCTTCAATC
* * * *
19678288 TTTTAAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTTCATATGCTCCACTGTACTG
195 TTTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATATGCTCCACTCTACTG
* * * * * * *
19678353 TCAGGGAAGTTAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAAAT
260 CCAGGGAAGTGAGATTCGCCGTTATGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAAAT
* *
19678418 TCGCCGTTGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTT
325 TCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTT
19678483 CAATCTTTTT
390 CAATCTTTTT
* * *
19678493 AATTGCAATGTCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACCGCA-T-CACTAA
1 AATTGCAATGTCGGGGAACAAGATTCGCAGTTGTAGCTTTAATCTGTTCCACCGCACTGC-C-AA
*
19678556 GAAAGTAAGATTCACCATTGCGGCTTCAATC-TTTTAATTGCAATGTCGGGG-AACAAGATTCAC
64 GAAAGTAAGATTCACCATTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCAC
* *
19678619 CATTGTAGCTTCAATCTGATCCATTGCATCACCATGAAAATAAAATTCGCCGTTCCAGCTTCAAT
129 CATTGTAGCTTCAATCTGATCCACTGCATCACCATGAAAATAAAATTCGCCGTTACAGCTTCAAT
* * * *
19678684 CTTTTAAATTGTAATATCAGGGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCCACTCTACT
194 CTTTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATATGCTCCACTCTACT
* * *
19678749 GCCAGGGGAGTGAGATTTGCCGTTATGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGA
259 GCCAGGGAAGTGAGATTCGCCGTTATGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAAA
* * * *
19678814 TTTATCGTCGTAGTTTTAATCTGCTCCATTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCT
324 TTCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCT
19678879 TCAATCTTTTT
389 TCAATCTTTTT
*
19678890 AATTGCAATGTCGGGGAACAAGATTCGCTGTTGTAGCTTTAATCTG
1 AATTGCAATGTCGGGGAACAAGATTCGCAGTTGTAGCTTTAATCTG
19678936 ATCTACTGCA
Statistics
Matches: 387, Mismatches: 53, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
397 291 0.75
398 22 0.06
399 74 0.19
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (399 bp):
AATTGCAATGTCGGGGAACAAGATTCGCAGTTGTAGCTTTAATCTGTTCCACCGCACTGCCAAGA
AAGTAAGATTCACCATTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCACCA
TTGTAGCTTCAATCTGATCCACTGCATCACCATGAAAATAAAATTCGCCGTTACAGCTTCAATCT
TTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATATGCTCCACTCTACTGC
CAGGGAAGTGAGATTCGCCGTTATGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAAATT
CACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTC
AATCTTTTT
Found at i:19680211 original size:5 final size:5
Alignment explanation
Indices: 19680201--19680249 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
19680191 TTGGCCTCTC
*
19680201 CTTTT CTTTT CTTTT -TTCAT -TTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
19680250 TCAAGTGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.08
5 37 0.93
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:19683393 original size:19 final size:20
Alignment explanation
Indices: 19683364--19683415 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
19683354 CACTTCGTGA
* *
19683364 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
19683383 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
19683403 AAATG-AATGCAAA
1 AAATGTAATGCAAA
19683416 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:19687641 original size:3 final size:3
Alignment explanation
Indices: 19687633--19687666 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
19687623 AATATTAAGG
*
19687633 ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19687667 CATCAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19689088 original size:30 final size:28
Alignment explanation
Indices: 19688966--19689134 Score: 119
Period size: 30 Copynumber: 5.8 Consensus size: 28
19688956 AAAAAAACTG
*
19688966 CATTTTAACCCCTAAAATTTTCT-AATTTA
1 CATTTTAA-CCCTAAAATTTT-TAAAATTA
* *
19688995 TATTTTTACCCTTAAAATTTTTCAAAATTA
1 CATTTTAACCC-TAAAATTTTT-AAAATTA
* *
19689025 CATTTCAACACCTAAACA-TTTTGAAA-TA
1 CATTTTAAC-CCTAAA-ATTTTTAAAATTA
*
19689053 GCATTTTGACCCTTAAAATTTCTTAAAATTA
1 -CATTTTAACCC-TAAAATTT-TTAAAATTA
* * *
19689084 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTT-AACCCTAAAATTT-TTAAAATTA
**
19689114 TGTTTTAACCCTAAAATTTTT
1 CATTTTAACCCTAAAATTTTT
19689135 GCTGCCACTA
Statistics
Matches: 110, Mismatches: 19, Indels: 23
0.72 0.12 0.15
Matches are distributed among these distances:
28 10 0.09
29 42 0.38
30 50 0.45
31 8 0.07
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (28 bp):
CATTTTAACCCTAAAATTTTTAAAATTA
Found at i:19689129 original size:59 final size:59
Alignment explanation
Indices: 19688966--19689134 Score: 168
Period size: 59 Copynumber: 2.9 Consensus size: 59
19688956 AAAAAAACTG
* * * * *
19688966 CATTTTAACCCCTAAAATTTTCTAATTTATATTTTTACCCTTAAAATTTTTCAAAATTA
1 CATTTTAACCCCTAAACTTTTCAAAATTATGTTTTAACCCTTAAAATTTTTCAAAATTA
* * * *
19689025 CATTTCAACACCTAAACATTTT-GAAA-TA-GCATTTTGACCCTTAAAATTTCTT-AAAATTA
1 CATTTTAACCCCTAAAC-TTTTCAAAATTATG--TTTTAACCCTTAAAATTT-TTCAAAATTA
*
19689084 CATTTTGACCCCTAAACTTTCTCAAAATTATGTTTTAACCC-TAAAATTTTT
1 CATTTTAACCCCTAAACTTT-TCAAAATTATGTTTTAACCCTTAAAATTTTT
19689135 GCTGCCACTA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
58 7 0.08
59 63 0.70
60 17 0.19
61 2 0.02
62 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (59 bp):
CATTTTAACCCCTAAACTTTTCAAAATTATGTTTTAACCCTTAAAATTTTTCAAAATTA
Found at i:19689609 original size:15 final size:15
Alignment explanation
Indices: 19689589--19689629 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
19689579 GAAGGGAGGG
*
19689589 GAAGAAGAAGAGAAA
1 GAAGAAAAAGAGAAA
19689604 GAAGAAAAAGAGAAAA
1 GAAGAAAAAGAG-AAA
19689620 GAAAGAAAAA
1 G-AAGAAAAA
19689630 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 4 0.17
17 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAGAGAAA
Found at i:19689624 original size:11 final size:10
Alignment explanation
Indices: 19689603--19689640 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19689593 AAGAAGAGAA
19689603 AGAAGAAAAAG
1 AGAA-AAAAAG
*
19689614 AGAAAAGAA-
1 AGAAAAAAAG
19689623 AGAAAAAAAG
1 AGAAAAAAAG
19689633 AGAAAAAA
1 AGAAAAAA
19689641 TAATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 12 0.50
11 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:19689639 original size:20 final size:20
Alignment explanation
Indices: 19689594--19689638 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
19689584 GAGGGGAAGA
*
19689594 AGAAGAGAAAGAAGAAAAAG
1 AGAAAAGAAAGAAGAAAAAG
19689614 AGAAAAGAAAGAA-AAAAAG
1 AGAAAAGAAAGAAGAAAAAG
19689633 AGAAAA
1 AGAAAA
19689639 AATAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAGAAGAAAAAG
Found at i:19689810 original size:14 final size:14
Alignment explanation
Indices: 19689793--19689833 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
19689783 ATAGGCCTAA
19689793 CCCAATCCAGCAGG
1 CCCAATCCAGCAGG
19689807 CCCAA--CAGCAGG
1 CCCAATCCAGCAGG
* *
19689819 CCCTATCCAGTAGG
1 CCCAATCCAGCAGG
19689833 C
1 C
19689834 AGCCCAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.27, C:0.41, G:0.22, T:0.10
Consensus pattern (14 bp):
CCCAATCCAGCAGG
Found at i:19689909 original size:21 final size:19
Alignment explanation
Indices: 19689882--19689929 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
19689872 TCGTCCCAAC
* *
19689882 AAAAAAAGAAGGAGAAAGGA
1 AAAAAAAGAAAGA-AAAAGA
19689902 AGAAAAAAGAAAGAAAAAGA
1 A-AAAAAAGAAAGAAAAAGA
19689922 AAAAAAAG
1 AAAAAAAG
19689930 GGAGAGAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 7 0.28
21 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAGAAAAAGA
Found at i:19690047 original size:3 final size:3
Alignment explanation
Indices: 19690041--19690088 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
19690031 ACTAGGGTTT
*
19690041 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA G-A GAA GAA GAAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA
19690086 GAA
1 GAA
19690089 AAAAAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19690095 original size:12 final size:12
Alignment explanation
Indices: 19690042--19690101 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
19690032 CTAGGGTTTG
* *
19690042 AAGAAGAAGAAG
1 AAGAAGAAAAAA
*
19690054 AAGAAGAAAAAG
1 AAGAAGAAAAAA
19690066 AAGAAGAGAAGAAGA
1 AAGAAGA-AA-AA-A
19690081 AAGAAGAAAAAA
1 AAGAAGAAAAAA
19690093 AAGAA-AAAA
1 AAGAAGAAAA
19690102 GCAACACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 4 0.09
12 24 0.56
13 4 0.09
14 4 0.09
15 7 0.16
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:19690249 original size:9 final size:9
Alignment explanation
Indices: 19690237--19690275 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
19690227 AGGCCAAGAA
*
19690237 AAAGAAGAG
1 AAAGAAAAG
19690246 AAAGAAAAAG
1 AAAG-AAAAG
19690256 AAAGAAAAG
1 AAAGAAAAG
19690265 AAA-AAAAG
1 AAAGAAAAG
19690273 AAA
1 AAA
19690276 AAGGCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.29
9 12 0.43
10 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:19690250 original size:15 final size:15
Alignment explanation
Indices: 19690232--19690278 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
19690222 GCAGCAGGCC
19690232 AAGAAAAAGAAGAGA
1 AAGAAAAAGAAGAGA
19690247 AAGAAAAAGAA-AGAA
1 AAGAAAAAGAAGAG-A
*
19690262 AAGAAAAA-AAGAAA
1 AAGAAAAAGAAGAGA
19690276 AAG
1 AAG
19690279 GCAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAGA
Found at i:19690444 original size:36 final size:35
Alignment explanation
Indices: 19690403--19690479 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
19690393 ATGACATGTC
** *
19690403 ATATTTAATATTCTTGTTTTTTTTCTAAGCATTTTTT
1 ATATTTAATATT-AGGTATTTTTT-TAAGCATTTTTT
**
19690440 -TATTTCGTATTAGGTATTTTTTTAAGCATTTTTT
1 ATATTTAATATTAGGTATTTTTTTAAGCATTTTTT
19690474 ATATTT
1 ATATTT
19690480 CGTATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 12 0.35
35 13 0.38
36 9 0.26
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.64
Consensus pattern (35 bp):
ATATTTAATATTAGGTATTTTTTTAAGCATTTTTT
Found at i:19690497 original size:10 final size:10
Alignment explanation
Indices: 19690482--19690515 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19690472 TTATATTTCG
19690482 TATTTAATTT
1 TATTTAATTT
19690492 TATTTAATTT
1 TATTTAATTT
*
19690502 CA-TTAATTT
1 TATTTAATTT
19690511 TATTT
1 TATTT
19690516 TTAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTAATTT
Found at i:19690498 original size:34 final size:32
Alignment explanation
Indices: 19690421--19690498 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 32
19690411 TATTCTTGTT
19690421 TTTTTTCTAAGCATTTTTTTATTTCGTATTAGGTA
1 TTTTTT-TAAGCATTTTTTTATTTCGTATTA-G-A
19690456 TTTTTTTAAGCATTTTTTATATTTCGTATTTA-A
1 TTTTTTTAAGCATTTTTT-TATTTCGTA-TTAGA
19690489 TTTTATTTAA
1 TTTT-TTTAA
19690499 TTTCATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.12
34 17 0.43
35 15 0.38
36 3 0.08
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (32 bp):
TTTTTTTAAGCATTTTTTTATTTCGTATTAGA
Found at i:19690781 original size:18 final size:18
Alignment explanation
Indices: 19690742--19690781 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19690732 GTAATTTATC
* **
19690742 AAAATTTTCGTGTTTTTT
1 AAAATTCTCGTGTTTTAA
19690760 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
19690778 AAAA
1 AAAA
19690782 ACACTTTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (18 bp):
AAAATTCTCGTGTTTTAA
Found at i:19693662 original size:25 final size:25
Alignment explanation
Indices: 19693628--19693679 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
19693618 TTATTATAAG
19693628 TTAGTAAGATGCGCAACAAAAGACT
1 TTAGTAAGATGCGCAACAAAAGACT
19693653 TTAGTAAGATGCGCAACAAAAGACT
1 TTAGTAAGATGCGCAACAAAAGACT
19693678 TT
1 TT
19693680 GCAGACATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (25 bp):
TTAGTAAGATGCGCAACAAAAGACT
Found at i:19698247 original size:12 final size:11
Alignment explanation
Indices: 19698226--19698268 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
19698216 TATTATGCCT
19698226 AAAAAAAAGCA
1 AAAAAAAAGCA
19698237 AAAAAAGAAGCA
1 AAAAAA-AAGCA
19698249 AAAACAAAA-CA
1 AAAA-AAAAGCA
19698260 AAAAGAAAA
1 AAAA-AAAA
19698269 ATCAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 16 0.55
12 11 0.38
13 2 0.07
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGCA
Found at i:19699384 original size:79 final size:76
Alignment explanation
Indices: 19699110--19701122 Score: 1767
Period size: 79 Copynumber: 25.7 Consensus size: 76
19699100 CAAAAATTAT
* *
19699110 TTTTTCAATTTCTGTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
1 TTTTTAAATTTCTG-TTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
19699175 TCACATGCCGAGGTA
62 TCACACGCCGAGGTA
* * * *
19699190 TTTCTTTTAAATTTAT-ATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGA
1 --T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
19699253 CACATGCCGAGGTA
63 CACACGCCGAGGTA
* * * * * *
19699267 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCGGATCG
1 TTTTTAAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* **
19699332 CATGTTGAGGTA
65 CACGCCGAGGTA
* * * *
19699344 TTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGT
1 -TT-T-TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
19699409 CACATGTCGAGGTA
63 CACACGCCGAGGTA
* * * *
19699423 TTTGTTTTAAATTTATGTTTTTCAATAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-
1 --T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
19699487 CACACGCCGAGGTA
63 CACACGCCGAGGTA
* *
19699501 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
1 TTTTTAAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
19699564 CACGCTGAGGTA
65 CACGCCGAGGTA
* * *
19699576 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-CAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
19699640 ACGCCGAGGTA
66 ACGCCGAGGTA
* * * ** * * * * **
19699651 TTTCTTTTAAATTTCTGTTTTTCAAAAAACAAAAATCAAAATCAACTCATATTTCGAGAGGGGAG
1 --T-TTTTAAATTTCTGTTTTTCAAAAATC--AACTC-ATAT-TGC-GAGA---GGTGAGTTGAG
* * * *
19699716 -TTGAGCCTCGGGCACACGCCGACGTA
55 CCT----C-GGGTCACACGCCGAGGTA
*
19699742 TTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
19699806 ATGCTGAGGTA
66 ACGCCGAGGTA
* * * *
19699817 TTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGA-CCTCGGGT
1 -TT-T-TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
19699881 CACACGCTGAGGTA
63 CACACGCCGAGGTA
* *
19699895 -TTTTAAATTTCTGTTTTTGAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* **
19699959 ATGTTGAGGTA
66 ACGCCGAGGTA
* * * * *
19699970 TTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGT
1 -TT-T-TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
19700035 CACATGCCGATGTA
63 CACACGCCGAGGTA
* *
19700049 TTTTTTTTAAATTTATGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-
1 ---TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
19700113 CACACGCCAAGGTA
63 CACACGCCGAGGTA
* * * * *
19700127 TTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGGCTCGAGT--
1 TTTTTAAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
19700190 CACGCTGAGGTA
65 CACGCCGAGGTA
*
19700202 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
19700266 ACGCCGAGATA
66 ACGCCGAGGTA
* * * * * * * * *
19700277 TTTCTTTTAGATTTCTGTTTTTCAAAAAATAAAAATCAAAATCAACT-CATATTACGAGAGGTGA
1 --T-TTTTAAATTTCTGTTTTTC-AAAAAT-CAACTC---AT--ATTGC-GA-GAGGTGAGTTGA
* * *
19700341 G-TTGAACCTCGGGCACACGCCGAGGTA
54 GCCT----C-GGGTCACACGCCGAGGTA
* *
19700368 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
1 TTTTTAAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
19700431 CACGCTGAGGTA
65 CACGCCGAGGTA
* * *
19700443 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG-CAT
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
19700507 ACGCTGAGGTA
66 ACGCCGAGGTA
* * * * ** * * ** *
19700518 TTTCTTTTAAATTTCTATTTTTCAAAAAACAAAAATCAAAATCAACTCATATTTCGATAGGTGAG
1 --T-TTTTAAATTTCTGTTTTTCAAAAATC--AACTC-ATAT-TGC-GAGAGGT-G--AGTTGAG
* * *
19700583 -TTGAGCCTCGGGCACACGCCGAGGTA
55 CCT----C-GGGTCACACGCCGAGGTA
*
19700609 TTTTT-AATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
19700672 ACGCCGAGGTA
66 ACGCCGAGGTA
* * *
19700683 TTTTT-AATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * *
19700747 ATGCTGAGGCA
66 ACGCCGAGGTA
* * * * * *
19700758 TTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTACTAGAAGTTAGTTGAGCCTCGGGT
1 -TT-T-TTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
19700823 CACA-GTTGAGGTA
63 CACACGCCGAGGTA
* * *
19700836 -TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCGC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
19700900 ACGCTGAAGTA
66 ACGCCGAGGTA
* * *
19700911 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
19700975 ATGTCGAGGTA
66 ACGCCGAGGTA
* * *
19700986 TTCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGT
1 -T-TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
19701051 CGCATGCCGAGGTA
63 CACACGCCGAGGTA
* * *
19701065 TTCTTTTCAATTTCTGTTTTTCAGAAAATCAACTCATAATT-CAAGAGATGAGTTGAGC
1 -T-TTTTAAATTTCTGTTTTTCA-AAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGC
19701123 TTTGAGTCGC
Statistics
Matches: 1597, Mismatches: 235, Indels: 201
0.79 0.12 0.10
Matches are distributed among these distances:
74 297 0.19
75 280 0.18
76 120 0.08
77 34 0.02
78 179 0.11
79 429 0.27
80 34 0.02
81 25 0.02
82 12 0.01
83 20 0.01
84 10 0.01
85 14 0.01
86 21 0.01
87 42 0.03
88 30 0.02
89 6 0.00
90 6 0.00
91 38 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (76 bp):
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ACGCCGAGGTA
Found at i:19699732 original size:91 final size:87
Alignment explanation
Indices: 19699597--19699765 Score: 257
Period size: 91 Copynumber: 1.9 Consensus size: 87
19699587 CTGTTTTTCA
* *
19699597 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCACACGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTA--T-TTTT-AA
19699662 TTTCTGTTTTTCAAAAAACAAAAATC
62 TTTCTGTTTTTCAAAAAACAAAAATC
* * *
19699688 AAAATCAACTCATATTTCGAGAGGGGAGTTGAGCCTCGGGCACACGCCGACGTATTTTTAATTTC
1 AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTATTTTTAATTTC
19699753 TGTTTTTCAAAAA
66 TGTTTTTCAAAAA
19699766 TCAACTCATA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 19 0.26
88 4 0.05
89 1 0.01
91 49 0.67
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTATTTTTAATTTC
TGTTTTTCAAAAAACAAAAATC
Found at i:19700343 original size:241 final size:231
Alignment explanation
Indices: 19699111--19701122 Score: 2053
Period size: 241 Copynumber: 8.6 Consensus size: 231
19699101 AAAAATTATT
* ** * *
19699111 TTTTCAATTTCTGTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGT
1 TTTTAAATTTCTG-TTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-
* * * * *
19699176 CACATGCCGAGGTATTTCTTTTAAATTTAT-ATTTTCAAAAATCAACTCATATTGCGAGAGGTGA
64 CACACGCCGAGGTA-TT-TTTT-AATTTCTGTTTTTAAAAAATCAACTCATATTTCGAGAGGTGA
* * * *
19699240 GTTGAGCCTC-AGACACATGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATAT
126 GTTGAGCCTCGGGTCAC--GCTGAGGTATTTTTCAATTTCTGTTTTT-CAAAAATCAACTCATAT
* * * * * **
19699304 TGTGAGAGGTGAATTGAGCCTCGGATCGCATGTTGAGGTATTTC
188 TGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* * * * * *
19699348 TCTTAAAATTCTGTTTGTC-A--AAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-C
* * * * * * *
19699410 ACATGTCGAGGTATTTGTTTTAAATTTATGTTTTTCAATAATAAACTCATATTACGAGAGGTGAG
65 ACACGCCGAGGTA-TT-TTTT-AATTTCTGTTTTTAAAAAATCAACTCATATTTCGAGAGGTGAG
* * *
19699475 TTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTG
127 TTGAGCCTCGGG-TCACGCTGAGGTATTTTTCAATTTCTGTTTTT-CAAAAATCAACTCATATTG
*
19699540 CGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA--T-
190 CGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* * * *
19699577 TTTTCAATTTCTGTTTTTC-A--AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCA
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCA
19699639 CACGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAACAAAAATCAAAATCAACTCATATT
66 CACGCCGAGGTA-TT-TTTT-AATTTCTGTTTTT-----------AA--AAAATCAACTCATATT
* * * *
19699704 TCGAGAGGGGAGTTGAGCCTCGGGCACACGCCGACGTATTTTT-AATTTCTGTTTTTCAAAAATC
115 TCGAGAGGTGAGTTGAGCCTCGGG-TCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATC
* * *
19699768 AACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTC
179 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* * * * * *
19699821 TCTTAAAATTCTGTTTGTC-A--AAAATCAACTCATATTGCTAGAAGTGAGTTGA-CCTCGGGTC
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-C
* * * * *
19699882 ACACGCTGAGGTA-TTTTAAATTTCTGTTTTTGAAAAATCAACTCATATTGCGAAAGGTGAGTTG
65 ACACGCCGAGGTATTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTTCGAGAGGTGAGTTG
* * * *
19699946 AGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTG
130 AGCCTCGGGTCAC--GCTGAGGTA-TT-T-TTCAATTTCTGTTTTTCAAAAATCAACTCATATTG
* * * * * *
19700011 CTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGATGTATTTT
190 CGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* *
19700053 TTTTAAATTTATGTTTTTCAAT---AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCA
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCA
*
19700115 CACGCCAAGGTATTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTG
66 CACGCCGAGGTATTTTTTAATTTCTGTTTTT-AAAAAATCAACTCATATTTCGAGAGGTGAGTTG
* *
19700180 AGGCTCGAGTCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA
130 AGCCTCGGGTCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA
*
19700245 GGTGAGTTGAGCCTCGGG-CACACGCCGAGATATTTC
195 GGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
*
19700281 TTTTAGATTTCTGTTTTTCAAAAAATAAAAATCAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTAAATTTCTGTTTTTC----------AATCAAAATCAACTCATATTACGAGAGGTGAGTTGA
* * *
19700346 ACCTCGGGCACACGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAG
56 GCCTCGGGCACACGCCGAGGTATTTTTTAATTTCTGTTTTT-AAAAAATCAACTCATATTTCGAG
19700411 AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCA
120 AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCA
* * *
19700476 TATTGCGAGAGATGAGTTGAGCCTCGGG-CATACGCTGAGGTATTTC
185 TATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* * *
19700522 TTTTAAATTTCTATTTTTCAAAAAACAAAAATCAAAATCAACTCATATTTCGATAGGTGAGTTGA
1 TTTTAAATTTCTGTTTTT-------C---AATCAAAATCAACTCATATTACGAGAGGTGAGTTGA
* * *
19700587 GCCTCGGGCACACGCCGAGGTA-TTTTTAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGA
56 GCCTCGGGCACACGCCGAGGTATTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTTCGAGA
* * *
19700651 GGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTT-AATTTCTGTTTTTCAAAAATTAACTCA
121 GGTGAGTTGAGCCTCGGG-TCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCA
* * * * *
19700715 TATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATGCTGAGGCATTTC
185 TATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* * * * * *
19700762 TCTTAAAATTCTGTTTGTC-A--AAAATCAACTCATATTACTAGAAGTTAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-C
** * * *
19700824 ACA-GTTGAGGTA-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGT-GAGAGGTGAGTT
65 ACACGCCGAGGTATTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATT-TCGAGAGGTGAGTT
* * *
19700886 GAGCCTCGGGTCGCACGCTGAAGTA-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTACG
129 GAGCCTCGGGT--CACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCG
* * * *
19700950 AGAGGTGAGTAGAGCCTCGGGTCGCATGTCGAGGTA-TTC
192 AGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
* *
19700989 TTTTCAATTTCTGTTTTTCAA--AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-C
* * * * * *
19701052 GCATGCCGAGGTATTCTTTTCAATTTCTGTTTTTCAGAAAATCAACTCATAATTCAAGAGATGAG
65 ACACGCCGAGGTATT-TTTT-AATTTCTGTTTTT-AAAAAATCAACTCATATTTCGAGAGGTGAG
19701117 TTGAGC
127 TTGAGC
19701123 TTTGAGTCGC
Statistics
Matches: 1541, Mismatches: 167, Indels: 138
0.83 0.09 0.07
Matches are distributed among these distances:
226 3 0.00
227 156 0.10
228 185 0.12
229 115 0.07
230 4 0.00
231 7 0.00
232 151 0.10
233 121 0.08
234 150 0.10
235 2 0.00
236 9 0.01
237 10 0.01
238 3 0.00
239 133 0.09
240 88 0.06
241 337 0.22
242 1 0.00
243 7 0.00
244 58 0.04
248 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (231 bp):
TTTTAAATTTCTGTTTTTCAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCA
CACGCCGAGGTATTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTTCGAGAGGTGAGTTGA
GCCTCGGGTCACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTC
Found at i:19700358 original size:91 final size:88
Alignment explanation
Indices: 19700223--19700467 Score: 273
Period size: 91 Copynumber: 2.9 Consensus size: 88
19700213 CTGTTTTTCA
* * *
19700223 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGATATTTCTTTTAGA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATA-TT-TTTCA-A
*
19700288 TTTCTGTTTTTCAAAAAATAAAAATC
63 TTTCTGTTTTTAAAAAAATAAAAATC
*
19700314 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
19700379 CTG-TTTT-------T--AAA--
66 CTGTTTTTAAAAAAATAAAAATC
* * * * *
19700390 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TCACGCTGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
*
19700454 CTGTTTTTCAAAAA
66 CTGTTTTTAAAAAA
19700468 TCAACTCATA
Statistics
Matches: 139, Mismatches: 8, Indels: 23
0.82 0.05 0.14
Matches are distributed among these distances:
75 25 0.18
76 42 0.30
78 3 0.02
80 1 0.01
87 4 0.03
88 7 0.05
89 4 0.03
90 2 0.01
91 51 0.37
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (88 bp):
AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
CTGTTTTTAAAAAAATAAAAATC
Found at i:19700440 original size:626 final size:627
Alignment explanation
Indices: 19699110--19701102 Score: 2597
Period size: 626 Copynumber: 3.2 Consensus size: 627
19699100 CAAAAATTAT
19699110 TTTTTCAATTTCTGTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
1 TTTTTCAATTTCTG-TTTTT--AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
* * *
19699175 TCACATGCCGAGGTATTTCTTTTAAATTTAT-ATTTTCAAAAATCAACTCATATTGCGAGAGGTG
63 TCACA-GCCGAGGTA-TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTG
* * * * *
19699239 AGTTGAGCCTCAGACACATGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATAT
126 AGTTGAGCCTCGGGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATAT
* * * * *
19699304 TGTGAGAGGTGAATTGAGCCTCGGATCGCATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAA
191 TGCGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAA
* *
19699369 AAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTGTTTTAAA
256 AAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTTTAAA
*
19699434 TTTATGTTTTTCAATAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGG
321 TTTATGTTTTTCAATAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGG
* *
19699499 TATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
386 TATTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT
*
19699564 CACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGA
451 CACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
19699629 GCCTCAGGCACACGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAACAAAAATCAAAATC
516 GCCTCGGGCACACGCCGAGATATTTCTTTTAAATTTCTGTTTTTCAAAAAA-AAAAATCAAAATC
* * *
19699694 AACTCATATTTCGAGAGGGGAGTTGAGCCTCGGGCACACGCCGACGTA
580 AACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
*
19699742 TTTTT-AATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
1 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
* * * * *
19699805 CATGCTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGT
66 CA-GCCGAGGTA-TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGT
*
19699870 TGA-CCTCGGGTCACACGCTGAGGTA-TTTTAAATTTCTGTTTTT-GAAAAATCAACTCATATTG
129 TGAGCCTCGGG-CACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTG
19699932 CGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAA
193 CGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAA
* *
19699997 ATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGATGTATTTTTTTTAAATT
258 ATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTTTAAATT
* *
19700062 TATGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCAAGGTA
323 TATGTTTTTCAATAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
* * *
19700127 TTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGGCTCGAGTCA
388 TTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
19700192 CGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
453 CGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
19700257 CTCGGGCACACGCCGAGATATTTCTTTTAGATTTCTGTTTTTCAAAAAATAAAAATCAAAATCAA
518 CTCGGGCACACGCCGAGATATTTCTTTTAAATTTCTGTTTTTCAAAAAA-AAAAATCAAAATCAA
*
19700322 CTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGGTA
582 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
*
19700368 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
* *
19700433 C-GCTGAGGTA-T-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG-AGATGAGTT
66 CAGCCGAGGTATTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAG-TGAGTT
* *
19700494 GAGCCTCGGGCATACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAACAAAAATCAAAA
130 GAGCCTCGGGCACACGCTGAGGTA--T-TTTTAAATTTCTGTTTTT----------AAA--AAAA
* * * ** *
19700559 TCAACTCATATTTCGATAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTA-TT-T-TT-AATTT
180 TCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATT
* * * * *
19700619 CTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTA
245 CTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
* * * * *
19700683 ---TTTTT-AATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGT
310 TTTTTTTTAAATTTATGTTTTTCAATAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-
* * * * * * * * *
19700744 CACATGCTGAGGCATTTCTCTTAAAATTCTGTTTGT-CAAAAATCAACTCATATTACTAGAAGTT
374 CACACGCCGAGGTATTT-T-TT-AATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTG
* * *
19700808 AGTTGAGCCTCGGGTCACAGTTGAGGTA-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATT
436 AGTTGAGCCTCGGGTCAC-GCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATT
* * *
19700872 GTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA-AGTA----TTTTAAATTTCTGTTTTTC--
500 GCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGA-TATTTCTTTTAAATTTCTGTTTTTCAA
* * * *
19700930 --------A--AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATGTCGAGGT
563 AAAAAAAAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGT
19700985 A
627 A
* * * *
19700986 TTCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGT
1 -T-TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGT
* *
19701051 CGCATGCCGAGGTATTCTTTTCAATTTCTGTTTTTCAGAAAATCAACTCATA
64 CACA-GCCGAGGTATTCTTTTAAATTTCTGTTTTTCA-AAAATCAACTCATA
19701103 ATTCAAGAGA
Statistics
Matches: 1225, Mismatches: 98, Indels: 83
0.87 0.07 0.06
Matches are distributed among these distances:
617 38 0.03
618 11 0.01
619 2 0.00
620 61 0.05
622 10 0.01
623 58 0.05
624 28 0.02
625 14 0.01
626 443 0.36
627 120 0.10
628 91 0.07
630 73 0.06
631 26 0.02
632 6 0.00
633 99 0.08
634 41 0.03
635 49 0.04
636 2 0.00
637 1 0.00
638 3 0.00
639 11 0.01
640 38 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (627 bp):
TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
CAGCCGAGGTATTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
AGCCTCGGGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGA
AAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAAATC
AACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTTTAAATTTAT
GTTTTTCAATAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTT
TTTAATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACGC
TGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
GGGCACACGCCGAGATATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAAAATCAAAATCAACTCA
TATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
Found at i:19700607 original size:91 final size:87
Alignment explanation
Indices: 19700464--19700632 Score: 248
Period size: 91 Copynumber: 1.9 Consensus size: 87
19700454 CTGTTTTTCA
* *
19700464 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCATACGCTGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTA--T-TTTT-AA
19700529 TTTCTATTTTTCAAAAAACAAAAATC
62 TTTCTATTTTTCAAAAAACAAAAATC
* * *
19700555 AAAATCAACTCATATTTCGATAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
*
19700620 TGTTTTTCAAAAA
66 TATTTTTCAAAAA
19700633 TTAACTCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 18 0.25
88 4 0.06
89 1 0.01
91 49 0.68
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
TATTTTTCAAAAAACAAAAATC
Found at i:19701133 original size:79 final size:76
Alignment explanation
Indices: 19700555--19701122 Score: 675
Period size: 74 Copynumber: 7.4 Consensus size: 76
19700545 AACAAAAATC
* *
19700555 AAAATCAACTCATATTTCGATAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTATTTTT-AATT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAAATT
19700618 TCTGTTTTTCA
66 TCTGTTTTTCA
* *
19700629 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTATTTTT-AATT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAAATT
19700692 TCTGTTTTTCA
66 TCTGTTTTTCA
* * * * * * *
19700703 AAAATTAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATGCTGAGGCATTTCTCTTAA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TT-T-TTAA
* *
19700768 AATTCTGTTTGTCA
63 ATTTCTGTTTTTCA
* * * **
19700782 AAAATCAACTCATATTACTAGAAGTTAGTTGAGCCTCGGGTCACA-GTTGAGGTA-TTTTAAATT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAAATT
*
19700845 TCTATTTTTCA
66 TCTGTTTTTCA
** * * *
19700856 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAAGTA-TTTTAAATT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAAATT
19700920 TCTGTTTTTCA
66 TCTGTTTTTCA
* * * * *
19700931 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATGTCGAGGTATTCTTTTCAA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-T-TTTTAAA
19700996 TTTCTGTTTTTCAA
64 TTTCTGTTTTTC-A
* * * *
19701010 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCAA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-T-TTTTAAA
19701075 TTTCTGTTTTTCA
64 TTTCTGTTTTTCA
* *
19701088 GAAAATCAACTCATAATT-CAAGAGATGAGTTGAGC
1 -AAAATCAACTCAT-ATTACGAGAGGTGAGTTGAGC
19701123 TTTGAGTCGC
Statistics
Matches: 439, Mismatches: 43, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
74 163 0.37
75 86 0.20
76 3 0.01
77 1 0.00
78 28 0.06
79 155 0.35
80 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (76 bp):
AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAAATT
TCTGTTTTTCA
Found at i:19701326 original size:20 final size:20
Alignment explanation
Indices: 19701301--19701343 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
19701291 TGTGTTTAAA
*
19701301 AAAATTGCATTTTGACCCCT
1 AAAATTACATTTTGACCCCT
19701321 AAAATTACATTTTGACCCCT
1 AAAATTACATTTTGACCCCT
19701341 AAA
1 AAA
19701344 CTTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTACATTTTGACCCCT
Found at i:19701355 original size:30 final size:29
Alignment explanation
Indices: 19701320--19701435 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 29
19701310 TTTTGACCCC
19701320 TAAAATTACATTTTGACCCCTAAACTTTT
1 TAAAATTACATTTTGACCCCTAAACTTTT
** *
19701349 TAAAAATTACATTTCAACCCCTAAACATTT
1 T-AAAATTACATTTTGACCCCTAAACTTTT
* *
19701379 TGAAATTACATTTTGACCCCTAAAATTTCT
1 TAAAATTACATTTTGACCCCTAAACTTT-T
* *
19701409 CAAAATTACATTTTGACACCTAAACTT
1 TAAAATTACATTTTGACCCCTAAACTT
19701436 CCTCAGAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.32
30 50 0.68
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAATTACATTTTGACCCCTAAACTTTT
Found at i:19701431 original size:59 final size:59
Alignment explanation
Indices: 19701322--19701433 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
19701312 TTGACCCCTA
* * *
19701322 AAATTACATTTTGACCCCTAAACTTTTTAAAAATTACATTTCAACCCCTAAACATTTTG
1 AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAACATTTTG
* **
19701381 AAATTACATTTTGACCCCTAAAATTTCTCAAAATTACATTTTGACACCTAAAC
1 AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAAC
19701434 TTCCTCAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (59 bp):
AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAACATTTTG
Found at i:19701660 original size:21 final size:22
Alignment explanation
Indices: 19701619--19701668 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
19701609 CAAACCCCCA
*
19701619 AAAGAAAAAGAAGAGAAAAGAG
1 AAAGAAAAAGAAGACAAAAGAG
19701641 AAAGAAAAA-AA-ACAACAAGAG
1 AAAGAAAAAGAAGACAA-AAGAG
19701662 AAA-AAAA
1 AAAGAAAA
19701669 TTAGCAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 9 0.35
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAGACAAAAGAG
Found at i:19702406 original size:3 final size:3
Alignment explanation
Indices: 19702398--19702457 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
19702388 AGGGTTTGAG
* *
19702398 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA AAA GAA GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
*
19702444 GAA -AA AAA GAA GAA
1 GAA GAA GAA GAA GAA
19702458 AAAAGCAACA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19702422 original size:18 final size:18
Alignment explanation
Indices: 19702399--19702457 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
19702389 GGGTTTGAGG
19702399 AAGAAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAGAAA
19702417 AAGAAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAGAAA
19702435 AAGAAG-A-AAGAA-AAA
1 AAGAAGAAGAAGAAGAAA
19702450 AAGAAGAA
1 AAGAAGAA
19702458 AAAAGCAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.22
16 6 0.15
17 1 0.03
18 24 0.60
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAGAAA
Found at i:19702807 original size:32 final size:33
Alignment explanation
Indices: 19702764--19702825 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
19702754 TCTTGTTTTT
*
19702764 TTTTTCTAAGCATTTTTTTTATTTCGTATTACG
1 TTTTTCTAAGCATTTTTTATATTTCGTATTACG
19702797 TTTTT-TAAGCATTTTTTATATTTCGTATT
1 TTTTTCTAAGCATTTTTTATATTTCGTATT
19702826 TAATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.63
Consensus pattern (33 bp):
TTTTTCTAAGCATTTTTTATATTTCGTATTACG
Found at i:19702837 original size:10 final size:10
Alignment explanation
Indices: 19702822--19702855 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19702812 TTATATTTCG
19702822 TATTTAATTT
1 TATTTAATTT
19702832 TATTTAATTT
1 TATTTAATTT
*
19702842 CA-TTAATTT
1 TATTTAATTT
19702851 TATTT
1 TATTT
19702856 TTTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTAATTT
Found at i:19703122 original size:18 final size:17
Alignment explanation
Indices: 19703083--19703121 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19703073 GTAATTTATC
* *
19703083 AAAATTTTCGTGTTTTT
1 AAAAATTTCGTGTTTTA
19703100 AAAAATTTCGTGTTTTA
1 AAAAATTTCGTGTTTTA
19703117 AAAAA
1 AAAAA
19703122 AAATTCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTA
Found at i:19703164 original size:19 final size:18
Alignment explanation
Indices: 19703140--19703198 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
19703130 ATGTTTCGAT
19703140 ATTTTCATGTCTTCAAAAA
1 ATTTTCATGT-TTCAAAAA
19703159 ATTTTCTCATGTTTCAAAAA
1 A-TTT-TCATGTTTCAAAAA
* * *
19703179 CTATTCGTGTTTTCAAAAA
1 ATTTTCATG-TTTCAAAAA
19703198 A
1 A
19703199 ATAAGGCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 11 0.33
21 6 0.18
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (18 bp):
ATTTTCATGTTTCAAAAA
Found at i:19703386 original size:19 final size:19
Alignment explanation
Indices: 19703356--19703733 Score: 163
Period size: 18 Copynumber: 20.8 Consensus size: 19
19703346 TTGTGTTTTT
19703356 TCGTGTTTTCAAAAAATTTC
1 TCGTGTTTTC-AAAAATTTC
*
19703376 TCGTG-TTTCAAAAATCT-
1 TCGTGTTTTCAAAAATTTC
* *
19703393 TCATGTTTTCAAAAATCT-
1 TCGTGTTTTCAAAAATTTC
*
19703411 TCGTGTTTTCAAAAATCT-
1 TCGTGTTTTCAAAAATTTC
*
19703429 TCATGTTTTCAAAAA-TTC
1 TCGTGTTTTCAAAAATTTC
19703447 -CGGTGTTTT-AAAAATTT-
1 TC-GTGTTTTCAAAAATTTC
* *
19703464 TTGTGTTTT-AAGAAAATTC
1 TCGTGTTTTCAA-AAATTTC
* *
19703483 -CG-GTGATTCAAAAAAAAATT-
1 TCGTGT-TTTC---AAAAATTTC
* * *
19703503 TAGT-TTTCCAAGAAAAAAACATT-
1 TCGTGTTTTC-----AAAAA-TTTC
19703526 TCGTG-TTTCAAAAATTTC
1 TCGTGTTTTCAAAAATTTC
*
19703544 -CGTATTTTCAAAAATTT-
1 TCGTGTTTTCAAAAATTTC
* *
19703561 TCTTGTTTTCAACAA-TTC
1 TCGTGTTTTCAAAAATTTC
*
19703579 TCGTG-TTTCACAAATTT-
1 TCGTGTTTTCAAAAATTTC
* *
19703596 TCGTGTTTT---AATTTTT
1 TCGTGTTTTCAAAAATTTC
** *
19703612 TTTTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAATTTC
19703631 TCGTG-TTTCAAAAATTT-
1 TCGTGTTTTCAAAAATTTC
19703648 TCGTGTTTT-AAAAATTT-
1 TCGTGTTTTCAAAAATTTC
* *
19703665 TCGTG-TTTCTAAAGTTTC
1 TCGTGTTTTCAAAAATTTC
*
19703683 T-GTG-TGTCAAAAATTT-
1 TCGTGTTTTCAAAAATTTC
* *
19703699 TCATGTTTTCAAAAAAAATTC
1 TCGTGTTTTC--AAAAATTTC
19703720 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
19703734 AAAATTTCGT
Statistics
Matches: 280, Mismatches: 42, Indels: 74
0.71 0.11 0.19
Matches are distributed among these distances:
15 5 0.02
16 11 0.04
17 79 0.28
18 126 0.45
19 11 0.04
20 14 0.05
21 16 0.06
22 9 0.03
23 9 0.03
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
TCGTGTTTTCAAAAATTTC
Found at i:19703459 original size:17 final size:18
Alignment explanation
Indices: 19703432--19703497 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 18
19703422 AAAATCTTCA
*
19703432 TGTTTTCAAAAATTCCGG
1 TGTTTTAAAAAATTCCGG
***
19703450 TGTTTT-AAAAATTTTTG
1 TGTTTTAAAAAATTCCGG
19703467 TGTTTTAAGAAAATTCCGG
1 TGTTTTAA-AAAATTCCGG
* *
19703486 TGATTCAAAAAA
1 TGTTTTAAAAAA
19703498 AAATTTAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 14 0.37
18 11 0.29
19 13 0.34
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTAAAAAATTCCGG
Found at i:19703538 original size:17 final size:16
Alignment explanation
Indices: 19703518--19703713 Score: 122
Period size: 17 Copynumber: 11.3 Consensus size: 16
19703508 TTCCAAGAAA
19703518 AAAACATTTCGTGTTTC
1 AAAA-ATTTCGTGTTTC
*
19703535 AAAAATTTCCGTATTTTC
1 AAAAATTT-CGT-GTTTC
*
19703553 AAAAATTTTCTTGTTTTC
1 AAAAA-TTTCGTG-TTTC
*
19703571 AACAATTCTCGTGTTTC
1 AAAAATT-TCGTGTTTC
* *
19703588 ACAAATTTTCGTGTTTT
1 A-AAAATTTCGTGTTTC
*** **
19703605 AATTTTTTTTTGTTTTC
1 AAAAATTTCGTG-TTTC
19703622 AAAAAATTCTCGTGTTTC
1 -AAAAATT-TCGTGTTTC
*
19703640 AAAAATTTTCGTGTTTT
1 AAAAA-TTTCGTGTTTC
19703657 AAAAATTTTCGTGTTTC
1 AAAAA-TTTCGTGTTTC
* * *
19703674 TAAAGTTTCTGTGTGTC
1 AAAAATTTC-GTGTTTC
*
19703691 AAAAATTTTCATGTTTTC
1 AAAAA-TTTCGTG-TTTC
19703709 AAAAA
1 AAAAA
19703714 AAATTCTCGT
Statistics
Matches: 139, Mismatches: 27, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
16 15 0.11
17 69 0.50
18 49 0.35
19 6 0.04
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:19703646 original size:52 final size:52
Alignment explanation
Indices: 19703517--19703712 Score: 202
Period size: 52 Copynumber: 3.8 Consensus size: 52
19703507 TTTCCAAGAA
* *
19703517 AAAAACATT-TCGTGTTTCAAAAATTTCCGTATTTTCAAAAATTTTCTTGTTTTC
1 AAAAA-ATTCTCGTGTTTCAAAAATTTTCGTGTTTT--AAAATTTTCTTGTTTTC
* * ** *
19703571 -AACAATTCTCGTGTTTCACAAATTTTCGTGTTTTAATTTTTTTTTGTTTTC
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAATTTTCTTGTTTTC
*
19703622 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAAATTTTCGTG-TTTC
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-AAAATTTTCTTGTTTTC
* ** * *
19703674 TAAAGTTTCT-GTGTGTCAAAAATTTTCATGTTTTCAAAA
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-AAAA
19703713 AAAATTCTCG
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
51 40 0.33
52 46 0.38
53 34 0.28
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (52 bp):
AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAATTTTCTTGTTTTC
Found at i:19703735 original size:20 final size:20
Alignment explanation
Indices: 19703691--19703746 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
19703681 TCTGTGTGTC
* * *
19703691 AAAAATTTTCATGTTTTCAA
1 AAAAAATTTCGTGTTTTAAA
19703711 AAAAAATTCTCGTGTTTTAAA
1 AAAAAATT-TCGTGTTTTAAA
19703732 AAAAAATTTCGTGTT
1 AAAAAATTTCGTGTT
19703747 CTTTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
AAAAAATTTCGTGTTTTAAA
Found at i:19704483 original size:44 final size:43
Alignment explanation
Indices: 19704435--19705499 Score: 425
Period size: 44 Copynumber: 24.6 Consensus size: 43
19704425 TTTTAGTCTA
*
19704435 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAT-TTCAATCTG
** * * *
19704479 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATAAGATCTAATT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAT-TTCA-ATC---TG
* * * * * *
19704528 CGACCTACTGCAATTTCAGAGG-TATATGATTCATCGT-TTT-AATCCG
1 C-TCC-ACTGCAACTTCAG-GGAGATAAGA--C-TTGTATTTCAATCTG
* * * ***
19704574 CTCCACTGCAACTTCAGAGAGATAGGA-TTAGTTTCTTTTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * *
19704618 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAT-TTCAATCTG
* * * * *
19704663 C-CCTACTGCAAATTCA-GGAGGATAAGAC-CGGATAT-GATCTG
1 CTCC-ACTGCAACTTCAGGGA-GATAAGACTTGTATTTCAATCTG
* * * * * ** * * * * *
19704704 TTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGT-ATTTCAATCTG
* * * * **
19704748 CTCCGCTGCAACTTTAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
** * * *
19704792 CTCCACTGCAACTTCAGAAAGATAAGAC-TGGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * * *
19704833 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * **
19704877 CTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
** * * *
19704921 CTCCACTGCAACTTCAGAAAGATAAGAC-TGGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * * *
19704962 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGT-TTTTAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* **
19705006 CTCCA-TGCAACTTCAGGGAGATAAGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * * *
19705049 CTCCACTACAACTTCAGGGAGATAAGAC-TGGA-TGCGATCTT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * *
19705090 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGT-TTTTAAT-TCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCT-G
* * * **
19705134 CTCCACTGTAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * *
19705178 CTCCATTGCAACTTCAGGGAGATAAGAC-TG-AATGCGAT-TG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* ** * *
19705218 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * *
19705262 CTCCACTGAAACTTCAGGGAGATAAGAC-TGGA-TGCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * ** * *
19705303 CTCTATTGCAACTTCAGAAAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * * **
19705347 CTCCACTGTAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * * * * *
19705391 CTCTACAGTAACTTCAGGAAGATAAGAC-TGGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
** * * * * *
19705432 CTTTACTGCAACTTCAGAGAGATAATA-TATGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGT-ATTTCAATCTG
*
19705476 CTCCACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
19705500 GGATTGGTGG
Statistics
Matches: 749, Mismatches: 199, Indels: 146
0.68 0.18 0.13
Matches are distributed among these distances:
40 27 0.04
41 179 0.24
42 22 0.03
43 56 0.07
44 391 0.52
45 40 0.05
46 3 0.00
49 5 0.01
50 3 0.00
51 17 0.02
52 3 0.00
53 1 0.00
54 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
Found at i:19704831 original size:129 final size:129
Alignment explanation
Indices: 19704573--19705285 Score: 997
Period size: 129 Copynumber: 5.5 Consensus size: 129
19704563 GTTTTAATCC
* * ** *
19704573 GCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-GTGTT-TTTAATCCGCTCCACTGCAACTTCAGG
* * * * * * * **
19704636 GAGATAAGACTCGCTATCTT-TAGTCTGC-CCTACTGCAAATTCAGGAGGATAAGACCGGATATG
64 GAGATAGGA-TTGGTTTCTTCT-GTCTGCTCC-ACTGCAACTTCAGGAAGATAAGACTGGATGCG
19704699 ATCT
126 ATCT
* * * * * * * * *
19704703 GTTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCGCTCCGCTGCAACTTTAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
19704768 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGATCT
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
19704832 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
19704897 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGATCT
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
**
19704961 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATATGCTCCA-TGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
19705025 GATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCT
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
* * *
19705089 TCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
19705154 GATAGGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCGAT-T
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
* *
19705217 GCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
19705282 GATA
66 GATA
19705286 AGACTGGATG
Statistics
Matches: 528, Mismatches: 50, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
128 187 0.35
129 282 0.53
130 56 0.11
131 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
Found at i:19705063 original size:257 final size:257
Alignment explanation
Indices: 19704573--19705288 Score: 992
Period size: 257 Copynumber: 2.8 Consensus size: 257
19704563 GTTTTAATCC
* * ** *
19704573 GCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-GTGTT-TTTAATCCGCTCCACTGCAACTTCAGG
* * * * * * * **
19704636 GAGATAAGACTCGCTATCTT-TAGTCTGC-CCTACTGCAAATTCAGGAGGATAAGACCGGATATG
64 GAGATAGGA-TTGGTTTCTTCT-GTCTGCTCC-ACTGCAACTTCAGGAAGATAAGACTGGATGCG
* * * * * * * * *
19704699 ATCTGTTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCGCTCCGCTGCAACTTTA
126 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCC-ATGCAACTTCA
* *
19704764 GGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGA
190 GGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGAAAGATAAGACTGGATGCGA
19704829 TCT
255 TCT
19704832 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
19704897 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGATCTG
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCTG
* **
19704962 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATATGCTCCATGCAACTTCAGGGAGA
131 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCATGCAACTTCAGGGAGA
**
19705027 TAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCT
196 TAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGAAAGATAAGACTGGATGCGATCT
* * *
19705089 TCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
19705154 GATAGGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCGAT-TG
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCTG
*
19705218 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAGGGAG
131 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCA-TGCAACTTCAGGGAG
19705283 ATAAGA
195 ATAAGA
19705289 CTGGATGCAA
Statistics
Matches: 411, Mismatches: 41, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
256 48 0.12
257 213 0.52
258 83 0.20
259 64 0.16
260 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (257 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCTG
CTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCATGCAACTTCAGGGAGA
TAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGAAAGATAAGACTGGATGCGATCT
Found at i:19705100 original size:213 final size:211
Alignment explanation
Indices: 19704871--19705499 Score: 585
Period size: 213 Copynumber: 2.9 Consensus size: 211
19704861 CTGTGTTTTT
* * * * *
19704871 AATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTT-CTGTCTGCTCCACTGCAAC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTT-TTAAT-TC-GCTCCACTGCAAC
* *
19704933 TTCAGAAAGATAAGACTGG-ATGC-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
63 TTCAGAAAGATAAGACTGGTATGCTG-TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TGA
* ** ** ** *
19704996 TTTTAATATGCTCCA-TGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCTGTCTGCTCCACT-A
124 ATGCAAT-TGCTCCACTGCAACTTCAAAGAGATAAGATCTGTGTTT-TT-AATCCGCTCCACTGA
19705057 CAACTTCAGGGAGATAAGACTGGATGC
186 -AACTTCAGGGAGATAAGACTGGATGC
* * *
19705084 GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
** * * * * * * *
19705149 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCG
66 AGAAAGATAAGACTGG--TATGCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGAATGCA
*
19705214 ATTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAG
129 ATTGCTCCACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAG
19705279 GGAGATAAGACTGGATGC
194 GGAGATAAGACTGGATGC
* * * *
19705297 AATCTGCTCTATTGCAACTTCAGAAAGATAAGATCTGTGTTTTTAATCCGCTCCACTGTAACTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
** * * * * * * * *
19705362 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGTAACTTCAG-GAAGATAAGACTGGATGC
66 AGAAAGATAAGACTGG--TATGCTGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTGAATGC
* ** * * * *
19705426 GATCTGCTTTACTGCAACTTCAGAGAGATAATATATGTGTTTTTAATCCGCTCCACTGCAACTTC
128 AAT-TGCTCCACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTC
*
19705491 AGAGAGATA
192 AGGGAGATA
19705500 GGATTGGTGG
Statistics
Matches: 359, Mismatches: 44, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
212 7 0.02
213 236 0.66
214 75 0.21
215 10 0.03
216 30 0.08
217 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (211 bp):
AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
AGAAAGATAAGACTGGTATGCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGAATGCAAT
TGCTCCACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAGGG
AGATAAGACTGGATGC
Found at i:19705362 original size:257 final size:257
Alignment explanation
Indices: 19704568--19705370 Score: 955
Period size: 257 Copynumber: 3.1 Consensus size: 257
19704558 TCATCGTTTT
*
19704568 AATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTT--TGTCTGCTCCACTGCAA
1 AATCCGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGTT-TTTAAT-TC-GCTCCACTGCAA
* * * * *
19704629 CTTCAGGGAGATAAGACTCGCTATCTT-TAGTCTGC-CCTACTGCAAATTCA-GGAGGATAAGAC
62 CTTCAGGGAGATAGGA-TTGGTTTCTTCT-GTCTGCTCC-ACTGCAACTTCAGGGA-GATAAGAC
* ** * * * * * * * *
19704691 CGGATATGATCTGTTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCGCTCCGCTG
123 TGGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTG
* *
19704756 CAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACT
188 CAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTGCT-CACTGCAACTTCAGAAAGATAAGACT
19704821 GGATGC
252 GGATGC
* * * *
19704827 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
**
19704892 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCG
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCG
* **
19704957 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATATGCTCCA-TGCAACTTCA
131 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA
* **
19705021 GGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGC
196 GGGAGATAAGATTGGTTTCTTCTGTCTGCT-CACTGCAACTTCAGAAAGATAAGACTGGATGC
* ** * *
19705084 GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
* *
19705149 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCG
66 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCG
*
19705214 AT-TGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCA
131 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA
* * * * * * *
19705278 GGGAGATAAGACTGGATGCAATCTG-CT-CT-ATTGCAACTTCAGAAAGATAAGATCTGTGTTTT
196 GGGAGATAAGATTGGTTTC-TTCTGTCTGCTCACTGCAACTTCAGAAAGATAAGA-CTG-G-ATG
*
19705340 T
257 C
* *
19705341 AATCCGCTCCACTGTAACTTCAGGGAGATA
1 AATCCGCTCCACTGCAACTTCAGAGAGATA
19705371 GGATTGGTTT
Statistics
Matches: 474, Mismatches: 58, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
254 19 0.04
255 3 0.01
256 51 0.11
257 245 0.52
258 85 0.18
259 66 0.14
260 4 0.01
261 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (257 bp):
AATCCGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGCAACTTC
AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCG
ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA
GGGAGATAAGATTGGTTTCTTCTGTCTGCTCACTGCAACTTCAGAAAGATAAGACTGGATGC
Found at i:19705415 original size:129 final size:129
Alignment explanation
Indices: 19705271--19705507 Score: 393
Period size: 129 Copynumber: 1.8 Consensus size: 129
19705261 GCTCCACTGA
* * *
19705271 AACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTATTGCAACTTCAGAAAGATAAGATCTGTG
1 AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
* *
19705336 TTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
66 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
* * * *
19705400 AACTTCAGGAAGATAAGACTGGATGCGATCTGCTTTACTGCAACTTCAGAGAGATAATATATGTG
1 AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
19705465 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGT
66 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGT
19705508 GGTTTCGCTG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (129 bp):
AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
Found at i:19706122 original size:108 final size:107
Alignment explanation
Indices: 19705944--19706138 Score: 275
Period size: 108 Copynumber: 1.8 Consensus size: 107
19705934 GAAAAATGCT
* *
19705944 TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAATAAATC
1 TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAATC
19706009 AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * * **
19706051 TGAAAATGATTATCACAATGGATAATATGGAAA-TTTCTTGAGAGTAAAGCTTTAAATGAACAAA
1 TGAAAA-GATTATCAAAATGGAGAAAAT-GAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAA
*
19706115 TTAATCAAGATAGCAAATTTTGCT
64 TCAATCAAGATAGCAAATTTTGCT
19706139 AGAATGAGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
107 6 0.08
108 66 0.87
109 4 0.05
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (107 bp):
TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAATC
AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:19706496 original size:17 final size:18
Alignment explanation
Indices: 19706461--19706506 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
19706451 GGCCTCTCCT
19706461 TTTTTCCTTTTCTTTTTCA
1 TTTTT-CTTTTCTTTTTCA
19706480 TTTTTCTTTTC-TTTTCA
1 TTTTTCTTTTCTTTTTCA
19706497 TTTTTCTTTT
1 TTTTTCTTTT
19706507 TTTCAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 16 0.59
18 6 0.22
19 5 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTCA
Found at i:19706507 original size:6 final size:6
Alignment explanation
Indices: 19706461--19706507 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
19706451 GGCCTCTCCT
*
19706461 TTTTTC CTTTTC TTTTTC ATTTTTC -TTTTC -TTTTC ATTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
19706508 TTCAAGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 10 0.28
6 15 0.42
7 11 0.31
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:19706968 original size:22 final size:21
Alignment explanation
Indices: 19706942--19706989 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19706932 CCCCGATAGA
* *
19706942 GTTTTTT-ATTTTTTGCTTTT
1 GTTTTTTAAATTTTTACTTTT
19706962 GTTTTTTAAATTTTTACTTTT
1 GTTTTTTAAATTTTTACTTTT
19706983 GTTTTTT
1 GTTTTTT
19706990 TGTTGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.10, C:0.04, G:0.08, T:0.77
Consensus pattern (21 bp):
GTTTTTTAAATTTTTACTTTT
Found at i:19715989 original size:2 final size:2
Alignment explanation
Indices: 19715982--19716007 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19715972 NNNNNNNNCT
19715982 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
19716008 ATTAGAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19722991 original size:27 final size:27
Alignment explanation
Indices: 19722926--19722992 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
19722916 TTTGTTTAAT
* * *
19722926 TATAATATTATAATATAATATATATAT
1 TATAATATTATAATATAATATAAAAAC
*
19722953 TATAACATTTATAAT-TAATATAAAAAC
1 TATAATA-TTATAATATAATATAAAAAC
19722980 TATATATATTATA
1 TATA-ATATTATA
19722993 CACATGCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
TATAATATTATAATATAATATAAAAAC
Found at i:19738505 original size:39 final size:42
Alignment explanation
Indices: 19738398--19738509 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 42
19738388 CGTTTGGTTC
*
19738398 GTTGTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTAGTTG
1 GTTGTAATGGAATAGAGGCGTAATAGC-AATC-ATTGTGTA-TTG
** *
19738443 AATGTAATGGAATAGAAGCGTAATAGCAATC-TTGTGT-TTG
1 GTTGTAATGGAATAGAGGCGTAATAGCAATCATTGTGTATTG
*
19738483 GTTG-AATGGAATAGAGGTGTAATAGCA
1 GTTGTAATGGAATAGAGGCGTAATAGCA
19738510 TAATGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 21 0.36
40 5 0.08
42 5 0.08
44 4 0.07
45 24 0.41
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (42 bp):
GTTGTAATGGAATAGAGGCGTAATAGCAATCATTGTGTATTG
Found at i:19738676 original size:18 final size:17
Alignment explanation
Indices: 19738655--19738689 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19738645 TTATTATTAA
*
19738655 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19738673 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19738690 TCTTAANNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19749457 original size:21 final size:22
Alignment explanation
Indices: 19749431--19749477 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19749421 AATCCCATCA
*
19749431 TTCCAA-AAAAA-ATCCCTTTGT
1 TTCCAAGAAAAAGA-CCCATTGT
19749452 TTCCAAGAAAAAGACCCATTGT
1 TTCCAAGAAAAAGACCCATTGT
19749474 TTCC
1 TTCC
19749478 CAGATTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (22 bp):
TTCCAAGAAAAAGACCCATTGT
Found at i:19754641 original size:5 final size:5
Alignment explanation
Indices: 19754626--19754657 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
19754616 TTCTCAAAGA
*
19754626 TTTTC TCTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
19754658 GAGAGTTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:19755318 original size:17 final size:17
Alignment explanation
Indices: 19755284--19755321 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
19755274 ATAAAGTATT
19755284 AATTTAAAAAATCGTAAA
1 AATTTAAAAAATC-TAAA
19755302 AATTTAAAAGAAT-TAAA
1 AATTTAAAA-AATCTAAA
19755319 AAT
1 AAT
19755322 AAGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (17 bp):
AATTTAAAAAATCTAAA
Found at i:19758058 original size:17 final size:17
Alignment explanation
Indices: 19758036--19758069 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19758026 TGATCCAAAC
* *
19758036 TATATTGCTTCAAACAA
1 TATATTCCTGCAAACAA
19758053 TATATTCCTGCAAACAA
1 TATATTCCTGCAAACAA
19758070 ACTTTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
TATATTCCTGCAAACAA
Found at i:19761194 original size:12 final size:13
Alignment explanation
Indices: 19761144--19761218 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
19761134 CCAATGTTCC
*
19761144 ATTTCACATATCT
1 ATTTCATATATCT
* *
19761157 ATTTTCATATAACC
1 A-TTTCATATATCT
19761171 ATTTCATATATCT
1 ATTTCATATATCT
19761184 ATTTC-TATATCT
1 ATTTCATATATCT
* *
19761196 A-TTCATATAACC
1 ATTTCATATATCT
19761208 ATTTCATATAT
1 ATTTCATATAT
19761219 ATCAAGAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
11 3 0.06
12 14 0.27
13 24 0.47
14 10 0.20
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTCATATATCT
Found at i:19761927 original size:32 final size:32
Alignment explanation
Indices: 19761886--19761953 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
19761876 ATACATACAT
19761886 ATACATATTTATTGATAATGCTCTAAAATGAC
1 ATACATATTTATTGATAATGCTCTAAAATGAC
19761918 ATACATATTTATTGATAATGCTCTAAAATGAC
1 ATACATATTTATTGATAATGCTCTAAAATGAC
19761950 ATAC
1 ATAC
19761954 TTTTTTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (32 bp):
ATACATATTTATTGATAATGCTCTAAAATGAC
Found at i:19766742 original size:45 final size:44
Alignment explanation
Indices: 19766655--19766747 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
19766645 ATTACAACAT
*
19766655 CATTCTATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
19766699 CATTCCATTCAACCAAACA-ATTA-AATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA--AGAA-TACTATTACAGTTCTATTC
19766744 CATT
1 CATT
19766748 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 20 0.44
45 24 0.53
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:19766750 original size:16 final size:16
Alignment explanation
Indices: 19766729--19766783 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
19766719 TTAAATTACT
*
19766729 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
19766745 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
19766761 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
19766777 ATTACAG
1 ATTACAG
19766784 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:19767731 original size:24 final size:24
Alignment explanation
Indices: 19767661--19767732 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
19767651 ATTTTCATAA
**
19767661 TCAGATACAGATGCAAATTTAGAT
1 TCAGATACAGATGCAAACATAGAT
* * * *
19767685 TCAAATACAAAT-AAATACGTAGAT
1 TCAGATACAGATGCAA-ACATAGAT
*
19767709 TCAGATACAGATGCAGACATAGAT
1 TCAGATACAGATGCAAACATAGAT
19767733 CCTACCTCCA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
23 2 0.06
24 33 0.92
25 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (24 bp):
TCAGATACAGATGCAAACATAGAT
Found at i:19770204 original size:57 final size:57
Alignment explanation
Indices: 19770141--19770264 Score: 203
Period size: 57 Copynumber: 2.2 Consensus size: 57
19770131 ATTTTCATTT
*
19770141 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAGGACATATACTTA
1 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
* * *
19770198 TATGGAGCATGCCCAAGATTTATTTTTATCACATTGTCCTTCTAAGACATATACTTT
1 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
*
19770255 TTTGGAGCAT
1 TATGGAGCAT
19770265 TTTAGTTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (57 bp):
TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
Found at i:19776856 original size:18 final size:18
Alignment explanation
Indices: 19776816--19776858 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19776806 AAAAATACTG
*
19776816 ATAATAATGAAAGTGGTA
1 ATAATAATGAAAGTGATA
*
19776834 GTAATAATGATAA-TGATA
1 ATAATAATGA-AAGTGATA
19776852 ATAATAA
1 ATAATAA
19776859 CTAAACTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
ATAATAATGAAAGTGATA
Found at i:19778018 original size:13 final size:13
Alignment explanation
Indices: 19777993--19778036 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
19777983 TCTGCTGGTT
19777993 TAGGCTAGTTGGGC
1 TAGGCT-GTTGGGC
*
19778007 TAGGGTGTTGGGC
1 TAGGCTGTTGGGC
19778020 TTAGGCTGATTGGGC
1 -TAGGCTG-TTGGGC
19778035 TA
1 TA
19778037 ATTGGGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.14, C:0.11, G:0.43, T:0.32
Consensus pattern (13 bp):
TAGGCTGTTGGGC
Found at i:19781859 original size:28 final size:28
Alignment explanation
Indices: 19781819--19781874 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
19781809 CATTGGATTA
*
19781819 AGACATAGTTATGTTTGACAATTAATCT
1 AGACATAGTTATGTCTGACAATTAATCT
19781847 AGACATAGTTATGTCTGACAATTAATCT
1 AGACATAGTTATGTCTGACAATTAATCT
19781875 CTGATGGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (28 bp):
AGACATAGTTATGTCTGACAATTAATCT
Found at i:19785632 original size:3 final size:3
Alignment explanation
Indices: 19785624--19785715 Score: 143
Period size: 3 Copynumber: 31.3 Consensus size: 3
19785614 AAATGAAAGG
19785624 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
19785671 AGA AAA AG- AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
19785716 AGAGAGGGTG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 4 0.05
3 77 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19785797 original size:33 final size:34
Alignment explanation
Indices: 19785732--19785803 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
19785722 GGTGGTGCCG
* *
19785732 GAAAAA-GA-AAAGAAAAAGAGAGAAAGAGAATA
1 GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
* *
19785764 GAGAAAGGAGAAAGAAAGAGA-AGAAAAAAAATA
1 GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
19785797 GAAAAAG
1 GAAAAAG
19785804 TAAGGTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 5 0.15
33 18 0.55
34 10 0.30
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (34 bp):
GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
Found at i:19785799 original size:24 final size:23
Alignment explanation
Indices: 19785736--19785800 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
19785726 GTGCCGGAAA
*
19785736 AAGAAAAGAAAAAGAGAGAAAGAG
1 AAGAAAA-AAAAAGAAAGAAAGAG
* * **
19785760 AATAGAGAAAGGAGAAAGAAAGAG
1 AAGA-AAAAAAAAGAAAGAAAGAG
19785784 AAGAAAAAAAATAGAAA
1 AAGAAAAAAAA-AGAAA
19785801 AAGTAAGGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
23 4 0.13
24 24 0.80
25 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAAAAGAAAGAAAGAG
Found at i:19786077 original size:41 final size:41
Alignment explanation
Indices: 19785975--19786196 Score: 123
Period size: 39 Copynumber: 5.7 Consensus size: 41
19785965 GTTTAGTTAT
* * *
19785975 TAATAATTATTGTTACTTAG-TATTATTGTTAGTAAAAAAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
* *
19786015 TAA-TATTATTATTATGGTTAGTTATTA-AGATTAGTAAAAACCC
1 TAATTATTATTATTA--CTTAGTTATTATAG-TTAGTAAAAA-AC
* * *** *
19786058 TAATTATTATT-TTACTTAG-TATGATTGTTAGTTTTTACAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAG-TAAAAAAC
* * **
19786098 T-A-TATTATTGTTAGTTA-TTATT-T--TTAGTAAAACCC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
* * **
19786133 TAATTATTATTGTTAGTTAG-TATTATTTTTAGTAAAAAAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
19786173 T-ATTATTATTATTA-TTA-TTATTAT
1 TAATTATTATTATTACTTAGTTATTAT
19786197 TATTATTATT
Statistics
Matches: 143, Mismatches: 22, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
35 5 0.03
36 5 0.03
37 19 0.13
38 18 0.13
39 31 0.22
40 24 0.17
41 12 0.08
42 15 0.10
43 7 0.05
44 7 0.05
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.50
Consensus pattern (41 bp):
TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
Found at i:19786180 original size:76 final size:77
Alignment explanation
Indices: 19785975--19786198 Score: 249
Period size: 76 Copynumber: 2.9 Consensus size: 77
19785965 GTTTAGTTAT
*
19785975 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTAT
**
19786040 TAAGATTAGTAAAAACCC
60 TATTATTAGTAAAAACCC
* *** * *
19786058 TAATTATTATT-TTACTTAGTATGATTGTTAGTTTTTACACTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTACTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTATTA
19786121 TTAGT-AAAACCC
65 TTAGTAAAAACCC
* * *
19786133 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTATTATTA-TTATTATTAT
1 TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTAT
19786197 TA
66 TA
19786199 TTATTATTAT
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
75 35 0.29
76 43 0.36
77 1 0.01
78 1 0.01
79 5 0.04
80 2 0.02
82 19 0.16
83 14 0.12
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTAT
TAGTAAAAACCC
Found at i:19786181 original size:3 final size:3
Alignment explanation
Indices: 19786173--19786224 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
19786163 AGTAAAAAAC
19786173 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19786221 TAT T
1 TAT T
19786225 GTGTTAGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19789208 original size:558 final size:556
Alignment explanation
Indices: 19788133--19789246 Score: 1816
Period size: 558 Copynumber: 2.0 Consensus size: 556
19788123 AATGATAACT
19788133 TTATCTTTTCAATATAAGTTGTAATGTTTTATGTTATCGAATTACTGGAACTTATCTTTTCTTAA
1 TTATCTTTTCAATATAAGTTGTAATGTTTTATGTTATCGAATTACTGGAACTTATCTTTTCTTAA
* *
19788198 TACGTATACAGCGTACGAGTTAGAGCCACATATTTTCCACCAAAGAATGATTCGACTTGAGAGTG
66 TACATATACAGCGTACGAGTTAGAGCCACATATTTTCCACCAAAGAATGATTCAACTTGAGAGTG
* **
19788263 ACATGGAGGGTCAAATGAACACATCTTTTCGACAGTGGTTGGGTACAACGGAGCCGTGGCAATGG
131 ACATAGAGGGTCAAACAAACACATCTTTTCGACAGTGGTTGGGTACAACGGAGCCGTGGCAATGG
*
19788328 GCTCAAATTTTTGACGAGGGCTTCCGTTATAGTCAAATGACCACAATTAGTGGAGGGGGTCAACG
196 GCTCAAAGTTTTGACGAGGGCTTCCGTTATAGTCAAATGACCACAATTAGTGGAGGGGGTCAACG
*
19788393 CTGTGTTGTTGAAAACACAACATCTTCTGATTGCATCTGTCTTCTCGGCTACATTCTACACGTTG
261 CTGTGTTGTTGAAAACACAACATCTTCCGATTGCATCTGTCTTCTCGGCTACATTCTACACGTTG
19788458 GCTACCTTGATGCCAAGAATGGGTCAGCAACAAGTCAACCAGATGGAGGCGAGACACGTGTTTGT
326 GCTACCTTGATGCCAAGAATGGGTCAGCAACAAGTCAACCAGATGGAGGCGAGACACGTGTTTGT
* * *
19788523 CAAAGATGTCAGGGATGCAGTGGTTACAAACCGTCGGATGGCGAGGTCGATAAATGTAGAAGTAT
391 CAAAGATGTCAGGGATGCAATGGTTACAAACCGTCGGATGGCAAGGTCGATAAATGTAGAAATAT
* * * * * *
19788588 ATTTACAATGTCTTGAAACATTTCGAGTTACGAAGACTATCGGTCGTCAACCCAGTATACCACCT
456 ATTCACAACGGCTGGAAACATTTCGAGTTACGAAGACCATCGATCGTCAACCCAGTATACCACCT
*
19788653 AGGTCTTATGGAGTTGATCTACAAAACAGACAGTGC
521 AGGTCCTATGGAGTTGATCTACAAAACAGACAGTGC
*
19788689 TTATCTTTTCAATATAAGTTGTAATGTTTTATGTTATCGATTTACTGGAACTTATCTTTTCTTAA
1 TTATCTTTTCAATATAAGTTGTAATGTTTTATGTTATCGAATTACTGGAACTTATCTTTTCTTAA
* *
19788754 TACATATACAGCGTACGAGTTAGAGCCACATATTTTTCGCCAAAGAATGATTCAACTTGAGAGTG
66 TACATATACAGCGTACGAGTTAGAGCCACATATTTTCCACCAAAGAATGATTCAACTTGAGAGTG
* * *
19788819 ACATAGAGGGTCAAACAAACACATC-TTTCTGACAGTGGTTGGGTACAATGGAGCCTTGGTAATG
131 ACATAGAGGGTCAAACAAACACATCTTTTC-GACAGTGGTTGGGTACAACGGAGCCGTGGCAATG
* *
19788883 GGCTCAAAGTTTTGACGAGGGCTTTCGTTATGGTCAAATGACCACATACTTAGTGGAGGGGGTCA
195 GGCTCAAAGTTTTGACGAGGGCTTCCGTTATAGTCAAATGACCACA-A-TTAGTGGAGGGGGTCA
* *
19788948 ACGCTGTGTTGTTGAAAACACGACATCTTCCGATTGCATCTGTCTTCTGGGCTACATTCTACACG
258 ACGCTGTGTTGTTGAAAACACAACATCTTCCGATTGCATCTGTCTTCTCGGCTACATTCTACACG
19789013 TTGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGTCAACCAGATGGAGGCGAGACACGTGTT
323 TTGGCTACCTTGATGCCAAGAATGGGTCAGCAACAAGTCAACCAGATGGAGGCGAGACACGTGTT
* ** * *
19789078 TGTCGAAGATGTCAGGGATGCAATGGTTGTAAACTGTCGGATGGCAAGGTCGATGAATGTAGAAA
388 TGTCAAAGATGTCAGGGATGCAATGGTTACAAACCGTCGGATGGCAAGGTCGATAAATGTAGAAA
* * * * * *
19789143 TATATTCACGACGGCTGGAAACGTTTTGAGTTACGGAGACCATCGATCGTCGACCCGGTATACCA
453 TATATTCACAACGGCTGGAAACATTTCGAGTTACGAAGACCATCGATCGTCAACCCAGTATACCA
* * * *
19789208 CTTAGGTCCTATGGAGTTGATCTCCGAAACAGACGGTGC
518 CCTAGGTCCTATGGAGTTGATCTACAAAACAGACAGTGC
19789247 AAATGTAGGA
Statistics
Matches: 513, Mismatches: 42, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
555 4 0.01
556 221 0.43
557 1 0.00
558 287 0.56
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (556 bp):
TTATCTTTTCAATATAAGTTGTAATGTTTTATGTTATCGAATTACTGGAACTTATCTTTTCTTAA
TACATATACAGCGTACGAGTTAGAGCCACATATTTTCCACCAAAGAATGATTCAACTTGAGAGTG
ACATAGAGGGTCAAACAAACACATCTTTTCGACAGTGGTTGGGTACAACGGAGCCGTGGCAATGG
GCTCAAAGTTTTGACGAGGGCTTCCGTTATAGTCAAATGACCACAATTAGTGGAGGGGGTCAACG
CTGTGTTGTTGAAAACACAACATCTTCCGATTGCATCTGTCTTCTCGGCTACATTCTACACGTTG
GCTACCTTGATGCCAAGAATGGGTCAGCAACAAGTCAACCAGATGGAGGCGAGACACGTGTTTGT
CAAAGATGTCAGGGATGCAATGGTTACAAACCGTCGGATGGCAAGGTCGATAAATGTAGAAATAT
ATTCACAACGGCTGGAAACATTTCGAGTTACGAAGACCATCGATCGTCAACCCAGTATACCACCT
AGGTCCTATGGAGTTGATCTACAAAACAGACAGTGC
Found at i:19792260 original size:159 final size:157
Alignment explanation
Indices: 19792095--19792469 Score: 562
Period size: 159 Copynumber: 2.4 Consensus size: 157
19792085 TTTCAATGTA
*
19792095 TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTAT
1 TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTCAT
* * *
19792160 ATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTAGT-
66 ATCATTTTAGTACATAATGTTTGAAATATATTA-TTTAGTGT-CTTTTTTTATATAAATTTAGTA
**
19792224 AAAAACCCTTATTTTGGCTTTTTGTTCGGT
129 AAAAACCCTTATTTTGGCCCTTTGTTC-GT
* * *
19792254 TTTTTCTTATTTTCGAATTTTATTTCTTTCAAAAAATATTCTATTTTCGTATTTTATTATTTCAT
1 TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTCAT
19792319 ATCATTTTAGTACATAATGTTTGAAATATATTATTTAGTGTCTTTTTTTATATAAATTTAGTAAA
66 ATCATTTTAGTACATAATGTTTGAAATATATTATTTAGTGTCTTTTTTTATATAAATTTAGTAAA
19792384 AAACCCTTATTTTGGCCCTTTGTTCGT
131 AAACCCTTATTTTGGCCCTTTGTTCGT
* * ***
19792411 ATTTT-TT-TTTTCAGATTTTATTACTTTCGGTAAATATACTATTTTCGT-TTTT-TTATTTC
1 TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTC
19792470 TTTTCGTATT
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
153 7 0.04
154 4 0.02
155 34 0.17
156 2 0.01
157 26 0.13
158 33 0.17
159 92 0.46
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (157 bp):
TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTCAT
ATCATTTTAGTACATAATGTTTGAAATATATTATTTAGTGTCTTTTTTTATATAAATTTAGTAAA
AAACCCTTATTTTGGCCCTTTGTTCGT
Found at i:19792525 original size:28 final size:27
Alignment explanation
Indices: 19792470--19792528 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
19792460 TTTTTATTTC
19792470 TTTTCGTATTTTTTTTCATAAACATATT
1 TTTTCGTATTTTTTTT-ATAAACATATT
19792498 TTTTCAGTATTTTATTTT-TAATAC-TATT
1 TTTTC-GTATTTT-TTTTATAA-ACATATT
19792526 TTT
1 TTT
19792529 GTAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 15 0.54
29 9 0.32
30 4 0.14
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTCGTATTTTTTTTATAAACATATT
Found at i:19792652 original size:30 final size:30
Alignment explanation
Indices: 19792616--19792773 Score: 316
Period size: 30 Copynumber: 5.3 Consensus size: 30
19792606 ATAAATTAAA
19792616 AGAATGTACATAACATAAATAATTAAACAT
1 AGAATGTACATAACATAAATAATTAAACAT
19792646 AGAATGTACATAACATAAATAATTAAACAT
1 AGAATGTACATAACATAAATAATTAAACAT
19792676 AGAATGTACATAACATAAATAATTAAACAT
1 AGAATGTACATAACATAAATAATTAAACAT
19792706 AGAATGTACATAACATAAATAATTAAACAT
1 AGAATGTACATAACATAAATAATTAAACAT
19792736 AGAATGTACATAACATAAATAATTAAACAT
1 AGAATGTACATAACATAAATAATTAAACAT
19792766 AGAATGTA
1 AGAATGTA
19792774 TGAATGAAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 128 1.00
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (30 bp):
AGAATGTACATAACATAAATAATTAAACAT
Found at i:19792982 original size:3 final size:3
Alignment explanation
Indices: 19792976--19793084 Score: 71
Period size: 3 Copynumber: 36.0 Consensus size: 3
19792966 TTCTCTCCCC
* * * *
19792976 CTT CTT CTT CTT CTT CTT CTC CTT C-T CTT TTT CTT TTT CCTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT
* ** * **
19793021 CTT CCTT CTG CGC CTC CTT CCC CTT CTT CTT CTT C-T CTT CTT -TT
1 CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
19793065 CTT CTT CTCT CATT CTT CTT
1 CTT CTT CT-T C-TT CTT CTT
19793085 TCCTGCAACT
Statistics
Matches: 82, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
2 6 0.07
3 66 0.80
4 9 0.11
5 1 0.01
ACGTcount: A:0.01, C:0.37, G:0.02, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:19793071 original size:22 final size:22
Alignment explanation
Indices: 19793044--19793085 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
19793034 CTCCTTCCCC
19793044 TTCTTCTTCT-TC--TCTTCTT
1 TTCTTCTTCTCTCATTCTTCTT
19793063 TTCTTCTTCTCTCATTCTTCTT
1 TTCTTCTTCTCTCATTCTTCTT
19793085 T
1 T
19793086 CCTGCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
22 8 0.40
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTCTTCTCTCATTCTTCTT
Found at i:19801348 original size:25 final size:25
Alignment explanation
Indices: 19801320--19801378 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
19801310 TTTAAACTTT
*
19801320 AAACCCAAATACCCATTGAAT-TTTA
1 AAACCCAAATACACATT-AATATTTA
*
19801345 AAACTC-AATACACATTAATATTTA
1 AAACCCAAATACACATTAATATTTA
19801369 AAACCCAAAT
1 AAACCCAAAT
19801379 TGATAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 18 0.62
25 8 0.28
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (25 bp):
AAACCCAAATACACATTAATATTTA
Found at i:19801509 original size:18 final size:18
Alignment explanation
Indices: 19801486--19801521 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19801476 TCTCTATGTC
19801486 AGTTCGATTTATTCGGTT
1 AGTTCGATTTATTCGGTT
19801504 AGTTCGATTTATTCGGTT
1 AGTTCGATTTATTCGGTT
19801522 TACATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
AGTTCGATTTATTCGGTT
Found at i:19803943 original size:28 final size:28
Alignment explanation
Indices: 19803885--19803950 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
19803875 TCGGTTAATC
*
19803885 GGTCGGTTAACCGAATTAATTCAATCGG
1 GGTCGGTTAACCGAATTAATTCAATCAG
* **
19803913 GGTTGGTTAACCGAATTAATTCGGTCAG
1 GGTCGGTTAACCGAATTAATTCAATCAG
19803941 GGTCGGTTAA
1 GGTCGGTTAA
19803951 TAATTTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
GGTCGGTTAACCGAATTAATTCAATCAG
Found at i:19807197 original size:38 final size:39
Alignment explanation
Indices: 19807155--19807257 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 39
19807145 TGAAATTACT
* *
19807155 GAAGTATAATA-GGGCACGTATGTGCAACCAGGGGTACC
1 GAAGTATAACAGGGGCACGTATGTGCAACCAGAGGTACC
* **
19807193 GAAGTATAAACAGGGGCACATATGTGCAATTAGAGGTACC
1 GAAGTAT-AACAGGGGCACGTATGTGCAACCAGAGGTACC
* *
19807233 GAAGTACAAACATGGGCACGTATGT
1 GAAGTA-TAACAGGGGCACGTATGT
19807258 ACAATTAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 7 0.13
39 3 0.06
40 44 0.81
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (39 bp):
GAAGTATAACAGGGGCACGTATGTGCAACCAGAGGTACC
Found at i:19807263 original size:40 final size:40
Alignment explanation
Indices: 19807166--19807265 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
19807156 AAGTATAATA
** * *
19807166 GGGCACGTATGTGCAACCAGGGGTACCGAAGTATAAACAG
1 GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
* *
19807206 GGGCACATATGTGCAATTAGAGGTACCGAAGTACAAACAT
1 GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
*
19807246 GGGCACGTATGTACAATTAG
1 GGGCACGTATGTGCAATTAG
19807266 GTATAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
Done.