Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 30 of 203
Found at i:10122037 original size:30 final size:29
Alignment explanation
Indices: 10121974--10122037 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10121964 TAAGAATTAT
* *
10121974 AAATTTAGTTTCTATATTTTTATTTTTAG
1 AAATTTAATTTCTATATTTTTAATTTTAG
*
10122003 AAATTTAATTTCTCTAATTTTTAGATTTTA-
1 AAATTTAATTTCTAT-ATTTTTA-ATTTTAG
10122033 AAATT
1 AAATT
10122038 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 12 0.40
31 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (29 bp):
AAATTTAATTTCTATATTTTTAATTTTAG
Found at i:10124270 original size:28 final size:27
Alignment explanation
Indices: 10124234--10124305 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
10124224 TTTCTTTATA
*
10124234 TATATATTTTAGAATTTTTAAAAAATAT
1 TATAAATTTTAGAATTTTT-AAAAATAT
*
10124262 TATAAATTTT-GAAATTTTTATAAATAT
1 TATAAATTTTAG-AATTTTTAAAAATAT
* * *
10124289 TTTGAATTTTAAAATTT
1 TATAAATTTTAGAATTT
10124306 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (27 bp):
TATAAATTTTAGAATTTTTAAAAATAT
Found at i:10128149 original size:21 final size:20
Alignment explanation
Indices: 10128103--10128150 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10128093 AACCCTACTG
* * *
10128103 TTTTCGTTGTTGTTTTTTCA
1 TTTTTGTTGTTATTTTATCA
10128123 TATTTTGTTGTTATTTTATCA
1 T-TTTTGTTGTTATTTTATCA
10128144 CTTTTTG
1 -TTTTTG
10128151 CCACTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.69
Consensus pattern (20 bp):
TTTTTGTTGTTATTTTATCA
Found at i:10128404 original size:16 final size:17
Alignment explanation
Indices: 10128373--10128406 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10128363 TATATTTTAA
*
10128373 AAAATTATATAAAAAAT
1 AAAATTATAAAAAAAAT
10128390 AAAATT-TAAAAAAAAT
1 AAAATTATAAAAAAAAT
10128406 A
1 A
10128407 CGAGTCCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTATAAAAAAAAT
Found at i:10129131 original size:15 final size:13
Alignment explanation
Indices: 10129105--10129139 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
10129095 TTTATTAGTA
10129105 TTTATTTTAAATT
1 TTTATTTTAAATT
10129118 TTTATTTGTAAAATT
1 TTTATTT-T-AAATT
10129133 TTTATTT
1 TTTATTT
10129140 AATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 1 0.05
15 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTATTTTAAATT
Found at i:10131169 original size:21 final size:19
Alignment explanation
Indices: 10131122--10131170 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10131112 TTTTAGATAC
*
10131122 ATATTTTTTTTTATAATTT
1 ATATTTTATTTTATAATTT
* *
10131141 ATAGTTTATTTTATATTTT
1 ATATTTTATTTTATAATTT
10131160 AAATATTTTAT
1 --ATATTTTAT
10131171 AAGTACCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATATTTTATTTTATAATTT
Found at i:10131288 original size:21 final size:22
Alignment explanation
Indices: 10131244--10131291 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
10131234 TATAATTAAA
10131244 TATAAAAACATATAATATTATT
1 TATAAAAACATATAATATTATT
*
10131266 TATATAAACA-ATAAT-TTATTT
1 TATAAAAACATATAATATTA-TT
10131287 TATAA
1 TATAA
10131292 CTTTTCGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAAAAACATATAATATTATT
Found at i:10138829 original size:42 final size:42
Alignment explanation
Indices: 10138734--10138835 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
10138724 TTATTAAATC
10138734 ATTAA-CATAAAAATCAATCGTTCAACAATTTATAAGCAAAAA
1 ATTAACCA-AAAAATCAATCGTTCAACAATTTATAAGCAAAAA
** * * * * *
10138776 ACGAACAAAAAAATCAA-CAGTTTAATAATTTATATGCAACAA
1 ATTAACCAAAAAATCAATC-GTTCAACAATTTATAAGCAAAAA
*
10138818 ATTAACCAAAAAAACAAT
1 ATTAACCAAAAAATCAAT
10138836 AATTTAAGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.24
Consensus pattern (42 bp):
ATTAACCAAAAAATCAATCGTTCAACAATTTATAAGCAAAAA
Found at i:10140277 original size:22 final size:22
Alignment explanation
Indices: 10140234--10140277 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10140224 AGATACTCAC
*
10140234 ACTTTGGAGAAACGTACTAAAT
1 ACTTTGGAGAAACGTACCAAAT
*
10140256 ACTTTGGAGAAACGTCCCAAAT
1 ACTTTGGAGAAACGTACCAAAT
10140278 TTTCCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (22 bp):
ACTTTGGAGAAACGTACCAAAT
Found at i:10148887 original size:78 final size:78
Alignment explanation
Indices: 10148780--10149053 Score: 539
Period size: 78 Copynumber: 3.5 Consensus size: 78
10148770 GGCTAGGGAA
*
10148780 CGACTGGTGTGCTGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
1 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
10148845 TCGGGCTGAGAGT
66 TCGGGCTGAGAGT
10148858 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
1 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
10148923 TCGGGCTGAGAGT
66 TCGGGCTGAGAGT
10148936 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
1 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
10149001 TCGGGCTGAGAGT
66 TCGGGCTGAGAGT
10149014 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCA
1 CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCA
10149054 AACCGCTAGA
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 195 1.00
ACGTcount: A:0.17, C:0.12, G:0.39, T:0.32
Consensus pattern (78 bp):
CGACTGGTGTGCCGGTTGATATTAGATTGGGTTTTGAGCAGTCAGGCTGGGAATTGATTGGCGTG
TCGGGCTGAGAGT
Found at i:10150101 original size:47 final size:47
Alignment explanation
Indices: 10150032--10150125 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
10150022 CAGGTGCCCT
* *
10150032 AATCGATACGTATCTCTCGTTTGTTACAAGGAAAGATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
* *
10150079 AATCGATACGTAGCTCTGGTTTGTGACAAGGAAATATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
10150126 GGTCAGCCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (47 bp):
AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
Found at i:10152027 original size:109 final size:109
Alignment explanation
Indices: 10151836--10152697 Score: 1663
Period size: 109 Copynumber: 7.9 Consensus size: 109
10151826 TGAGTTTAAA
* * **
10151836 TTCAATAGGATATTT-GACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTT
1 TTCAAAAGGATATTTAG-CTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTT
10151900 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
65 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10151945 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152010 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152054 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152119 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152163 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152228 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152272 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152337 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152381 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152446 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152490 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
10152555 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
10152599 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
*
10152664 CTCGAATTTCCAAACGCAAAATATTGCCTTATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTT
10152698 GGAAACATTT
Statistics
Matches: 747, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
109 746 1.00
110 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (109 bp):
TTCAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTT
Found at i:10153248 original size:9 final size:10
Alignment explanation
Indices: 10153207--10153253 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
10153197 CTATCATAAA
10153207 ATATAAAAAGT
1 ATATAAAAA-T
*
10153218 ATGTATATAAAT
1 A--TATAAAAAT
10153230 ATATAAAAAT
1 ATATAAAAAT
10153240 ATA-AAAAAT
1 ATATAAAAAT
10153249 ATATA
1 ATATA
10153254 CTCCTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 9 0.29
10 12 0.39
11 1 0.03
12 2 0.06
13 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:10154998 original size:43 final size:44
Alignment explanation
Indices: 10154952--10155522 Score: 154
Period size: 44 Copynumber: 13.1 Consensus size: 44
10154942 CATCTTTGAT
* *
10154952 CTGCTCCACT-ACAACCGAGGGAGGCAAGGCTTGTGTCTTCGAT
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * *
10154995 CTGCTTCGCTGTCAA-TGAAGGAAGGCAA-GATCTGTTGTCTTCAAC
1 CTGCTCCACTCACAACCG-AGGGAGGCAAGGAT-TG-TGTCTTCGAC
* * *
10155040 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * * * ** *
10155083 CTGCTTCGCTGTCAATAC-AAGAAGGCAA-GATCTTTAACTTCAAC
1 CTGCTCCACTCACAA-CCGAGGGAGGCAAGGAT-TGTGTCTTCGAC
* * *
10155127 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * * * ** *
10155170 CTGCTTCGCTGTCAATAC-AAGAAGGCAA-GATCTTTAACTTCAAC
1 CTGCTCCACTCACAA-CCGAGGGAGGCAAGGAT-TGTGTCTTCGAC
* * *
10155214 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * * * ** *
10155257 CTGCTTCGCTGTCAATAC-AAGAAGGCAA-GATCTTTAACTTCAAC
1 CTGCTCCACTCACAA-CCGAGGGAGGCAAGGAT-TGTGTCTTCGAC
* * *
10155301 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * * * ** *
10155344 CTGCTTCGCTGTCAATAC-AAGAAGGCAA-GATCTTTAACTTCAAC
1 CTGCTCCACTCACAA-CCGAGGGAGGCAAGGAT-TGTGTCTTCGAC
* * *
10155388 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
* * ** * * * * ** *
10155431 CTGCTTCGCTGTCAATAC-AAGAAGGCAA-GATCTTTAACTTCAAC
1 CTGCTCCACTCACAA-CCGAGGGAGGCAAGGAT-TGTGTCTTCGAC
* * *
10155475 CAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGAC
1 CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
10155518 CTGCT
1 CTGCT
10155523 TCGCTGTCAA
Statistics
Matches: 338, Mismatches: 159, Indels: 62
0.60 0.28 0.11
Matches are distributed among these distances:
42 5 0.01
43 154 0.46
44 158 0.47
45 21 0.06
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
CTGCTCCACTCACAACCGAGGGAGGCAAGGATTGTGTCTTCGAC
Found at i:10155160 original size:87 final size:87
Alignment explanation
Indices: 10154954--10155559 Score: 1108
Period size: 87 Copynumber: 7.0 Consensus size: 87
10154944 TCTTTGATCT
* * * *
10154954 GCTCCA-CTACAACCGAGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGA-AGGA
1 GCTCCATC-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAAGA
**
10155017 AGGCAAGATCTGTTGTCTTCAACCA
64 AGGCAAGATCT-TTAACTTCAACCA
10155042 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
10155107 GCAAGATCTTTAACTTCAACCA
66 GCAAGATCTTTAACTTCAACCA
10155129 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
10155194 GCAAGATCTTTAACTTCAACCA
66 GCAAGATCTTTAACTTCAACCA
10155216 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
10155281 GCAAGATCTTTAACTTCAACCA
66 GCAAGATCTTTAACTTCAACCA
10155303 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
10155368 GCAAGATCTTTAACTTCAACCA
66 GCAAGATCTTTAACTTCAACCA
10155390 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
10155455 GCAAGATCTTTAACTTCAACCA
66 GCAAGATCTTTAACTTCAACCA
10155477 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
*
10155542 GCAAGATCTGTAACTTCA
66 GCAAGATCTTTAACTTCA
10155560 TTGATCTGTC
Statistics
Matches: 509, Mismatches: 7, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
87 442 0.87
88 66 0.13
89 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (87 bp):
GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAAGAAG
GCAAGATCTTTAACTTCAACCA
Found at i:10160279 original size:19 final size:20
Alignment explanation
Indices: 10160250--10160298 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10160240 CACTTCGTGA
* *
10160250 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
10160269 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
10160289 AAATG-AATGC
1 AAATGTAATGC
10160299 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:10161937 original size:3 final size:3
Alignment explanation
Indices: 10161912--10162028 Score: 155
Period size: 3 Copynumber: 38.7 Consensus size: 3
10161902 AAAACATCAC
* * * * *
10161912 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT AAT AAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10161959 AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10162005 AAT AAT AGAT GAT AAT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AA
10162029 AATTGCTAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.01
3 95 0.96
4 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10166288 original size:57 final size:57
Alignment explanation
Indices: 10166225--10166336 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
10166215 AAACTAAGTG
*
10166225 TAATGAAACATTTAAAATACAAAAAGAATTTTCATGTCACCTGTTACATATCAGTCA
1 TAATGAAACATTTAAAATACAAAAAGAATTTTCATGACACCTGTTACATATCAGTCA
10166282 TAATGAAACATTTAAAATACAAAAAGAATTTTCATGACACCTGTTACATATCAGT
1 TAATGAAACATTTAAAATACAAAAAGAATTTTCATGACACCTGTTACATATCAGT
10166337 ATTTTAATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (57 bp):
TAATGAAACATTTAAAATACAAAAAGAATTTTCATGACACCTGTTACATATCAGTCA
Found at i:10166519 original size:26 final size:25
Alignment explanation
Indices: 10166489--10166538 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
10166479 AAATTTAAAT
*
10166489 TTAGGTACTAAATTAAATAAAAAAAA
1 TTAGGTACCAAATTAAA-AAAAAAAA
*
10166515 TTAGGTGCCAAATTAAAAAAAAAA
1 TTAGGTACCAAATTAAAAAAAAAA
10166539 TTGTCAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (25 bp):
TTAGGTACCAAATTAAAAAAAAAAA
Found at i:10167407 original size:304 final size:298
Alignment explanation
Indices: 10166782--10167719 Score: 928
Period size: 304 Copynumber: 3.1 Consensus size: 298
10166772 TATAATAAAT
* * * * * * * *
10166782 AATGAAGTTTTGATTGAGTGATAAATTTAAAGTTTTACTAATACATTTAGAGCGA-GTCCAACCC
1 AATGAAATTTTGGTTGAGTGATAAATTTAAAATTTTACTAATGCAATT-G-GTGAGGTTCAA--A
* * * * *
10166846 GCACCATATGCATATTTTTATTGGTTTTTGTTAAAATAAAAAGATTAAAATACCCTCGAATAAT-
62 TCACCATATGCAAATTTTTATTGGTTTTTGTTAAAATGAAAAGACTAAAATA-CCTTGAATAATA
* * * * * * *
10166910 -ATGACTTTGATCACGGAA-GACATTTTCGTAATTTCTCTAACCGAGTTGGTGTATGGTTGACTT
126 GATTACTTTAATTACGAAAGGACATTTTCGTAATTTTTCTAATCGAGTTGGTGTATGGTTGACTC
* * *
10166973 GTGACACCAACTCAATCAGAGATTTTATT--AAT-AG--TACAT--ATATACAACTGATGGAAAT
191 GTGACACCAACTCAGTTAGAGATTTTATTAAAATAAGTATATATAGATATACAACTGAT-GAAAT
* * **
10167031 AGTAAATTGTGCATATTAAAATAAAAATGTATAGAATATACAAA
255 AATAAATTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
* *
10167075 AATGAAATTTCAGG-TGAGTGATAAATTTAAAATTTTACTAATGCAATTGGTGAGGTTCAATTTT
1 AATGAAATTT-TGGTTGAGTGATAAATTTAAAATTTTACTAATGCAATTGGTGAGGTTCAA--AT
* * * * *
10167139 CACCTTATGCAAATTTTTATTGGTTTTTGTCAGAATGAAATGGCTAAAATACACTTGAATAATAC
63 CACCATATGCAAATTTTTATTGGTTTTTGTTAAAATGAAAAGACTAAAATAC-CTTGAATAATA-
* * *
10167204 GATTACTTTAATTACGAAAGGACATTTTTGTAATTTTTCTAATCGAGTTTGTGTTTGGTTGACTC
126 GATTACTTTAATTACGAAAGGACATTTTCGTAATTTTTCTAATCGAGTTGGTGTATGGTTGACTC
* *
10167269 ATGACACCAACTCAGTTAGAGGTTTTATTAAAATTAAGTATATATAGATATACAACTGATGAATA
191 GTGACACCAACTCAGTTAGAGATTTTATTAAAA-TAAGTATATATAGATATACAACTGATGAA-A
* * * *
10167334 TAATAAAATGTGCATAGTAAAATAAGAATGCATAAAATATATTAA
254 TAATAAATTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
* * * ** * *
10167379 AATGAAGTTTTGGTTGAGTGGTAAATTTAAGATTTTACTAATGCAATTATTGCGGGTTCAAATCC
1 AATGAAATTTTGGTTGAGTGATAAATTTAAAATTTTACTAATGCAATTGGTG-AGGTTCAAATCA
* * *
10167444 CCCTATGCAAATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATGCCTTCGAATAATATGG
65 CCATATGCAAATTTTTATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCTT-GAATAATA--G
* * * *****
10167509 CTTACTTTAATTACGAAAGGGCATTTTCATAATTTTTCTAATCGAGTTGGTACCCAGTTGACTCG
127 ATTACTTTAATTACGAAAGGACATTTTCGTAATTTTTCTAATCGAGTTGGTGTATGGTTGACTCG
* * * * *
10167574 TGACACCAACTTAGTTAGCGATTTTATTAATAGTAAGTATAGATATAGATATACAACTAATGGAG
192 TGACACCAACTCAGTTAGAGATTTTATTAA-AATAAGTAT--ATATAGATATACAACTGAT-GAA
* * *
10167639 ATAATAATTTGTACATATTAAAATAAAAATATATAAAATATATTAA
253 ATAATAAATTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
** * * * *
10167685 AATGAAACGTTAGTTGAATGGTAAATTTAAGATTT
1 AATGAAATTTTGGTTGAGTGATAAATTTAAAATTT
10167720 CATTAATTTA
Statistics
Matches: 531, Mismatches: 90, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
291 4 0.01
292 58 0.11
293 40 0.08
294 1 0.00
295 14 0.03
296 64 0.12
298 2 0.00
299 1 0.00
300 2 0.00
302 7 0.01
303 58 0.11
304 183 0.34
305 8 0.02
306 87 0.16
307 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (298 bp):
AATGAAATTTTGGTTGAGTGATAAATTTAAAATTTTACTAATGCAATTGGTGAGGTTCAAATCAC
CATATGCAAATTTTTATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCTTGAATAATAGATTA
CTTTAATTACGAAAGGACATTTTCGTAATTTTTCTAATCGAGTTGGTGTATGGTTGACTCGTGAC
ACCAACTCAGTTAGAGATTTTATTAAAATAAGTATATATAGATATACAACTGATGAAATAATAAA
TTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
Found at i:10169072 original size:27 final size:26
Alignment explanation
Indices: 10169036--10169131 Score: 119
Period size: 27 Copynumber: 3.8 Consensus size: 26
10169026 AATTATATTT
*
10169036 TTTTGTATGAATGTTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
10169063 TTTTGTATGAATATTG-CA-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
10169085 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
10169112 TTTTGCATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
10169132 GTGAGGATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
22 16 0.27
23 1 0.02
24 4 0.07
25 4 0.07
26 1 0.02
27 34 0.57
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:10169077 original size:19 final size:19
Alignment explanation
Indices: 10169053--10169110 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
10169043 TGAATGTTGT
10169053 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
10169072 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
10169094 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
10169111 ATTTTGCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:10169104 original size:49 final size:49
Alignment explanation
Indices: 10169032--10169127 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
10169022 GAGAAATTAT
* *
10169032 ATTTTTTTGTATGAATGTTGTAATATTATAATTTTGTATGAATATTGCA
1 ATTTTTTTGTATGAATATTGTAATATTATAATTTTGCATGAATATTGCA
*
10169081 ATTTTTTTGTATGAATATTGTAATATTGTAATTTTGCATGAATATTG
1 ATTTTTTTGTATGAATATTGTAATATTATAATTTTGCATGAATATTG
10169128 TAATGTGAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (49 bp):
ATTTTTTTGTATGAATATTGTAATATTATAATTTTGCATGAATATTGCA
Found at i:10173502 original size:16 final size:15
Alignment explanation
Indices: 10173471--10173512 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
10173461 ACAAAATCAA
*
10173471 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
10173486 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
10173502 ATAAAAATTAA
1 ATAAAAGTTAA
10173513 ATAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:10183838 original size:17 final size:18
Alignment explanation
Indices: 10183811--10183844 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10183801 GTAACTTTTA
*
10183811 AAAGTTAAAACTAAAAAT
1 AAAGTTAAAACCAAAAAT
10183829 AAAG-TAAAACCAAAAA
1 AAAGTTAAAACCAAAAA
10183845 AAGAGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAGTTAAAACCAAAAAT
Found at i:10203077 original size:131 final size:132
Alignment explanation
Indices: 10202878--10203146 Score: 373
Period size: 131 Copynumber: 2.0 Consensus size: 132
10202868 TTAAAACATT
* * * *
10202878 TGAAAAGCTATCGATTCGAAAACGGGATAGTGTGAGCTTCTGAACAATCAGCCTGATATATTCCA
1 TGAAAAGCTACCGATTCGAAAACAGGA-AGTGTGAGCTTCTGAACAATCAGCCTAACATATTCCA
* *
10202943 CAAAGTGACAATGCACAAGGAAAAAGGAAACA-CTGGAGTAAGCACATTGAATGCTTAGTAAGTT
65 CAAAGTGACAATGCACAAGGAAAAAGGAAACATC-GAAGTAAGCACATTGAATGCTTAGTAAGTC
10203007 CATA
129 CATA
* * * *
10203011 TGAAAAGCTACCGATTCGAAAACAGG-AGTGTGAGCTTCTGAACGATCCGTCTAACATATTCTAC
1 TGAAAAGCTACCGATTCGAAAACAGGAAGTGTGAGCTTCTGAACAATCAGCCTAACATATTCCAC
* * * *
10203075 AAAGTGACAATGTACAAGGAAAAGGGAAACATCGAAGTAAGTATATTGAATGCTTAGTAAGTCCA
66 AAAGTGACAATGCACAAGGAAAAAGGAAACATCGAAGTAAGCACATTGAATGCTTAGTAAGTCCA
10203140 TA
131 TA
10203142 T-AAAA
1 TGAAAA
10203147 TTTACTTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
130 4 0.03
131 92 0.76
132 1 0.01
133 24 0.20
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (132 bp):
TGAAAAGCTACCGATTCGAAAACAGGAAGTGTGAGCTTCTGAACAATCAGCCTAACATATTCCAC
AAAGTGACAATGCACAAGGAAAAAGGAAACATCGAAGTAAGCACATTGAATGCTTAGTAAGTCCA
TA
Found at i:10205306 original size:39 final size:39
Alignment explanation
Indices: 10205257--10205366 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 39
10205247 TCGTTACCTG
* * *
10205257 AGGATATGCAACAAAGGCTACATCTTATTATATTACCCA
1 AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
* * * * *
10205296 AGGGTCTGCAACGAATGCTAGATCTCGTTATATTACCTA
1 AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
* *
10205335 AGGATCTACAA-AAAGTGCTAGATCTCGTTATA
1 AGGATCTGCAACAAAG-GCTAGATCTCATTATA
10205367 ATCTATACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
38 2 0.03
39 56 0.97
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
Found at i:10216080 original size:22 final size:22
Alignment explanation
Indices: 10216062--10216104 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10216052 ATAAATATTT
*
10216062 TTTAAAAA-ATATAATAATAAA
1 TTTAAAAATATATAAAAATAAA
10216083 TTTAAAAATATATAAAAATAAA
1 TTTAAAAATATATAAAAATAAA
10216105 AATATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAAATATATAAAAATAAA
Found at i:10216169 original size:21 final size:21
Alignment explanation
Indices: 10216145--10216185 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10216135 AAATTCAAAG
10216145 TAATATATAAAAATA-AATAAA
1 TAATATA-AAAAATATAATAAA
*
10216166 TAATTTAAAAAATATAATAA
1 TAATATAAAAAATATAATAA
10216186 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATATAAAAAATATAATAAA
Found at i:10216176 original size:20 final size:21
Alignment explanation
Indices: 10216153--10216195 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10216143 AGTAATATAT
10216153 AAAAATA-AATAAATAATTTA
1 AAAAATATAATAAATAATTTA
* *
10216173 AAAAATATAATAATTTATTTA
1 AAAAATATAATAAATAATTTA
10216194 AA
1 AA
10216196 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATATAATAAATAATTTA
Found at i:10216889 original size:22 final size:20
Alignment explanation
Indices: 10216853--10216910 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
10216843 GGGCCGGCCC
10216853 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
10216875 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
*
10216896 A-GTATTTTAAAAATA
1 ATTTATTTTAAAAATA
10216911 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 5 0.15
22 7 0.21
23 8 0.24
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:10216921 original size:30 final size:31
Alignment explanation
Indices: 10216878--10216967 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
10216868 ACCAAAAATT
* * **
10216878 TATTTTAAAAATTAAAAAAGTATTTTAAAAA-
1 TATTTT-AAAATTAAAAAAATAATAAAAAAAG
10216909 TATTTTAAAATTAAAAAAATAATAAAAAAAG
1 TATTTTAAAATTAAAAAAATAATAAAAAAAG
*
10216940 TATTTTAAAATTGAAAAAAT--TAAAAAAA
1 TATTTTAAAATTAAAAAAATAATAAAAAAA
10216968 TAAATATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
29 8 0.15
30 20 0.38
31 25 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAATAATAAAAAAAG
Found at i:10216959 original size:40 final size:42
Alignment explanation
Indices: 10216891--10216970 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 42
10216881 TTTAAAAATT
***
10216891 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAATA
1 AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAATA
10216933 AAAAAAGTATTTT-AAAAT-TGAAAAAATTAAAAAAATAA
1 AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAA
10216971 ATATATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 17 0.49
41 5 0.14
42 13 0.37
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (42 bp):
AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAATA
Found at i:10219431 original size:21 final size:19
Alignment explanation
Indices: 10219333--10219474 Score: 90
Period size: 20 Copynumber: 7.7 Consensus size: 19
10219323 CAACTTTTTC
*
10219333 TTTTTTTGAAAATACGAAT
1 TTTTTTTGAAAACACGAAT
*
10219352 TTTTTTT-AAATACAAGAA-
1 TTTTTTTGAAA-ACACGAAT
*
10219370 ---TTTTAAAAACACGAA-
1 TTTTTTTGAAAACACGAAT
**
10219385 -AATTTTG-AAACACGAGAT
1 TTTTTTTGAAAACACGA-AT
10219403 TTTTTTTGAAAACACGAATT
1 TTTTTTTGAAAACACGAA-T
10219423 TTCTTTTTG-AAACACGAA-
1 TT-TTTTTGAAAACACGAAT
* *
10219441 ATTTTTT-AAAACACAAAAT
1 TTTTTTTGAAAACAC-GAAT
10219460 TTATTTTTGAAAACA
1 TT-TTTTTGAAAACA
10219475 TAAAAATTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
15 10 0.10
16 11 0.11
17 16 0.16
18 6 0.06
19 19 0.19
20 25 0.25
21 12 0.12
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (19 bp):
TTTTTTTGAAAACACGAAT
Found at i:10219459 original size:17 final size:17
Alignment explanation
Indices: 10219426--10219461 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10219416 ACGAATTTTC
* *
10219426 TTTTTGAAACACGAAAT
1 TTTTTAAAACACAAAAT
10219443 TTTTTAAAACACAAAAT
1 TTTTTAAAACACAAAAT
10219460 TT
1 TT
10219462 ATTTTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTTTAAAACACAAAAT
Found at i:10219467 original size:37 final size:40
Alignment explanation
Indices: 10219387--10219471 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 40
10219377 AACACGAAAA
* * * *
10219387 TTTTGAAACACGAGATTTTTTTTGAAAACACGAATTTTCT
1 TTTTGAAACACGAGATATTTTTTGAAAACACAAAATTTAT
10219427 TTTTGAAACACGA-A-ATTTTTT-AAAACACAAAATTTAT
1 TTTTGAAACACGAGATATTTTTTGAAAACACAAAATTTAT
10219464 TTTTGAAA
1 TTTTGAAA
10219472 ACATAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 21 0.51
38 6 0.15
39 1 0.02
40 13 0.32
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTGAAACACGAGATATTTTTTGAAAACACAAAATTTAT
Found at i:10219480 original size:22 final size:21
Alignment explanation
Indices: 10219441--10219483 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10219431 GAAACACGAA
* *
10219441 ATTTTTTAAAACACAAAATTT
1 ATTTTTGAAAACAAAAAATTT
10219462 ATTTTTGAAAACATAAAAATTT
1 ATTTTTGAAAACA-AAAAATTT
10219484 TGATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTTTGAAAACAAAAAATTT
Found at i:10219620 original size:56 final size:54
Alignment explanation
Indices: 10219545--10219658 Score: 156
Period size: 56 Copynumber: 2.1 Consensus size: 54
10219535 AAACGGTCAA
* * *
10219545 TTTTTTGAAAACACGAAAATTTTTGAAAGACGGGAATTTTTAAAAACACGGGAAAT
1 TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAA-TTTTAAAAACAC-GAAAAT
* * *
10219601 TTTTTTGAAAATACAAAAATTTTTGAAACACTGGAATTTTGAAAACACGAAAAT
1 TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAATTTTAAAAACACGAAAAT
10219655 TTTT
1 TTTT
10219659 GAAACATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 9 0.17
55 11 0.21
56 32 0.62
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (54 bp):
TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAATTTTAAAAACACGAAAAT
Found at i:10219638 original size:17 final size:18
Alignment explanation
Indices: 10219510--10219750 Score: 142
Period size: 18 Copynumber: 13.5 Consensus size: 18
10219500 ACGAGGATTT
10219510 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
10219527 TTTATT-AAAA-ACGGTCAAT
1 TTT-TTGAAAACAC-G-AAAA
10219546 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
10219564 TTTTTG-AAAGACGGGAA
1 TTTTTGAAAACACGAAAA
* *
10219581 TTTTTAAAAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
* *
10219602 TTTTTGAAAATACAAAAA
1 TTTTTGAAAACACGAAAA
*
10219620 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACAC-GAAAA
10219637 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
10219654 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
*
10219671 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACACGAAAA
* *
10219689 TTTTTTAAAATAC-AAGAA
1 TTTTTGAAAACACGAA-AA
* **
10219707 TTTTAG-AAACACGAATT
1 TTTTTGAAAACACGAAAA
* * *
10219724 TTTTTGGAAACGCGATAA
1 TTTTTGAAAACACGAAAA
*
10219742 TTCTTGAAA
1 TTTTTGAAA
10219751 CGATAAATTT
Statistics
Matches: 166, Mismatches: 40, Indels: 35
0.69 0.17 0.15
Matches are distributed among these distances:
16 6 0.04
17 60 0.36
18 72 0.43
19 13 0.08
20 4 0.02
21 11 0.07
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:10219683 original size:35 final size:35
Alignment explanation
Indices: 10219602--10219693 Score: 134
Period size: 34 Copynumber: 2.7 Consensus size: 35
10219592 ACGGGAAATT
* *
10219602 TTTTTGAAAATACAAAAATTTTTGAAACACTGGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACTGGAA
10219637 -TTTTGAAAACACGAAAATTTTTGAAACA-TGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACTG-GAA
*
10219671 TTTTTGAAAACACGAAATTTTTT
1 TTTTTGAAAACACGAAAATTTTT
10219694 TAAAATACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 2 0.04
34 29 0.56
35 21 0.40
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACTGGAA
Found at i:10219717 original size:35 final size:34
Alignment explanation
Indices: 10219603--10219728 Score: 107
Period size: 34 Copynumber: 3.7 Consensus size: 34
10219593 CGGGAAATTT
* * * * *
10219603 TTTTGAAAATACAAAAATTTTTGAAACACT-GGAA
1 TTTTGAAAACACGAAATTTTTTTAAACA-TAAGAA
* * *
10219637 TTTTGAAAACACGAAAATTTTTGAAACATGAGAA
1 TTTTGAAAACACGAAATTTTTTTAAACATAAGAA
10219671 TTTTTGAAAACACGAAATTTTTTTAAA-ATACAAGAA
1 -TTTTGAAAACACGAAATTTTTTTAAACAT--AAGAA
10219707 TTTT-AGAAACACG-AATTTTTTT
1 TTTTGA-AAACACGAAATTTTTTT
10219729 GGAAACGCGA
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 41 0.51
35 35 0.43
36 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (34 bp):
TTTTGAAAACACGAAATTTTTTTAAACATAAGAA
Found at i:10220576 original size:13 final size:13
Alignment explanation
Indices: 10220560--10220609 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
10220550 TTCCTTTCCC
*
10220560 TTTCTTCTTCCTT
1 TTTCTTCTTCTTT
10220573 TTTCTTCTTTCTTT
1 TTTCTTC-TTCTTT
10220587 TTTC-TC-TCTTT
1 TTTCTTCTTCTTT
*
10220598 TTTATTCTTCTT
1 TTTCTTCTTCTT
10220610 CGGCAACCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 8 0.25
12 2 0.06
13 13 0.41
14 9 0.28
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTCTTCTTT
Found at i:10220586 original size:24 final size:25
Alignment explanation
Indices: 10220559--10220606 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10220549 TTTCCTTTCC
*
10220559 CTTTCTTCT-TCCTTTTTCTTCTTT
1 CTTTCTTCTCTCCTTTTTATTCTTT
* *
10220583 CTTTTTTCTCTCTTTTTTATTCTT
1 CTTTCTTCTCTCCTTTTTATTCTT
10220607 CTTCGGCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (25 bp):
CTTTCTTCTCTCCTTTTTATTCTTT
Found at i:10220721 original size:16 final size:16
Alignment explanation
Indices: 10220689--10220733 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
10220679 TCTCCGCCCC
*
10220689 TTTTCCTTTTC-TTCT
1 TTTTCTTTTTCTTTCT
10220704 TTTTCTTTTTCTTTCT
1 TTTTCTTTTTCTTTCT
* *
10220720 TTGTCTTTCTCTTT
1 TTTTCTTTTTCTTT
10220734 TATTTTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTTCTTTCT
Found at i:10221270 original size:29 final size:29
Alignment explanation
Indices: 10221140--10221271 Score: 70
Period size: 29 Copynumber: 4.5 Consensus size: 29
10221130 AAATATGAGG
* * *
10221140 CCAAAATGTAATTTTTG-GAAAGTTTAGGAA
1 CCAAAATGTAA--TTTGAAAAAATTTAGGGA
* *
10221170 CCCAAATGTAATTT-ATAAAAATTTAGGGG
1 CCAAAATGTAATTTGA-AAAAATTTAGGGA
** * * * * * *
10221199 TTAAGATGAAAATTCAAAAAAATTAGGGG
1 CCAAAATGTAATTTGAAAAAATTTAGGGA
* * *
10221228 TCAAAATATAAATTTGAAAAAGTTTAGGGA
1 CCAAAATGT-AATTTGAAAAAATTTAGGGA
10221258 CCAAAATGTAATTT
1 CCAAAATGTAATTT
10221272 TTTTTATATT
Statistics
Matches: 75, Mismatches: 23, Indels: 9
0.70 0.21 0.08
Matches are distributed among these distances:
28 3 0.04
29 39 0.52
30 33 0.44
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (29 bp):
CCAAAATGTAATTTGAAAAAATTTAGGGA
Found at i:10223311 original size:29 final size:29
Alignment explanation
Indices: 10223181--10223312 Score: 70
Period size: 29 Copynumber: 4.5 Consensus size: 29
10223171 AAATATGAGG
* * *
10223181 CCAAAATGTAATTTTTG-GAAAGTTTAGGAA
1 CCAAAATGTAA--TTTGAAAAAATTTAGGGA
* *
10223211 CCCAAATGTAATTT-ATAAAAATTTAGGGG
1 CCAAAATGTAATTTGA-AAAAATTTAGGGA
** * * * * * *
10223240 TTAAGATGAAAATTCAAAAAAATTAGGGG
1 CCAAAATGTAATTTGAAAAAATTTAGGGA
* * *
10223269 TCAAAATATAAATTTGAAAAAGTTTAGGGA
1 CCAAAATGT-AATTTGAAAAAATTTAGGGA
10223299 CCAAAATGTAATTT
1 CCAAAATGTAATTT
10223313 TTTTTATATT
Statistics
Matches: 75, Mismatches: 23, Indels: 9
0.70 0.21 0.08
Matches are distributed among these distances:
28 3 0.04
29 39 0.52
30 33 0.44
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (29 bp):
CCAAAATGTAATTTGAAAAAATTTAGGGA
Found at i:10234939 original size:31 final size:31
Alignment explanation
Indices: 10234872--10234941 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
10234862 TTGAAATTTA
* *
10234872 AAATTCAAAAATTAAATGGACTAAAATTAAC
1 AAATTTAAAAATTAAATGGACGAAAATTAAC
* * *
10234903 CAATTTAAAAATTACAT-GACGAAAATTGATC
1 AAATTTAAAAATTAAATGGACGAAAATT-AAC
10234934 AAATTTAA
1 AAATTTAA
10234942 GTATATGGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (31 bp):
AAATTTAAAAATTAAATGGACGAAAATTAAC
Found at i:10235117 original size:21 final size:21
Alignment explanation
Indices: 10235093--10235133 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10235083 TCATACATTG
* *
10235093 CATAATTTTATTATAAAAAAT
1 CATAATGTAATTATAAAAAAT
10235114 CATAATGTAATTATAAAAAA
1 CATAATGTAATTATAAAAAA
10235134 AAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
CATAATGTAATTATAAAAAAT
Found at i:10243748 original size:20 final size:21
Alignment explanation
Indices: 10243710--10243753 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10243700 AAAAAATATA
* *
10243710 TAAAATTTAGTCTTTAATT-T
1 TAAAATTTAGGCTTCAATTGT
*
10243730 TAAAATTTAGGGTTCAATTGT
1 TAAAATTTAGGCTTCAATTGT
10243751 TAA
1 TAA
10243754 TACTGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
TAAAATTTAGGCTTCAATTGT
Found at i:10245389 original size:33 final size:33
Alignment explanation
Indices: 10245329--10245395 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
10245319 CATTAAGTGT
* * *
10245329 ATTTTTTTGTTTTAATTGTAAATTGGTCCTTAA
1 ATTTTTTTGTTTTAATTGAAAAGTGGTCCCTAA
*
10245362 ATTTTGTTTGTTTTGATT-AAAAGTGGTCCCTAA
1 ATTTT-TTTGTTTTAATTGAAAAGTGGTCCCTAA
10245395 A
1 A
10245396 CTATCAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.52
Consensus pattern (33 bp):
ATTTTTTTGTTTTAATTGAAAAGTGGTCCCTAA
Found at i:10248200 original size:19 final size:19
Alignment explanation
Indices: 10248173--10248239 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
10248163 GAAATTAGAA
*
10248173 AGATCAAATTATAGTAAAG
1 AGATTAAATTATAGTAAAG
* * *
10248192 AGATTAAATTCGTA-AAAAA
1 AGATTAAATT-ATAGTAAAG
*
10248211 AAATTAAATTATAGTAAAG
1 AGATTAAATTATAGTAAAG
* *
10248230 GGATTCAATT
1 AGATTAAATT
10248240 CGTGAAAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
18 2 0.06
19 31 0.89
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.30
Consensus pattern (19 bp):
AGATTAAATTATAGTAAAG
Found at i:10249591 original size:3 final size:3
Alignment explanation
Indices: 10249585--10249610 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10249575 ACCCCACCAC
10249585 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
10249611 AAATCTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10253816 original size:47 final size:48
Alignment explanation
Indices: 10253702--10253835 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 48
10253692 AACAAGAGGA
* *
10253702 GAACATTCTTAATCAGTTGGCAACTAATTTATGAACATGAGGATAAGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
* * * * *
10253750 GAACATCACTAATCGGTTGGCAACTAATTT-TGAGCTTGAA-AGT-AGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGA-TAAGG
* * *
10253796 GAAACATTGTTAATCAGTTGGAAACTAATTTAGGAACATG
1 G-AACATTATTAATCAGTTGGCAACTAATTTATGAACATG
10253836 TGACATATCT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
46 5 0.07
47 32 0.47
48 31 0.46
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (48 bp):
GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
Found at i:10275321 original size:15 final size:15
Alignment explanation
Indices: 10275302--10275337 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10275292 ATTTTAATAG
10275302 AAAAATGAATATTGT
1 AAAAATGAATATTGT
* *
10275317 GAAAATGAATGTTGT
1 AAAAATGAATATTGT
10275332 AAAAAT
1 AAAAAT
10275338 TTTGGTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:10275376 original size:2 final size:2
Alignment explanation
Indices: 10275369--10275422 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
10275359 GCTTTATCGT
10275369 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10275411 TC TC TC TC TC TC
1 TC TC TC TC TC TC
10275423 CCTTATTTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10276805 original size:33 final size:33
Alignment explanation
Indices: 10276758--10276824 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
10276748 CCTTCACTCC
**
10276758 TTAGCCTTTTCTTTTCCCTTTTCTTCAATTAGG
1 TTAGCCTTCACTTTTCCCTTTTCTTCAATTAGG
*
10276791 TTAGCCTTCACTTTTCCTTTTTCTTCAATTAGG
1 TTAGCCTTCACTTTTCCCTTTTCTTCAATTAGG
10276824 T
1 T
10276825 CCTCTCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.13, C:0.24, G:0.09, T:0.54
Consensus pattern (33 bp):
TTAGCCTTCACTTTTCCCTTTTCTTCAATTAGG
Found at i:10279165 original size:22 final size:22
Alignment explanation
Indices: 10279104--10279167 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
10279094 TGCTGATCAA
* **
10279104 AGAGCATCAAAGTGCTAAGTAG
1 AGAGCACCAAAGTGCTAAACAG
*
10279126 AGAGCACCAAAGTACTAAACAG
1 AGAGCACCAAAGTGCTAAACAG
* *
10279148 AGAGCACCGAGGTGCTAAAC
1 AGAGCACCAAAGTGCTAAAC
10279168 CCGTACAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTAAACAG
Found at i:10282765 original size:14 final size:14
Alignment explanation
Indices: 10282746--10282773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10282736 ATAATTTATT
10282746 AATATATATTAATA
1 AATATATATTAATA
10282760 AATATATATTAATA
1 AATATATATTAATA
10282774 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:10282918 original size:14 final size:14
Alignment explanation
Indices: 10282895--10282934 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10282885 ACAGAAAAGT
*
10282895 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
10282909 AAATCATTTTACGG
1 AAAACATTTTACAG
10282923 AAAACATTTTAC
1 AAAACATTTTAC
10282935 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:10282926 original size:34 final size:35
Alignment explanation
Indices: 10282860--10282926 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10282850 CAAACACCAG
* *
10282860 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10282895 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10282927 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10290614 original size:282 final size:272
Alignment explanation
Indices: 10289924--10290706 Score: 855
Period size: 282 Copynumber: 2.8 Consensus size: 272
10289914 TCATGTGAGC
* * * * * * *
10289924 CATCAACTCATTC-TCACACTAGTAGTAAACATTATTTTCAGCTATCATTTTCGAAAC-GCTCGG
1 CATCAACTCATTCACCATACCAGTAGTTAACATTATTGTCAGCTATCATTTTCGAAACAACTC-C
* * * ** *
10289987 A-TCCCAAACCAAACCACTTCTTGCTGACATCGTATCCTTTA-TTCCCCATCC-CAATAACTAAA
65 ACCCCCAAACCAAACCACTTCTAGCTGATATTATATCC-TTACTTTCCCATCCTCAATAACTAAA
* * * * *
10290049 ACTAAATCTTACTTTTCCACAAACAATTACTTTTGATTGCCAAAAGGAAGTCCTAAAATAAACCC
129 ATTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAA-TAAGTCTTAAAATAAA-CC
* * * *
10290114 CATTCGAATACCCCAATAATACAATTAT--CAGTCATTACCACTCTTTCAACAAGTCACATCTTC
192 CATTCAAACACCCCAATAATACAATTATCACAGTCATTACCACTCTTCCAACAAGTCACATCTAC
*
10290177 CATGTGTTCTATGTAA
257 AATGTGTTCTATGTAA
* * *
10290193 GATCAATTCATTCACCATACCAGTAGTTAACATTATTGTCGGCTATCATTTTCGAAACAACTCCA
1 CATCAACTCATTCACCATACCAGTAGTTAACATTATTGTCAGCTATCATTTTCGAAACAACTCCA
* * *
10290258 CCCCCAAACCAAACCATTTCTAGCTGATATTATATCCTTACTTTCCCATCCTCAATAACTGAACT
66 CCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTACTTTCCCATCCTCAATAACTAAAAT
* * * *
10290323 TAAATCTTCCTTTTCCACAGACAATGACTTTTGGTTGCCAAATTATAGTCTTAAAATAAACCCAT
131 TAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AGTCTTAAAATAAACCCAT
* * * *
10290388 TCAAACGCCCCAATAATAGAATTATCACAGTCATTATCACTCTTCCAACAAG-CTGCATCTACAA
195 TCAAACACCCCAATAATACAATTATCACAGTCATTACCACTCTTCCAACAAGTC-ACATCTACAA
*
10290452 TGTGTTCTTTGTAA
259 TGTGTTCTATGTAA
* * * * *
10290466 TCCATCAACTCATTCACCATATCAGTAGTTAACTTTCTTTTCAGCTATCATTTT-GAAACAGCTC
1 --CATCAACTCATTCACCATACCAGTAGTTAACATTATTGTCAGCTATCATTTTCGAAACAACTC
* * *
10290530 CACCCCCAAACCTAACCACTTCTAGCTGATATTATATGATTATATCCTTATTTTTCCATCCTCAA
64 CACCCCCAAACCAAACCACTTCTAGCTG-------AT-ATTATATCCTTACTTTCCCATCCTCAA
* * * *
10290595 TAACTAAAATTAGATCTTCCCTTTCCACAAACAACCACTTTTGATTGCCAAAATACAGTTCTAAA
121 TAACTAAAATTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AG-TCTTAA
* * * *
10290660 AATAAACCCATTCAAACACCCTAATGATACAATCATCACAATCATTA
184 AATAAACCCATTCAAACACCCCAATAATACAATTATCACAGTCATTA
10290707 GCAGGACAAA
Statistics
Matches: 428, Mismatches: 66, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
269 11 0.03
270 42 0.10
271 69 0.16
272 62 0.14
273 43 0.10
274 35 0.08
275 45 0.11
281 2 0.00
282 73 0.17
283 46 0.11
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (272 bp):
CATCAACTCATTCACCATACCAGTAGTTAACATTATTGTCAGCTATCATTTTCGAAACAACTCCA
CCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTACTTTCCCATCCTCAATAACTAAAAT
TAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATAAGTCTTAAAATAAACCCATT
CAAACACCCCAATAATACAATTATCACAGTCATTACCACTCTTCCAACAAGTCACATCTACAATG
TGTTCTATGTAA
Found at i:10292361 original size:32 final size:29
Alignment explanation
Indices: 10292325--10292389 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
10292315 TTAATAAATG
*
10292325 AATATACATAATTATTAAATATTAAATTAAAA
1 AATATAAAT-ATTATTAAA-A-TAAATTAAAA
* *
10292357 AATATAAATATTTTTAAAATAAATTTAAA
1 AATATAAATATTATTAAAATAAATTAAAA
10292386 AATA
1 AATA
10292390 ATATGAGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 1 0.03
31 8 0.27
32 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATAAATATTATTAAAATAAATTAAAA
Found at i:10292393 original size:32 final size:34
Alignment explanation
Indices: 10292307--10292393 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 34
10292297 TTATTTATTT
* *
10292307 ATATAATTTTAATAAATGAATATACATAATTATTAA
1 ATATAAATTTAA-AAAT-AATATAAATAATTATTAA
*
10292343 ATATTAAA-TT-AAAA-AATATAAAT-ATTTTTAA
1 ATA-TAAATTTAAAAATAATATAAATAATTATTAA
10292374 A-ATAAATTTAAAAATAATAT
1 ATATAAATTTAAAAATAATAT
10292394 GAGTGGACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 12 0.27
32 13 0.30
34 3 0.07
35 1 0.02
36 5 0.11
37 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATAAATTTAAAAATAATATAAATAATTATTAA
Found at i:10301683 original size:10 final size:10
Alignment explanation
Indices: 10301668--10301719 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
10301658 CATTAATTTG
10301668 TATTTTAAAT
1 TATTTTAAAT
*
10301678 TATTTTTTATAT
1 TA--TTTTAAAT
10301690 GTATTTTAAAT
1 -TATTTTAAAT
*
10301701 TATTTT-TAT
1 TATTTTAAAT
10301710 TATTTTAAAT
1 TATTTTAAAT
10301720 ATAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 7 0.21
12 7 0.21
13 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:10301746 original size:21 final size:21
Alignment explanation
Indices: 10301712--10301753 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10301702 ATTTTTATTA
* *
10301712 TTTTAAATATAAAATATTTAT
1 TTTTAAATAAAAAATAGTTAT
*
10301733 TTTTACATAAAAAATAGTTAT
1 TTTTAAATAAAAAATAGTTAT
10301754 AAAAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAAATAAAAAATAGTTAT
Found at i:10304686 original size:12 final size:11
Alignment explanation
Indices: 10304671--10304704 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
10304661 AAGGGGCCTT
10304671 AAGAGAAAAAAA
1 AAGA-AAAAAAA
10304683 AAGAAAAAGAAA
1 AAGAAAAA-AAA
10304695 AAGAAAAAAA
1 AAGAAAAAAA
10304705 GGTGTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:10310825 original size:26 final size:26
Alignment explanation
Indices: 10310789--10310840 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10310779 ATAGATTATG
10310789 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
10310815 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
10310841 CTCTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
GTGCATTGTAATGAGCTAGCGGCACT
Found at i:10316189 original size:16 final size:17
Alignment explanation
Indices: 10316168--10316200 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10316158 GACTCGAGTA
10316168 ATTTTAAATTT-AAATT
1 ATTTTAAATTTGAAATT
*
10316184 ATTTTAAGTTTGAAATT
1 ATTTTAAATTTGAAATT
10316201 TAAGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTGAAATT
Found at i:10318320 original size:18 final size:17
Alignment explanation
Indices: 10318273--10318322 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
10318263 TAAAAATAAC
*
10318273 TATAATAATAGTAAAGA
1 TATAATAATAATAAAGA
*
10318290 TGATAATAGTAATAATAGA
1 T-ATAATAATAATAA-AGA
10318309 TATAATAATAATAA
1 TATAATAATAATAA
10318323 CTAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.82
19 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
TATAATAATAATAAAGA
Found at i:10340760 original size:47 final size:48
Alignment explanation
Indices: 10340683--10340821 Score: 158
Period size: 48 Copynumber: 2.9 Consensus size: 48
10340673 TTGCACATCG
* * * * *
10340683 TCACATATCACACACCGAAGCCATAGCCCAGCTATGATCTTACAC-AGAAA
1 TCACATAT--CACATCGATGCCATATCCCAGATATGGTCTTACACGA-AAA
* *
10340733 -CACATATTACA-CTGATGCCATATCCCAGATATGGTCTTACTCGAAAA
1 TCACATATCACATC-GATGCCATATCCCAGATATGGTCTTACACGAAAA
10340780 TCACATATCACATCGATGCCATATCCCAGATATGGTCTTACA
1 TCACATATCACATCGATGCCATATCCCAGATATGGTCTTACA
10340822 TGGATCACAT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
46 1 0.01
47 30 0.39
48 38 0.49
49 8 0.10
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (48 bp):
TCACATATCACATCGATGCCATATCCCAGATATGGTCTTACACGAAAA
Found at i:10340887 original size:51 final size:51
Alignment explanation
Indices: 10340832--10340944 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
10340822 TGGATCACAT
*
10340832 TTATCACTTGTCACTCGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
10340883 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
10340934 TTATCACTTGT
1 TTATCACTTGT
10340945 TACTGATTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:10349472 original size:7 final size:7
Alignment explanation
Indices: 10349462--10349499 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
10349452 TATTTTATAG
10349462 TTTAAAT
1 TTTAAAT
10349469 TTTAAAT
1 TTTAAAT
10349476 TTTAAAT
1 TTTAAAT
*
10349483 TTTAAAG
1 TTTAAAT
10349490 TTT-AAT
1 TTTAAAT
10349496 TTTA
1 TTTA
10349500 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (7 bp):
TTTAAAT
Found at i:10349472 original size:14 final size:14
Alignment explanation
Indices: 10349453--10349499 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
10349443 ATTTTAGTTT
*
10349453 ATTTTATAGTTTAA
1 ATTTTAAAGTTTAA
*
10349467 ATTTTAAATTTTAA
1 ATTTTAAAGTTTAA
10349481 ATTTTAAAGTTT-A
1 ATTTTAAAGTTTAA
10349494 ATTTTA
1 ATTTTA
10349500 TTTAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 7 0.23
14 23 0.77
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
ATTTTAAAGTTTAA
Found at i:10349477 original size:21 final size:20
Alignment explanation
Indices: 10349448--10349500 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
10349438 GAGCTATTTT
10349448 AGTTT-ATTTTATAGTTTAA
1 AGTTTAATTTTATAGTTTAA
* * *
10349467 ATTTTAAATTTTAAATTTTAA
1 AGTTT-AATTTTATAGTTTAA
10349488 AGTTTAATTTTAT
1 AGTTTAATTTTAT
10349501 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 16 0.59
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
AGTTTAATTTTATAGTTTAA
Found at i:10349510 original size:15 final size:15
Alignment explanation
Indices: 10349490--10349522 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10349480 AATTTTAAAG
10349490 TTTAATTTTATTTAA
1 TTTAATTTTATTTAA
*
10349505 TTTAATTTTATTTTA
1 TTTAATTTTATTTAA
10349520 TTT
1 TTT
10349523 TTAGATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTAATTTTATTTAA
Found at i:10352323 original size:29 final size:30
Alignment explanation
Indices: 10352272--10352334 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
10352262 TTGGTTTTGG
* *
10352272 GTTTAGGCTAGTTGAGTTTGGGTTAAAGCT
1 GTTTAGGATAGTGGAGTTTGGGTTAAAGCT
*
10352302 GTTTAGGATAGTGGA-TTTGGGTTAAAGTT
1 GTTTAGGATAGTGGAGTTTGGGTTAAAGCT
10352331 GTTT
1 GTTT
10352335 TTGGGTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.43
Consensus pattern (30 bp):
GTTTAGGATAGTGGAGTTTGGGTTAAAGCT
Found at i:10352349 original size:30 final size:29
Alignment explanation
Indices: 10352288--10352349 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10352278 GCTAGTTGAG
*
10352288 TTTGGGTTAAAGCTGTTTAGGATAGTGGA
1 TTTGGGTTAAAGCTGTTTAGGATAATGGA
* * *
10352317 TTTGGGTTAAAGTTGTTTTTGGGTAATGGA
1 TTTGGGTTAAAGCTG-TTTAGGATAATGGA
10352347 TTT
1 TTT
10352350 AGGCCGTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (29 bp):
TTTGGGTTAAAGCTGTTTAGGATAATGGA
Found at i:10352886 original size:98 final size:98
Alignment explanation
Indices: 10352717--10353209 Score: 363
Period size: 98 Copynumber: 5.1 Consensus size: 98
10352707 TTTGCTATTG
** * * *
10352717 TAGCTTCAATCTGATGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGACCCTTTGTTTTAATC
1 TAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGCTTTAATC
* *
10352782 CGCTCCACTGTAATCTCAGGGAGATAGGATTAC
66 TGCTCCACTGTAATCTCAGGGAGATAAGATTAC
10352815 TAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGCTTTAATC
1 TAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGCTTTAATC
*
10352880 TGCTCCACTGTAATCTGAGGGAGATAAGATTAC
66 TGCTCCACTGTAATCTCAGGGAGATAAGATTAC
* * *
10352913 TAGCTTCAAT-T--T--G---T--TCTGCTGTAA-TCTCAGGGAGATAAGAT--TTCTGGCTTCA
1 TAGCTTCAATCTGATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCATT-T-GCTTTA
** *
10352965 ATCTGATGCGATCTACTCTACTGTAA-CTTCAGATAGATAAGA-TCC
63 ATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTAC
* * * * * * * *
10353010 TTTG-TT---T-TAATCCG-T-T-C-C-ACTGTAA-TCTCAGGGAGATAAGATTACTAGCTTCAA
1 -TAGCTTCAATCTGATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCATTTGCTTTAA
* *
10353064 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTC
64 TCTGCTCCACTGTAATCTCAGGGAGATAAGATTAC
* * * *
10353099 TGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATC
1 TAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGCTTTAATC
** * *
10353164 CACTCCACTGTAATCTCAGGGAGATAGGATCAC
66 TGCTCCACTGTAATCTCAGGGAGATAAGATTAC
*
10353197 AAGCTTCAATCTG
1 TAGCTTCAATCTG
10353210 CTCTGCTGTA
Statistics
Matches: 317, Mismatches: 42, Indels: 72
0.74 0.10 0.17
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 51 0.16
89 6 0.02
90 2 0.01
91 3 0.01
92 1 0.00
93 7 0.02
94 3 0.01
95 5 0.02
96 3 0.01
97 8 0.03
98 220 0.69
99 3 0.01
100 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (98 bp):
TAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTGCTTTAATC
TGCTCCACTGTAATCTCAGGGAGATAAGATTAC
Found at i:10352905 original size:44 final size:44
Alignment explanation
Indices: 10352833--10353237 Score: 203
Period size: 44 Copynumber: 8.8 Consensus size: 44
10352823 ATCTGATGCG
* * * *
10352833 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTGCTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
* * * *
10352877 ATCTGCTCCACTGTAATCTGAGGGAGATAAGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
* * **
10352921 ATTTGTTCTGCTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATT-T-GCTTCA
** * * *
10352965 ATCTGATGCGATCTACTCTACTGTAA-CTTCAGATAGATAAGATCCTTTGTTTTA
1 ATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
* * * * *
10353019 ATCCGTTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
*
10353063 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATT-T-GCTTCA
* * * *
10353107 ATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATC-----TG--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATCATTTGCTTCA
** * ***
10353161 ATCCACTCCACTGTAATCTCAGGGAGATAGGATCACAAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
**
10353205 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
10353238 TTCTAGCTTC
Statistics
Matches: 271, Mismatches: 57, Indels: 66
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
44 187 0.69
45 5 0.02
46 2 0.01
47 4 0.01
49 4 0.01
51 3 0.01
52 2 0.01
53 3 0.01
54 53 0.20
55 2 0.01
56 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCATTTGCTTCA
Found at i:10353003 original size:142 final size:142
Alignment explanation
Indices: 10352789--10353248 Score: 758
Period size: 142 Copynumber: 3.2 Consensus size: 142
10352779 ATCCGCTCCA
* *
10352789 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
* * * *
10352854 GAGAGATAAGATCATTTGCTTTAATCTGCTCCACTGTAATCTGAGGGAGATAAGATTACTAGCTT
66 GAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTT
* *
10352919 CAATTTGTTCTG
131 CAATCTGCTCTG
*
10352931 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
* *
10352996 GATAGATAAGATCCTTTGTTTTAATCCGTTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTT
66 GAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTT
*
10353061 CAATCTGCTCCG
131 CAATCTGCTCTG
* *
10353073 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
* * * *
10353138 GAGAGATAAGATCCTTTGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATCACAAGCTT
66 GAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTT
10353203 CAATCTGCTCTG
131 CAATCTGCTCTG
10353215 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCA
1 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCA
10353249 GTCTACCCTA
Statistics
Matches: 297, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 297 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
GAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTT
CAATCTGCTCTG
Found at i:10353350 original size:44 final size:44
Alignment explanation
Indices: 10353301--10353385 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
10353291 CTGTCTACTA
* *
10353301 CACTACTGCTTAGGGAGATAAGACTCGTAAT-TTCCAATCTATTC
1 CACTACTGCTCAGGGACATAAGACTCGTAATCTT-CAATCTATTC
* * *
10353345 CACTACTGGTCAGGGACATAGGACTTGTAATCTTCAATCTA
1 CACTACTGCTCAGGGACATAAGACTCGTAATCTTCAATCTA
10353386 CTTCACTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CACTACTGCTCAGGGACATAAGACTCGTAATCTTCAATCTATTC
Found at i:10358032 original size:31 final size:31
Alignment explanation
Indices: 10357997--10358058 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
10357987 TTTTCACCTC
10357997 TTTCCCCTCCTCTAGGCTCACAATTTCTAAT
1 TTTCCCCTCCTCTAGGCTCACAATTTCTAAT
*
10358028 TTTCCCTTCCTCTAGGCTCACAATTTCTAAT
1 TTTCCCCTCCTCTAGGCTCACAATTTCTAAT
10358059 GATTCCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.34, G:0.06, T:0.40
Consensus pattern (31 bp):
TTTCCCCTCCTCTAGGCTCACAATTTCTAAT
Found at i:10365069 original size:29 final size:29
Alignment explanation
Indices: 10365018--10365095 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
10365008 TTGGTTTTGG
* *
10365018 GTTTAGGCTAGTTGGGTTTGGGTTAAAGCT
1 GTTTAGGATAG-TGGATTTGGGTTAAAGCT
*
10365048 GTTTAGGATAGTGGATTTGGGTTAAAGTT
1 GTTTAGGATAGTGGATTTGGGTTAAAGCT
* *
10365077 GTTTTTGGGTAGTGGATTT
1 G-TTTAGGATAGTGGATTT
10365096 AGGCCGTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 17 0.40
30 25 0.60
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.44
Consensus pattern (29 bp):
GTTTAGGATAGTGGATTTGGGTTAAAGCT
Found at i:10368062 original size:57 final size:57
Alignment explanation
Indices: 10367974--10368089 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
10367964 AAATGATTAA
* *
10367974 ATCTCCATACCTAATTGACAGCAGAAAGTTTTAAGGGTTTAAAAGCTTTCTTTCCCT
1 ATCTCCATACCTAATTGACAGCAGAAAGTTTTAAGGGTTTAAAAACTTTCTATCCCT
*
10368031 ATCTCCATACCTAATTGATAGCAGAAAGTTTTAAGGGTTTAAAAACTTTCTATCCCT
1 ATCTCCATACCTAATTGACAGCAGAAAGTTTTAAGGGTTTAAAAACTTTCTATCCCT
10368088 AT
1 AT
10368090 TATTCTTCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (57 bp):
ATCTCCATACCTAATTGACAGCAGAAAGTTTTAAGGGTTTAAAAACTTTCTATCCCT
Found at i:10369550 original size:16 final size:16
Alignment explanation
Indices: 10369529--10369572 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
10369519 TGTTTTCAAT
10369529 TTAATTTTTTATTTTA
1 TTAATTTTTTATTTTA
*
10369545 TTAATTTATTAATTTTA
1 TTAATTT-TTTATTTTA
**
10369562 TGGATTTTTTA
1 TTAATTTTTTA
10369573 AAGATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTAATTTTTTATTTTA
Found at i:10374595 original size:14 final size:13
Alignment explanation
Indices: 10374566--10374600 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10374556 CCAAAACCAA
*
10374566 TAAAAAAACTTAT
1 TAAAAATACTTAT
10374579 TAAAAATACTTATT
1 TAAAAATACTTA-T
10374593 TAAAAATA
1 TAAAAATA
10374601 ATCCGGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAATACTTAT
Found at i:10378334 original size:44 final size:44
Alignment explanation
Indices: 10378271--10378385 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
10378261 CAGTGGAATC
* *
10378271 GATCGGAAAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTA
1 GATCGGAAAAAGCAGATCTTGTCTTCATGTACTGACATGAAGTA
*
10378315 GATCGGAGAAAA-CAGATCTTGTCTTCATGTACTGGCATGAAGTA
1 GATCGGA-AAAAGCAGATCTTGTCTTCATGTACTGACATGAAGTA
**
10378359 GATCAAAAATAAGCAGATCTTGTCTTC
1 GATCGGAAA-AAGCAGATCTTGTCTTC
10378386 CCATACTGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 43 0.68
45 18 0.29
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
GATCGGAAAAAGCAGATCTTGTCTTCATGTACTGACATGAAGTA
Found at i:10379789 original size:3 final size:3
Alignment explanation
Indices: 10379781--10379948 Score: 309
Period size: 3 Copynumber: 56.0 Consensus size: 3
10379771 AATCATGTTA
10379781 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10379829 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10379877 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10379925 CAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
10379949 AGTTATTGCT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 161 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10380397 original size:21 final size:24
Alignment explanation
Indices: 10380357--10380407 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 24
10380347 TTAAACACAT
10380357 ATTTTTTATATATAATATATACAC
1 ATTTTTTATATATAATATATACAC
10380381 ATTTTTT-TA-AT-ATATAT--AC
1 ATTTTTTATATATAATATATACAC
10380400 ATTTTTTA
1 ATTTTTTA
10380408 AAGCTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.35
21 6 0.23
22 2 0.08
23 2 0.08
24 7 0.27
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTTATATATAATATATACAC
Found at i:10381533 original size:19 final size:19
Alignment explanation
Indices: 10381504--10381557 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 19
10381494 TTTTTCACAT
10381504 AAAAATGATTAAAAATTCAA
1 AAAAAT-ATTAAAAATTCAA
*
10381524 AAAAATATTATAAAA---AT
1 AAAAATATTA-AAAATTCAA
10381541 AAAAATATT-AAAATTCA
1 AAAAATATTAAAAATTCA
10381558 TATAAACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
15 4 0.14
17 10 0.34
18 1 0.03
19 4 0.14
20 10 0.34
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATATTAAAAATTCAA
Found at i:10381562 original size:20 final size:19
Alignment explanation
Indices: 10381497--10381575 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 19
10381487 TCTAATATTT
10381497 TTCACATAAAAATGATTAAAAA
1 TTCA-ATAAAAAT-ATT-AAAA
10381519 TTCAA-AAAAATATTATAAA
1 TTCAATAAAAATATTA-AAA
10381538 ---AATAAAAATATTAAAA
1 TTCAATAAAAATATTAAAA
**
10381554 TTCATATAAACTTATTAAAA
1 TTCA-ATAAAAATATTAAAA
10381574 TT
1 TT
10381576 ATAAAATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 5 0.10
17 10 0.20
18 1 0.02
19 7 0.14
20 21 0.43
21 1 0.02
22 4 0.08
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (19 bp):
TTCAATAAAAATATTAAAA
Found at i:10381593 original size:29 final size:27
Alignment explanation
Indices: 10381561--10381619 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
10381551 AAATTCATAT
10381561 AAACTTATTAAA-ATTATAAAATAATATAA
1 AAACTTA-TAAATATTAT-AAA-AATATAA
10381590 AAACTTATAAATATTATAAAAATATAA
1 AAACTTATAAATATTATAAAAATATAA
10381617 AAA
1 AAA
10381620 TTCTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 10 0.34
28 7 0.24
29 12 0.41
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
AAACTTATAAATATTATAAAAATATAA
Found at i:10381601 original size:27 final size:26
Alignment explanation
Indices: 10381561--10381646 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 26
10381551 AAATTCATAT
10381561 AAACTTATTAAAATTATAAAATAATATAA
1 AAACTTA-T-AAATTATAAAA-AATATAA
10381590 AAACTTATAAA-TATTATAAAAATATAA
1 AAACTTATAAATTA-TA-AAAAATATAA
* * **
10381617 AAATTCTAATAAATAATAAAAGCTATAA
1 AAA--CTTATAAATTATAAAAAATATAA
10381645 AA
1 AA
10381647 TTAATAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
26 2 0.04
27 15 0.31
28 14 0.29
29 16 0.33
30 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (26 bp):
AAACTTATAAATTATAAAAAATATAA
Found at i:10381609 original size:66 final size:65
Alignment explanation
Indices: 10381539--10381781 Score: 176
Period size: 66 Copynumber: 3.9 Consensus size: 65
10381529 TATTATAAAA
10381539 ATAAAAATATTAAAATTCATATAAACTTATTAAAATTATAAAATAAT-ATAAAAACTTATAAATA
1 ATAAAAATATTAAAATTCATATAAACTTATTAAAATTATAAAA-AATAATAAAAAC-TATAAATA
10381603 TT
64 TT
* * * *
10381605 ATAAAAATATAAAAATTC-TAATAAA--TAATAAAAGCTAT-AAAATTAAT-AAAA-T-T---TA
1 ATAAAAATATTAAAATTCAT-ATAAACTTATTAAAA-TTATAAAAAATAATAAAAACTATAAATA
10381660 TT
64 TT
* ** * * * *
10381662 -T-AAAATATTAAATATT-A-AAAATTTTATTAGAATTCTTTAAAAATAATAAAAACTATAAAAA
1 ATAAAAATATTAAA-ATTCATATAAACTTATTAAAATT-ATAAAAAATAATAAAAACTAT-AAAT
10381723 ATT
63 ATT
* * *
10381726 ATAAAAATATTAAAATTGATATAAACTTA-TAAAAATACTAAAAAATCATAAAAACT
1 ATAAAAATATTAAAATTCATATAAACTTATTAAAATTA-TAAAAAATAATAAAAACT
10381782 TGAACTGGAT
Statistics
Matches: 135, Mismatches: 21, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
54 3 0.02
55 11 0.08
56 11 0.08
57 12 0.09
58 4 0.03
59 1 0.01
60 2 0.01
61 1 0.01
63 6 0.04
64 15 0.11
65 8 0.06
66 55 0.41
67 6 0.04
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (65 bp):
ATAAAAATATTAAAATTCATATAAACTTATTAAAATTATAAAAAATAATAAAAACTATAAATATT
Found at i:10381620 original size:19 final size:19
Alignment explanation
Indices: 10381502--10381620 Score: 65
Period size: 19 Copynumber: 6.4 Consensus size: 19
10381492 TATTTTTCAC
*
10381502 ATAAAAATGATTA-AAAATT
1 ATAAAAAT-ATTATAAAAAT
*
10381521 CAAAAAAATATTAT-AAAA-
1 -ATAAAAATATTATAAAAAT
*
10381539 ATAAAAATA-T-TAAAATT
1 ATAAAAATATTATAAAAAT
* * *
10381556 CATATAAA-CTTATTAAAAT
1 -ATAAAAATATTATAAAAAT
*
10381575 -TATAAAATAATATAAAAACT
1 ATA-AAAATATTATAAAAA-T
*
10381595 -TATAAATATTATAAAAAT
1 ATAAAAATATTATAAAAAT
10381613 ATAAAAAT
1 ATAAAAAT
10381621 TCTAATAAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
15 1 0.01
16 4 0.05
17 10 0.14
18 11 0.15
19 38 0.51
20 10 0.14
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAAAAATATTATAAAAAT
Found at i:10381628 original size:29 final size:29
Alignment explanation
Indices: 10381525--10381631 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 29
10381515 AAAATTCAAA
*
10381525 AAAATATTATAAAAA-TAA-AAATATTA-
1 AAAATAATATAAAAACTAATAAATATTAT
* * *
10381551 AAATTCATAT--AAACTTATTAAA-ATTAT
1 AAAATAATATAAAAAC-TAATAAATATTAT
*
10381578 AAAATAATATAAAAACTTATAAATATTAT
1 AAAATAATATAAAAACTAATAAATATTAT
10381607 -AAA-AATATAAAAATTCTAATAAATA
1 AAAATAATATAAAAA--CTAATAAATA
10381632 ATAAAAGCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
24 3 0.05
26 13 0.21
27 21 0.33
28 8 0.13
29 18 0.29
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATAATATAAAAACTAATAAATATTAT
Found at i:10381635 original size:19 final size:17
Alignment explanation
Indices: 10381525--10381779 Score: 70
Period size: 19 Copynumber: 13.8 Consensus size: 17
10381515 AAAATTCAAA
10381525 AAAATATTAT-AAAA-AT
1 AAAA-ATTATAAAAATAT
*
10381541 AAAAA-TATTAAAATTCAT
1 AAAAATTA-TAAAAAT-AT
* *
10381559 ATAAACTTATTAAAATTAT
1 A-AAAATTA-TAAAAATAT
*
10381578 AAAATAATATAAAAACTTAT
1 AAAA-ATTATAAAAA--TAT
*
10381598 AAATATTATAAAAATAT
1 AAAAATTATAAAAATAT
*
10381615 AAAAATTCTAATAAATAAT
1 AAAAATTATAA-AAAT-AT
** *
10381634 AAAAGCTATAAAATTAAT
1 AAAAATTATAAAAAT-AT
* *
10381652 AAAATTTATTTAAAATATT
1 AAAAATTA-TAAAAATA-T
* *
10381671 AAATATTA-AAAATTTTATT
1 AAAAATTATAAAA--ATA-T
* * *
10381690 AGAATTCTTTAAAAATAAT
1 AAAAAT-TATAAAAAT-AT
*
10381709 AAAAACTATAAAAAATTAT
1 AAAAATTAT-AAAAA-TAT
*
10381728 AAAAA-TATTAAAATTGAT
1 AAAAATTA-TAAAAAT-AT
*
10381746 ATAAACTTATAAAAATACT
1 A-AAAATTATAAAAATA-T
*
10381765 AAAAAATCATAAAAA
1 -AAAAATTATAAAAA
10381780 CTTGAACTGG
Statistics
Matches: 178, Mismatches: 35, Indels: 49
0.68 0.13 0.19
Matches are distributed among these distances:
14 2 0.01
15 2 0.01
16 7 0.04
17 16 0.09
18 40 0.22
19 85 0.48
20 22 0.12
21 4 0.02
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAAATTATAAAAATAT
Found at i:10381683 original size:9 final size:9
Alignment explanation
Indices: 10381524--10381740 Score: 58
Period size: 9 Copynumber: 23.4 Consensus size: 9
10381514 AAAAATTCAA
10381524 AAAAATATT
1 AAAAATATT
10381533 ATAAAA-A-T
1 A-AAAATATT
10381541 AAAAATATT
1 AAAAATATT
*
10381550 AAAATTCATAT
1 AAAAAT-AT-T
**
10381561 AAACTTATT
1 AAAAATATT
* *
10381570 AAAATTATA
1 AAAAATATT
10381579 AAATAATA-T
1 AAA-AATATT
*
10381588 AAAAA-CTT
1 AAAAATATT
*
10381596 ATAAATATT
1 AAAAATATT
10381605 ATAAAA-ATAT
1 A-AAAATAT-T
10381615 AAAAAT-TCT
1 AAAAATAT-T
*
10381624 AATAAATAAT
1 AA-AAATATT
*
10381634 AAAAGCTA-T
1 AAAA-ATATT
* *
10381643 AAAATTAAT
1 AAAAATATT
*
10381652 AAAATTTATT
1 AAAA-ATATT
*
10381662 TAAAATATT
1 AAAAATATT
10381671 --AAATATT
1 AAAAATATT
10381678 AAAAATTTTATT
1 AAAAA---TATT
* * *
10381690 AGAATTCTTT
1 AAAAAT-ATT
*
10381700 AAAAATAAT
1 AAAAATATT
*
10381709 AAAAACTATA
1 AAAAA-TATT
10381719 AAAAAT-TAT
1 AAAAATAT-T
10381728 AAAAATATT
1 AAAAATATT
10381737 AAAA
1 AAAA
10381741 TTGATATAAA
Statistics
Matches: 156, Mismatches: 27, Indels: 50
0.67 0.12 0.21
Matches are distributed among these distances:
7 11 0.07
8 13 0.08
9 73 0.47
10 46 0.29
11 6 0.04
12 7 0.04
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATATT
Found at i:10381739 original size:28 final size:29
Alignment explanation
Indices: 10381699--10381779 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 29
10381689 TAGAATTCTT
*
10381699 TAAAAATAATAAAAACT-ATAAAAAATTA
1 TAAAAATAATAAAAAATCATAAAAAATTA
* * * * *
10381727 TAAAAAT-ATTAAAATTGATATAAACTTA
1 TAAAAATAATAAAAAATCATAAAAAATTA
*
10381755 TAAAAATACTAAAAAATCATAAAAA
1 TAAAAATAATAAAAAATCATAAAAA
10381780 CTTGAACTGG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
27 7 0.17
28 23 0.55
29 12 0.29
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (29 bp):
TAAAAATAATAAAAAATCATAAAAAATTA
Found at i:10381739 original size:37 final size:37
Alignment explanation
Indices: 10381502--10381760 Score: 103
Period size: 37 Copynumber: 6.9 Consensus size: 37
10381492 TATTTTTCAC
*
10381502 ATAAAAATGATTAAAAATTCAA-AAAAA-TATTATAAAA--
1 ATAAAAAT-ATTAAAAA-T-AATAAAAACTA-TAAAAAATT
* * * *
10381539 ATAAAAATATTAAAATTCATATAAACT-TATTAAAATT
1 ATAAAAATATTAAAAATAATAAAAACTATA-AAAAATT
* * *
10381576 AT-AAAATAATATAAAAACTTATAAATATTAT-AAAAA-T
1 ATAAAAAT-AT-TAAAAA-TAATAAAAACTATAAAAAATT
*
10381613 ATAAAAAT-TCTAATAAATAATAAAAGCTAT--AAAATT
1 ATAAAAATAT-TAA-AAATAATAAAAACTATAAAAAATT
* * * * *
10381649 AATAAAATTTATTTAAAATATTAAATA-T-TAAAAATTTT
1 -ATAAAA-ATATTAAAAATAATAAAAACTATAAAAA-ATT
* * *
10381687 ATTAGAATTCTTTAAAAATAATAAAAACTATAAAAAATT
1 A-TAAAAAT-ATTAAAAATAATAAAAACTATAAAAAATT
* * *
10381726 ATAAAAATATTAAAATTGATATAAACTTATAAAAA
1 ATAAAAATATTAAAAATAATAAAAAC-TATAAAAA
10381761 TACTAAAAAA
Statistics
Matches: 167, Mismatches: 32, Indels: 45
0.68 0.13 0.18
Matches are distributed among these distances:
34 3 0.02
35 15 0.09
36 28 0.17
37 53 0.32
38 49 0.29
39 12 0.07
40 7 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (37 bp):
ATAAAAATATTAAAAATAATAAAAACTATAAAAAATT
Found at i:10382268 original size:21 final size:22
Alignment explanation
Indices: 10382237--10382291 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
10382227 TAATACTTTT
*
10382237 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
10382259 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
10382281 TATGTTTTTAT
1 TATGTTTTTAT
10382292 TATTCTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:10382343 original size:10 final size:9
Alignment explanation
Indices: 10382322--10382435 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 9
10382312 TTAGTAGAAG
10382322 TTATATATTT
1 TTATA-ATTT
10382332 TTATAATATT
1 TTATAAT-TT
10382342 TTATAACTTTT
1 TTATAA--TTT
*
10382353 TTATAGTTT
1 TTATAATTT
10382362 TTATAAGTTT
1 TTATAA-TTT
** *
10382372 ACATCAAATT
1 TTAT-AATTT
10382382 TTAT--TTT
1 TTATAATTT
10382389 TTAATAA--T
1 TT-ATAATTT
*
10382397 TAATAATTT
1 TTATAATTT
*
10382406 TTATATTTT
1 TTATAATTT
10382415 TTGATAAATTT
1 TT-AT-AATTT
10382426 TT-T-ATTT
1 TTATAATTT
10382433 TTA
1 TTA
10382436 AAAAAATTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
7 14 0.18
8 4 0.05
9 21 0.27
10 24 0.30
11 15 0.19
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:10382352 original size:20 final size:20
Alignment explanation
Indices: 10382329--10382367 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10382319 AAGTTATATA
10382329 TTTTTATAATATTTTATAACT
1 TTTTTATAAT-TTTTATAACT
*
10382350 TTTTTATAGTTTTTATAA
1 TTTTTATAATTTTTATAA
10382368 GTTTACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTATAATTTTTATAACT
Found at i:10382442 original size:19 final size:20
Alignment explanation
Indices: 10382401--10382443 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
10382391 AATAATTAAT
** *
10382401 AATTTTTATATTTTTTGATA
1 AATTTTTATATTTTTAAAAA
10382421 AATTTTT-TATTTTTAAAAA
1 AATTTTTATATTTTTAAAAA
10382440 AATT
1 AATT
10382444 ATAGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTATATTTTTAAAAA
Found at i:10383198 original size:23 final size:24
Alignment explanation
Indices: 10383162--10383223 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
10383152 CAACTAAATC
10383162 ATTTCC-CTC-AATTTCTCTCT-A
1 ATTTCCACTCAAATTTCTCTCTCA
*
10383183 ATATT-CTCTCAAATTTC-CTCTCA
1 AT-TTCCACTCAAATTTCTCTCTCA
10383206 ATTTCCACTCAAATTTCT
1 ATTTCCACTCAAATTTCT
10383224 ATTTAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 3 0.09
22 11 0.32
23 20 0.59
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTCCACTCAAATTTCTCTCTCA
Found at i:10383210 original size:11 final size:12
Alignment explanation
Indices: 10383162--10383222 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
10383152 CAACTAAATC
10383162 ATTTCC-CTC-A
1 ATTTCCTCTCAA
*
10383172 ATTT-CTCTCTA
1 ATTTCCTCTCAA
10383183 ATATT-CTCTCAA
1 AT-TTCCTCTCAA
10383195 ATTTCCTCTC-A
1 ATTTCCTCTCAA
*
10383206 ATTTCCACTCAA
1 ATTTCCTCTCAA
10383218 ATTTC
1 ATTTC
10383223 TATTTAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 1 0.02
10 7 0.16
11 15 0.34
12 21 0.48
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (12 bp):
ATTTCCTCTCAA
Found at i:10385083 original size:18 final size:18
Alignment explanation
Indices: 10385047--10385089 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10385037 TGCCAGGTGC
* * *
10385047 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCATTATAT
10385065 GTATCCTAACCATTATAT
1 GTATCCTAACCATTATAT
*
10385083 GTTTCCT
1 GTATCCT
10385090 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:10389110 original size:96 final size:94
Alignment explanation
Indices: 10388974--10389253 Score: 310
Period size: 96 Copynumber: 2.9 Consensus size: 94
10388964 TGTAACCTTA
* * *
10388974 AACCCCAAATCCTTATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTAAAAACCCTAAACACTAAACCCTAATCTAAT
10389039 TTTATAAAAATTTATAATTAATTTACTCAAGT
64 TTT-TAAAAATTTATAATTAATTTACTCAAGT
* * * * * *
10389071 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAACCATTATCTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTT-CTTAAAAACCCTAAACACTAAACCCTAATCTAATT
* * *
10389136 TTTAAATATTTTTTAATTAAATTACTCAAGT
65 TTTAAA-AATTTATAATTAATTTACTCAAGT
* * * ** * * *
10389167 AACCTTAAACCCTAATTTAATTGATTTTTGTTAAAAAACAATAAACACGAAA-CCTAATCCAAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTCTT-AAAAACCCTAAACACTAAACCCTAATCTAATT
*
10389231 TTGAAAAATTTATAATTAATTTA
65 TTTAAAAATTTATAATTAATTTA
10389254 ATTGACAAAC
Statistics
Matches: 150, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
94 14 0.09
95 18 0.12
96 98 0.65
97 20 0.13
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTT
TTAAAAATTTATAATTAATTTACTCAAGT
Found at i:10389349 original size:27 final size:29
Alignment explanation
Indices: 10389301--10389354 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
10389291 CTCTAAAATT
10389301 CTAAACTTAAAAACACCAAAACCCTAACC
1 CTAAACTTAAAAACACCAAAACCCTAACC
*
10389330 CTAAAC-TAATAAC-CCAAAACCCTAA
1 CTAAACTTAAAAACACCAAAACCCTAA
10389355 TCAGGATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
28 6 0.25
29 6 0.25
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (29 bp):
CTAAACTTAAAAACACCAAAACCCTAACC
Found at i:10389824 original size:24 final size:24
Alignment explanation
Indices: 10389792--10389837 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10389782 TTGGTCCACT
*
10389792 TATAATCATTTTTAATTTTAAGCC
1 TATAATCATTTTTAAATTTAAGCC
10389816 TATAATCATTTTTAAATTTAAG
1 TATAATCATTTTTAAATTTAAG
10389838 GTTCTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (24 bp):
TATAATCATTTTTAAATTTAAGCC
Found at i:10393043 original size:26 final size:26
Alignment explanation
Indices: 10393008--10393087 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
10392998 ACTTAGCTTG
* *
10393008 ATGAGTAATAGGATTACTTAGTTGTT
1 ATGAGCAATAGGATTACTTAGTAGTT
* *
10393034 ATGAGCAATAGGATTATTTGGTAGTT
1 ATGAGCAATAGGATTACTTAGTAGTT
*
10393060 ATGAGCAATGGGATTACTTAGTAGTT
1 ATGAGCAATAGGATTACTTAGTAGTT
10393086 AT
1 AT
10393088 AAACTTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (26 bp):
ATGAGCAATAGGATTACTTAGTAGTT
Found at i:10400289 original size:70 final size:70
Alignment explanation
Indices: 10400203--10400342 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
10400193 ATTATTTATT
*
10400203 AATAGATAGGTAATTATAATCAAAATTAATTATTATAAATTATAAAGTATTAGTAATAACCGATT
1 AATAGATAGATAATTATAATCAAAATTAATTATTATAAATTATAAAGTATTAGTAATAACCGATT
10400268 GAAAG
66 GAAAG
*
10400273 AATATATAGATAATTATAATCAAAATTAATTATTATAAATTATAAAGTATTAGTAATAACCGATT
1 AATAGATAGATAATTATAATCAAAATTAATTATTATAAATTATAAAGTATTAGTAATAACCGATT
10400338 GAAAG
66 GAAAG
10400343 TTAAGATTTC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (70 bp):
AATAGATAGATAATTATAATCAAAATTAATTATTATAAATTATAAAGTATTAGTAATAACCGATT
GAAAG
Found at i:10408352 original size:33 final size:33
Alignment explanation
Indices: 10408315--10408383 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
10408305 TTGAACCTTT
*
10408315 TTTCTGGGGTTCCTTGCGGGAAACCTCAGATTG
1 TTTCTGGGGTTCCCTGCGGGAAACCTCAGATTG
10408348 TTTCTGGGGTTCCCTGCGGGAAACCTCAGATTG
1 TTTCTGGGGTTCCCTGCGGGAAACCTCAGATTG
10408381 TTT
1 TTT
10408384 TACCTTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.22, G:0.29, T:0.35
Consensus pattern (33 bp):
TTTCTGGGGTTCCCTGCGGGAAACCTCAGATTG
Found at i:10416292 original size:29 final size:29
Alignment explanation
Indices: 10416236--10416292 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
10416226 ACACAAAAAA
****
10416236 TATTTTAAAAATAAAAAATATTTTTAAAG
1 TATTTTAAAAATAAAAAATAAAAATAAAG
*
10416265 TATTTTAAAATTAAAAAATAAAAATAAA
1 TATTTTAAAAATAAAAAATAAAAATAAA
10416293 AAATATTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
TATTTTAAAAATAAAAAATAAAAATAAAG
Found at i:10419559 original size:27 final size:27
Alignment explanation
Indices: 10419529--10419616 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
10419519 TTTCTGATTA
*
10419529 GCGGCACCAAAGGTGCCATACTGGTTG
1 GCGGCACCAATGGTGCCATACTGGTTG
*
10419556 GCGGCACCAATGGTGCCATACAGGTTG
1 GCGGCACCAATGGTGCCATACTGGTTG
* * *
10419583 GCGGCACCGATGGTGCCATATTGATTG
1 GCGGCACCAATGGTGCCATACTGGTTG
*
10419610 GTGGCAC
1 GCGGCAC
10419617 TACTCGTGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.20
Consensus pattern (27 bp):
GCGGCACCAATGGTGCCATACTGGTTG
Found at i:10425498 original size:158 final size:153
Alignment explanation
Indices: 10425069--10425530 Score: 411
Period size: 160 Copynumber: 2.9 Consensus size: 153
10425059 TGCAAGTTGA
*
10425069 AAAAACAGTTTGTAATACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTTTT
1 AAAAA-AGTTTGTAATACACTCTTACTT-GGCCATTTGTTCGTATTTTTTTCTCCG-ATTTTATT
10425134 ATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTG-A
63 ATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
* **
10425198 A-ATTTATTAATTTCGTGTGTTTTTT
128 ATATTTATTAATTTCGTCTAATTTTT
* * * * * * * * * ** * *
10425223 AAATTAATTTGGTGTAAGAAAAAAACCCTTATCCCT-ACCCTTTGCTAATATTATTTTCT-TGAT
1 AAA-AAAGTT--TGT----AATACACTCTTA--CTTGGCCATTTGTTCGTATTTTTTTCTCCGA-
* * * * * * *
10425286 TTTTATTACTTTCAATACAAATATT-TTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTGT
56 TTTTATTA-TTT-TAGA-AAATATTATAATTTT--TAATTTTATAATTTTACATTATTTCAGTGC
* *
10425349 ATATTGTTTGAAATATTTATATTAATTAT-TTCTAAATTTTT
116 ATAATGTTTGAAATA-TT-TATTAATT-TCGTCT-AATTTTT
10425390 AAAAAAGTTTGTAATACACTCTTACTTGGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTA
1 AAAAAAGTTTGTAATACACTCTTACTT-GGCCATTTGTTCGTATTTTTTTCTCCG-ATTTTATTA
10425455 TTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTG-AA
64 TTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
10425519 -ATTTATTAATTT
129 TATTTATTAATTT
10425531 AGTGTGTTTT
Statistics
Matches: 234, Mismatches: 47, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
153 1 0.00
154 14 0.06
155 3 0.01
156 4 0.02
157 3 0.01
158 43 0.18
159 16 0.07
160 58 0.25
161 17 0.07
162 43 0.18
163 3 0.01
164 4 0.02
165 2 0.01
166 14 0.06
167 9 0.04
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (153 bp):
AAAAAAGTTTGTAATACACTCTTACTTGGCCATTTGTTCGTATTTTTTTCTCCGATTTTATTATT
TTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATA
TTTATTAATTTCGTCTAATTTTT
Found at i:10425597 original size:158 final size:155
Alignment explanation
Indices: 10425114--10425588 Score: 411
Period size: 162 Copynumber: 3.0 Consensus size: 155
10425104 TTGTTCGTAT
*
10425114 TTTTTTCTCCGCATTTTTTTATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTAT
1 TTTTTTCTCCG-ATTTTATTATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTAT
*
10425179 TTCAGTGCATAATGTTTGAAATTTATTAATTTCGTGTGTTTTTTAAATTAATTTGGTGTAAGAAA
65 TTCAGTGCATAATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAA
* * *
10425244 AAAACCCTTATCCCTACCCTTTGCTAATA
130 AAAACTCTTATCCCTA-CCTGT-CGAA-A
* * * * *
10425273 TTATTTTCT-TGATTTTTATTACTTTCAATACAAATATT-TTATTTTCGT-ATTTTATTATTTTA
1 TT-TTTTCTCCGA-TTTTATTA-TTT-TAGA-AAATATTATAATTTT--TAATTTTATAATTTTA
* * * * * * * *
10425335 TATTATTCCAGTGTATATTGTTTGAAATATTTATATTAA-TTA-TTTCTAAATTTTTAAA-AAAG
59 CATTATTTCAGTGCATAATGTTTG-AA-A-TT-TATTAATTTAGTGTGT---TTTTTAAATTAAT
* * * ** * *
10425397 TT--TGT----AATACACTCTTACTTGGGCC-ATTTGTTCGTAT
117 TTGGTGTAAGAAAAAAACTCTTA--T--CCCTACCTG-TCGAAA
10425434 TTTTTTCTCCGTATTTTATTATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTAT
1 TTTTTTCTCCG-ATTTTATTATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTAT
10425499 TTCAGTGCATAATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAA
65 TTCAGTGCATAATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAA
10425564 AAAACTCTTATCCCTA-CTGTCGAAA
130 AAAACTCTTATCCCTACCTGTCGAAA
10425589 CCAGTTTTTT
Statistics
Matches: 239, Mismatches: 44, Indels: 70
0.68 0.12 0.20
Matches are distributed among these distances:
153 8 0.03
154 10 0.04
155 9 0.04
156 11 0.05
157 4 0.02
158 42 0.18
159 18 0.08
160 37 0.15
161 19 0.08
162 45 0.19
163 5 0.02
164 9 0.04
165 4 0.02
166 10 0.04
167 8 0.03
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (155 bp):
TTTTTTCTCCGATTTTATTATTTTAGAAAATATTATAATTTTTAATTTTATAATTTTACATTATT
TCAGTGCATAATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAA
AAACTCTTATCCCTACCTGTCGAAA
Found at i:10426302 original size:15 final size:15
Alignment explanation
Indices: 10426282--10426312 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10426272 GTGTTAATGC
10426282 ATATATATATACAAA
1 ATATATATATACAAA
*
10426297 ATATATATATATAAA
1 ATATATATATACAAA
10426312 A
1 A
10426313 AGAACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATATATATACAAA
Found at i:10426304 original size:17 final size:16
Alignment explanation
Indices: 10426282--10426313 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10426272 GTGTTAATGC
10426282 ATATATATATACAAAAT
1 ATATATATATA-AAAAT
10426299 ATATATATATAAAAA
1 ATATATATATAAAAA
10426314 GAACATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:10426552 original size:12 final size:12
Alignment explanation
Indices: 10426537--10426566 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10426527 GTATATACGC
10426537 ATATATGTATAT
1 ATATATGTATAT
*
10426549 ATATATTTATAT
1 ATATATGTATAT
10426561 ATATAT
1 ATATAT
10426567 ATAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
ATATATGTATAT
Done.