Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 56 of 141
Found at i:18406895 original size:17 final size:18
Alignment explanation
Indices: 18406873--18406907 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18406863 ATGTTTTTAT
18406873 AATTGG-TCCAGTAGTTG
1 AATTGGTTCCAGTAGTTG
*
18406890 AATTGGTTCGAGTAGTTG
1 AATTGGTTCCAGTAGTTG
18406908 GTCCAGTTTG
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:0.23, C:0.09, G:0.31, T:0.37
Consensus pattern (18 bp):
AATTGGTTCCAGTAGTTG
Found at i:18406935 original size:12 final size:12
Alignment explanation
Indices: 18406918--18406951 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
18406908 GTCCAGTTTG
18406918 ATTAAATAAATT
1 ATTAAATAAATT
18406930 ATTAAA-AAATT
1 ATTAAATAAATT
18406941 ATTAAAATAAA
1 ATT-AAATAAA
18406952 AATATTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 9 0.45
13 3 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTAAATAAATT
Found at i:18406941 original size:11 final size:11
Alignment explanation
Indices: 18406918--18406947 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18406908 GTCCAGTTTG
18406918 ATTAAATAAATT
1 ATTAAA-AAATT
18406930 ATTAAAAAATT
1 ATTAAAAAATT
18406941 ATTAAAA
1 ATTAAAA
18406948 TAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:18406953 original size:16 final size:17
Alignment explanation
Indices: 18406932--18406971 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
18406922 AATAAATTAT
18406932 TAAAAAATTATTA-AAA
1 TAAAAAATTATTAGAAA
18406948 T-AAAAA-TATTAGAAA
1 TAAAAAATTATTAGAAA
18406963 TAGAAAAAT
1 TA-AAAAAT
18406972 ATAGTACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.25
15 9 0.45
16 1 0.05
17 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAAATTATTAGAAA
Found at i:18409773 original size:105 final size:105
Alignment explanation
Indices: 18409595--18410539 Score: 1096
Period size: 105 Copynumber: 9.1 Consensus size: 105
18409585 ACCAGGCTAC
* * * * *
18409595 CACTTTTCGGTAGTCTGGACAATCTACGTAAGCT--TGTG--GTTCAATAGTTTGTCCGCTAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
*
18409656 TTTCTTACAGCATCTGGGGTACTTTCTTTCATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
*** * * *
18409696 CACTTTTCGATAGTCTGGATGGTCTAGGTAAGCTAGAGTCCCGTTTAGTAGTTTGTCTGGTAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
* *
18409761 TTCCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGG
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * * * * *
18409801 CCCTTCTCAATAGTTTGGACGATCTAGGTAAGCTAGAGTGCCTTTCAGTAGTTTGTCTGCTTATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
*
18409866 TTTCTTACAGCATTTTGGGTACTTTCTTTCATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * * * *
18409906 CACTTTTCAATAGTTTGGACAACCTAGGTAAGCTAAAGTGCCTTTCAGTAGTTTGTCTGCTCATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
* *
18409971 TTTCTTACAGCATTTTGGGTACTTTCTTTAATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * * *
18410011 CACTTATCAATAGTTTGGACGATCTAGGTAAGCTAAAGTGCCGTTCAGTAGTTTGTCTGCTAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
**
18410076 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAATAGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* ** * * * *
18410116 CAGTTTTCGATAGTCCAGACAATCTAGGTAAGCTAGAGCGCGGTTCGGTAGTTTGTCTGCAAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
* ** * ** *
18410181 TCTCGAACAGCATTTTGGGTACTTTCTTTTGTTGAAGAGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* ** * * * * *
18410221 CGCTTTTCGATAGTCCAGATAGTCTAGGTAAGCTATGA--G--GTTTAATAGTTTGTCCGCTAAT
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTA-GAGTGCCGTTCAGTAGTTTGTCTGCTAAT
* * * * * *
18410282 ATTTCTTTCAGTATTTTGAGTACTTTCTTTCATTGAGGGGG
65 ATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * **
18410323 CACTTTTTGATAGTCTGGACAATCTAGGCAACCTAGAGTGTGGTTCAGTAGTTTGTCTGCTAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
*
18410388 TTTCTTACAGCATTTGGGGTACTTTGTTTCATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * ** **
18410428 CAATTATCGATAGTCCAGACAATCTAGGTAAGCTAGAGTGTGGTTCAGTAGTTTGTCTGCTAATA
1 CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
* * * *
18410493 TTTCTTACTGCATTAGGGGTACTTTCTATCGTTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
18410533 CACTTTT
1 CACTTTT
18410540 ATTGACCTTG
Statistics
Matches: 720, Mismatches: 115, Indels: 14
0.85 0.14 0.02
Matches are distributed among these distances:
101 31 0.04
102 74 0.10
103 3 0.00
104 1 0.00
105 609 0.85
106 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (105 bp):
CACTTTTCGATAGTCTGGACAATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAATA
TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
Found at i:18414025 original size:25 final size:23
Alignment explanation
Indices: 18413993--18414041 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
18413983 GTTTTTTCAT
18413993 TATTTTACTATCATTTCTCTATTA
1 TATTTTACTATCATTTCT-TATTA
**
18414017 TATTATTACTATTTTTTCTTATTA
1 TATT-TTACTATCATTTCTTATTA
18414041 T
1 T
18414042 TAAATACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTTACTATCATTTCTTATTA
Found at i:18414042 original size:22 final size:22
Alignment explanation
Indices: 18413984--18414043 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
18413974 TTTATCATTG
18413984 TTTTTTC--ATTATT-TTACTA
1 TTTTTTCTTATTATTATTACTA
**
18414003 TCATTTCTCTATTATATTATTACTA
1 TTTTTTCT-TA-T-TATTATTACTA
18414028 TTTTTTCTTATTATTA
1 TTTTTTCTTATTATTA
18414044 AATACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
19 5 0.16
22 6 0.19
23 2 0.06
24 6 0.19
25 12 0.39
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTTCTTATTATTATTACTA
Found at i:18423096 original size:23 final size:23
Alignment explanation
Indices: 18423069--18423134 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
18423059 TGTTATGATC
* * *
18423069 AGTGGTAGCTACGACTACATTAT
1 AGTGGTAGCTTCGGCTACATTAG
*
18423092 CGTGGTAGCTTCGGCTACATTAG
1 AGTGGTAGCTTCGGCTACATTAG
18423115 AGTGGTAGCTTCGGCTACAT
1 AGTGGTAGCTTCGGCTACAT
18423135 ATCAGTGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATTAG
Found at i:18423141 original size:23 final size:23
Alignment explanation
Indices: 18423066--18423141 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
18423056 CAGTGTTATG
* *
18423066 ATCAGTGGTAGCTACGACTACATT
1 ATCAGTGGTAGCTTCGGCTACA-T
18423090 ATC-GTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18423112 -TAGAGTGGTAGCTTCGGCTACAT
1 AT-CAGTGGTAGCTTCGGCTACAT
18423135 ATCAGTG
1 ATCAGTG
18423142 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 39 0.87
24 4 0.09
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18423252 original size:23 final size:25
Alignment explanation
Indices: 18423206--18423253 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
18423196 GGATTTGCTA
* *
18423206 AGAAATGTTTGATTAGTTATATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
18423231 AGAAATG-TTAATT-GTTAAATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
18423254 TATTTATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (25 bp):
AGAAATGTTTAATTAGTTAAATGAG
Found at i:18429690 original size:42 final size:41
Alignment explanation
Indices: 18429621--18429743 Score: 122
Period size: 42 Copynumber: 3.0 Consensus size: 41
18429611 GAGTTTCAAA
* * * *
18429621 TTAACCC-TATTGGGTTTCTGTTTAGCTCTTTTGAGCTTCAG
1 TTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGCTTCAC
*
18429662 TATAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCCC
1 T-TAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAC
* * * * *
18429704 TTCAATCCTTATGGGTTTCCATTTAGCACTTATGTGCTTC
1 TT-AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
18429744 TGTGTAGCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 65 0.94
43 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (41 bp):
TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAC
Found at i:18429695 original size:21 final size:21
Alignment explanation
Indices: 18429669--18429737 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
18429659 CAGTATAACC
*
18429669 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCATTCAGCT
* * * *
18429690 CTTATGAGCTTCCCTTCA-AT
1 CTTATGGGTTTCCATTCAGCT
* *
18429710 CCTTATGGGTTTCCATTTAGCA
1 -CTTATGGGTTTCCATTCAGCT
18429732 CTTATG
1 CTTATG
18429738 TGCTTCTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
CTTATGGGTTTCCATTCAGCT
Found at i:18435921 original size:27 final size:27
Alignment explanation
Indices: 18435878--18435964 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
18435868 TGGCAACTAA
* *
18435878 GATAGTCAACCGAGACAGTAAACATGG
1 GATAGTCCACTGAGACAGTAAACATGG
* * *
18435905 GATAGTCCATTGGGACAGTAAACACGG
1 GATAGTCCACTGAGACAGTAAACATGG
* * *
18435932 AATATTCCACTGAGATAGTAAACATGG
1 GATAGTCCACTGAGACAGTAAACATGG
18435959 GATAGT
1 GATAGT
18435965 TTGCCGGGAC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (27 bp):
GATAGTCCACTGAGACAGTAAACATGG
Found at i:18438316 original size:31 final size:31
Alignment explanation
Indices: 18438278--18438336 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
18438268 ACAGGGCCGT
* *
18438278 GTATCTAAACTGTGTCACAGACTGAAGCAAC
1 GTATCTAAACCGTGTCACAGACTAAAGCAAC
*
18438309 GTATCTAAACCGTGTCACCGACTAAAGC
1 GTATCTAAACCGTGTCACAGACTAAAGC
18438337 TGTGCAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (31 bp):
GTATCTAAACCGTGTCACAGACTAAAGCAAC
Found at i:18441365 original size:34 final size:34
Alignment explanation
Indices: 18441322--18441386 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
18441312 TTAAAGTTGA
18441322 TCGAATAACGTAGCTTCCATAGTTTTCTTTTTGG
1 TCGAATAACGTAGCTTCCATAGTTTTCTTTTTGG
18441356 TCGAATAACGTAGCTTCCATAGTTTTCTTTT
1 TCGAATAACGTAGCTTCCATAGTTTTCTTTT
18441387 CTCCCATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (34 bp):
TCGAATAACGTAGCTTCCATAGTTTTCTTTTTGG
Found at i:18457942 original size:16 final size:17
Alignment explanation
Indices: 18457912--18457945 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
18457902 ATATTTTAAA
18457912 ATCTTTTCAAATTTTCG
1 ATCTTTTCAAATTTTCG
18457929 ATCTTTTC-AATTTTCG
1 ATCTTTTCAAATTTTCG
18457945 A
1 A
18457946 CACTAAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
ATCTTTTCAAATTTTCG
Found at i:18469628 original size:4 final size:4
Alignment explanation
Indices: 18469614--18469652 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
18469604 ATCTTTTCAT
*
18469614 GTTA ATTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTT
18469653 GATAAGTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
GTTA
Found at i:18469804 original size:27 final size:26
Alignment explanation
Indices: 18469774--18469830 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
18469764 CATTATTTAC
18469774 TTTTGAGTTAATAAAATTCTC-TTTGAG
1 TTTT-AGTTAA-AAAATTCTCTTTTGAG
* * *
18469801 TTTTCGTTTAAAAATTTTCTTTTGAG
1 TTTTAGTTAAAAAATTCTCTTTTGAG
18469827 TTTT
1 TTTT
18469831 TTTTGAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.56
Consensus pattern (26 bp):
TTTTAGTTAAAAAATTCTCTTTTGAG
Found at i:18471396 original size:20 final size:20
Alignment explanation
Indices: 18471367--18471406 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18471357 AGACTTTGAA
18471367 CCATTCCATTTACTTAATTT
1 CCATTCCATTTACTTAATTT
*
18471387 CCATTGCATTTACTTAATTT
1 CCATTCCATTTACTTAATTT
18471407 AGCTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.03, T:0.50
Consensus pattern (20 bp):
CCATTCCATTTACTTAATTT
Found at i:18472383 original size:137 final size:138
Alignment explanation
Indices: 18472124--18472392 Score: 308
Period size: 137 Copynumber: 2.0 Consensus size: 138
18472114 AAAATGGGCT
* * * * *
18472124 TGCTTACACAAGCTGAAGGTCAGAATGTAAGCTCCACGATGCTGCTCACTCAAGCAGATGAGTAT
1 TGCTCACACAAGCTGAAGGTCAAAATGTAAGCTACACGATGCTGCTCACACAAGCAGACGAGTAT
** * * * * * ** * *
18472189 CCGTAACTAATGTCAGACCTCAACCATCGGTAGGACATTTAGGACTAGCACCCGAAACATGGTAA
66 CCACAACTAATGCCAGAACTCAACCATCAGTAGAAAATACAAGACCAGCACCCGAAACATGGTAA
18472254 CCTGGGTC
131 CCTGGGTC
*** * *
18472262 TGCTCACACAAGCTGGCTGTCAAAATGT-AGCTACACGATGCTGCTTACACAAGCTGACGAGTAT
1 TGCTCACACAAGCTGAAGGTCAAAATGTAAGCTACACGATGCTGCTCACACAAGCAGACGAGTAT
**
18472326 CCACAAC-ATATGCCAGAACTCAACCATCAGTAGAAAATACAAGACCAGCACTTGAAACATGGTA
66 CCACAACTA-ATGCCAGAACTCAACCATCAGTAGAAAATACAAGACCAGCACCCGAAACATGGTA
18472390 ACC
130 ACC
18472393 CTAATGACAT
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
136 1 0.01
137 83 0.78
138 23 0.21
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (138 bp):
TGCTCACACAAGCTGAAGGTCAAAATGTAAGCTACACGATGCTGCTCACACAAGCAGACGAGTAT
CCACAACTAATGCCAGAACTCAACCATCAGTAGAAAATACAAGACCAGCACCCGAAACATGGTAA
CCTGGGTC
Found at i:18479230 original size:20 final size:18
Alignment explanation
Indices: 18479205--18479272 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 18
18479195 NNNNNTAAAT
18479205 ATTATAAAATATCATAGAAA
1 ATTATAAAATAT-AT-GAAA
**
18479225 ATTATAAAAGCTATGAAA
1 ATTATAAAATATATGAAA
*
18479243 AATATTAAAATATTATTGAAA
1 ATTA-TAAAATA-TA-TGAAA
18479264 ATTATAAAA
1 ATTATAAAA
18479273 ATTTAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.18
19 7 0.18
20 17 0.44
21 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
ATTATAAAATATATGAAA
Found at i:18479279 original size:8 final size:9
Alignment explanation
Indices: 18479200--18479281 Score: 51
Period size: 9 Copynumber: 8.7 Consensus size: 9
18479190 NNNNNNNNNN
*
18479200 TAAATATTA
1 TAAAAATTA
*
18479209 TAAAATATCA
1 TAAAA-ATTA
18479219 TAGAAAATTA
1 TA-AAAATTA
**
18479229 TAAAAGCTA
1 TAAAAATTA
18479238 TGAAAAA-TA
1 T-AAAAATTA
18479247 TTAAAATATTA
1 -TAAAA-ATTA
*
18479258 TTGAAAATTA
1 -TAAAAATTA
18479268 TAAAAATT-
1 TAAAAATTA
18479276 TAAAAA
1 TAAAAA
18479282 GTACCACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 6 0.10
9 23 0.39
10 20 0.34
11 10 0.17
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:18479550 original size:9 final size:8
Alignment explanation
Indices: 18479533--18479634 Score: 59
Period size: 9 Copynumber: 12.1 Consensus size: 8
18479523 TGACTTTTTT
18479533 TTTTATAA
1 TTTTATAA
18479541 TTTCTATAA
1 TTT-TATAA
18479550 TTTTATCAA
1 TTTTAT-AA
18479559 TTTTCATAA
1 TTTT-ATAA
*
18479568 TTTTAATTAT
1 TTTT-A-TAA
*
18479578 TTTTATCA
1 TTTTATAA
18479586 TTTTAATAAA
1 TTTT-AT-AA
*
18479596 TTTTTTAAA
1 TTTTAT-AA
18479605 TTTT-T--
1 TTTTATAA
18479610 TTTTATAA
1 TTTTATAA
*
18479618 TTTTTATGA
1 -TTTTATAA
18479627 TTTT-TAA
1 TTTTATAA
18479634 T
1 T
18479635 AATTCTTAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
5 4 0.05
6 1 0.01
7 3 0.04
8 16 0.21
9 39 0.51
10 13 0.17
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:18479553 original size:18 final size:17
Alignment explanation
Indices: 18479532--18479649 Score: 59
Period size: 18 Copynumber: 6.8 Consensus size: 17
18479522 ATGACTTTTT
*
18479532 TTTTTATAATTTCTATAA
1 TTTTAATAATTT-TATAA
18479550 TTTT-ATCAATTTTCATAA
1 TTTTAAT-AATTTT-ATAA
* *
18479568 TTTTAATTATTTTTATCA
1 TTTTAA-TAATTTTATAA
*
18479586 TTTTAATAAATTTTTTAAA
1 TTTTAAT-AATTTTAT-AA
18479605 TTTT--T--TTTTATAA
1 TTTTAATAATTTTATAA
* *
18479618 TTTTTATGATTTTTAATAA
1 TTTTAAT-AATTTT-ATAA
18479637 TTCTTAAT-ATTTT
1 TT-TTAATAATTTT
18479650 TTGCTACACT
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
13 6 0.08
14 5 0.06
15 1 0.01
17 5 0.06
18 40 0.51
19 17 0.22
20 5 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTAATAATTTTATAA
Found at i:18479579 original size:27 final size:26
Alignment explanation
Indices: 18479532--18479650 Score: 68
Period size: 27 Copynumber: 4.5 Consensus size: 26
18479522 ATGACTTTTT
*
18479532 TTTTTATAATTTCTATAA-TTTTATCAA
1 TTTTAATAATTT-TATAATTTTTATC-A
* *
18479559 TTTTCATAATTTTAATTATTTTTATCA
1 TTTTAATAATTTT-ATAATTTTTATCA
* *
18479586 TTTTAATAAATTTTTTAAATTTT-T--
1 TTTTAAT-AATTTTATAATTTTTATCA
* *
18479610 TTTT-ATAATTTTTATGATTTTTAATAA
1 TTTTAATAA-TTTTATAATTTTT-ATCA
*
18479637 TTCTTAATATTTTT
1 TT-TTAATAATTTT
18479651 TGCTACACTA
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
22 2 0.03
23 12 0.17
24 4 0.06
25 1 0.01
26 2 0.03
27 29 0.40
28 19 0.26
29 3 0.04
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTAATAATTTTATAATTTTTATCA
Found at i:18479648 original size:19 final size:19
Alignment explanation
Indices: 18479608--18479650 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18479598 TTTTAAATTT
* *
18479608 TTTTTTATAATTTTTATGA
1 TTTTTAATAATTTTAATGA
18479627 TTTTTAATAATTCTTAAT-A
1 TTTTTAATAATT-TTAATGA
18479646 TTTTT
1 TTTTT
18479651 TGCTACACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:18480906 original size:6 final size:6
Alignment explanation
Indices: 18480895--18480935 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
18480885 ATTCTAAACG
* * *
18480895 TTAAAA TTAAAA TTAAAA TTAAAA TTAGAA TAAAAA GTAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAA
18480936 GAAAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:18492138 original size:18 final size:18
Alignment explanation
Indices: 18492115--18492149 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18492105 TAGTCTTTTA
*
18492115 GATGCACTTGTTGAGTGT
1 GATGCACTGGTTGAGTGT
18492133 GATGCACTGGTTGAGTG
1 GATGCACTGGTTGAGTG
18492150 CTAATCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.37, T:0.34
Consensus pattern (18 bp):
GATGCACTGGTTGAGTGT
Found at i:18494920 original size:112 final size:113
Alignment explanation
Indices: 18494766--18494991 Score: 436
Period size: 112 Copynumber: 2.0 Consensus size: 113
18494756 ACTTAAAATT
18494766 AAACTATTATTAAATTAAGTTATTGAACCTAATTAATAATTTTAAAACTTATATTTTCAAATTAT
1 AAACTATTATTAAATTAAGTTATTGAACCTAATTAATAATTTTAAAACTTATATTTTCAAATTAT
18494831 AAATATATTTATATGGATGTAATTGAAATATATTTGCATGTATATATA
66 AAATATATTTATATGGATGTAATTGAAATATATTTGCATGTATATATA
*
18494879 AAACTATTATT-AATTAAGTTATTGAACCTAATTAATAATTTTAAAACTTATATTTTCATATTAT
1 AAACTATTATTAAATTAAGTTATTGAACCTAATTAATAATTTTAAAACTTATATTTTCAAATTAT
18494943 AAATATATTTATATGGATGTAATTGAAATATATTTGCATGTATATATA
66 AAATATATTTATATGGATGTAATTGAAATATATTTGCATGTATATATA
18494991 A
1 A
18494992 TATATAATTT
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
112 101 0.90
113 11 0.10
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (113 bp):
AAACTATTATTAAATTAAGTTATTGAACCTAATTAATAATTTTAAAACTTATATTTTCAAATTAT
AAATATATTTATATGGATGTAATTGAAATATATTTGCATGTATATATA
Found at i:18500526 original size:14 final size:15
Alignment explanation
Indices: 18500507--18500536 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18500497 CAACTTCACC
18500507 TCCCAGCTCG-CTAT
1 TCCCAGCTCGCCTAT
18500521 TCCCAGCTCGCCTAT
1 TCCCAGCTCGCCTAT
18500536 T
1 T
18500537 TGCGAGGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.13, C:0.43, G:0.13, T:0.30
Consensus pattern (15 bp):
TCCCAGCTCGCCTAT
Found at i:18504484 original size:20 final size:20
Alignment explanation
Indices: 18504459--18504496 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18504449 ATGAATATTA
18504459 TGTGGTGTCAATAGTGGTTT
1 TGTGGTGTCAATAGTGGTTT
* *
18504479 TGTGGTGTGATTAGTGGT
1 TGTGGTGTCAATAGTGGT
18504497 CGGTAAGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.39, T:0.45
Consensus pattern (20 bp):
TGTGGTGTCAATAGTGGTTT
Found at i:18504827 original size:31 final size:31
Alignment explanation
Indices: 18504792--18504863 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
18504782 ATGCCTTTTA
* * *
18504792 TATTTCAAATCTATAATTTCCCTAGCTCACT
1 TATTTGAAATCAATAATTTCCCTACCTCACT
*
18504823 TATTTGAAAACAATAATTTCCCTACCTCACT
1 TATTTGAAATCAATAATTTCCCTACCTCACT
18504854 TATTTGAAAT
1 TATTTGAAAT
18504864 ATGAAAGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.40
Consensus pattern (31 bp):
TATTTGAAATCAATAATTTCCCTACCTCACT
Found at i:18514016 original size:8 final size:8
Alignment explanation
Indices: 18514005--18514029 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18513995 ATTTTATTAT
18514005 ATATAATA
1 ATATAATA
18514013 ATATAATA
1 ATATAATA
18514021 ATATAATA
1 ATATAATA
18514029 A
1 A
18514030 CATACATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATAATA
Found at i:18514277 original size:8 final size:8
Alignment explanation
Indices: 18514264--18514288 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18514254 TATTTTATTT
18514264 ATATAATA
1 ATATAATA
18514272 ATATAATA
1 ATATAATA
18514280 ATATAATA
1 ATATAATA
18514288 A
1 A
18514289 CATACATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATAATA
Found at i:18514463 original size:259 final size:260
Alignment explanation
Indices: 18513993--18514511 Score: 1031
Period size: 259 Copynumber: 2.0 Consensus size: 260
18513983 TTTGAAAAAA
18513993 TTATTTTATTATATATAATAATATAATAATATAATAACATACATTCATTCACATACATTCCCTTA
1 TTATTTTATTATATATAATAATATAATAATATAATAACATACATTCATTCACATACATTCCCTTA
18514058 AATATGCTTATAATTACAAGAATGTTACATCTTACAAAAAATTAATCACACATGAAGATAGAAAA
66 AATATGCTTATAATTACAAGAATGTTACATCTTACAAAAAATTAATCACACATGAAGATAGAAAA
18514123 TTTTGGTATTAGTTTATACTATAATATAGCACAACCTAGCTCTGATACCAATTGTTGGAAAATAT
131 TTTTGGTATTAGTTTATACTATAATATAGCACAACCTAGCTCTGATACCAATTGTTGGAAAATAT
18514188 TCTTTTCAAAAATGATTCTTGCATAGAAGAAAATTAAAATTTTGGAAACCGAGTCAATTTGTAAT
196 TCTTTTCAAAAATGATTCTTGCATAGAAGAAAATTAAAATTTTGGAAACCGAGTCAATTTGTAAT
18514253 TTATTTTATT-TATATAATAATATAATAATATAATAACATACATTCATTCACATACATTCCCTTA
1 TTATTTTATTATATATAATAATATAATAATATAATAACATACATTCATTCACATACATTCCCTTA
18514317 AATATGCTTATAATTACAAGAATGTTACATCTTACAAAAAATTAATCACACATGAAGATAGAAAA
66 AATATGCTTATAATTACAAGAATGTTACATCTTACAAAAAATTAATCACACATGAAGATAGAAAA
18514382 TTTTGGTATTAGTTTATACTATAATATAGCACAACCTAGCTCTGATACCAATTGTTGGAAAATAT
131 TTTTGGTATTAGTTTATACTATAATATAGCACAACCTAGCTCTGATACCAATTGTTGGAAAATAT
18514447 TCTTTTCAAAAATGATTCTTGCATAGAAGAAAATTAAAATTTTGGAAACCGAGTCAATTTGTAAT
196 TCTTTTCAAAAATGATTCTTGCATAGAAGAAAATTAAAATTTTGGAAACCGAGTCAATTTGTAAT
18514512 ATTTATAGTA
Statistics
Matches: 259, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
259 249 0.96
260 10 0.04
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (260 bp):
TTATTTTATTATATATAATAATATAATAATATAATAACATACATTCATTCACATACATTCCCTTA
AATATGCTTATAATTACAAGAATGTTACATCTTACAAAAAATTAATCACACATGAAGATAGAAAA
TTTTGGTATTAGTTTATACTATAATATAGCACAACCTAGCTCTGATACCAATTGTTGGAAAATAT
TCTTTTCAAAAATGATTCTTGCATAGAAGAAAATTAAAATTTTGGAAACCGAGTCAATTTGTAAT
Found at i:18520638 original size:22 final size:22
Alignment explanation
Indices: 18520608--18520650 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18520598 ACACCAAAAC
*
18520608 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
18520630 AGGCCTTTAGCTGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
18520651 AGTGTCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:18521006 original size:43 final size:43
Alignment explanation
Indices: 18520745--18521031 Score: 174
Period size: 43 Copynumber: 6.7 Consensus size: 43
18520735 TTTTAGAAAT
** * *
18520745 AAACGCCGCTAAAGACCAAGACCTTTAGTGGCG-C-TTTCACCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTTTTCA--AC
* ** * * **
18520788 AACCGCCGCTAAAGGTCATGGTCTTTAGCGGCG-CTTACCAAAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTTTTC-AAC
*** * * * *
18520831 AAACGCCGCTAAAGAAAATGACCTTTAGCGACG-CTACTCCAAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCT-TTTCAAC
* * * * *
18520874 AATCACCGCTAAATACCCTGATCTTTAACGGCG-CTTCTCCAGA-
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTT-TTCA-AC
* *
18520917 AAATGCCGCTACAGACCCTGATCTTTAGCGGCGCCTTTTCAAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTTTTCAAC
* * * **
18520960 AAACGCTGCTAAAGTCCCTGATCTTTAGCGGCG-TTTTTCTCTC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTTTTC-AAC
* *
18521003 AAACGCCGCTGAAGACCATGATCTTTAGC
1 AAACGCCGCTAAAGACCCTGATCTTTAGC
18521032 AGCACTTTTC
Statistics
Matches: 190, Mismatches: 46, Indels: 16
0.75 0.18 0.06
Matches are distributed among these distances:
42 6 0.03
43 175 0.92
44 8 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTTTTCAAC
Found at i:18521408 original size:21 final size:21
Alignment explanation
Indices: 18521375--18521419 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18521365 TTTTACGCTG
* *
18521375 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTGCAGC
*
18521396 CTCTACTTTCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
18521417 CTC
1 CTC
18521420 AGCTTCTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.44, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:18521430 original size:21 final size:22
Alignment explanation
Indices: 18521375--18521430 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
18521365 TTTTACGCTG
* *
18521375 CTCT-GCTTCCCTCGCTGTAGC
1 CTCTAGCTTCTCTCGCTGCAGC
18521396 CTCTA-CTT-TCCTCGCTGCAGC
1 CTCTAGCTTCT-CTCGCTGCAGC
18521417 CTC-AGCTTCTCTCG
1 CTCTAGCTTCTCTCG
18521431 ATGCCCCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.07, C:0.43, G:0.16, T:0.34
Consensus pattern (22 bp):
CTCTAGCTTCTCTCGCTGCAGC
Found at i:18521513 original size:65 final size:66
Alignment explanation
Indices: 18521416--18521568 Score: 186
Period size: 66 Copynumber: 2.3 Consensus size: 66
18521406 CTCGCTGCAG
*** **
18521416 CCTCAGCTTCTCTCGATGCCCCATCTGTTTTAAGCTGCT-GCT-GAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGATGTTGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
18521478 GAA
64 GAA
* * * *
18521481 TCTCAGCTTCTCTCGCTGTTGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGATGTTGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
18521546 A
66 A
18521547 CCTCAGCTTCTCTCGATGTTGC
1 CCTCAGCTTCTCTCGATGTTGC
18521569 CTCCGCTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 1 0.01
65 32 0.43
66 37 0.50
67 4 0.05
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGATGTTGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:18521555 original size:66 final size:66
Alignment explanation
Indices: 18521458--18521582 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 66
18521448 AGCTGCTGCT
* * *
18521458 GAGTTCTTCATACTTTCGTTGAATCTCAGCTTCTCTCGCTGTTGCATCTACTTTAAGTTGTAGCT
1 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGTTGCATCCACTTTAAGTTGTAGCT
18521523 G
66 G
* * *
18521524 GAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 GAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGTTGCATCCACTTTAAGTT
18521583 TTGTAATTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 48 0.92
67 4 0.08
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGTTGCATCCACTTTAAGTTGTAGCT
G
Found at i:18521813 original size:30 final size:30
Alignment explanation
Indices: 18521777--18521836 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18521767 TGATAATCCG
18521777 GTTATCAATGTCGTCAATATGAACAGAACT
1 GTTATCAATGTCGTCAATATGAACAGAACT
18521807 GTTATCAATGTCGTCAATATGAACAGAACT
1 GTTATCAATGTCGTCAATATGAACAGAACT
18521837 ATCACTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
GTTATCAATGTCGTCAATATGAACAGAACT
Found at i:18523242 original size:12 final size:11
Alignment explanation
Indices: 18523184--18523252 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523174 ATAATTTATT
18523184 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523197 TAAGTTATATA
1 TAAGTTATGTG
* *
18523208 TAAGTTTATATA
1 TAAG-TTATGTG
18523220 TAAGTTA--TG
1 TAAGTTATGTG
18523229 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523241 TAAGTTATGTG
1 TAAGTTATGTG
18523252 T
1 T
18523253 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523338 original size:12 final size:11
Alignment explanation
Indices: 18523280--18523348 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523270 AAACTTTATT
18523280 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523293 TAAGTTATATA
1 TAAGTTATGTG
* *
18523304 TAAGTTTATATA
1 TAAG-TTATGTG
18523316 TAAGTTA--TG
1 TAAGTTATGTG
18523325 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523337 TAAGTTATGTG
1 TAAGTTATGTG
18523348 T
1 T
18523349 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523342 original size:96 final size:96
Alignment explanation
Indices: 18523178--18525128 Score: 3823
Period size: 96 Copynumber: 20.3 Consensus size: 96
18523168 ACAACAATAA
18523178 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523243 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523274 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523339 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523370 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523435 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523466 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523531 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523562 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523627 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523658 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523723 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523754 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523819 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523850 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18523915 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18523946 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524011 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524042 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524107 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524138 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524203 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524234 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524299 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524330 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524395 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524426 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524491 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524522 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524587 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524618 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524683 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524714 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524779 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
18524810 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18524875 AGTTATGTGTTGTGTAAGTTTATATATAAAC
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
*
18524906 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
* *
18524971 AGTTATCTGTTGTGTAAGTTTATATATAAAT
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
*
18525002 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
1 TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
18525067 AGTTATGTGTTGTGTAAGTTTATATATAAA-
66 AGTTATGTGTTGTGTAAGTTTATATATAAAC
* * *
18525097 TTTATATATGTTATGTATGTAAATTATGATAT
1 TTTATTTAAGTTATGTATGTAAGTTAT-ATAT
18525129 GATGGATAAA
Statistics
Matches: 1847, Mismatches: 7, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
95 24 0.01
96 1823 0.99
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (96 bp):
TTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTA
AGTTATGTGTTGTGTAAGTTTATATATAAAC
Found at i:18523434 original size:12 final size:11
Alignment explanation
Indices: 18523376--18523444 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523366 AAACTTTATT
18523376 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523389 TAAGTTATATA
1 TAAGTTATGTG
* *
18523400 TAAGTTTATATA
1 TAAG-TTATGTG
18523412 TAAGTTA--TG
1 TAAGTTATGTG
18523421 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523433 TAAGTTATGTG
1 TAAGTTATGTG
18523444 T
1 T
18523445 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523530 original size:12 final size:11
Alignment explanation
Indices: 18523472--18523540 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523462 AAACTTTATT
18523472 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523485 TAAGTTATATA
1 TAAGTTATGTG
* *
18523496 TAAGTTTATATA
1 TAAG-TTATGTG
18523508 TAAGTTA--TG
1 TAAGTTATGTG
18523517 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523529 TAAGTTATGTG
1 TAAGTTATGTG
18523540 T
1 T
18523541 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523626 original size:12 final size:11
Alignment explanation
Indices: 18523568--18523636 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523558 AAACTTTATT
18523568 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523581 TAAGTTATATA
1 TAAGTTATGTG
* *
18523592 TAAGTTTATATA
1 TAAG-TTATGTG
18523604 TAAGTTA--TG
1 TAAGTTATGTG
18523613 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523625 TAAGTTATGTG
1 TAAGTTATGTG
18523636 T
1 T
18523637 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523722 original size:12 final size:11
Alignment explanation
Indices: 18523664--18523732 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523654 AAACTTTATT
18523664 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523677 TAAGTTATATA
1 TAAGTTATGTG
* *
18523688 TAAGTTTATATA
1 TAAG-TTATGTG
18523700 TAAGTTA--TG
1 TAAGTTATGTG
18523709 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523721 TAAGTTATGTG
1 TAAGTTATGTG
18523732 T
1 T
18523733 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523818 original size:12 final size:11
Alignment explanation
Indices: 18523760--18523828 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523750 AAACTTTATT
18523760 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523773 TAAGTTATATA
1 TAAGTTATGTG
* *
18523784 TAAGTTTATATA
1 TAAG-TTATGTG
18523796 TAAGTTA--TG
1 TAAGTTATGTG
18523805 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523817 TAAGTTATGTG
1 TAAGTTATGTG
18523828 T
1 T
18523829 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18523914 original size:12 final size:11
Alignment explanation
Indices: 18523856--18523924 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523846 AAACTTTATT
18523856 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523869 TAAGTTATATA
1 TAAGTTATGTG
* *
18523880 TAAGTTTATATA
1 TAAG-TTATGTG
18523892 TAAGTTA--TG
1 TAAGTTATGTG
18523901 TAAGTTATTGTG
1 TAAGTTA-TGTG
18523913 TAAGTTATGTG
1 TAAGTTATGTG
18523924 T
1 T
18523925 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524010 original size:12 final size:11
Alignment explanation
Indices: 18523952--18524020 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18523942 AAACTTTATT
18523952 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18523965 TAAGTTATATA
1 TAAGTTATGTG
* *
18523976 TAAGTTTATATA
1 TAAG-TTATGTG
18523988 TAAGTTA--TG
1 TAAGTTATGTG
18523997 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524009 TAAGTTATGTG
1 TAAGTTATGTG
18524020 T
1 T
18524021 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524106 original size:12 final size:11
Alignment explanation
Indices: 18524048--18524116 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524038 AAACTTTATT
18524048 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524061 TAAGTTATATA
1 TAAGTTATGTG
* *
18524072 TAAGTTTATATA
1 TAAG-TTATGTG
18524084 TAAGTTA--TG
1 TAAGTTATGTG
18524093 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524105 TAAGTTATGTG
1 TAAGTTATGTG
18524116 T
1 T
18524117 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524202 original size:12 final size:11
Alignment explanation
Indices: 18524144--18524212 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524134 AAACTTTATT
18524144 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524157 TAAGTTATATA
1 TAAGTTATGTG
* *
18524168 TAAGTTTATATA
1 TAAG-TTATGTG
18524180 TAAGTTA--TG
1 TAAGTTATGTG
18524189 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524201 TAAGTTATGTG
1 TAAGTTATGTG
18524212 T
1 T
18524213 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524298 original size:12 final size:11
Alignment explanation
Indices: 18524240--18524308 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524230 AAACTTTATT
18524240 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524253 TAAGTTATATA
1 TAAGTTATGTG
* *
18524264 TAAGTTTATATA
1 TAAG-TTATGTG
18524276 TAAGTTA--TG
1 TAAGTTATGTG
18524285 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524297 TAAGTTATGTG
1 TAAGTTATGTG
18524308 T
1 T
18524309 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524394 original size:12 final size:11
Alignment explanation
Indices: 18524336--18524404 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524326 AAACTTTATT
18524336 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524349 TAAGTTATATA
1 TAAGTTATGTG
* *
18524360 TAAGTTTATATA
1 TAAG-TTATGTG
18524372 TAAGTTA--TG
1 TAAGTTATGTG
18524381 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524393 TAAGTTATGTG
1 TAAGTTATGTG
18524404 T
1 T
18524405 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524490 original size:12 final size:11
Alignment explanation
Indices: 18524432--18524500 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524422 AAACTTTATT
18524432 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524445 TAAGTTATATA
1 TAAGTTATGTG
* *
18524456 TAAGTTTATATA
1 TAAG-TTATGTG
18524468 TAAGTTA--TG
1 TAAGTTATGTG
18524477 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524489 TAAGTTATGTG
1 TAAGTTATGTG
18524500 T
1 T
18524501 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524586 original size:12 final size:11
Alignment explanation
Indices: 18524528--18524596 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524518 AAACTTTATT
18524528 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524541 TAAGTTATATA
1 TAAGTTATGTG
* *
18524552 TAAGTTTATATA
1 TAAG-TTATGTG
18524564 TAAGTTA--TG
1 TAAGTTATGTG
18524573 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524585 TAAGTTATGTG
1 TAAGTTATGTG
18524596 T
1 T
18524597 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524682 original size:12 final size:11
Alignment explanation
Indices: 18524624--18524692 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524614 AAACTTTATT
18524624 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524637 TAAGTTATATA
1 TAAGTTATGTG
* *
18524648 TAAGTTTATATA
1 TAAG-TTATGTG
18524660 TAAGTTA--TG
1 TAAGTTATGTG
18524669 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524681 TAAGTTATGTG
1 TAAGTTATGTG
18524692 T
1 T
18524693 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524778 original size:12 final size:11
Alignment explanation
Indices: 18524720--18524788 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
18524710 AAACTTTATT
18524720 TAAGTTATGTATG
1 TAAGTTATG--TG
* *
18524733 TAAGTTATATA
1 TAAGTTATGTG
* *
18524744 TAAGTTTATATA
1 TAAG-TTATGTG
18524756 TAAGTTA--TG
1 TAAGTTATGTG
18524765 TAAGTTATTGTG
1 TAAGTTA-TGTG
18524777 TAAGTTATGTG
1 TAAGTTATGTG
18524788 T
1 T
18524789 TGTGTAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.16
11 13 0.27
12 20 0.41
13 8 0.16
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (11 bp):
TAAGTTATGTG
Found at i:18524850 original size:12 final size:12
Alignment explanation
Indices: 18524793--18525049 Score: 78
Period size: 12 Copynumber: 21.5 Consensus size: 12
18524783 ATGTGTTGTG
18524793 TAAGTTTATATA
1 TAAGTTTATATA
*
18524805 TAAACTTTAT-T-
1 T-AAGTTTATATA
* *
18524816 TAAGTTATGTATG
1 TAAGTT-TATATA
18524829 TAAG-TTATATA
1 TAAGTTTATATA
18524840 TAAGTTTATATA
1 TAAGTTTATATA
*
18524852 TAAG--T-TATG
1 TAAGTTTATATA
* *
18524861 TAAG-TTATTGTG
1 TAAGTTTA-TATA
* * *
18524873 TAAGTTATGTGTTG
1 TAAGTT-TAT-ATA
18524887 TGTAAGTTTATATA
1 T--AAGTTTATATA
*
18524901 TAAACTTTAT-T-
1 T-AAGTTTATATA
* *
18524912 TAAGTTATGTATG
1 TAAGTT-TATATA
18524925 TAAG-TTATATA
1 TAAGTTTATATA
18524936 TAAGTTTATATA
1 TAAGTTTATATA
*
18524948 TAAG--T-TATG
1 TAAGTTTATATA
*
18524957 TAAG-TTATTATG
1 TAAGTTTA-TATA
* * *
18524969 TAAGTTATCTGTTGTG
1 TAAG-T-T-T-ATATA
18524985 TAAGTTTATATA
1 TAAGTTTATATA
* *
18524997 TAAATTT-TATT
1 TAAGTTTATATA
* *
18525008 TAAGTTATGTATG
1 TAAGTT-TATATA
18525021 TAAG-TTATATA
1 TAAGTTTATATA
18525032 TAAGTTTATATA
1 TAAGTTTATATA
18525044 TAAGTT
1 TAAGTT
18525050 ATGTAAGTTA
Statistics
Matches: 187, Mismatches: 30, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
9 14 0.07
10 12 0.06
11 38 0.20
12 67 0.36
13 32 0.17
14 7 0.04
15 4 0.02
16 13 0.07
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.49
Consensus pattern (12 bp):
TAAGTTTATATA
Found at i:18525156 original size:19 final size:19
Alignment explanation
Indices: 18525134--18525174 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18525124 GATATGATGG
*
18525134 ATAAATTTTTCAA-ATATAT
1 ATAAAATTTT-AATATATAT
18525153 ATAAAATTTTAATATATAT
1 ATAAAATTTTAATATATAT
18525172 ATA
1 ATA
18525175 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAAATTTTAATATATAT
Found at i:18525196 original size:29 final size:29
Alignment explanation
Indices: 18525147--18525208 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
18525137 AATTTTTCAA
* * *
18525147 ATATATATAAAATTTTAATATATATATAT
1 ATATATATAAAACTGTAATATAAATATAT
18525176 ATATATATTAAAACTGT-ATATAAATATAT
1 ATATATA-TAAAACTGTAATATAAATATAT
18525205 ATAT
1 ATAT
18525209 CAAAGATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
ATATATATAAAACTGTAATATAAATATAT
Found at i:18528059 original size:4 final size:4
Alignment explanation
Indices: 18528050--18528079 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
18528040 AATTTCACGT
*
18528050 TTTA TTTA TTTA TTTA TATA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18528080 GTATGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:18528133 original size:113 final size:114
Alignment explanation
Indices: 18527994--18528222 Score: 424
Period size: 113 Copynumber: 2.0 Consensus size: 114
18527984 CCGTTTTGGG
18527994 AAATTTGTATATATAGTAACGACATTTTTTTCTAAAAACGCCGCTAAATTTCACGTTTTATTTAT
1 AAATTTG-ATATATAGTAACGACATTTTTTTCTAAAAACGCCGCTAAATTTCACGTTTTATTTAT
18528059 TTATTTATATATTTATTTATTGTATGTTTCATTAAAATTTTAAGTAAATA
65 TTATTTATATATTTATTTATTGTATGTTTCATTAAAATTTTAAGTAAATA
18528109 AAATTTG-TATATAGTAACGACATTTTTTTCTAAAAACGCCGCTAAATTTCACGTTTTATTTATT
1 AAATTTGATATATAGTAACGACATTTTTTTCTAAAAACGCCGCTAAATTTCACGTTTTATTTATT
**
18528173 TATTTATATATTTATTTATTGTATGTTTTTTTAAAATTTTAAGTAAATA
66 TATTTATATATTTATTTATTGTATGTTTCATTAAAATTTTAAGTAAATA
18528222 A
1 A
18528223 TTATTAAAGT
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
113 105 0.94
115 7 0.06
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (114 bp):
AAATTTGATATATAGTAACGACATTTTTTTCTAAAAACGCCGCTAAATTTCACGTTTTATTTATT
TATTTATATATTTATTTATTGTATGTTTCATTAAAATTTTAAGTAAATA
Found at i:18528172 original size:4 final size:4
Alignment explanation
Indices: 18528163--18528192 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
18528153 AATTTCACGT
*
18528163 TTTA TTTA TTTA TTTA TATA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18528193 GTATGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:18528270 original size:21 final size:21
Alignment explanation
Indices: 18528204--18528270 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
18528194 TATGTTTTTT
18528204 TAAAA-TTTTAAGTAAATAATTA
1 TAAAAGTTTTAAGT-AA-AATTA
* *
18528226 TTAAAGTTTTAAGTAATATT-
1 TAAAAGTTTTAAGTAAAATTA
*
18528246 TAAAAGTTTT-TGATAAAATTA
1 TAAAAGTTTTAAG-TAAAATTA
18528267 TAAA
1 TAAA
18528271 TTTTAGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 7 0.19
22 6 0.16
23 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
TAAAAGTTTTAAGTAAAATTA
Found at i:18528302 original size:10 final size:10
Alignment explanation
Indices: 18528289--18528320 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
18528279 TTTTATTTCC
18528289 TTTTTATATT
1 TTTTTATATT
18528299 TTTTTATATT
1 TTTTTATATT
*
18528309 TTCTTATATT
1 TTTTTATATT
18528319 TT
1 TT
18528321 GGTCCTGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTATATT
Found at i:18529435 original size:7 final size:7
Alignment explanation
Indices: 18529425--18529457 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
18529415 CTCTTAACAT
18529425 CTAACCC
1 CTAACCC
18529432 CTAA--C
1 CTAACCC
18529437 CTAACCC
1 CTAACCC
18529444 CTAACCC
1 CTAACCC
18529451 CTAACCC
1 CTAACCC
18529458 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.21
7 19 0.79
ACGTcount: A:0.30, C:0.55, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAACCC
Found at i:18529442 original size:12 final size:12
Alignment explanation
Indices: 18529425--18529449 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18529415 CTCTTAACAT
18529425 CTAACCCCTAAC
1 CTAACCCCTAAC
18529437 CTAACCCCTAAC
1 CTAACCCCTAAC
18529449 C
1 C
18529450 CCTAACCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:18529513 original size:14 final size:15
Alignment explanation
Indices: 18529491--18529524 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18529481 CTTAAACAAA
*
18529491 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
18529505 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
18529520 AATCT
1 AATCT
18529525 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:18529977 original size:41 final size:41
Alignment explanation
Indices: 18529951--18530245 Score: 324
Period size: 41 Copynumber: 7.2 Consensus size: 41
18529941 CTTTTACAAA
* * * *
18529951 GCCGCTAAAGATCTGAGTACTAGCGGCGCTTTTCTATAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* * * * **
18529992 GCCGCTAAAGATTTGAGTA-T-GCGGTGATTTTGGAAAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* * * * *
18530031 GCCGATAAAGATCTGAGCATTAGCAGCGCTTCTACAGAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* *
18530072 GCCGCTAAATATCTGAGCATTACCGGCGCTTTTCCAAAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* * *
18530113 GCCGCTAAAGACCTGAGCATTAGCGGCGCTTATCAAAAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* *
18530154 GCCGCCAAAGATCTGAGCATTAGCGGCGCTTTTACAAAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
* * ***
18530195 GCCGCTAAAGATCTGGGAATTAGCGGCGCTTTTTTTTAAAAC
1 GCCGCTAAAGATCTGAGCATTAGCGGCGC-TTTTCCAAAAAC
18530237 GCCGCTAAA
1 GCCGCTAAA
18530246 TCCCCGAAAG
Statistics
Matches: 212, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
39 30 0.14
40 2 0.01
41 162 0.76
42 18 0.08
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
GCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAAC
Found at i:18530333 original size:39 final size:39
Alignment explanation
Indices: 18530289--18530416 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
18530279 TAGGTTTTTT
*
18530289 GCCGCTAATGCAC-ATTTTTAGCGGCAATTTT-TTTGAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGC-ATTTTATTT-AAGC
* * **
18530328 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTACATAATGC
1 GCCGCTAATGCTCGATTTTTAGCGGCATTTTATTTAA-GC
* *
18530368 GCCGCTAATGCTCGATTTTTAGCGGCATTTTCTGTTCAAAC
1 GCCGCTAATGCTCGATTTTTAGCGGCATTTTAT-TT-AAGC
18530409 GCCGCTAA
1 GCCGCTAA
18530417 AAATACCGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.25
40 43 0.59
41 10 0.14
42 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (39 bp):
GCCGCTAATGCTCGATTTTTAGCGGCATTTTATTTAAGC
Found at i:18534737 original size:2 final size:2
Alignment explanation
Indices: 18534730--18534763 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18534720 TTTGTACTAT
18534730 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18534764 CCATCTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18548201 original size:28 final size:28
Alignment explanation
Indices: 18548124--18548201 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
18548114 TATAATATGT
*
18548124 ATAAATTAAAAGGTTAAAATAAGTTTGA
1 ATAAATTAAAATGTTAAAATAAGTTTGA
* *
18548152 ATAAATTAACAATATTGAAATAAG-TTGA
1 ATAAATTAA-AATGTTAAAATAAGTTTGA
18548180 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
18548202 TTGGAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 23 0.53
29 20 0.47
ACGTcount: A:0.55, C:0.01, G:0.12, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAATGTTAAAATAAGTTTGA
Found at i:18548499 original size:23 final size:24
Alignment explanation
Indices: 18548464--18548508 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
18548454 TGGAAATTTA
*
18548464 AATAATGATACATAATAAATTTTG
1 AATAATGAAACATAATAAATTTTG
**
18548488 AATAAT-AAACATGGTAAATTT
1 AATAATGAAACATAATAAATTT
18548509 ATATAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (24 bp):
AATAATGAAACATAATAAATTTTG
Found at i:18549226 original size:20 final size:19
Alignment explanation
Indices: 18549192--18549247 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
18549182 TTTTTCATAT
*
18549192 AGAAAATAGAAAGAAACAA
1 AGAAAACAGAAAGAAACAA
**
18549211 AGAAAACAGTAAAGAAACGC
1 AGAAAACAG-AAAGAAACAA
*
18549231 AGAGAAAGAGAAAGAAA
1 AGA-AAACAGAAAGAAA
18549248 AAGAGAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 8 0.26
20 18 0.58
21 5 0.16
ACGTcount: A:0.68, C:0.07, G:0.21, T:0.04
Consensus pattern (19 bp):
AGAAAACAGAAAGAAACAA
Found at i:18549379 original size:28 final size:28
Alignment explanation
Indices: 18549347--18549401 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18549337 AAAAAAACTG
*
18549347 ATCTTTTCCT-TTTCCTTTTTTCTTTGCC
1 ATCTTTTCCTATTTCCTGTTTT-TTTGCC
*
18549375 ATCTTTTCCTATTTTCTGTTTTTTTGC
1 ATCTTTTCCTATTTCCTGTTTTTTTGC
18549402 TCCCTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.65
Consensus pattern (28 bp):
ATCTTTTCCTATTTCCTGTTTTTTTGCC
Found at i:18550359 original size:175 final size:175
Alignment explanation
Indices: 18550068--18550819 Score: 1315
Period size: 175 Copynumber: 4.3 Consensus size: 175
18550058 CTATTCCACC
*
18550068 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCT
1 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* *
18550133 ACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGTTCCACTATAATCTTAAGGA
66 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAAGGA
* * *
18550198 AATAGGATTACTGGCTTCAATTTGCTCTGTTGTAATCTCAGGGAG
131 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
* *
18550243 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATACGATCT
1 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* * *
18550308 ACTCTACTGTAACTTCAGAGACATAAGATCCTTTATTTTAATCTGTTCCACTATAATCTCAGGGA
66 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAAGGA
*
18550373 AATATGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
131 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
18550418 ATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
1 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* * *
18550483 ACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATTCGTTCCACTGTAATCTCAAGGA
66 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAAGGA
*
18550548 AATAGGATTACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
131 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
18550593 ATAAGATCTGTGATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
1 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* *
18550658 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGA
66 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAAGGA
18550723 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
131 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
18550768 ATAAGATCTGTAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGA
1 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA
18550820 TCTGTAATTC
Statistics
Matches: 548, Mismatches: 29, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 548 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (175 bp):
ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAAGGA
AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
Found at i:18550454 original size:46 final size:46
Alignment explanation
Indices: 18550228--18550957 Score: 533
Period size: 46 Copynumber: 16.5 Consensus size: 46
18550218 TTTGCTCTGT
*
18550228 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * * * *
18550274 TGTAATCTCAGAGAGATAAGACCTG--ATAC--GA-TCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * * *
18550315 TGTAA-CTTCAGAGACATAAGATCCT-TTATT-TT-AATCTGTTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGTAATTCTTCAGTCTATTCCAC
* * * * * * ** *
18550359 TATAATCTCAGGGAAATATGA--T-TACTGGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGTAAT-TCTTCAGTCTATTCCAC
18550403 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * * *
18550449 TGTAATCTCAGGGAGATAAGACCTG--ATGC--GA-TCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * * *
18550490 TGTAA-CTTCAGAGAGATAAGATCAT-TTATT-TTAATTC-GTTCCAC
1 TGTAATC-TCAGGGAGATAAGATC-TGTAATTCTTCAGTCTATTCCAC
* * * * * ** *
18550534 TGTAATCTCAAGGAAATAGGA--T-TACTGTCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGTAAT-TCTTCAGTCTATTCCAC
* *
18550578 TGTAATCTCAGGGAGATAAGATCTGTGATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * * *
18550624 TGTAATCTCAGGGAGATAAGACCTG--ATGC--GA-TCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* * * **
18550665 TGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGTTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGTAATTCTTCAGTCTATTCCAC
* * * * * ** *
18550709 TGTAATCTCAGGGAAATAGGA--T-TACTGGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGTAAT-TCTTCAGTCTATTCCAC
*
18550753 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* *
18550799 TATAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* *
18550845 TGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
* *
18550891 TGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
18550937 TGTAATCTCAGGGAGATAAGA
1 TGTAATCTCAGGGAGATAAGA
18550958 CCTGATGCGA
Statistics
Matches: 545, Mismatches: 97, Indels: 84
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.01
41 88 0.16
42 7 0.01
43 17 0.03
44 152 0.28
45 5 0.01
46 265 0.49
47 8 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
TGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCAC
Found at i:18550629 original size:221 final size:225
Alignment explanation
Indices: 18550402--18550913 Score: 546
Period size: 221 Copynumber: 2.3 Consensus size: 225
18550392 ATCTGCTCCG
18550402 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATA
* * * * * * * *
18550467 AGA-CC-TGA-TGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAAT-TC
66 AGATCCTTGATTGCAATCCACTCCACTGTAATC-TCAGAGAAATAAGATCACTGACTTCAATCT-
* * * * * *
18550527 GTTCCACTGTAATCTCAAGGAAATAGGA-T-TACTGTCTTCAATCTGCTCCGCTGTAATCTCAGG
129 GCTCCACTGTAATCTCAAGGAAATAAGACTGTAAT-TCTTCAATCTACTCCACTATAATCTCAGG
*
18550590 GAGATAAGATCTGTGATTCTTCGGTCTATTCCA
193 GAGATAAGATCTGTAATTCTTCGGTCTATTCCA
* * * * * *
18550623 CTGTAATCTCAGGGAGATAAGACCTG--ATGC--GA-TCTACTCTACTGTAA-CTTCAGAGAGAT
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATC-TCAGGGAGAT
* ** ** * * * *
18550682 AAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTG
65 AAGATCCTTGATTGCAATCCACTCCACTGTAATCTCAGAGAAATAAGATCACTGACTTCAATCTG
* * * ** *
18550747 CTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTATAATCTCAGGG
130 CTCCACTGTAATCTCAAGGAAATAAGA-CTGTAATTCTTCAATCTACTCCACTATAATCTCAGGG
18550812 AGATAAGATCTGTAATTCTTCGGTCTATTCCA
194 AGATAAGATCTGTAATTCTTCGGTCTATTCCA
* *
18550844 CTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATA
18550909 AGATC
66 AGATC
18550914 TATAATTCTT
Statistics
Matches: 232, Mismatches: 44, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
215 1 0.00
216 26 0.11
217 3 0.01
218 2 0.01
219 58 0.25
220 2 0.01
221 105 0.45
222 3 0.01
223 3 0.01
226 28 0.12
227 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (225 bp):
CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATA
AGATCCTTGATTGCAATCCACTCCACTGTAATCTCAGAGAAATAAGATCACTGACTTCAATCTGC
TCCACTGTAATCTCAAGGAAATAAGACTGTAATTCTTCAATCTACTCCACTATAATCTCAGGGAG
ATAAGATCTGTAATTCTTCGGTCTATTCCA
Found at i:18561515 original size:25 final size:25
Alignment explanation
Indices: 18561468--18561515 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18561458 TTTGTATTAA
* **
18561468 AAAAACAAAAATTTTAGTTGTCGAC
1 AAAAACAAAAAATTTAGGAGTCGAC
*
18561493 AAAAACAAAAAATTTGGGAGTCG
1 AAAAACAAAAAATTTAGGAGTCG
18561516 CCACTGATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAAACAAAAAATTTAGGAGTCGAC
Found at i:18562572 original size:28 final size:28
Alignment explanation
Indices: 18562496--18562573 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
18562486 TATAATATGT
*
18562496 ATAAATTAAAAGGTTAAAATAAGTTTGA
1 ATAAATTAAAATGTTAAAATAAGTTTGA
* *
18562524 ATAAATTAACAATATTGAAATAAG-TTGAA
1 ATAAATTAA-AATGTTAAAATAAGTTTG-A
18562553 ATAAATTAAAATGTTAAAATA
1 ATAAATTAAAATGTTAAAATA
18562574 TTGGAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAATGTTAAAATAAGTTTGA
Found at i:18562871 original size:23 final size:24
Alignment explanation
Indices: 18562836--18562880 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
18562826 TGGAAATTTA
*
18562836 AATAATGATACATAATAAATTTTG
1 AATAATGAAACATAATAAATTTTG
**
18562860 AATAAT-AAACATGGTAAATTT
1 AATAATGAAACATAATAAATTT
18562881 ATATAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (24 bp):
AATAATGAAACATAATAAATTTTG
Found at i:18563593 original size:20 final size:19
Alignment explanation
Indices: 18563559--18563626 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
18563549 TTTTTCGTAT
*
18563559 AGAAAATAGAAAGAAACAA
1 AGAAAACAGAAAGAAACAA
**
18563578 AGAAAACAGTAAAGAAACGC
1 AGAAAACAG-AAAGAAACAA
*
18563598 AGAGAAAGAGAAAG-AA-AA
1 AGA-AAACAGAAAGAAACAA
*
18563616 AGAAAAGAGAA
1 AGAAAACAGAA
18563627 CCACCTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
17 8 0.20
18 3 0.07
19 10 0.24
20 15 0.37
21 5 0.12
ACGTcount: A:0.69, C:0.06, G:0.22, T:0.03
Consensus pattern (19 bp):
AGAAAACAGAAAGAAACAA
Found at i:18564167 original size:16 final size:17
Alignment explanation
Indices: 18564148--18564188 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18564138 ATTTTGTTTT
18564148 TTTTATTT-TTTATATA
1 TTTTATTTGTTTATATA
*
18564164 TTTT-TTTGTTTATTTA
1 TTTTATTTGTTTATATA
*
18564180 TTTGATTTG
1 TTTTATTTG
18564189 GGCTGAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTTATTTGTTTATATA
Found at i:18573657 original size:20 final size:21
Alignment explanation
Indices: 18573632--18573671 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18573622 TCTAACTAGT
18573632 TTTGAACATTTTTA-TATATA
1 TTTGAACATTTTTACTATATA
**
18573652 TTTGAATTTTTTTACTATAT
1 TTTGAACATTTTTACTATAT
18573672 TTTTATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTGAACATTTTTACTATATA
Found at i:18579407 original size:17 final size:17
Alignment explanation
Indices: 18579387--18579424 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18579377 GGTTGTCTAT
*
18579387 TTTTCTTTATTTATTTA
1 TTTTCATTATTTATTTA
18579404 TTTTCATTATTTATTTA
1 TTTTCATTATTTATTTA
18579421 TTTT
1 TTTT
18579425 TATTTCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATTATTTATTTA
Found at i:18580511 original size:18 final size:18
Alignment explanation
Indices: 18580483--18580524 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18580473 CAAATATACA
*
18580483 AATACTAAATAAAATTAAT
1 AATA-TAAATAAAAATAAT
*
18580502 TATATAAATAAAAATAAT
1 AATATAAATAAAAATAAT
18580520 AATAT
1 AATAT
18580525 GTGGGAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAAATAAAAATAAT
Found at i:18586556 original size:23 final size:24
Alignment explanation
Indices: 18586529--18586576 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
18586519 CATTATCAAG
* *
18586529 TCATTCCAAACTTGC-CATAAGAT
1 TCATTCAAAACATGCACATAAGAT
18586552 TCATTCAAAACATGCATCATAAGAT
1 TCATTCAAAACATGCA-CATAAGAT
18586577 AACCAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
25 8 0.38
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (24 bp):
TCATTCAAAACATGCACATAAGAT
Found at i:18587244 original size:42 final size:42
Alignment explanation
Indices: 18587185--18587282 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
18587175 TTTACCTCAT
*
18587185 TGCTCACACGAGCTATGGGTCAAAATGTAAGCTATACGATAC
1 TGCTCACACGAGCTATGGGTCAAAATGTAAGCTACACGATAC
* *
18587227 TGCTCTCACGAGCTATGGGTCAAAATGTAAGCTACATGATAC
1 TGCTCACACGAGCTATGGGTCAAAATGTAAGCTACACGATAC
18587269 TGCTCACACGAGCT
1 TGCTCACACGAGCT
18587283 GTGGAGTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
TGCTCACACGAGCTATGGGTCAAAATGTAAGCTACACGATAC
Found at i:18595023 original size:22 final size:22
Alignment explanation
Indices: 18594974--18595026 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
18594964 TATAAGTCCA
**
18594974 AAAAAT-AAAATAAAAACAGCT
1 AAAAATAAAAATAAAAACAAAT
* *
18594995 AACAATAAAAATAAAAATAAAT
1 AAAAATAAAAATAAAAACAAAT
18595017 AAAAATAAAA
1 AAAAATAAAA
18595027 CTAATACTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAATAAAAACAAAT
Found at i:18595597 original size:14 final size:14
Alignment explanation
Indices: 18595578--18595604 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18595568 GACTGTTATT
18595578 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
18595592 TTTTAATTTTTTA
1 TTTTAATTTTTTA
18595605 TTAATACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:18598738 original size:19 final size:19
Alignment explanation
Indices: 18598714--18598805 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
18598704 AGTCTTCAAG
18598714 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18598733 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
18598752 GATATGCGACCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18598771 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18598790 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
18598806 AGATATGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18598757 original size:38 final size:38
Alignment explanation
Indices: 18598714--18598828 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
18598704 AGTCTTCAAG
18598714 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
18598752 GATATGCGACCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
18598790 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
18598829 GATTTAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 47 0.69
41 8 0.12
42 13 0.19
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:18599062 original size:23 final size:23
Alignment explanation
Indices: 18599018--18599062 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
18599008 TCTTATTTTG
* *
18599018 TTGATTTGTGTATCATTTATTTA
1 TTGATTTGTATATCATTGATTTA
**
18599041 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATCATTGATTT
18599063 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATCATTGATTTA
Found at i:18605718 original size:175 final size:176
Alignment explanation
Indices: 18605417--18605810 Score: 594
Period size: 175 Copynumber: 2.2 Consensus size: 176
18605407 ATCAGTGAAG
* * * * *
18605417 ATAGTAGATCTTGCCTTCCTGCGCCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
*
18605482 GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTTCTGCACCGACAGCAAAGCAGATCG
66 GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCG
** * *
18605547 AAGACACCAGCCTTACCTCCCT-GGTTGTAGCGGAGCAGGTTAAAA
131 AAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
* *
18605592 ATAGCATATATTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
* * *
18605657 GGTTGTAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC
66 GGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATC
* *
18605721 GAAGACACTAGCCTTGCCTCCCTGGGTTACAGCGAAGCAGATTAAAA
130 GAAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
* *
18605768 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGA
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
18605811 TGACCCCAGC
Statistics
Matches: 196, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
174 2 0.01
175 136 0.69
176 58 0.30
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (176 bp):
ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCG
AAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
Found at i:18605737 original size:44 final size:44
Alignment explanation
Indices: 18605677--18605810 Score: 110
Period size: 44 Copynumber: 3.0 Consensus size: 44
18605667 GAGCAGGTTA
* * *
18605677 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCG
1 AAAACAGCAGACCTTGCCTTCCTG-ACCAACAGCGAAGCAGATCG
* * **** **
18605722 AAGACA-CTAG-CCTTGCCTCCCTGGGTTACAGCGAAGCAGATTA
1 AAAACAGC-AGACCTTGCCTTCCTGACCAACAGCGAAGCAGATCG
* *
18605765 AAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCG
1 AAAACAGCAGACCTTGCCTTCCTG-ACCAACAGCGAAGCAGATCG
18605810 A
1 A
18605811 TGACCCCAGC
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
43 20 0.31
44 24 0.37
45 21 0.32
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (44 bp):
AAAACAGCAGACCTTGCCTTCCTGACCAACAGCGAAGCAGATCG
Found at i:18605805 original size:45 final size:44
Alignment explanation
Indices: 18605663--18605807 Score: 132
Period size: 45 Copynumber: 3.3 Consensus size: 44
18605653 CCTGGGTTGT
* * *
18605663 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
1 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTG-ACCAAC
** * * * * ****
18605708 AGCGAAGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGGGTTAC
1 AGCGAAGCAGATTAAAAATAGC-AGATCTTGCCTTCCTGACCAAC
18605751 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTG-ACCAAC
18605796 AGCGAAGCAGAT
1 AGCGAAGCAGAT
18605808 CGATGACCCC
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 20 0.27
44 24 0.32
45 30 0.41
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.19
Consensus pattern (44 bp):
AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTGACCAAC
Found at i:18605833 original size:88 final size:88
Alignment explanation
Indices: 18605417--18605821 Score: 607
Period size: 88 Copynumber: 4.6 Consensus size: 88
18605407 ATCAGTGAAG
* * *
18605417 ATAGTAGATCTTGCCTTCCTGCGCCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
18605482 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * *
18605505 ATTA-CAGATCTTGCCTTTCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTACCTCCCT
1 A-TAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
18605569 -GGTTGTAGCGGAGCAGGTTAAAA
65 GGGTTGCAGCGGAGCAGGTTAAAA
* * * *
18605592 ATAGCATATATTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
18605657 GGTTGTAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* *
18605680 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* * *
18605745 GGTTACAGCGAAGCAGATTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * *
18605768 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
18605822 CTATCTCCCT
Statistics
Matches: 285, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
86 2 0.01
87 76 0.27
88 205 0.72
89 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGTTAAAA
Found at i:18605873 original size:44 final size:44
Alignment explanation
Indices: 18605821--18605939 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
18605811 TGACCCCAGC
*
18605821 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAA-T
* * *
18605865 CTTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAAATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAAT
* *
18605909 CCTATCTCCCT-GAGCAACAGTGGAGTAGGTT
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGTT
18605940 ATAAATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 61 0.95
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAAT
Found at i:18606485 original size:44 final size:43
Alignment explanation
Indices: 18606434--18606777 Score: 204
Period size: 45 Copynumber: 7.9 Consensus size: 43
18606424 GATCGCATCT
18606434 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * *
18606478 AGTCTTATC-CTCCTGAAGTTGTAGT-AAGGCAGAGTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGC-A
*
18606524 A-TCTTATCTCCCT-ACAGTTGCAGTGGAGCAGA-TTA-AAGCCAA
1 AGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * ** * *
18606566 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AATCA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * * *
18606609 CAGATCTTATTTCTCTGAAGTTGCAG-AGAACAGA-T-CGCATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * *
18606651 GGTCTTATCTCCCTAAAGATACAGTGGAGTAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAG-AAGCA
*
18606696 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * *
18606741 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
18606778 NNNNNNNNNN
Statistics
Matches: 229, Mismatches: 50, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
40 17 0.07
41 7 0.03
42 7 0.03
43 10 0.04
44 81 0.35
45 103 0.45
46 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:18606678 original size:217 final size:218
Alignment explanation
Indices: 18606295--18606716 Score: 625
Period size: 217 Copynumber: 1.9 Consensus size: 218
18606285 TTTAAAAGAC
* **
18606295 TGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGAATTAGATTAAAGCCAATAATCCTATCT
1 TGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCT
**
18606360 CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAG
66 CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACAG
* * * * * *
18606425 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAGTCTTATC-C
131 ATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTC
18606488 TCCTGAAGTTGTAGTAAGGCAGAG
196 -CCTGAAGTTGTAGTAAGGCAGAG
*
18606512 TGAAGATGGCGAATCTTATCTCCCT-ACAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
1 TGAAGATGGCGAATCTTATCTCCCTGA-AGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATC
* * * * *
18606576 TCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAACA
65 TCCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACA
* * *
18606641 GATCGCATCGGGTCTTATCTCCCTAAAGATACAGTGGAGTAGACCCAAGAAAGCGAGTCTTATCT
130 GATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCT
18606706 CCCTGAAGTTG
195 CCCTGAAGTTG
18606717 CAGTGGAGCA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
216 1 0.01
217 153 0.84
218 27 0.15
219 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCT
CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACAG
ATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTC
CCTGAAGTTGTAGTAAGGCAGAG
Found at i:18607354 original size:22 final size:23
Alignment explanation
Indices: 18607326--18607370 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18607316 ATGCAATCTT
18607326 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
18607348 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
18607371 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:18607380 original size:22 final size:23
Alignment explanation
Indices: 18607336--18607380 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18607326 AGATATGATA
*
18607336 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
18607359 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
18607381 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:18612657 original size:22 final size:22
Alignment explanation
Indices: 18612627--18612669 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18612617 ACACCAAAAC
*
18612627 AGGCTTTTAAAGGCGCTTTTTT
1 AGGCCTTTAAAGGCGCTTTTTT
**
18612649 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAAAGGCGCTTTTT
18612670 AGCACCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAAAGGCGCTTTTTT
Found at i:18612887 original size:43 final size:43
Alignment explanation
Indices: 18612835--18612938 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
18612825 TGAGATAGNT
18612835 GTCTTTAGCGGCGTTTTTGT-TGA-AAGCGCCGCTATAGATCAGG
1 GTCTTTAGCGGCGTTTTT-TAT-ATAAGCGCCGCTATAGATCAGG
* *
18612878 GTCTGTAGCGGTGTTTTTTATATAAGCGCCGCTATAGATCAGG
1 GTCTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAGG
* *
18612921 GCCTTTAGCGGCGCTTTT
1 GTCTTTAGCGGCGTTTTT
18612939 CCCAAAAACG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.04
43 51 0.96
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAGG
Found at i:18612951 original size:43 final size:43
Alignment explanation
Indices: 18612861--18612958 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
18612851 TTGTTGAAAG
* * * * * * *
18612861 CGCCGCTATAGATCAGGGTCTGTAGCGGTGTTTTTTATATAAG
1 CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
* *
18612904 CGCCGCTATAGATCAGGGCCTTTAGCGGCGCTTTTCCCAAAAA
1 CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
*
18612947 CGCCGCAATAGA
1 CGCCGCTATAGA
18612959 CCCTAATCTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (43 bp):
CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
Found at i:18612973 original size:43 final size:42
Alignment explanation
Indices: 18612926--18613169 Score: 193
Period size: 43 Copynumber: 5.6 Consensus size: 42
18612916 TCAGGGCCTT
18612926 TAGCGGCGCTTTTCCCAAAAACGCCGCAATAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCAA-AGACCCTAATCTA
** * * * *
18612969 TAGCGGCATTTTTCCCACAAACGCTGCAATAGACCCTGATCTC
1 TAGCGGCGCTTTTCCCAAAAACGCCGCAA-AGACCCTAATCTA
* * ** * * **
18613012 TAGCGGCGCTTCTGCCGCAAGCGCCACTAAAGACCCGGATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGC-AAAGACCCTAATCTA
* * **
18613055 TAGCGGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTGTCTATA
1 TAGCGGCGCTTTTCCCA-AAAACGCCGC-AAAGACCCTAATC--TA
* ** * *
18613100 TAGTGGCGCTTCGCGCAAAAACGCCGTTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCG-CAAAGACCCTAATCTA
*
18613143 TAGCGGCGCTTTTACCAAAAACGCCGC
1 TAGCGGCGCTTTTCCCAAAAACGCCGC
18613170 TAAATTTGGT
Statistics
Matches: 156, Mismatches: 39, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
42 2 0.01
43 119 0.76
44 2 0.01
45 31 0.20
46 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCCAAAAACGCCGCAAAGACCCTAATCTA
Found at i:18613538 original size:22 final size:21
Alignment explanation
Indices: 18613480--18613597 Score: 166
Period size: 21 Copynumber: 5.6 Consensus size: 21
18613470 TTTGACGCTG
*
18613480 CTCTGCTTCCCTCGCTGCT-GC
1 CTCTGCTTCCCTCGCT-TTAGC
*
18613501 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
* *
18613522 CTCTGGTTTCCTCCGCTTTAGC
1 CTCTGCTTCCCT-CGCTTTAGC
18613544 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
*
18613565 CTTTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
18613586 CTCTGCTTCCCT
1 CTCTGCTTCCCT
18613598 TGCTGCAGCT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
20 1 0.01
21 66 0.77
22 19 0.22
ACGTcount: A:0.04, C:0.42, G:0.14, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:18613547 original size:43 final size:42
Alignment explanation
Indices: 18613480--18613597 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 42
18613470 TTTGACGCTG
* *
18613480 CTCTGCTTCCCTCGCTGCT-GCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCT-TTAGCCTCTGCTTCCCTCGCTTTAGC
* *
18613522 CTCTGGTTTCCTCCGCTTTAGCCTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCT-CGCTTTAGCCTCTGCTTCCCTCGCTTTAGC
*
18613565 CTTTGCTTCCCTCGCTTTAGCCTCTGCTTCCCT
1 CTCTGCTTCCCTCGCTTTAGCCTCTGCTTCCCT
18613598 TGCTGCAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.04, C:0.42, G:0.14, T:0.39
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTTTAGCCTCTGCTTCCCTCGCTTTAGC
Found at i:18613639 original size:21 final size:21
Alignment explanation
Indices: 18613480--18613636 Score: 154
Period size: 21 Copynumber: 7.4 Consensus size: 21
18613470 TTTGACGCTG
18613480 CTCTGCTTCCCTCGCTGCT-GC
1 CTCTGCTTCCCTCGCTG-TAGC
* *
18613501 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * *
18613522 CTCTGGTTTCCTCCGCTTTAGC
1 CTCTGCTTCCCT-CGCTGTAGC
*
18613544 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
18613565 CTTTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
18613586 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * * * *
18613607 TTGTTCTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
18613628 CTCTGCTTC
1 CTCTGCTTC
18613637 TCTTGCTGCC
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
20 1 0.01
21 92 0.82
22 19 0.17
ACGTcount: A:0.04, C:0.41, G:0.16, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:18613644 original size:21 final size:21
Alignment explanation
Indices: 18613480--18613655 Score: 122
Period size: 21 Copynumber: 8.3 Consensus size: 21
18613470 TTTGACGCTG
18613480 CTCTGCTTCCCTCGCTG-CTGC
1 CTCTGCTTCCCTCGCTGTC-GC
* * *
18613501 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTCGC
* * * *
18613522 CTCTGGTTTCCTCCGCTTTAGC
1 CTCTGCTTCCCT-CGCTGTCGC
* *
18613544 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTCGC
* * *
18613565 CTTTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTCGC
*
18613586 CTCTGCTTCCCTTGCTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
* * * *
18613607 TTGTTCTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
* * *
18613628 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGTCGC
*
18613649 ATCTGCT
1 CTCTGCT
18613656 CTAAGCTGCT
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
21 107 0.84
22 20 0.16
ACGTcount: A:0.04, C:0.40, G:0.16, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:18613711 original size:66 final size:66
Alignment explanation
Indices: 18613627--18613772 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
18613617 CTCGCTGTCG
* *
18613627 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
18613690 GAA
64 GAA
* * * *
18613693 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
18613758 A
66 A
*
18613759 CATCAGCTTCTCTC
1 CCTCAGCTTCTCTC
18613773 AATGTTGCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:18613789 original size:66 final size:66
Alignment explanation
Indices: 18613666--18613796 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
18613656 CTAAGCTGCT
* ** *
18613666 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTGT
18613731 A
66 A
* * *
18613732 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCAATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTG
18613796 T
65 T
18613797 GTAATTTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTGT
A
Found at i:18621098 original size:16 final size:16
Alignment explanation
Indices: 18621073--18621103 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18621063 AACCCCCTAG
*
18621073 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
18621089 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
18621104 GCATAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:18622045 original size:42 final size:41
Alignment explanation
Indices: 18621972--18622313 Score: 497
Period size: 41 Copynumber: 8.3 Consensus size: 41
18621962 ACTTAGATAC
** * * *
18621972 AAACGCCGCTGA-AGACAGGAGAATTAGCGGCGCATAGGCGA
1 AAACGCCGCT-ATAGACCCGAGCATTAGCGGCGCTTAGACGA
*
18622013 AAACGCCGCTATAGACCCATAGCATTAGCGGCGCTTAGACGA
1 AAACGCCGCTATAGACCC-GAGCATTAGCGGCGCTTAGACGA
* *
18622055 AAACGCCGCTAAAGACTCGGAGCATTAGCGGCGCTTAGACGA
1 AAACGCCGCTATAGAC-CCGAGCATTAGCGGCGCTTAGACGA
* * * *
18622097 AAGCGCTGCTAAAGACTCGAAGCATTAGCGGCGCTTAGACGA
1 AAACGCCGCTATAGACCCG-AGCATTAGCGGCGCTTAGACGA
*
18622139 AAACGCCGCTATAGACCCGAGCGTTAGCGGCGCTTAGACGA
1 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACGA
*
18622180 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACAA
1 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACGA
*
18622221 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACAA
1 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACGA
*
18622262 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACAA
1 AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACGA
18622303 AAACGCCGCTA
1 AAACGCCGCTA
18622314 AATGTTTAAA
Statistics
Matches: 277, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.00
41 168 0.61
42 107 0.39
43 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.14
Consensus pattern (41 bp):
AAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACGA
Found at i:18622408 original size:39 final size:40
Alignment explanation
Indices: 18622365--18622479 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
18622355 GTTTTTTGTT
* *
18622365 GCGCTTTATATAAAACGCCGCTAATTC-CTATTTTTAGCG
1 GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
* * **
18622404 GCGCTTCCGTAT-AAACGCCGCTGATGCTCTACCTTTAGCG
1 GCGCTT-TGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
** *
18622444 GCGCTTTGGCTAAATCGCCGCTAATGCTCTATTTTT
1 GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTT
18622480 TGTGGGGCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 21 0.35
40 39 0.65
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (40 bp):
GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
Found at i:18624312 original size:26 final size:28
Alignment explanation
Indices: 18624283--18624334 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
18624273 TTGTTCAAAC
*
18624283 TCTTCTAAA-AAAAACTCA-AGAGAAAT
1 TCTTCAAAAGAAAAACTCAGAGAGAAAT
*
18624309 TCTTGAAAAGAAAAACTCAGAGAGAA
1 TCTTCAAAAGAAAAACTCAGAGAGAA
18624335 TTTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 9 0.41
28 6 0.27
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (28 bp):
TCTTCAAAAGAAAAACTCAGAGAGAAAT
Found at i:18632284 original size:26 final size:26
Alignment explanation
Indices: 18632254--18632313 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
18632244 GTAGCTCCGG
18632254 AGAGCCATTAATCGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
* * *
18632280 AGAGCCTTTAATCGGGAAGCTTACGA
1 AGAGCCATTAATCGGGAAGCTCACAA
18632306 AGAGCCAT
1 AGAGCCAT
18632314 ATAACAGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCACAA
Done.