Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 155 of 161
Found at i:48209209 original size:44 final size:44
Alignment explanation
Indices: 48209091--48209894 Score: 348
Period size: 44 Copynumber: 18.4 Consensus size: 44
48209081 CACTCTACTT
* * * * * *
48209091 CAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* * * ** *
48209135 CAACCTCAGGGTGATAGGATTAT-CGACTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATT-TGCTTCTTCAATCTGCTCCACTG
* *
48209179 CAACCTCAGGGAGATAAGATTTGCTTCTTCAGTCTGC-CTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTC-CACTG
** * * *
48209223 TGACTTCAAGGG-GATAAGACTTG-TTTTCTCAGTCTGCTCCACTG
1 CAACTTC-AGGGAGATAAGATTTGCTTCT-TCAATCTGCTCCACTG
* ** * * * *
48209267 CAACCTCAGGGAGATAAGACCTGATGCGATCCA-CT-CT--ACTG
1 CAACTTCAGGGAGATAAGATTTGCTTC-TTCAATCTGCTCCACTG
* * * * * * * *
48209308 TAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTTCACTA
1 CAACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* * ** * *
48209352 CAACTTTAGGGAGATAGGATTAT-CGGCTTCAATCTACTCCACTA
1 CAACTTCAGGGAGATAAGATT-TGCTTCTTCAATCTGCTCCACTG
* * * *
48209396 TAACTTCAGGGAGATAAGATTTGTCATCTTCGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATTTG-CTTCTTCAATCTGCTCCACTG
* ** * *
48209441 CAACTTCAGGGTGATAAGACCTGCTTACTT-AGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* * * * * *
48209485 CAACTTTAGGGAGATAAGACTTGATGCGATCCA-CT-CT--ACTG
1 CAACTTCAGGGAGATAAGATTTGCTTC-TTCAATCTGCTCCACTG
* * * * * * *
48209526 CAACTTCAGAGAGATAATATCT-ATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* **
48209570 CAACTTCAGGGAGATAGGATTAT-CGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATT-TGCTTCTTCAATCTGCTCCACTG
* * * * * * *
48209614 TAACATCAGGGAAATCAGATTTGTCATCTTCGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATTTG-CTTCTTCAATCTGCTCCACTG
** * *
48209659 CAACTTCAAGGG-GATAAGACCTGCTTACTT-AGTCTGCTCCGCTG
1 CAACTTC-AGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* * * * * *
48209703 CAACTTTAGGGAGATAAGACTTGATGCGATCCA-CT-CT--ACTG
1 CAACTTCAGGGAGATAAGATTTGCTTC-TTCAATCTGCTCCACTG
* * * * * * *
48209744 CAACTTCAGAGAGATAATATCT-ATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTG
* **
48209788 CAACTTCAGGGAGATAGGATTAT-CGACTTCAATCTGCTCC-CTG
1 CAACTTCAGGGAGATAAGATT-TGCTTCTTCAATCTGCTCCACTG
* * * * *
48209831 CAACCTCAGGGAGACAAGATTTGCTTTCTTCGATCAGCCCCACTG
1 CAACTTCAGGGAGATAAGATTTGC-TTCTTCAATCTGCTCCACTG
* *
48209876 CAACTTTAGGGGGATAAGA
1 CAACTTCAGGGAGATAAGA
48209895 CCTGCTTAAT
Statistics
Matches: 555, Mismatches: 163, Indels: 83
0.69 0.20 0.10
Matches are distributed among these distances:
40 12 0.02
41 68 0.12
42 7 0.01
43 44 0.08
44 321 0.58
45 99 0.18
46 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTCCACTG
Found at i:48209562 original size:218 final size:217
Alignment explanation
Indices: 48209066--48209902 Score: 1284
Period size: 218 Copynumber: 3.8 Consensus size: 217
48209056 CTAGTCGGCC
*
48209066 AGACTTGATGCGATCCACTCTACTTCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* *
48209131 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
* * ** * * * *
48209196 GATTTGCTTCTTC-AGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGC
131 GATTTGCATCTTCGA-TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTTAGTCTGC
* * *
48209260 TCCACTGCAACCTCAGGGAGATA
195 TCCGCTGCAACTTTAGGGAGATA
* * *
48209283 AGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTTC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * ** *
48209348 ACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTATAACTTCAGGGAGATAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
48209413 GATTTGTCATCTTCGATCTGCCCCACTGCAACTTC-AGGGTGATAAGACCTGCTTACTTAGTCTG
131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGG-GATAAGACCTGCTTACTTAGTCTG
48209477 CTCCGCTGCAACTTTAGGGAGATA
194 CTCCGCTGCAACTTTAGGGAGATA
*
48209501 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * * * * *
48209566 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACATCAGGGAAATCA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
48209631 GATTTGTCATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTTAGTCTGC
131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTTAGTCTGC
48209696 TCCGCTGCAACTTTAGGGAGATA
195 TCCGCTGCAACTTTAGGGAGATA
*
48209719 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* *
48209784 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC-CTGCAACCTCAGGGAGACAA
66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
* * * *
48209848 GATTTGCTTTCTTCGATCAGCCCCACTGCAACTTTAGGGGGATAAGACCTGCTTA
131 GATTTGC-ATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTA
48209903 ATAAACTGAA
Statistics
Matches: 573, Mismatches: 42, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
216 1 0.00
217 193 0.34
218 374 0.65
219 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (217 bp):
AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
GATTTGCATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTTAGTCTGCT
CCGCTGCAACTTTAGGGAGATA
Found at i:48209876 original size:435 final size:435
Alignment explanation
Indices: 48209066--48209902 Score: 1302
Period size: 435 Copynumber: 1.9 Consensus size: 435
48209056 CTAGTCGGCC
*
48209066 AGACTTGATGCGATCCACTCTACTTCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * *
48209131 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAA
66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACATCAGGGAAATAA
* * ** * * *
48209196 GATTTGCTTCTTCAGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCT
131 GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT
*
48209261 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAG
196 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAG
* * *
48209326 ATCTATTACTTTAATCCGCTTCACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTACTC
261 ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
* * * * *
48209391 CACTATAACTTCAGGGAGATAAGATTTGTCATCTTCGATCTGCCCCACTGCAACTTCAGGGTGAT
326 CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT
48209456 AAGACCTGCTTACTTAGTCTGCTCCGCTGCAACTTTAGGGAGATA
391 AAGACCTGCTTACTTAGTCTGCTCCGCTGCAACTTTAGGGAGATA
*
48209501 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCC
1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
* * * * *
48209566 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACATCAGGGAAATCA
66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACATCAGGGAAATAA
*
48209631 GATTTGTCATCTTC-GATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTTAGTCTG
131 GATTTG-CATCTTCAG-TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTG
* * * *
48209695 CTCCGCTGCAACTTTAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATA
194 CTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATA
* *
48209760 ATATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGC
259 AGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTAC
* * *
48209825 TCC-CTGCAACCTCAGGGAGACAAGATTTG-CTTTCTTCGATCAGCCCCACTGCAACTTTAGGGG
324 TCCACTACAACCTCAGGGAGACAAGATTTGTC-ATCTTCGATCAGCCCCACTGCAACTTCAGGGG
48209888 GATAAGACCTGCTTA
388 GATAAGACCTGCTTA
48209903 ATAAACTGAA
Statistics
Matches: 363, Mismatches: 36, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
434 1 0.00
435 192 0.53
436 170 0.47
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (435 bp):
AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC
ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACATCAGGGAAATAA
GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT
CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAG
ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT
AAGACCTGCTTACTTAGTCTGCTCCGCTGCAACTTTAGGGAGATA
Found at i:48211991 original size:16 final size:17
Alignment explanation
Indices: 48211958--48211991 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48211948 ATATTATGAA
48211958 AATAAAACTAGAATAAT
1 AATAAAACTAGAATAAT
48211975 AATAAAACTAG-ATAAT
1 AATAAAACTAGAATAAT
48211991 A
1 A
48211992 TTCTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAAAACTAGAATAAT
Found at i:48214869 original size:23 final size:22
Alignment explanation
Indices: 48214817--48214869 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48214807 TTCACGTCTT
*
48214817 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48214839 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48214862 TTTCTTTT
1 TTTCTTTT
48214870 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48217488 original size:13 final size:13
Alignment explanation
Indices: 48217470--48217494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48217460 ATTGGACTTT
48217470 GAATTTATATTTG
1 GAATTTATATTTG
48217483 GAATTTATATTT
1 GAATTTATATTT
48217495 ATTTATGCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GAATTTATATTTG
Found at i:48220028 original size:29 final size:29
Alignment explanation
Indices: 48219988--48220144 Score: 181
Period size: 29 Copynumber: 5.4 Consensus size: 29
48219978 TCATCGACCA
* * *
48219988 ATGAAAGGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * *
48220017 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
48220046 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * *
48220075 ATGAAACGGGATAGCTTCAACTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* *
48220104 ATGAAAAGGGATAGCTCCAACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
48220133 ATGAAAAGGGAT
1 ATGAAAAGGGAT
48220145 GGTGACGACC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 104 0.96
30 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:48220057 original size:58 final size:58
Alignment explanation
Indices: 48219988--48220231 Score: 231
Period size: 58 Copynumber: 4.2 Consensus size: 58
48219978 TCATCGACCA
* * *
48219988 ATGAAAGGGGATAGTTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
* * * * * * * *
48220046 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAACGGGATAGCT-TCAACTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GGTGACGACCATCAAAT
* * *
48220104 ATGAAAAGGGATAGCTCCAACTATCGATTATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
* * * * * * *** *
48220162 ATCAAAAGGAAT-GGTGACGACCATCGATTAATGAAAAAGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT-ATGAAAAGGGATGGTGACGACCATCAAAT
48220221 ATGAAAAGGGA
1 ATGAAAAGGGA
48220232 CGGTTACGAC
Statistics
Matches: 147, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
57 4 0.03
58 109 0.74
59 34 0.23
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT
Found at i:48220168 original size:29 final size:28
Alignment explanation
Indices: 48220132--48220246 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
48220122 AACTATCGAT
48220132 TATGAAAAGGGATGGTGACGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
* * *
48220160 CTATCAAAAGGAATGGTGACGACCATCGAT
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* ***
48220190 TAATGAAAAAGGATGGTTTTGACCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATC-AA
* *
48220220 TATGAAAAGGGACGGTTACGACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
48220247 TTTAGCACAC
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 46 0.66
30 23 0.33
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:48220241 original size:59 final size:58
Alignment explanation
Indices: 48220126--48220245 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 58
48220116 AGCTCCAACT
* *
48220126 ATCGATTATGAAAAGGGATGGTGACGACCATCAACTATCAAAAGGAATGGTGACGACC
1 ATCGATTATGAAAAAGGATGGTGACGACCATCAACTATCAAAAGGAACGGTGACGACC
*** * * *
48220184 ATCGATTAATGAAAAAGGATGGTTTTGACCATCGAA-TATGAAAAGGGACGGTTACGACC
1 ATCGATT-ATGAAAAAGGATGGTGACGACCATC-AACTATCAAAAGGAACGGTGACGACC
48220243 ATC
1 ATC
48220246 ATTTAGCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 7 0.13
59 43 0.83
60 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (58 bp):
ATCGATTATGAAAAAGGATGGTGACGACCATCAACTATCAAAAGGAACGGTGACGACC
Found at i:48224183 original size:13 final size:13
Alignment explanation
Indices: 48224144--48224195 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
48224134 TTTAAATTTG
48224144 TTGTTCATTTTGATA
1 TTGTTCATTTT--TA
* *
48224159 TTGTTTAGTTTTA
1 TTGTTCATTTTTA
48224172 TTGTTCATTTTTA
1 TTGTTCATTTTTA
*
48224185 -TATTCATTTTT
1 TTGTTCATTTTT
48224196 GTTAATTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 10 0.31
13 13 0.41
15 9 0.28
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (13 bp):
TTGTTCATTTTTA
Found at i:48228771 original size:89 final size:88
Alignment explanation
Indices: 48228631--48229965 Score: 1292
Period size: 89 Copynumber: 15.0 Consensus size: 88
48228621 ATAAGACTTG
* * ** * * *
48228631 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCATT
1 TATCTTCGATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-T
*
48228696 GCCAGTACATGAAGACAAGATTTGC
64 GCCAGTACATGAAGACAAGATCTGC
* * *
48228721 TTTCTTCGATCTACTTCACGCCAATATATG-AGTACAAGATCTGCTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTCACGCCAATACAGGAAG-ACAAGATCTGCTATCTTTGATCTACTTCA-T
* *
48228785 GCCAGTACAGGAAGACAAGATCTGT
64 GCCAGTACATGAAGACAAGATCTGC
* *
48228810 TATCTTTGATCTACTTCACTG-CAAGTACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCAT
1 TATCTTCGATCTACTTCAC-GCCAA-TACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCAT
* * *
48228874 GCCAATACGTGGAGACAAGATCTGC
64 GCCAGTACATGAAGACAAGATCTGC
* * * * *
48228899 TATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTACTTCATG
1 TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCATG
* *
48228964 CTAGTACATGGAGACAAGATCTGC
65 CCAGTACATGAAGACAAGATCTGC
* * * * * *
48228988 TTTGTTTGATCTAC-TC-CGCCACCAGTACGGGAAGATAAGATCTACTATCTTTGATCTACTTCA
1 TATCTTCGATCTACTTCACGCCA--A-TACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
*
48229051 TGCCAATACATGAAGACAAGATCTGC
63 TGCCAGTACATGAAGACAAGATCTGC
* * * * * ** * * *
48229077 TTTATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACC
1 TATCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-T
* ***
48229142 ACCAGTATGGGAAGACAAGATCTGC
64 GCCAGTACATGAAGACAAGATCTGC
* * ** * ** **
48229167 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTTCAATCTACTTCACCA
1 TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-TG
* *** *
48229232 CCAATATGGGATGACAAGATCTGC
65 CCAGTACATGAAGACAAGATCTGC
* * * * * *
48229256 TATCTTTGATCTACTTCACCCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC
* * *
48229321 CAATATATGAATACAAGATCTGC
66 CAGTACATGAAGACAAGATCTGC
* * * *
48229344 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTCACT
1 TATCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-T
*
48229409 GCCAGTACAGGAAGACAAGATCTGC
64 GCCAGTACATGAAGACAAGATCTGC
* * **
48229434 TATGTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACAC
1 TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC
* *
48229499 CAATACATGAAGACAAGATCTAC
66 CAGTACATGAAGACAAGATCTGC
* * * * * * * * **
48229522 AATCCTCTGATCTACTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 TATCTTC-GATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTC-AT
* ***
48229587 ACCAGTATGGGAAGACAAGATCTGC
64 GCCAGTACATGAAGACAAGATCTGC
** * * * * * *
48229612 TATCTTTAATCTGCTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTG
1 TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTC-ATG
* * **
48229677 CCAGTACAAGAAGACAAGATTTAT
65 CCAGTACATGAAGACAAGATCTGC
* * * * **
48229701 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
1 TATCTTCGATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
*
48229766 CCAATACATGAAGACAAGATCTGC
65 CCAGTACATGAAGACAAGATCTGC
* * ** * * **
48229790 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTATCTTCGATCTACTTCACA
1 TATCTTCGATCTACTTCA-CGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
*
48229855 CCAATACATGAAGACAAGATCTGC
65 CCAGTACATGAAGACAAGATCTGC
* * ** *
48229879 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTCA-CGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-T
*
48229944 GCCAGTACAGGAAGACAAGATC
64 GCCAGTACATGAAGACAAGATC
48229966 CGTTGCCTTT
Statistics
Matches: 1069, Mismatches: 156, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
87 4 0.00
88 90 0.08
89 744 0.70
90 224 0.21
91 3 0.00
92 4 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC
CAGTACATGAAGACAAGATCTGC
Found at i:48228837 original size:134 final size:133
Alignment explanation
Indices: 48228631--48229965 Score: 1374
Period size: 134 Copynumber: 10.0 Consensus size: 133
48228621 ATAAGACTTG
* * *** * * * *
48228631 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCATT
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * * * * *
48228696 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATG-AGTACAAGA
65 GCAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAGGAAG-ACAAGA
48228760 TCTGC
129 TCTGC
* * * *
48228765 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * *
48228830 GCAAGTACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATAC-GTGGAGACAAGA
65 GCAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAG-GAAGACAAGA
48228894 TCTGC
129 TCTGC
* * * *
48228899 TATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTACTTCA-T
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT-CTTTGATCTACTTCACT
* * * * * * * * *
48228963 GCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAAGATAAGA
65 GCAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAGGAAGACAAGA
*
48229028 TCTAC
129 TCTGC
* * * * *
48229033 TATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* * ** * * * **
48229098 CCAGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
66 CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGAT
48229163 CTGC
130 CTGC
* ** * ** *
48229167 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTTCAATCTACTTCACCA
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CT
* *** * * * *
48229232 CCAA-TATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACCCCAATACATGAAGACAAGAT
65 GCAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGAT
48229296 CTGC
130 CTGC
* * *
48229300 TTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTGCTATCTTTGATCTACTTCACTG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* * * *
48229365 CCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTCACTGCCAGTACAGGAAGACAAGAT
66 CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAGTACAGGAAGACAAGAT
48229430 CTGC
130 CTGC
* **
48229434 TATGTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACAC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* * * * * *
48229499 CAA-TACATGAAGACAAGATCTACAATCCTCTGATCTACTTCATGCTAGTACATGAAGACAAGAT
66 CAAGTACATGAAGACAAGATCTGCTAT-CTTTGATCTACTTCACGCCAGTACAGGAAGACAAGAT
48229563 CTGC
130 CTGC
* * * * *** * *
48229567 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTAATCTGCTTCA-T
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * * *
48229631 GCCAA-TACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAG
65 G-CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAGTACAGGAAGACAAG
* **
48229695 ATTTAT
128 ATCTGC
* * * * ***
48229701 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-T
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACT
* * **
48229765 GCCAA-TACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAG
65 G-CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAG
*
48229829 ATTTGC
128 ATCTGC
* * **
48229835 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
* *** *
48229900 CCAGTATGGGAAGACAAGATTTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGAT
66 CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAGTACAGGAAGACAAGAT
48229965 C
130 C
48229966 CGTTGCCTTT
Statistics
Matches: 1010, Mismatches: 172, Indels: 38
0.83 0.14 0.03
Matches are distributed among these distances:
132 3 0.00
133 292 0.29
134 708 0.70
135 7 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACTG
CAAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATC
TGC
Found at i:48229472 original size:579 final size:579
Alignment explanation
Indices: 48228631--48229965 Score: 2175
Period size: 579 Copynumber: 2.3 Consensus size: 579
48228621 ATAAGACTTG
* * * * *
48228631 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCATT
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-C
* * * *
48228696 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAGTACAAGAT
65 ACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGAT
48228761 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTT
130 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTT
* * * *
48228826 CACTGCAAGTACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACGTGGAGACA
195 CACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
** * * * *
48228891 AGATCTGCTATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCT
260 AGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCT
* * *
48228956 ACTTCATGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAA
325 ACTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAA
* *
48229021 GATAAGATCTACTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGA
390 GACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGA
*
48229086 TCTACTTCGCTGCCAGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATG
455 TCTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATG
*
48229151 GGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAT
520 GGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
* * * *
48229211 TTTCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACC
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
48229276 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
66 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
*
48229341 TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTC
131 TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTC
* * *
48229406 ACTGCCAGTACAGGAAGACAAGATCTGCTATGTTCGATCTACTTCACGCCAATACATGAAGACAA
196 ACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
*
48229471 GATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
261 GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
* *
48229536 CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
326 CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAG
* *
48229601 ACAAGATCTGCTATCTTTAATCTGCTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
391 ACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
* *
48229666 CTACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCAGTATGG
456 CTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGG
* *
48229731 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
521 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
* * *
48229790 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTATCTTCGATCTACTTCACA
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
* * * ** *
48229855 CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
66 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATATATGAATACAAGAT
*
48229920 TTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATC
130 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATC
48229966 CGTTGCCTTT
Statistics
Matches: 698, Mismatches: 56, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
579 580 0.83
580 118 0.17
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (579 bp):
TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTC
ACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAG
ACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
CTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGG
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
Found at i:48231289 original size:28 final size:28
Alignment explanation
Indices: 48231257--48231321 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
48231247 TTATCCTCTC
48231257 CATTTTACTTTTTCCA-TTTTTCATTTC-T
1 CATTTTAC-TTTT-CATTTTTTCATTTCAT
48231285 CATTTTCACTTTTCATTTTTTCATTTCAT
1 CATTTT-ACTTTTCATTTTTTCATTTCAT
48231314 CATTTTAC
1 CATTTTAC
48231322 GACTCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 2 0.06
28 23 0.68
29 9 0.26
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.62
Consensus pattern (28 bp):
CATTTTACTTTTCATTTTTTCATTTCAT
Found at i:48236161 original size:22 final size:23
Alignment explanation
Indices: 48236127--48236170 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
48236117 AAATATATGA
48236127 AAAAAATAGAAATATGTATATAT
1 AAAAAATAGAAATATGTATATAT
*
48236150 AAAAATTA-AAATATGTATATA
1 AAAAAATAGAAATATGTATATA
48236171 GGTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
AAAAAATAGAAATATGTATATAT
Found at i:48236590 original size:3 final size:3
Alignment explanation
Indices: 48236582--48236634 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
48236572 ATATGTACAT
*
48236582 ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
48236628 AGTA ATA
1 A-TA ATA
48236635 GTAGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:48236605 original size:15 final size:16
Alignment explanation
Indices: 48236582--48236634 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
48236572 ATATGTACAT
*
48236582 ATAATAATAGTAAGTA
1 ATAATAATAATAAGTA
*
48236598 AT-ATAATAATAATTA
1 ATAATAATAATAAGTA
48236613 ATAATAATAATAA-TA
1 ATAATAATAATAAGTA
48236628 AGTAATA
1 A-TAATA
48236635 GTAGCAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 16 0.48
16 17 0.52
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAATAATAATAAGTA
Found at i:48249217 original size:47 final size:47
Alignment explanation
Indices: 48248274--48249181 Score: 1780
Period size: 47 Copynumber: 19.3 Consensus size: 47
48248264 CAGCCAAGAG
* * *
48248274 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248321 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248368 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248415 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248462 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248509 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248556 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248603 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248650 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248697 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248744 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248791 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248838 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248885 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248932 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48248979 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48249026 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48249073 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
48249120 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
*
48249167 AGTGTATATATGTGA
1 AGTGTATATACGTGA
48249182 CAAGGCCGAG
Statistics
Matches: 857, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 857 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATACGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:48249407 original size:37 final size:37
Alignment explanation
Indices: 48249351--48249429 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48249341 CCGAGCTCTA
* * *
48249351 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48249388 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48249425 AAGAC
1 AAGAC
48249430 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48252680 original size:27 final size:26
Alignment explanation
Indices: 48252581--48252678 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 26
48252571 AACACCAGAA
* *
48252581 AAAGGAAGCCTTTGTGGCAATATATG
1 AAAGGAAGCCTTTGTGGCGATTTATG
*
48252607 AAACGGAAGCCTTTGTAGCGATTTATG
1 AAA-GGAAGCCTTTGTGGCGATTTATG
*
48252634 ATAAGGAAGCCTTTGTGGTGATTTATG
1 A-AAGGAAGCCTTTGTGGCGATTTATG
* *
48252661 AAGGGGATGCCTTTGTGG
1 AA-AGGAAGCCTTTGTGG
48252679 TGCACTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.31
Consensus pattern (26 bp):
AAAGGAAGCCTTTGTGGCGATTTATG
Found at i:48263875 original size:19 final size:19
Alignment explanation
Indices: 48263851--48263889 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
48263841 TCCAGGGAAG
*
48263851 TACTTTCAGAAATACTCTA
1 TACTTTCAAAAATACTCTA
48263870 TACTTTCAAAAATACTCTA
1 TACTTTCAAAAATACTCTA
48263889 T
1 T
48263890 CGCAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (19 bp):
TACTTTCAAAAATACTCTA
Found at i:48274302 original size:21 final size:23
Alignment explanation
Indices: 48274248--48274302 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
48274238 AAATTGATTT
*
48274248 ATGATATGAATTCTTGAAATGAGA
1 ATGATATG-ATTCTTGAAAGGAGA
*
48274272 ATGAGA-GATT-TTGAAAGGA-A
1 ATGATATGATTCTTGAAAGGAGA
48274292 ATGATATGATT
1 ATGATATGATT
48274303 GAGTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 3 0.11
23 1 0.04
24 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.33
Consensus pattern (23 bp):
ATGATATGATTCTTGAAAGGAGA
Found at i:48278803 original size:27 final size:27
Alignment explanation
Indices: 48278739--48278804 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
48278729 AAAAAAGGAG
*
48278739 GCCTTTGTGGAAATCTATGAAAAGAAA
1 GCCTTTGTGGCAATCTATGAAAAGAAA
* ** *
48278766 GCCTTTGTGGCATTCTATGAATGGAAT
1 GCCTTTGTGGCAATCTATGAAAAGAAA
48278793 GCCTTTGTGGCA
1 GCCTTTGTGGCA
48278805 CAGTCTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
GCCTTTGTGGCAATCTATGAAAAGAAA
Found at i:48285473 original size:25 final size:26
Alignment explanation
Indices: 48285441--48285491 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
48285431 AAGTTTAAGA
48285441 ATGTATATATA-T-TATATAAAGAAAT
1 ATGTATATATACTATATATAAA-AAAT
48285466 ATGTATATATACTATATATAAAAAAT
1 ATGTATATATACTATATATAAAAAAT
48285492 GCGTGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.46
26 5 0.21
27 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (26 bp):
ATGTATATATACTATATATAAAAAAT
Found at i:48285506 original size:25 final size:26
Alignment explanation
Indices: 48285442--48285506 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
48285432 AGTTTAAGAA
* *
48285442 TGTATATATATTATATAAAGAAATATG
1 TGTATAAATA-TATATAAAGAAATACG
* * *
48285469 TATATATACTATATATAAA-AAATGCG
1 TGTATA-AATATATATAAAGAAATACG
48285495 TGTATAAATATA
1 TGTATAAATATA
48285507 AAAATAGTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 13 0.43
28 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (26 bp):
TGTATAAATATATATAAAGAAATACG
Found at i:48286230 original size:19 final size:19
Alignment explanation
Indices: 48286196--48286237 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
48286186 TAAAAAAATC
*
48286196 CTTTGTATTCTCTGTATTTT
1 CTTTCTATTCTCTGTA-TTT
48286216 CTTTCTATT-TCTGTATTT
1 CTTTCTATTCTCTGTATTT
48286234 CTTT
1 CTTT
48286238 ACACCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 6 0.29
20 8 0.38
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTTCTATTCTCTGTATTT
Found at i:48288765 original size:13 final size:13
Alignment explanation
Indices: 48288726--48288768 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
48288716 TTTTTGGTGC
*
48288726 TATATATATTTGT
1 TATATATAGTTGT
* *
48288739 TGTTTATAGCTTGT
1 TATATATAG-TTGT
48288753 TATATATAGTTGT
1 TATATATAGTTGT
48288766 TAT
1 TAT
48288769 TTTTAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (13 bp):
TATATATAGTTGT
Found at i:48296991 original size:29 final size:29
Alignment explanation
Indices: 48296915--48296985 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
48296905 AATGATAACT
48296915 TAAGTGACTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
48296944 TAAGTGACTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
48296973 TAAGTGACTAAAA
1 TAAGTGACTAAAA
48296986 TGTAACCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.21
Consensus pattern (29 bp):
TAAGTGACTAAAACATAACATGTCAAAAC
Found at i:48299986 original size:5 final size:5
Alignment explanation
Indices: 48299958--48300047 Score: 130
Period size: 5 Copynumber: 18.2 Consensus size: 5
48299948 TTTTTATGCT
*
48299958 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
* *
48300007 TTGTA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
48300048 AAGTAAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
4 5 0.06
5 71 0.92
6 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:48300898 original size:3 final size:3
Alignment explanation
Indices: 48300890--48300933 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
48300880 AATAAAAATT
* * * *
48300890 TTA TTA TTA TTA TTA TTG TTA ATA TAA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48300934 TTAATGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:48300922 original size:27 final size:27
Alignment explanation
Indices: 48300892--48300949 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
48300882 TAAAAATTTT
48300892 ATTATTATTATTATTGTTAAT-ATAATA
1 ATTATTATTATTATT-TTAATGATAATA
*
48300919 ATTATTATTATTATTTTAATGATTATA
1 ATTATTATTATTATTTTAATGATAATA
48300946 ATTA
1 ATTA
48300950 AAAGTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTATTATTATTATTTTAATGATAATA
Found at i:48300938 original size:18 final size:18
Alignment explanation
Indices: 48300890--48300949 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
48300880 AATAAAAATT
*
48300890 TTATTATTATT-ATTATTG
1 TTATTATT-TTAATTATTA
* **
48300908 TTAATATAATAATTATTA
1 TTATTATTTTAATTATTA
*
48300926 TTATTATTTTAATGATTA
1 TTATTATTTTAATTATTA
*
48300944 TAATTA
1 TTATTA
48300950 AAAGTGAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTATTTTAATTATTA
Found at i:48300938 original size:21 final size:21
Alignment explanation
Indices: 48300898--48300949 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
48300888 TTTTATTATT
*
48300898 ATTATTATTGTTAATATAATA
1 ATTATTATTATTAATATAATA
* * *
48300919 ATTATTATTATTATTTTAATG
1 ATTATTATTATTAATATAATA
*
48300940 ATTATAATTA
1 ATTATTATTA
48300950 AAAGTGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTATTATTATTAATATAATA
Found at i:48308120 original size:47 final size:47
Alignment explanation
Indices: 48308054--48309046 Score: 1851
Period size: 47 Copynumber: 21.1 Consensus size: 47
48308044 GAAATGATAG
48308054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308101 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308195 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308242 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308289 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308336 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308383 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308430 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308477 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308524 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308571 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308618 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308665 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308712 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308759 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308806 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48308853 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
48308900 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* * *
48308949 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * * * * * *
48308996 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
48309043 TAAG
1 TAAG
48309047 TCCCGAAGGG
Statistics
Matches: 931, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
47 887 0.95
49 44 0.05
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:48309221 original size:37 final size:37
Alignment explanation
Indices: 48309165--48309243 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48309155 CCGAGCTCTA
* * *
48309165 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48309202 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48309239 AAGAC
1 AAGAC
48309244 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48323559 original size:27 final size:27
Alignment explanation
Indices: 48323521--48323576 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48323511 ATTTCACAAC
48323521 ACCCATGTTAGGCCGAATAGTAACCAT
1 ACCCATGTTAGGCCGAATAGTAACCAT
48323548 ACCCATGTTAGGCCGAATAGTAACCAT
1 ACCCATGTTAGGCCGAATAGTAACCAT
48323575 AC
1 AC
48323577 TCATACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (27 bp):
ACCCATGTTAGGCCGAATAGTAACCAT
Found at i:48331910 original size:29 final size:30
Alignment explanation
Indices: 48331867--48331925 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
48331857 ATTTAATACG
*
48331867 AACTTTGGCAAAATTACA-TTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
48331896 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
48331926 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:48337376 original size:27 final size:27
Alignment explanation
Indices: 48337332--48337383 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48337322 GGCAAAATAA
*
48337332 TCATTTTACCATATAGGGGCATTTCAG
1 TCATTTTACCATACAGGGGCATTTCAG
* * *
48337359 TCATTTTACCCTGCAGGGGTATTTC
1 TCATTTTACCATACAGGGGCATTTC
48337384 GATAATTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGCATTTCAG
Found at i:48337391 original size:27 final size:27
Alignment explanation
Indices: 48337361--48337432 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
48337351 CATTTCAGTC
* *
48337361 ATTTTACCCTGCAGGGGTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* *
48337388 ATTTTGCACTACAGGGGTATTTCGGTA
1 ATTTTACACTACAGGGGTATTTCGATA
*
48337415 ATTTTGCACTACAGGGGT
1 ATTTTACACTACAGGGGT
48337433 CCTAATGACC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGATA
Found at i:48341303 original size:18 final size:18
Alignment explanation
Indices: 48341282--48341316 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48341272 TCGTAATTAC
48341282 AATTAAAATAATAATAAT
1 AATTAAAATAATAATAAT
* *
48341300 AATTTAAGTAATAATAA
1 AATTAAAATAATAATAA
48341317 CACAATGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTAAAATAATAATAAT
Found at i:48342218 original size:28 final size:29
Alignment explanation
Indices: 48342186--48342300 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
48342176 TACCTGTATC
* *
48342186 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
48342214 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
48342243 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
48342272 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
48342300 T
1 T
48342301 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:48342238 original size:57 final size:58
Alignment explanation
Indices: 48342177--48342287 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
48342167 AAATTCACAT
* *
48342177 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
48342234 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
48342288 GTCACATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 22 0.46
58 26 0.54
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48345584 original size:17 final size:18
Alignment explanation
Indices: 48345562--48345595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48345552 TCACATTGAA
48345562 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
48345579 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
48345596 ACTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:48346691 original size:28 final size:29
Alignment explanation
Indices: 48346659--48346773 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
48346649 TACCTGTATC
* *
48346659 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
48346687 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
48346716 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
48346745 TGGCCCGTTAGG-CCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
48346773 T
1 T
48346774 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 29 0.38
29 46 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:48346711 original size:57 final size:58
Alignment explanation
Indices: 48346650--48346758 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
48346640 AAATTCACAT
* *
48346650 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
48346707 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
48346759 TAGTCACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48349363 original size:56 final size:57
Alignment explanation
Indices: 48349278--48349391 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 57
48349268 AGAAATGGTG
* **
48349278 AAATGGAGAAATAGGAAACATTTGGAAATGGTTAAGATTTTCT-CAAAATGAAAATGA
1 AAATGGAGAAATA-GAAACATTTGAAAATGAATAAGATTTTCTCCAAAATGAAAATGA
** *
48349335 AAATGGAGAAAT-GAAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGAAAATGAATAAGATTTTCTCCAAAATGAAAATGA
48349392 CCTAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
55 4 0.08
56 19 0.39
57 26 0.53
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.27
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTTGAAAATGAATAAGATTTTCTCCAAAATGAAAATGA
Found at i:48353904 original size:16 final size:17
Alignment explanation
Indices: 48353876--48353911 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
48353866 AAATCACACC
48353876 ATTAATGTCACAAATGA
1 ATTAATGTCACAAATGA
48353893 ATTAAT-TCACAAATGA
1 ATTAATGTCACAAATGA
48353909 ATT
1 ATT
48353912 TAGAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
ATTAATGTCACAAATGA
Found at i:48355577 original size:26 final size:26
Alignment explanation
Indices: 48355548--48355601 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
48355538 TCCTTATAGT
48355548 CTCTTTGTGAGCTTCCTGATTA-ATGG
1 CTCTTTGTGAGCTTCCTG-TTATATGG
48355574 CTCTTTGTGAGCTTCCTGTTATATGG
1 CTCTTTGTGAGCTTCCTGTTATATGG
48355600 CT
1 CT
48355602 TAAGAGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGTTATATGG
Found at i:48362632 original size:56 final size:56
Alignment explanation
Indices: 48362546--48362665 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48362536 ACAAGGGATG
48362546 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48362602 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48362658 ATGGGCAA
1 ATGGGCAA
48362666 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48363975 original size:120 final size:118
Alignment explanation
Indices: 48363759--48364001 Score: 328
Period size: 120 Copynumber: 2.0 Consensus size: 118
48363749 ACTAAGATCT
*
48363759 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
* * ** *
48363824 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCC
66 CCGGGCTAAGTCCCAAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATCCC
* * *
48363878 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-A
* * *
48363943 A-CCGGGCTATGTCCCAAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCC
64 ATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCC
48363997 GAAGG
1 GAAGG
48364002 TACGTGATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
119 49 0.45
120 58 0.53
121 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (118 bp):
GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
CCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCC
Found at i:48363982 original size:40 final size:40
Alignment explanation
Indices: 48363704--48363968 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
48363694 TCGAATGATG
* * * * *
48363704 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
48363744 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48363784 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48363823 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48363863 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48363903 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
48363944 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
48363969 AACGAGTAGC
Statistics
Matches: 202, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.16
40 159 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48375993 original size:48 final size:47
Alignment explanation
Indices: 48375937--48376034 Score: 178
Period size: 48 Copynumber: 2.1 Consensus size: 47
48375927 TTCGCCAATT
*
48375937 AAGCACAAATACAAGGAAAACACTTGAACGAATAAAAAAATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAAT-AAAAAATACAATGA
48375985 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
48376032 AAG
1 AAG
48376035 TTCACAAGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.35
48 32 0.65
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.12
Consensus pattern (47 bp):
AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
Found at i:48378698 original size:18 final size:18
Alignment explanation
Indices: 48378684--48378721 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48378674 GATCACATGT
48378684 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
48378702 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
48378720 CC
1 CC
48378722 TACCATACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (18 bp):
CCGTGTACTATCACACGG
Found at i:48384473 original size:13 final size:13
Alignment explanation
Indices: 48384455--48384493 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
48384445 TAGGTAATCA
*
48384455 CACATGGGCGTGT
1 CACATGGGCATGT
48384468 CACATGGGCATGT
1 CACATGGGCATGT
*
48384481 CACACGGGCATGT
1 CACATGGGCATGT
48384494 AACACAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (13 bp):
CACATGGGCATGT
Found at i:48390481 original size:14 final size:12
Alignment explanation
Indices: 48390452--48390486 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
48390442 TTTAAAATTT
48390452 TTTTATTTTTTA
1 TTTTATTTTTTA
48390464 TTTTATGTTTTTA
1 TTTTAT-TTTTTA
48390477 CTTTTATTTT
1 -TTTTATTTT
48390487 ATTTTAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:48390882 original size:20 final size:20
Alignment explanation
Indices: 48390859--48390898 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48390849 AGCTCATTCA
48390859 TCATTCAGGAAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
48390879 TCATTCAGGAAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
48390899 CTCTCCCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
TCATTCAGGAAGTTTCACTT
Found at i:48396496 original size:40 final size:38
Alignment explanation
Indices: 48396413--48396500 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 38
48396403 GTCCAACCCA
*
48396413 ACACACCATGTAGGGATAAAATCGACCCACCTATCCCT
1 ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
* * *
48396451 GCACACCATATATGGGGATAAAATCGACCCGTCC-ATCCTT
1 ACACACCATATA--GGGATAAAATCGACCC-ACCTATCCCT
48396491 ACACACCATA
1 ACACACCATA
48396501 AGGTACTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.24
40 30 0.71
41 2 0.05
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (38 bp):
ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
Found at i:48398119 original size:311 final size:311
Alignment explanation
Indices: 48397556--48398177 Score: 1091
Period size: 311 Copynumber: 2.0 Consensus size: 311
48397546 CTTGTACAGA
48397556 GCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
1 GCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
48397621 GTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
66 GTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
* * * * * **
48397686 AAACTGTTCTGGCCCTGTCTCACGAGAACTGGAATATCTCTTAACATACTGTCCGTATGATTGTT
131 AAACCGTTCTGGCCCTGTCTCACGAAAACTGGAACATCTCATAACATACTGTCCATATGAACGTT
* * *
48397751 TCGTTACTTTCCTATGAAATTAGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATT
196 TCATTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTTATTCACTATTTAATT
48397816 CCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
261 CCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
48397867 GCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
1 GCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
48397932 GTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
66 GTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
** * * *
48397997 AAACCGTTCTGGCCCTGTCTCACGAAAACTTTAGCATCTCATAATATACTGTTCATATGAACGTT
131 AAACCGTTCTGGCCCTGTCTCACGAAAACTGGAACATCTCATAACATACTGTCCATATGAACGTT
* *
48398062 TCATTACTTTCCTATGAAAATATATTCATCAAGGTTCGTTTTCATAATTTATTCACTATTTAATT
196 TCATTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTTATTCACTATTTAATT
48398127 CCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
261 CCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
48398178 AGCATCTGCC
Statistics
Matches: 294, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
311 294 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (311 bp):
GCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATG
GTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAG
AAACCGTTCTGGCCCTGTCTCACGAAAACTGGAACATCTCATAACATACTGTCCATATGAACGTT
TCATTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTTATTCACTATTTAATT
CCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
Found at i:48399014 original size:79 final size:79
Alignment explanation
Indices: 48398903--48399125 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
48398893 GCTCCTCGTT
* * *
48398903 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
48398967 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
48398983 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
48399046 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
48399061 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
48399123 GGA
63 GGA
48399126 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 57 0.45
80 23 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:48399020 original size:39 final size:40
Alignment explanation
Indices: 48398903--48399125 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
48398893 GCTCCTCGTT
* *
48398903 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48398943 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48398983 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48399022 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
48399061 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
48399102 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48399126 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48406150 original size:18 final size:19
Alignment explanation
Indices: 48406109--48406150 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
48406099 CCCATGTGCC
48406109 CTGCCCGTGTGGGCCCACA
1 CTGCCCGTGTGGGCCCACA
*
48406128 C-GCCCGTGT-GGCTCACA
1 CTGCCCGTGTGGGCCCACA
48406145 CTGCCC
1 CTGCCC
48406151 AAATTGGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.38
18 12 0.57
19 1 0.05
ACGTcount: A:0.10, C:0.45, G:0.29, T:0.17
Consensus pattern (19 bp):
CTGCCCGTGTGGGCCCACA
Found at i:48416540 original size:46 final size:46
Alignment explanation
Indices: 48416429--48416634 Score: 143
Period size: 46 Copynumber: 4.5 Consensus size: 46
48416419 TAATGCCATG
* * *
48416429 TCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCAATGCATG
1 TCCCAGACAT-GTCTTACACTAACTTACATCTCG-AGGCCGATGCATA
** * * *
48416474 TCTAAGACATATCGTGCACTAACTTACATCTCGAGGCCGATGCATA
1 TCCCAGACATGTCTTACACTAACTTACATCTCGAGGCCGATGCATA
* *** * * * *
48416520 TCCCAGACATGTCTTACACTAGCACCCATCTCAATGACGATGCCATG
1 TCCCAGACATGTCTTACACTAACTTACATCTCGAGGCCGATG-CATA
* * *
48416567 TCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGCCGATGCATA
1 TCCCAGACAT-GTCTTACACTAACT-T-ACATCTCGAGGCCGATGCATA
*
48416614 TCCTAGACATGTCTTACACTA
1 TCCCAGACATGTCTTACACTA
48416635 GCCCACAATA
Statistics
Matches: 123, Mismatches: 31, Indels: 13
0.74 0.19 0.08
Matches are distributed among these distances:
44 9 0.07
45 9 0.07
46 58 0.47
47 25 0.20
48 19 0.15
49 1 0.01
50 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAACTTACATCTCGAGGCCGATGCATA
Found at i:48416622 original size:47 final size:44
Alignment explanation
Indices: 48416508--48416643 Score: 143
Period size: 47 Copynumber: 3.0 Consensus size: 44
48416498 TACATCTCGA
*
48416508 GGCCGATGCATATCCCAGACATGTCTTACACTAGCACCCATCTCAA-T
1 GGCCGATGCATATCCCAGACATGTCTTACACTAG---CC-TCACAATT
* *
48416555 -GACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGT
1 GGCCGATG-CATATCCCAGACAT-GTCTTACACTAGC-CTCACAAT-T
*
48416602 GGCCGATGCATATCCTAGACATGTCTTACACTAGCC-CACAAT
1 GGCCGATGCATATCCCAGACATGTCTTACACTAGCCTCACAAT
48416644 AGCTTATATG
Statistics
Matches: 77, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
44 6 0.08
45 7 0.09
46 20 0.26
47 26 0.34
48 18 0.23
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (44 bp):
GGCCGATGCATATCCCAGACATGTCTTACACTAGCCTCACAATT
Found at i:48421132 original size:39 final size:39
Alignment explanation
Indices: 48421089--48421192 Score: 190
Period size: 39 Copynumber: 2.7 Consensus size: 39
48421079 GAATTTAAGC
*
48421089 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
48421128 CCGGATAAAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
48421167 CCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCT
48421193 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:48428533 original size:39 final size:39
Alignment explanation
Indices: 48428490--48428745 Score: 467
Period size: 39 Copynumber: 6.6 Consensus size: 39
48428480 GAATTTAAGC
*
48428490 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* *
48428529 CCGGATAAAATTCCAGCACATAGCCTGCAGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
48428568 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* *
48428607 CCGGATAAAATTCCAGCACATAGCCTGCGGACTTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
48428646 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
48428685 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
48428724 CCGGATATAATTCCAGCACATA
1 CCGGATATAATTCCAGCACATA
48428746 CAATTATGAT
Statistics
Matches: 208, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 208 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:48432506 original size:38 final size:37
Alignment explanation
Indices: 48432463--48432586 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 37
48432453 AGCTTAAAGA
*
48432463 CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TATGCTGGTATTATATCCGGGTTAAAT
* * *
48432501 CCCGCAAGCTTCGTGCTTGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTT-ATGCTGGTATTATATCCGGGTTAAAT
* *
48432539 CCCGCAGGCTTAGTGCTGGTACTATATCCGAGCTTAAAGT
1 CCCGCAGGCTTA-TGCTGGTATTATATCCG-GGTTAAA-T
*
48432579 CCCACAGG
1 CCCGCAGG
48432587 TTTTGTGCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 57 0.79
39 6 0.08
40 8 0.11
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (37 bp):
CCCGCAGGCTTATGCTGGTATTATATCCGGGTTAAAT
Found at i:48435764 original size:28 final size:28
Alignment explanation
Indices: 48435732--48435796 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
48435722 ATTTACTAGA
*
48435732 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
48435760 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
48435788 ATACCCCTA
1 ATACCCCTA
48435797 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:48436003 original size:29 final size:28
Alignment explanation
Indices: 48435902--48435992 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
48435892 AGGAAGCGTC
48435902 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
48435930 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
48435958 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
48435987 CTGGTG
1 CTGGTG
48435993 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:48436017 original size:56 final size:55
Alignment explanation
Indices: 48435902--48436017 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
48435892 AGGAAGCGTC
* *
48435902 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
48435958 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
48436014 CTGG
1 CTGG
48436018 CAACCATGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:48437104 original size:11 final size:10
Alignment explanation
Indices: 48437076--48437109 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
48437066 AGCCTATAAG
48437076 TATTCTGAAT
1 TATTCTGAAT
*
48437086 TTTTCTGAAT
1 TATTCTGAAT
48437096 ATATTCTGAAT
1 -TATTCTGAAT
48437107 TAT
1 TAT
48437110 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:48443584 original size:28 final size:28
Alignment explanation
Indices: 48443552--48443616 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
48443542 ATTTACTAGA
* *
48443552 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATATATGCAAAATGACCATT
* *
48443580 ATACCCCTATATATGCTAAATGACCTTT
1 ATACCCCTATATATGCAAAATGACCATT
48443608 ATACCCCTA
1 ATACCCCTA
48443617 GGATTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (28 bp):
ATACCCCTATATATGCAAAATGACCATT
Found at i:48443763 original size:28 final size:28
Alignment explanation
Indices: 48443722--48443812 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
48443712 ACGAAGCGTC
48443722 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
48443750 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
* *
48443778 CTTGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
48443807 CTGGTG
1 CTGGTG
48443813 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 50 0.89
29 6 0.11
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:48444312 original size:19 final size:18
Alignment explanation
Indices: 48444265--48444305 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
48444255 TAATAAGGCC
**
48444265 TTTTAATTGTTTTTATGG
1 TTTTAATTACTTTTATGG
*
48444283 TTTTAATTACTTTTATTG
1 TTTTAATTACTTTTATGG
48444301 TTTTA
1 TTTTA
48444306 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGG
Found at i:48454697 original size:8 final size:8
Alignment explanation
Indices: 48454655--48454679 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48454645 ATATAGACTA
48454655 AATAAAAT
1 AATAAAAT
48454663 AATAAAAT
1 AATAAAAT
48454671 AATAAAAT
1 AATAAAAT
48454679 A
1 A
48454680 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:48454703 original size:29 final size:31
Alignment explanation
Indices: 48454652--48454720 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
48454642 TATATATAGA
*
48454652 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAACAATTAT
* *
48454681 CTTATTAAAAT-ATTAAATAAATAACAATTAT
1 CTAATTAAAATAATAAAAT-AATAACAATTAT
48454712 CTAATTAAA
1 CTAATTAAA
48454721 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAACAATTAT
Found at i:48455013 original size:41 final size:41
Alignment explanation
Indices: 48454958--48455040 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
48454948 TACCTTCAAG
48454958 TTTTTCATATTTACACTTTAATCCCTCAAATTTTGAGTATT
1 TTTTTCATATTTACACTTTAATCCCTCAAATTTTGAGTATT
48454999 TTTTTCATATTTACACTTTAATCCCTCAAATTTTGAGTATT
1 TTTTTCATATTTACACTTTAATCCCTCAAATTTTGAGTATT
48455040 T
1 T
48455041 ACTCTTGGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTTCATATTTACACTTTAATCCCTCAAATTTTGAGTATT
Found at i:48473406 original size:50 final size:48
Alignment explanation
Indices: 48473244--48473412 Score: 161
Period size: 48 Copynumber: 3.6 Consensus size: 48
48473234 GACGAAAGCC
*
48473244 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTAC-GAGATGT--GTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACAGATATGTGGGTT
* * * * **
48473288 AGTGTAACACCATGTTTGGGACATGGCATCGTCACATATA-GAGGTGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGG-GTT
* *
48473336 AGTGTAAGATCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTG-G-GTT
**
48473386 AGCATAAGACCATGTTTGGGACATGGC
1 AGTGTAAGACCATGTTTGGGACATGGC
48473413 GTTAGCCTCG
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
44 8 0.08
45 17 0.18
46 9 0.09
48 36 0.37
49 2 0.02
50 25 0.26
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGGGTT
Found at i:48473408 original size:98 final size:92
Alignment explanation
Indices: 48473241--48473412 Score: 229
Period size: 98 Copynumber: 1.8 Consensus size: 92
48473231 TGAGACGAAA
* **
48473241 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGTTAGTGTAACACCATGTTTG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTTAGCATAACACCATGTTTG
48473306 GGACATGGCATCGTCACATATAGAGGT
66 GGACATGGCATCGTCACATATAGAGGT
* *
48473333 GCCAGTGTAAGATCATGTCTGGGACATGGCATCGGC-ACAGATATGTGAGAGTTAGCATAAGACC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGT----GTTAGCATAACACC
48473397 ATGTTTGGGACATGGC
59 ATGTTTGGGACATGGC
48473413 GTTAGCCTCG
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 12 0.18
93 15 0.22
94 14 0.21
98 27 0.40
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTTAGCATAACACCATGTTTG
GGACATGGCATCGTCACATATAGAGGT
Found at i:48481122 original size:47 final size:46
Alignment explanation
Indices: 48480818--48481132 Score: 191
Period size: 47 Copynumber: 6.7 Consensus size: 46
48480808 TTTGTGTGCT
48480818 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACATT-AT-GAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGAGAGCC
* * * *
48480864 AGTGTAAGACCATGTATGGGACATGGCATTGGCTTTGATACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT-GGAGAGCC
* * * *
48480912 AGTGTAAGA-CATGTATGGGACAT-GCATC-AGC-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATG-GA-GAGCC
* * * ** *
48480956 AGTGTAAAACCATATCTGGAACATGGCATCGACACGGGTATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG--ACTTG-ATG-GAGAGCC
* * * * * *
48481006 AGTGTAAGACCATGTCCT-GAACATGGCGTCGACCTCGATTTCGATAGTC
1 AGTGTAAGACCATGT-CTGGGACATGGCATCGA-CTTGA--TGGAGAGCC
*
48481055 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGA-GAGCC
* *
48481102 AGTGTAAGACTATGTCTGGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
48481133 GCATTATACC
Statistics
Matches: 208, Mismatches: 39, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
43 3 0.01
44 12 0.06
45 14 0.07
46 24 0.12
47 59 0.28
48 28 0.13
49 34 0.16
50 28 0.13
51 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAGAGCC
Found at i:48482267 original size:20 final size:21
Alignment explanation
Indices: 48482228--48482267 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48482218 GTTATAATGA
48482228 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
48482249 CCACACTGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
48482268 ATTTTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:48486082 original size:25 final size:26
Alignment explanation
Indices: 48486053--48486105 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
48486043 AAATGAAGGG
48486053 GAAAAT-AGAGGGCTTA-TGAATGA-GA
1 GAAAATGAGA-GG-TTAGTGAATGATGA
48486078 GAAAATGAGAGGTTAGTGAATGATGA
1 GAAAATGAGAGGTTAGTGAATGATGA
48486104 GA
1 GA
48486106 GGAAATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 3 0.12
25 15 0.60
26 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (26 bp):
GAAAATGAGAGGTTAGTGAATGATGA
Found at i:48487468 original size:2 final size:2
Alignment explanation
Indices: 48487461--48487508 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
48487451 TTGAATAGAG
48487461 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
48487503 CT CT CT
1 CT CT CT
48487509 TTTTATTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:48489688 original size:42 final size:42
Alignment explanation
Indices: 48489639--48489720 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
48489629 AGTTAATAGG
* *
48489639 GCACTTAGTGTGCGAAATCGAGATAGCTTCAGTTATATATTT
1 GCACTTAGTGTGAGAAATCGAGATAGCTTCAGCTATATATTT
* * *
48489681 GCACTTAGTGTGAGAGATTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTGAGAAATCGAGATAGCTTCAGCTATATAT
48489721 ATATATACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (42 bp):
GCACTTAGTGTGAGAAATCGAGATAGCTTCAGCTATATATTT
Found at i:48493220 original size:28 final size:28
Alignment explanation
Indices: 48493175--48493231 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
48493165 TTAGTGGAAG
* * * *
48493175 ATCGGAAGAACTTGCTAGGGTAGCGACT
1 ATCGGAAGAACCTACTAGGATAGCAACT
*
48493203 ATCGGAAGATCCTACTAGGATAGCAACT
1 ATCGGAAGAACCTACTAGGATAGCAACT
48493231 A
1 A
48493232 ATTGATGGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
ATCGGAAGAACCTACTAGGATAGCAACT
Found at i:48494392 original size:14 final size:15
Alignment explanation
Indices: 48494373--48494405 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48494363 AACTATTAAC
48494373 AAAAAA-TAAACATA
1 AAAAAATTAAACATA
*
48494387 AAAAAATTAAGCATA
1 AAAAAATTAAACATA
48494402 AAAA
1 AAAA
48494406 TATATGTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAAATTAAACATA
Found at i:48494998 original size:18 final size:18
Alignment explanation
Indices: 48494934--48494983 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
48494924 ATTAAGAATG
48494934 TTATTAAATTATATATTA
1 TTATTAAATTATATATTA
48494952 TTATTAAATTATATATTA
1 TTATTAAATTATATATTA
48494970 TTATTAAATTATAT
1 TTATTAAATTATAT
48494984 TTAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:48497579 original size:9 final size:9
Alignment explanation
Indices: 48497558--48497700 Score: 53
Period size: 9 Copynumber: 15.2 Consensus size: 9
48497548 TGTTTAGAGT
48497558 TTTTTAAAA
1 TTTTTAAAA
48497567 -TTTTAAAA
1 TTTTTAAAA
**
48497575 TTTTTAACTC
1 TTTTTAA-AA
*
48497585 TTTTTATATA
1 TTTTTA-AAA
*
48497595 TTCTTTAAGATT
1 TT-TTTAA-A-A
*
48497607 TTTTTATAA
1 TTTTTAAAA
*
48497616 TTTTT-ATA
1 TTTTTAAAA
48497624 TTTGTTAAAA
1 TTT-TTAAAA
* *
48497634 -ATATATAAA
1 TTTTTA-AAA
*
48497643 -TTTTGAAA
1 TTTTTAAAA
48497651 TTTTTATAAA
1 TTTTTA-AAA
*
48497661 TATTTTGAAA
1 T-TTTTAAAA
48497671 -TTTTAAAA
1 TTTTTAAAA
48497679 TTATTTTAAAA
1 -T-TTTTAAAA
*
48497690 ATTTTAAAA
1 TTTTTAAAA
48497699 TT
1 TT
48497701 ATCCGTGTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 30
0.66 0.13 0.20
Matches are distributed among these distances:
8 24 0.24
9 32 0.32
10 20 0.20
11 21 0.21
12 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:48497621 original size:20 final size:19
Alignment explanation
Indices: 48497567--48497621 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
48497557 TTTTTTAAAA
* *
48497567 TTTTAAAATTTTTAACTCT
1 TTTTATAATTTTTAAATCT
*
48497586 TTTTATATATTCTTTAAGATTT
1 TTTTATA-ATT-TTTAA-ATCT
48497608 TTTTATAATTTTTA
1 TTTTATAATTTTTA
48497622 TATTTGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 7 0.23
21 8 0.27
22 9 0.30
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTAAATCT
Found at i:48497672 original size:28 final size:28
Alignment explanation
Indices: 48497640--48497700 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
48497630 AAAAATATAT
* * *
48497640 AAATTTTGAAATT-TTTATAAATATTTTG
1 AAATTTTAAAATTATTT-TAAAAATTTTA
48497668 AAATTTTAAAATTATTTTAAAAATTTTA
1 AAATTTTAAAATTATTTTAAAAATTTTA
48497696 AAATT
1 AAATT
48497701 ATCCGTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AAATTTTAAAATTATTTTAAAAATTTTA
Found at i:48497683 original size:19 final size:19
Alignment explanation
Indices: 48497642--48497702 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
48497632 AAATATATAA
48497642 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTA-AAATT
48497662 ATTTTGAAATTTTAAAATT
1 ATTTTGAAATTTTAAAATT
*
48497681 ATTTTAAAAATTTTAAAATT
1 ATTTT-GAAATTTTAAAATT
48497701 AT
1 AT
48497703 CCGTGTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 24 0.63
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAATT
Found at i:48497692 original size:12 final size:11
Alignment explanation
Indices: 48497670--48497702 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
48497660 ATATTTTGAA
48497670 ATTTTAAAATT
1 ATTTTAAAATT
48497681 ATTTTAAAA--
1 ATTTTAAAATT
48497690 ATTTTAAAATT
1 ATTTTAAAATT
48497701 AT
1 AT
48497703 CCGTGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:48513222 original size:50 final size:50
Alignment explanation
Indices: 48513142--48513466 Score: 323
Period size: 50 Copynumber: 6.5 Consensus size: 50
48513132 CCATTGTGAG
*
48513142 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
* * * * * * * **
48513192 TCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCG-TTAACTTCTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGA
* * * * * *
48513243 TCACGTCTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
*
48513293 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
* * * * * * *
48513343 TCGCCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGA
* * * *
48513394 TCACGTGTGTAGTACTAGGTGCAGGCTACTACGTGTATCAGATGGTTA-A
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
*
48513443 GTCATGTGTGTAGTACTAAGTGCA
1 -TCACGTGTGTAGTACTAAGTGCA
48513467 TGTGACACCC
Statistics
Matches: 216, Mismatches: 52, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
49 7 0.03
50 138 0.64
51 69 0.32
52 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
Found at i:48513317 original size:101 final size:101
Alignment explanation
Indices: 48513142--48513323 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
48513132 CCATTGTGAG
* * ** *
48513142 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAATCACATGTGTAGTAC
48513207 TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTA
66 TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTA
* * * *
48513243 TCACGTCTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAAATCACGTGTGTAGTAC
1 TCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAATCACATGTGTAGTAC
*
48513308 TAAGTGCAGGCTACTA
66 TAAATGCAGGCTACTA
48513324 CGTGTACCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAATCACATGTGTAGTAC
TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTA
Found at i:48513416 original size:151 final size:151
Alignment explanation
Indices: 48513142--48513466 Score: 571
Period size: 151 Copynumber: 2.2 Consensus size: 151
48513132 CCATTGTGAG
48513142 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
*
48513207 TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTATCACGTCTGTAGTACTAAGTGCAGGCTAT
66 TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTATCACGTCTGTAGTACTAAGTGCAGGCTAC
48513272 TACGTGTATCAGATGGTTAAA
131 TACGTGTATCAGATGGTTAAA
*
48513293 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCCTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* * *
48513358 TAAGTGCAGGCTACTATGCGTACCCGTTAACTT-TGATCACGTGTGTAGTACTAGGTGCAGGCTA
66 TAAATGCAGGCTACTATGCGTACCCGTTAACTTCT-ATCACGTCTGTAGTACTAAGTGCAGGCTA
*
48513422 CTACGTGTATCAGATGGTTAAG
130 CTACGTGTATCAGATGGTTAAA
*
48513444 TCATGTGTGTAGTACTAAGTGCA
1 TCACGTGTGTAGTACTAAGTGCA
48513467 TGTGACACCC
Statistics
Matches: 166, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 1 0.01
151 165 0.99
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAATGCAGGCTACTATGCGTACCCGTTAACTTCTATCACGTCTGTAGTACTAAGTGCAGGCTAC
TACGTGTATCAGATGGTTAAA
Found at i:48516032 original size:144 final size:144
Alignment explanation
Indices: 48515790--48516098 Score: 573
Period size: 144 Copynumber: 2.1 Consensus size: 144
48515780 TATATATGTG
48515790 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
48515855 GCTAATGTGAAATATGTATGAGATATGAATACGTGGTAAAGCAGAATGGCTAGTGGAAAATATGT
66 GCTAATGTGAAATATGTATGAGATATGAATACGTGGTAAAGCAGAATGGCTAGTGGAAAATATGT
48515920 ATGAGATATGTATA
131 ATGAGATATGTATA
*
48515934 TGTGGGAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* * * *
48515999 GCTAGTGTGAACTATGTATGAGATATGTATACGTGGTAAAGCAGAATGGCTAGTGTAAAATATGT
66 GCTAATGTGAAATATGTATGAGATATGAATACGTGGTAAAGCAGAATGGCTAGTGGAAAATATGT
48516064 ATGAGATATGTATA
131 ATGAGATATGTATA
48516078 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
48516099 GTGATTCGGC
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 159 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.29
Consensus pattern (144 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAATGTGAAATATGTATGAGATATGAATACGTGGTAAAGCAGAATGGCTAGTGGAAAATATGT
ATGAGATATGTATA
Found at i:48516099 original size:48 final size:48
Alignment explanation
Indices: 48515790--48516101 Score: 509
Period size: 48 Copynumber: 6.5 Consensus size: 48
48515780 TATATATGTG
*
48515790 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
48515838 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGAATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
48515886 CGTGGTAAAGCAGAATGGCTAGTG-GAAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTG-AAATATGTATGAGATATGTATA
* *
48515934 TGTGGGAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48515982 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
48516030 CGTGGTAAAGCAGAATGGCTAGTGTAAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
48516078 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
48516102 ATTCGGCTAG
Statistics
Matches: 244, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 1 0.00
48 242 0.99
49 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:48516321 original size:37 final size:37
Alignment explanation
Indices: 48516271--48516373 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
48516261 GGAAATATAT
48516271 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
48516308 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48516345 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
48516374 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48517484 original size:16 final size:16
Alignment explanation
Indices: 48517463--48517494 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48517453 AGAATGGAGT
48517463 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
48517479 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
48517495 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:48519757 original size:40 final size:40
Alignment explanation
Indices: 48519700--48519800 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
48519690 TGTCCATGTT
* * *
48519700 TGCACAT-TAGTGTCCCTGTTTGTACTTCGGTACCCTTGAA
1 TGCACATCT-GTGGCCCTGTTTGTACTTCGGTACCCCTAAA
*
48519740 TGCACATCTGTGGCCCTGTTTGTACTTTGGTACCCCTAAA
1 TGCACATCTGTGGCCCTGTTTGTACTTCGGTACCCCTAAA
48519780 TGCACATCTGT-GCCCTTGTTT
1 TGCACATCTGTGGCCC-TGTTT
48519801 TCACTTCAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 4 0.07
40 50 0.91
41 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.38
Consensus pattern (40 bp):
TGCACATCTGTGGCCCTGTTTGTACTTCGGTACCCCTAAA
Found at i:48542771 original size:30 final size:30
Alignment explanation
Indices: 48542737--48542808 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
48542727 GTTACACCTA
* *
48542737 GGCTTGGCGACACGGTCGTATGACACACAT
1 GGCTTGGAGACACGGTCGTATGACACACAC
*
48542767 GGCTTGGAGACACGGTCGTGTGACACACAC
1 GGCTTGGAGACACGGTCGTATGACACACAC
*
48542797 GGCTTGGTGACA
1 GGCTTGGAGACA
48542809 TGGCTGTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.25, G:0.33, T:0.19
Consensus pattern (30 bp):
GGCTTGGAGACACGGTCGTATGACACACAC
Found at i:48557510 original size:14 final size:15
Alignment explanation
Indices: 48557491--48557520 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48557481 GAAATGAAAG
48557491 AAGGAGGA-GAAGAA
1 AAGGAGGACGAAGAA
48557505 AAGGAGGACGAAGAA
1 AAGGAGGACGAAGAA
48557520 A
1 A
48557521 CATCGTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.03, G:0.40, T:0.00
Consensus pattern (15 bp):
AAGGAGGACGAAGAA
Found at i:48558456 original size:19 final size:19
Alignment explanation
Indices: 48558411--48558447 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48558401 GAATGATCAT
48558411 TTGCCTTAGTAAAATTTTTA
1 TTGCCTTAGT-AAATTTTTA
48558431 TTGCCTTAGT-AATTTTT
1 TTGCCTTAGTAAATTTTT
48558448 TTTAGCCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (19 bp):
TTGCCTTAGTAAATTTTTA
Found at i:48560294 original size:42 final size:42
Alignment explanation
Indices: 48560174--48560380 Score: 161
Period size: 42 Copynumber: 4.9 Consensus size: 42
48560164 TAAGATGCCA
* ** *
48560174 ATGCCATATCCTAGATATGGTC-T-TACATGGGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTATACA-AAG-TCTCATATCG
* * * * *
48560216 AAGCCAATAGCCCAGTTATGGTCTTACACAATGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTATACAAAGTCTCATATCG
*
48560259 ATGCCATATCCCAGATATGGTCTTATACAAAGTCTCATTTTCG
1 ATGCCATATCCCAGATATGGTCTTATACAAAGTCTCA-TATCG
* * *** * * **
48560302 AAGCCATGTCCCAGACGGGGTCTTACACGAAA-TCACATGCCG
1 ATGCCATATCCCAGATATGGTCTTATAC-AAAGTCTCATATCG
48560344 ATGCCATATCCCAGATATGGTCTTATACAGAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTATACA-AAGTCTCA
48560381 ATAACCCTAA
Statistics
Matches: 129, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 63 0.49
43 57 0.44
44 5 0.04
45 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATACAAAGTCTCATATCG
Found at i:48560315 original size:85 final size:86
Alignment explanation
Indices: 48560174--48560380 Score: 217
Period size: 85 Copynumber: 2.4 Consensus size: 86
48560164 TAAGATGCCA
* * ** * * * ** *
48560174 ATGCCATATCCTAGATATGGTCTTACATGGGATCACA-TATCGAAGCCAATAGCCCAGTTATGGT
1 ATGCCATATCCCAGATATGGTCTTATACAGAATCTCATTTTCGAAGCCAATAGCCCAGACAGGGT
* * *
48560238 CTTACAC-AATGTCTCATATCG
66 CTTACACGAA-ATCACATACCG
*
48560259 ATGCCATATCCCAGATATGGTCTTATACA-AAGTCTCATTTTCGAAGCC-AT-GTCCCAGACGGG
1 ATGCCATATCCCAGATATGGTCTTATACAGAA-TCTCATTTTCGAAGCCAATAG-CCCAGACAGG
*
48560321 GTCTTACACGAAATCACATGCCG
64 GTCTTACACGAAATCACATACCG
48560344 ATGCCATATCCCAGATATGGTCTTATACAGAATCTCA
1 ATGCCATATCCCAGATATGGTCTTATACAGAATCTCA
48560381 ATAACCCTAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
84 2 0.02
85 87 0.85
86 13 0.13
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (86 bp):
ATGCCATATCCCAGATATGGTCTTATACAGAATCTCATTTTCGAAGCCAATAGCCCAGACAGGGT
CTTACACGAAATCACATACCG
Found at i:48563083 original size:26 final size:26
Alignment explanation
Indices: 48563047--48563098 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48563037 TACCATGTTT
*
48563047 CCCTCCTTCTATTCTTTCATTTGCTA
1 CCCTCCTTCTATTCTTTCAGTTGCTA
48563073 CCCTCCTTCTATTCTTTCAGTTGCTA
1 CCCTCCTTCTATTCTTTCAGTTGCTA
48563099 GCTCTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.35, G:0.06, T:0.48
Consensus pattern (26 bp):
CCCTCCTTCTATTCTTTCAGTTGCTA
Found at i:48566040 original size:31 final size:31
Alignment explanation
Indices: 48566002--48566064 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
48565992 GTTTTGCTCA
48566002 CATAATATATCACATGGAAAACCTTGTCCTT
1 CATAATATATCACATGGAAAACCTTGTCCTT
* **
48566033 CATAATATATCGCATGGAAGCCCTTGTCCTT
1 CATAATATATCACATGGAAAACCTTGTCCTT
48566064 C
1 C
48566065 CTTTGCCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
CATAATATATCACATGGAAAACCTTGTCCTT
Found at i:48572927 original size:55 final size:53
Alignment explanation
Indices: 48572799--48572994 Score: 182
Period size: 55 Copynumber: 3.6 Consensus size: 53
48572789 CATACCATTC
* * * * * *
48572799 CCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTAT-GAAGTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTGGCTTATAGAACTTACCAATG
* * *
48572852 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGGCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTACC-TTGGCTTATAG-AACTTACCAATG
* * *
48572907 CCATGTCTTGACATGGTCTTAAATGGTATCCTT-GCTT-TAGAAACCTTACCAATTA
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTGGCTTATAG-AA-CTTACCAA-TG
*
48572962 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTT
48572995 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 37 0.31
54 12 0.10
55 66 0.56
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (53 bp):
CCATGCCTTGACATGGTCTTACATGGTACCTTGGCTTATAGAACTTACCAATG
Found at i:48575498 original size:33 final size:33
Alignment explanation
Indices: 48575452--48575524 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
48575442 TTGATTCAGT
*
48575452 CTTCTTCTCATCTCCCTCTGGTCCTGTTGTGGC
1 CTTCTCCTCATCTCCCTCTGGTCCTGTTGTGGC
* *
48575485 CTTCTCCTTATCTCCCTCTGGTCCTTTTGTGGC
1 CTTCTCCTCATCTCCCTCTGGTCCTGTTGTGGC
48575518 CTTCTCC
1 CTTCTCC
48575525 ATAGTTGCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.03, C:0.38, G:0.15, T:0.44
Consensus pattern (33 bp):
CTTCTCCTCATCTCCCTCTGGTCCTGTTGTGGC
Found at i:48581898 original size:24 final size:24
Alignment explanation
Indices: 48581870--48581915 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
48581860 TTTTAATTAG
48581870 AAAGAAATTTCAATTAATCAACCT
1 AAAGAAATTTCAATTAATCAACCT
48581894 AAAGAAATTTCAATTAATCAAC
1 AAAGAAATTTCAATTAATCAAC
48581916 ATAGAGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (24 bp):
AAAGAAATTTCAATTAATCAACCT
Found at i:48590680 original size:40 final size:39
Alignment explanation
Indices: 48590636--48590740 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
48590626 AGTGACCATA
*
48590636 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
48590676 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
48590714 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
48590741 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48590697 original size:39 final size:40
Alignment explanation
Indices: 48590596--48590740 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
48590586 TTGAATGATG
* *
48590596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
48590636 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
48590675 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
48590715 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48590741 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:48590754 original size:40 final size:39
Alignment explanation
Indices: 48590597--48590759 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
48590587 TGAATGATGT
** * * *
48590597 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
48590637 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
48590677 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
48590716 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
48590756 CCGG
1 CCGG
48590760 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:48590759 original size:79 final size:80
Alignment explanation
Indices: 48590596--48590746 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
48590586 TTGAATGATG
*
48590596 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
48590661 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
48590676 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
48590738 TTGAACGAG
64 TTGAACGAG
48590747 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:48598680 original size:40 final size:40
Alignment explanation
Indices: 48598491--48598716 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
48598481 TTGAATGATG
* * * *
48598491 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48598531 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48598571 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48598611 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48598651 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48598692 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48598717 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.94
41 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48600371 original size:42 final size:43
Alignment explanation
Indices: 48600271--48600371 Score: 98
Period size: 43 Copynumber: 2.4 Consensus size: 43
48600261 CAATGTCAAC
* * *
48600271 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
* * ** * *
48600314 ATCTCAGGTAGGGTCTTACACGAAATCAAATA-CGATGCTGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGC-CACT
48600356 GTCCCAGACATGGTCT
1 GTCCCAGACATGGTCT
48600372 GTAACGCCCC
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
42 18 0.42
43 25 0.58
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:48607459 original size:14 final size:13
Alignment explanation
Indices: 48607431--48607467 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
48607421 ATCCTGGAAT
48607431 ATTAA-AACAATA
1 ATTAAGAACAATA
48607443 ATTAAGAACACATA
1 ATTAAGAACA-ATA
48607457 ATTAAGAACAA
1 ATTAAGAACAA
48607468 ATCAAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:48616459 original size:14 final size:14
Alignment explanation
Indices: 48616440--48616466 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48616430 TATTAAAATA
48616440 ATAATTAAGAACAC
1 ATAATTAAGAACAC
48616454 ATAATTAAGAACA
1 ATAATTAAGAACA
48616467 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:48618391 original size:47 final size:44
Alignment explanation
Indices: 48618337--48618554 Score: 147
Period size: 47 Copynumber: 4.7 Consensus size: 44
48618327 GGTAAGGTGC
48618337 CGATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGT
1 CGATG-CATGTCCCAGACA-GGTCTTACACTAGCT-ATATCTCATGT
* * * *
48618384 CGATGCCATGACCTAGACATGGTCTTACACTAACTATCATCCCATAG-
1 CGATG-CATGTCCCAGACA-GGTCTTACACTAGCTAT-ATCTCAT-GT
* * * * *
48618431 CAAATGCATGTCCCAGACATGTCTTACACTGGCTTATTTCTCGAGGT
1 C-GATGCATGTCCCAGACAGGTCTTACACTAGC-TATATCTC-ATGT
* * * *
48618478 CGATGCATGTCCCAGACA--TACTAACACTAGCTCT-TATAATGT
1 CGATGCATGTCCCAGACAGGT-CTTACACTAGCTATATCTCATGT
* *
48618520 GGCTGATGTATGTCCCAGACAGGTCTTACAGTAGC
1 --C-GATGCATGTCCCAGACAGGTCTTACACTAGC
48618555 CCACAATCAT
Statistics
Matches: 135, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 4 0.03
45 25 0.19
46 42 0.31
47 55 0.41
48 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACAGGTCTTACACTAGCTATATCTCATGT
Found at i:48629372 original size:47 final size:47
Alignment explanation
Indices: 48629205--48629381 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 47
48629195 GATGTGTCAG
* * *
48629205 TGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGA-GAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TAG--ATG-GATGAGCCAA
* * * * * *
48629255 TGTAAGAGCATGTCTGGGACATGTCGTCGACCTCGATTTCGAT-AGTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CTAGA--TGGATGAGCCAA
* *
48629304 TGTAAGACCATGTCTGAGACATGGCATCGACTTGATGGATGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCCAA
* *
48629351 TGTAAGACCATGCCTGGGACATAGCATCGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGAC
48629382 ATTATACCCT
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
46 4 0.04
47 33 0.32
48 5 0.05
49 31 0.30
50 29 0.28
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCCAA
Done.