Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 115 of 228
Found at i:33775970 original size:52 final size:50
Alignment explanation
Indices: 33775854--33775972 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 50
33775844 TTAATAAAGT
**
33775854 CATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCATAAATAATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATAATGA
* * * * *
33775904 AATCCATTATGTAACTCCCATTTTAGTTAACGTTTGCATCTTTAAATTAA-GC
1 CATGCATTATGTAACTCCCATGTTAGTTAA-GTTTGCATC-ATAAA-TAATGA
*
33775956 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
33775973 ATCTGTTCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 25 0.45
51 9 0.16
52 19 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (50 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATAATGA
Found at i:33777668 original size:26 final size:26
Alignment explanation
Indices: 33777624--33777686 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
33777614 CCTTACGGAG
33777624 TTTGCCAC-AAAGACATTCTTT-AATA
1 TTTGCCACAAAAGACATTCTTTCAA-A
*
33777649 TTATGCCACAAAAG-CTTTCTTTCAAA
1 TT-TGCCACAAAAGACATTCTTTCAAA
33777675 TTTCGCCACAAA
1 TTT-GCCACAAA
33777687 GCCTTACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 3 0.09
26 24 0.73
27 6 0.18
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTGCCACAAAAGACATTCTTTCAAA
Found at i:33782180 original size:12 final size:12
Alignment explanation
Indices: 33782165--33782198 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
33782155 ATTTAAACTA
*
33782165 AAATACATGAGT
1 AAATACATGAAT
33782177 AAATACAATGAAT
1 AAATAC-ATGAAT
33782190 AAATACATG
1 AAATACATG
33782199 TACAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (12 bp):
AAATACATGAAT
Found at i:33783240 original size:26 final size:26
Alignment explanation
Indices: 33783211--33783324 Score: 95
Period size: 26 Copynumber: 4.4 Consensus size: 26
33783201 AAGTAGTTTC
33783211 CCACAAAGGCATTCTTTCATATTACG
1 CCACAAAGGCATTCTTTCATATTACG
* * *
33783237 CCACAAAGACTTTCTTTCATATTATG
1 CCACAAAGGCATTCTTTCATATTACG
* * * * *
33783263 CCAC-AATGAATTTATTTCAAATTACA
1 CCACAAAGGCA-TTCTTTCATATTACG
* * **
33783289 CTACAAATGTTTTCTTTCATATTACG
1 CCACAAAGGCATTCTTTCATATTACG
*
33783315 CCATAAAGGC
1 CCACAAAGGC
33783325 TTTTGTTATC
Statistics
Matches: 65, Mismatches: 21, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
25 2 0.03
26 59 0.91
27 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (26 bp):
CCACAAAGGCATTCTTTCATATTACG
Found at i:33789638 original size:31 final size:31
Alignment explanation
Indices: 33789600--33789663 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
33789590 AACATTGGTA
33789600 AAGTAATAGTTAATATATGTTTTATATTTCT
1 AAGTAATAGTTAATATATGTTTTATATTTCT
33789631 AAGTAATAGTTAATATATGTTTTATATTTCT
1 AAGTAATAGTTAATATATGTTTTATATTTCT
33789662 AA
1 AA
33789664 CTTTGTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (31 bp):
AAGTAATAGTTAATATATGTTTTATATTTCT
Found at i:33791749 original size:27 final size:28
Alignment explanation
Indices: 33791719--33791816 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
33791709 ATATTAAGTC
*
33791719 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33791746 CGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
33791774 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
33791803 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33791817 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
29 20 0.32
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33796971 original size:3 final size:3
Alignment explanation
Indices: 33796963--33796997 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33796953 CTATCAAATG
33796963 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33796998 GTCCTACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33799257 original size:19 final size:19
Alignment explanation
Indices: 33799201--33799257 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
33799191 GCATATCACT
*
33799201 TATTCATTTCAT-TTTCTC
1 TATTCATTTCATATTTATC
* *
33799219 TTTTCATTTTCAAATTTATC
1 TATTCA-TTTCATATTTATC
*
33799239 TATTCATTTCATATCTATC
1 TATTCATTTCATATTTATC
33799258 GGTCCTTAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.16
19 16 0.52
20 10 0.32
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTCATTTCATATTTATC
Found at i:33801988 original size:37 final size:38
Alignment explanation
Indices: 33801900--33801992 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 38
33801890 CACCACTTCG
* * *
33801900 TCCACCCTACACACCACATTAGGGCTATAGTAGGCCCA
1 TCCACCCTACACACCACATTAGGACCATAGTAGGCACA
*
33801938 TCCACCCTGCACACCACA-TAGGACCAT-GATAGGCACA
1 TCCACCCTACACACCACATTAGGACCATAG-TAGGCACA
*
33801975 TCCGCCCTACACACCACA
1 TCCACCCTACACACCACA
33801993 AATGTGGAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 30 0.62
38 17 0.35
ACGTcount: A:0.30, C:0.41, G:0.14, T:0.15
Consensus pattern (38 bp):
TCCACCCTACACACCACATTAGGACCATAGTAGGCACA
Found at i:33805994 original size:6 final size:6
Alignment explanation
Indices: 33805983--33806035 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
33805973 ATAAATAAGA
* *
33805983 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAA AAACA- AAACAA
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
33806030 AAACAT
1 AAACAT
33806036 CATCATCCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (6 bp):
AAACAT
Found at i:33814091 original size:47 final size:47
Alignment explanation
Indices: 33814033--33814380 Score: 543
Period size: 47 Copynumber: 7.4 Consensus size: 47
33814023 CAGCCAAGAC
*
33814033 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33814080 AGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
33814127 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33814174 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
33814221 AGTGTATATATGTAATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
33814268 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
33814315 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
33814362 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
33814381 TCTCGAAGGG
Statistics
Matches: 277, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 277 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:33814555 original size:37 final size:37
Alignment explanation
Indices: 33814499--33814577 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33814489 CCGAGCTCTA
* *
33814499 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
33814536 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33814573 AAGAC
1 AAGAC
33814578 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33821297 original size:50 final size:50
Alignment explanation
Indices: 33821172--33821462 Score: 402
Period size: 50 Copynumber: 5.7 Consensus size: 50
33821162 ATTTGGGTAA
* * *
33821172 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* * *
33821228 AGAGGCCCCATGTAAGACCATGTTTGGGACATGCCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
33821278 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
33821328 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
33821378 ACAGGTCCCATGTAAGACCACGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
***
33821428 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
33821463 ATGGGCACTT
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
50 172 0.81
53 3 0.01
55 1 0.00
56 37 0.17
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:33821490 original size:150 final size:152
Alignment explanation
Indices: 33821177--33821494 Score: 424
Period size: 150 Copynumber: 2.1 Consensus size: 152
33821167 GGTAAAGAGA
* *
33821177 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGCCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGACAGGCCCCATGTA
* * * **
33821242 AGACCATGTTTGGGACATGCCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGA
62 AGACCACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGA
* **
33821307 CATGGCATTGGCACCGAGATGAGAGG
127 CATGGCATGGGCACCGAGATGAGAAC
* *
33821333 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGACAGGTCCCATGTAAGAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGACAGGCCCCATGTAAGAC
* *
33821396 CACGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGGACATG
66 CACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGACATG
** *
33821461 GCATGGGCACTTATATGAGAAC
131 GCATGGGCACCGAGATGAGAAC
*
33821483 TCTCATGTAAGA
1 TCCCATGTAAGA
33821495 TCATAACTGG
Statistics
Matches: 144, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
150 104 0.72
153 2 0.01
156 38 0.26
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (152 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGACAGGCCCCATGTAAGAC
CACGTCTAGGACATGCCGTTGGCACCGAGATGAGAGGTCCCACATAAGACCATGTCTGGGACATG
GCATGGGCACCGAGATGAGAAC
Found at i:33828152 original size:50 final size:50
Alignment explanation
Indices: 33828027--33828316 Score: 319
Period size: 50 Copynumber: 5.7 Consensus size: 50
33828017 ATTTGGGTAA
* * *
33828027 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* *
33828083 AGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
33828133 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
33828183 AGAGGTCCCATGTAAAACCATGTCTAGGACATGGCGTCGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * * * * *
33828233 AGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
33828283 AGAACTCTCATGTAAGACCATATCTGGGATATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
33828317 AATTTGCAGT
Statistics
Matches: 202, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 160 0.79
53 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:33832443 original size:39 final size:40
Alignment explanation
Indices: 33832292--33832461 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
33832282 GGACTAAGAT
* * *
33832292 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
33832332 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
33832372 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
33832412 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
33832451 CCGAAGGCATT
1 CCGAAGGCATT
33832462 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:33832481 original size:79 final size:80
Alignment explanation
Indices: 33832314--33832496 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
33832304 GTGCGAGATA
* * * *
33832314 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
33832379 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
33832394 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
33832458 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
33832473 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
33832497 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:33862736 original size:262 final size:262
Alignment explanation
Indices: 33862359--33862887 Score: 1031
Period size: 262 Copynumber: 2.0 Consensus size: 262
33862349 CATATTAATC
*
33862359 AATGAGGTATTATGAAACTTTGGTTGTCACGGAAGTATTAATAAGGTTGATTTGATAAGTATGAA
1 AATGAGGTATTATGAAACTTTGGTTGTCACGAAAGTATTAATAAGGTTGATTTGATAAGTATGAA
33862424 TTATGTTATTAATTTGAAAATGCAAATGATGTCATAATGGCAAAGAATGAGATGAATTAATCAAT
66 TTATGTTATTAATTTGAAAATGCAAATGATGTCATAATGGCAAAGAATGAGATGAATTAATCAAT
33862489 TCCTACTAATTATCGATAGAGTCAACATATTAATACCTGTGGAAACATATGTATAATCATGAAGT
131 TCCTACTAATTATCGATAGAGTCAACATATTAATACCTGTGGAAACATATGTATAATCATGAAGT
33862554 TTGGAAAATTGGTTTAAAGTAAGGCCATAAAGACTCTTCTTGAATTTTTGTTATGGAAATGTTGG
196 TTGGAAAATTGGTTTAAAGTAAGGCCATAAAGACTCTTCTTGAATTTTTGTTATGGAAATGTTGG
33862619 TA
261 TA
33862621 AATGAGGTATTATGAAACTTTGGTTGTCACGAAAGTATTAATAAGGTTGATTTGATAAGTATGAA
1 AATGAGGTATTATGAAACTTTGGTTGTCACGAAAGTATTAATAAGGTTGATTTGATAAGTATGAA
33862686 TTATGTTATTAATTTGAAAATGCAAATGATGTCATAATGGCAAAGAATGAGATGAATTAATCAAT
66 TTATGTTATTAATTTGAAAATGCAAATGATGTCATAATGGCAAAGAATGAGATGAATTAATCAAT
* *
33862751 TCCTGCTAATTATCGATAGAGTTAACATATTAATACCTGTGGAAACATATGTATAATCATGAAGT
131 TCCTACTAATTATCGATAGAGTCAACATATTAATACCTGTGGAAACATATGTATAATCATGAAGT
33862816 TTGGAAAATTGGTTTAAAGTAAGGCCATAAAGACTCTTCTTGAATTTTTGTTATGGAAATGTTGG
196 TTGGAAAATTGGTTTAAAGTAAGGCCATAAAGACTCTTCTTGAATTTTTGTTATGGAAATGTTGG
33862881 TA
261 TA
33862883 AATGA
1 AATGA
33862888 AAGAAATGGC
Statistics
Matches: 264, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 264 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (262 bp):
AATGAGGTATTATGAAACTTTGGTTGTCACGAAAGTATTAATAAGGTTGATTTGATAAGTATGAA
TTATGTTATTAATTTGAAAATGCAAATGATGTCATAATGGCAAAGAATGAGATGAATTAATCAAT
TCCTACTAATTATCGATAGAGTCAACATATTAATACCTGTGGAAACATATGTATAATCATGAAGT
TTGGAAAATTGGTTTAAAGTAAGGCCATAAAGACTCTTCTTGAATTTTTGTTATGGAAATGTTGG
TA
Found at i:33870707 original size:13 final size:13
Alignment explanation
Indices: 33870689--33870714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33870679 AATTAAATCT
33870689 AATATTAATTAAG
1 AATATTAATTAAG
33870702 AATATTAATTAAG
1 AATATTAATTAAG
33870715 TGATAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AATATTAATTAAG
Found at i:33877658 original size:27 final size:27
Alignment explanation
Indices: 33877624--33877801 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
33877614 AAAATTGTAC
33877624 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33877651 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33877677 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33877705 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
33877733 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33877760 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33877787 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33877802 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33877738 original size:82 final size:81
Alignment explanation
Indices: 33877625--33877780 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
33877615 AAATTGTACA
*
33877625 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
33877689 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33877706 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
33877771 TGCGAGTTGA
65 TGCGAATTGA
33877781 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33877792 original size:82 final size:81
Alignment explanation
Indices: 33877621--33877801 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
33877611 ATTAAAATTG
*
33877621 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
33877686 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33877702 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
33877766 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33877784 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33877802 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33885404 original size:27 final size:27
Alignment explanation
Indices: 33885370--33885547 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
33885360 AAAATTGTAC
33885370 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33885397 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33885423 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33885451 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
33885479 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33885506 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33885533 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33885548 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33885484 original size:82 final size:81
Alignment explanation
Indices: 33885371--33885526 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
33885361 AAATTGTACA
*
33885371 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
33885435 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33885452 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
33885517 TGCGAGTTGA
65 TGCGAATTGA
33885527 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33885538 original size:82 final size:81
Alignment explanation
Indices: 33885367--33885547 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
33885357 ATTAAAATTG
*
33885367 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
33885432 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33885448 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
33885512 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33885530 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33885548 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33899534 original size:14 final size:14
Alignment explanation
Indices: 33899515--33899541 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33899505 ATGGTCTAGT
33899515 TGAACTGAACCGAG
1 TGAACTGAACCGAG
33899529 TGAACTGAACCGA
1 TGAACTGAACCGA
33899542 CCAAGAAATG
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:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:33899878 original size:18 final size:19
Alignment explanation
Indices: 33899852--33899891 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
33899842 ACATTCACAT
33899852 ATTTCCTCTCTTC-TCTCC
1 ATTTCCTCTCTTCTTCTCC
*
33899870 ATTTTCTCTCTTCTTCTCC
1 ATTTCCTCTCTTCTTCTCC
33899889 ATT
1 ATT
33899892 CCAAAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTCCTCTCTTCTTCTCC
Found at i:33905915 original size:40 final size:40
Alignment explanation
Indices: 33905871--33906134 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
33905861 GCTCCTCGTT
* * * *
33905871 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33905911 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33905951 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33905991 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
33906031 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
33906070 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
33906111 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33906135 CAGCATTCAA
Statistics
Matches: 203, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.24
40 144 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33909411 original size:18 final size:18
Alignment explanation
Indices: 33909374--33909412 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33909364 TTGTGGCATG
*
33909374 TATATAAGTGTCTTGATA
1 TATATAAGAGTCTTGATA
* *
33909392 TATATAAGAGTTTTGGTA
1 TATATAAGAGTCTTGATA
33909410 TAT
1 TAT
33909413 GCCTTGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (18 bp):
TATATAAGAGTCTTGATA
Found at i:33923932 original size:51 final size:51
Alignment explanation
Indices: 33923852--33924192 Score: 312
Period size: 51 Copynumber: 6.8 Consensus size: 51
33923842 TATCGATGAA
*
33923852 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * *
33923903 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* * *
33923954 CAC--GTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * *
33924003 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATCGATAAA--TATTGGT
* * *
33924054 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCTG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATA-TTGGT
* **
33924104 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ATTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
33924153 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
33924193 ATGATAAAAA
Statistics
Matches: 238, Mismatches: 37, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.00
49 74 0.31
50 55 0.23
51 106 0.45
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:33923936 original size:26 final size:26
Alignment explanation
Indices: 33923856--33923938 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
33923846 GATGAACACG
*
33923856 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* *
33923882 CGTGTA-T-CGATAAAT-AATGG-TCAC-A
1 TGTGTAGTAC--TAAGTGAA-GGCT-ACTA
33923907 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
33923933 TGTGTA
1 TGTGTA
33923939 CCGAGAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:33924030 original size:100 final size:100
Alignment explanation
Indices: 33923857--33924191 Score: 373
Period size: 100 Copynumber: 3.3 Consensus size: 100
33923847 ATGAACACGT
*
33923857 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTAAG
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTACTAAG
* *
33923921 TGAAGGCTACTATGTG-TACCGAGAAGTTTTGAG-CAC
65 TGAAGGCTACTATG-GATACCGAAAAGCTTTG-GTCAC
* * * *
33923957 GTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTACTAAGT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAGT
33924022 GAAGGCTACTATGGATACCGAAAAGCTTTGGTCAC
66 GAAGGCTACTATGGATACCGAAAAGCTTTGGTCAC
* * * *
33924057 GTATGTAGTACTATGTGAAGGCTACTACGTG-AGCTGTAAAACT-TGATCACGTGTGTAGTACTA
1 G--TGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTACTA
* * * **
33924120 TGTGAAGGCTACTACGTGA-ACTGTAAAA---TTAATCAC
63 AGTGAAGGCTACTATG-GATACCG-AAAAGCTTTGGTCAC
33924156 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 --GTGTAGTACTATGTGAAGGCTACTACGTGTATCG
33924192 AATGATAAAA
Statistics
Matches: 202, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
99 36 0.18
100 90 0.45
101 39 0.19
102 37 0.18
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAGT
GAAGGCTACTATGGATACCGAAAAGCTTTGGTCAC
Found at i:33934156 original size:40 final size:40
Alignment explanation
Indices: 33934056--33934320 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
33934046 TCCTCGTTCA
* * * * * *
33934056 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-G
* *
33934097 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33934137 AATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33934177 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33934217 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
33934257 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33934297 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33934321 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.02
40 151 0.77
41 42 0.21
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33934281 original size:80 final size:80
Alignment explanation
Indices: 33934056--33934267 Score: 334
Period size: 80 Copynumber: 2.6 Consensus size: 80
33934046 TCCTCGTTCA
* * * * *
33934056 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACACAATGCCTTCGGGACATAACCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA-AATGCCTTCGGGACTTAACCCGGA
33934121 TTTAACAACTCGCACG
65 TTTAACAACTCGCACG
* *
33934137 AATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
33934202 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* *
33934217 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
33934268 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 86 0.72
81 34 0.28
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:33934329 original size:41 final size:41
Alignment explanation
Indices: 33934252--33934329 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33934242 TTAGTATCTC
* * *
33934252 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33934293 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33934330 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33939258 original size:103 final size:104
Alignment explanation
Indices: 33939012--33939277 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
33939002 GTTGTACATA
** *
33939012 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
33939077 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
33939116 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
33939181 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
33939219 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTAGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
33939278 AATAACGGTT
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
103 82 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:33946105 original size:30 final size:30
Alignment explanation
Indices: 33946064--33946124 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33946054 ATTTCCGAGC
33946064 TTGGGGACAAAAGTGTAATTATGCAAAAGT
1 TTGGGGACAAAAGTGTAATTATGCAAAAGT
* * * *
33946094 TTGGGGGCAAAATTGTAATTTTTCAAAAGT
1 TTGGGGACAAAAGTGTAATTATGCAAAAGT
33946124 T
1 T
33946125 GGGTGGTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.33
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTATGCAAAAGT
Found at i:33947632 original size:20 final size:20
Alignment explanation
Indices: 33947607--33947645 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
33947597 AATCATCATG
33947607 TAAATATATGTTATGGTTTA
1 TAAATATATGTTATGGTTTA
33947627 TAAATATATGTTATGGTTT
1 TAAATATATGTTATGGTTT
33947646 GATTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
TAAATATATGTTATGGTTTA
Found at i:33951930 original size:13 final size:13
Alignment explanation
Indices: 33951914--33952016 Score: 72
Period size: 13 Copynumber: 8.1 Consensus size: 13
33951904 TTTTTTTTCT
33951914 TCCTTTCCTCTTC
1 TCCTTTCCTCTTC
33951927 TCCTTTCCT-TT-
1 TCCTTTCCTCTTC
33951938 T-CTTTCCTTCTT-
1 TCCTTTCC-TCTTC
**
33951950 T-CTTTTTTCTTC
1 TCCTTTCCTCTTC
33951962 TCCTTTCCTCTTC
1 TCCTTTCCTCTTC
* *
33951975 TTCTTTCTTTCTTTC
1 TCCTTTC-CTC-TTC
** *
33951990 TTTTTTTCTCTTC
1 TCCTTTCCTCTTC
*
33952003 TCCTTTCCTTTTC
1 TCCTTTCCTCTTC
33952016 T
1 T
33952017 TTCCTTCTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 10 0.14
13 37 0.52
14 4 0.06
15 8 0.11
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TCCTTTCCTCTTC
Found at i:33951952 original size:4 final size:4
Alignment explanation
Indices: 33951936--33952083 Score: 117
Period size: 4 Copynumber: 36.0 Consensus size: 4
33951926 CTCCTTTCCT
*
33951936 TTTC TTTC CTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC TTTC TTTC
* * *
33951982 TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC
* * *
33952030 TTTC TTTCC TCTCC TTCC TTTC TTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
33952080 TTTC
1 TTTC
33952084 CCTCTCCTTC
Statistics
Matches: 120, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
3 12 0.10
4 84 0.70
5 15 0.12
6 9 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:33951988 original size:38 final size:39
Alignment explanation
Indices: 33951909--33952094 Score: 178
Period size: 38 Copynumber: 4.9 Consensus size: 39
33951899 TTACCTTTTT
* *
33951909 TTTCTTCCTTTC-CTCTTCTCCTTT-C-CTT-TTCTTTC
1 TTTCTTTCTTTCTTTCTTCTCCTTTCCTCTTCTTCTTTC
*
33951944 CTTCTTTCTTT-TTTCTTCTCCTTTCCTCTTCTTCTTTC
1 TTTCTTTCTTTCTTTCTTCTCCTTTCCTCTTCTTCTTTC
* * *
33951982 TTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTC
1 TTTCTTTC-TTTCTT-TCTTCTCCTTTCCTCTTC-TTCTTTC
*
33952024 -TT-TTTCTTTCTTTCCTCTCC-TTCCT-TTCTTCCTTTC
1 TTTCTTTCTTTCTTTCTTCTCCTTTCCTCTTCTT-CTTTC
*
33952060 TTTCTTTCTTTCTTTCTT-T-CTTTCCCTCTCCTTCT
1 TTTCTTTCTTTCTTTCTTCTCCTTT-CCTCTTCTTCT
33952095 GCCCCCCCAC
Statistics
Matches: 126, Mismatches: 11, Indels: 25
0.78 0.07 0.15
Matches are distributed among these distances:
35 22 0.17
36 9 0.07
37 13 0.10
38 39 0.31
39 12 0.10
40 6 0.05
41 19 0.15
42 6 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (39 bp):
TTTCTTTCTTTCTTTCTTCTCCTTTCCTCTTCTTCTTTC
Found at i:33952269 original size:20 final size:21
Alignment explanation
Indices: 33952229--33952270 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33952219 TTTTTTTTAT
*
33952229 ATATTTTGGTAAATAAAAAAA
1 ATATTTTAGTAAATAAAAAAA
33952250 ATATTTTAGTAAATAAAAAAA
1 ATATTTTAGTAAATAAAAAAA
33952271 GTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
ATATTTTAGTAAATAAAAAAA
Found at i:33956345 original size:24 final size:24
Alignment explanation
Indices: 33956313--33956358 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
33956303 ACGTTCATGT
*
33956313 ATAGAAAAT-ATAATAATTATAATG
1 ATAGAAAATGAT-ATAATAATAATG
*
33956337 ATAGTAAATGATATAATAATAA
1 ATAGAAAATGATATAATAATAA
33956359 ATAATGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (24 bp):
ATAGAAAATGATATAATAATAATG
Found at i:33956371 original size:27 final size:28
Alignment explanation
Indices: 33956320--33956389 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
33956310 TGTATAGAAA
*
33956320 ATATAATAAT-TATAATGATAGTAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
33956347 ATATAATAATAAATAATGGTA-TAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
33956374 -TAGTAATAAAAAATAA
1 ATA-TAATAATAAATAA
33956390 CTAAAATGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (28 bp):
ATATAATAATAAATAATGATAGTAAATG
Found at i:33972833 original size:42 final size:42
Alignment explanation
Indices: 33972722--33972937 Score: 199
Period size: 42 Copynumber: 5.1 Consensus size: 42
33972712 TCAACAACTC
* * * *
33972722 ATACAATGCC-ATCATCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACAATGCCAAT-GTCCCAGACAG-GGTCTTACACGAAATCAT
* *
33972764 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAT
1 ATA-CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAT
*
33972807 ATACAATGCCAATGTCCCAGAAAGGGTCTTACACGAAATCAT
1 ATACAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAT
* *
33972849 ATACAATGCCAATGT-CTAGACATGGTCTTACACGTAAATC-T
1 ATACAATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCAT
* ** * * *
33972890 CAAATTGATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCAC
1 -ATA-CAATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAT
33972934 ATAC
1 ATAC
33972938 CAGAATCCTA
Statistics
Matches: 143, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
41 17 0.12
42 61 0.43
43 47 0.33
44 18 0.13
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAT
Found at i:33981253 original size:50 final size:50
Alignment explanation
Indices: 33981141--33981433 Score: 388
Period size: 50 Copynumber: 5.8 Consensus size: 50
33981131 GATAATAACA
* * * * ** *
33981141 TGCCAAAGCTATGTCCCAGACATGGTATTACATGAGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
*** **
33981192 TGCCCTTGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
33981242 TGACAACGCCATGTCCCAGACATGGTCTTACATAAGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
**
33981292 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGGCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
33981342 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
33981392 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33981434 TTACCCAAAT
Statistics
Matches: 210, Mismatches: 32, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
50 181 0.86
51 29 0.14
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:33986235 original size:21 final size:21
Alignment explanation
Indices: 33986196--33986237 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33986186 TGAGGTATTA
*
33986196 GCAAACATGTAAAACATGATG
1 GCAAAAATGTAAAACATGATG
33986217 GCAAAAATGATAAAA-ATGATG
1 GCAAAAATG-TAAAACATGATG
33986238 CATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (21 bp):
GCAAAAATGTAAAACATGATG
Found at i:33987614 original size:21 final size:21
Alignment explanation
Indices: 33987590--33987695 Score: 67
Period size: 21 Copynumber: 5.1 Consensus size: 21
33987580 GATTACCTGT
*
33987590 TTGTACTTCGGTACCCCTGAA
1 TTGTACTTCGGTGCCCCTGAA
** *
33987611 TTGTAGAT-GCGTGCCCCTTG-T
1 TTGTACTTCG-GTGCCCC-TGAA
*
33987632 TTGTACTTAGGTGCCCCTGAA
1 TTGTACTTCGGTGCCCCTGAA
* * *
33987653 TTGCACATAC-GTGCCCCT-AC
1 TTGTAC-TTCGGTGCCCCTGAA
* *
33987673 TTGTACTTCGGTACCCCTAAA
1 TTGTACTTCGGTGCCCCTGAA
33987694 TT
1 TT
33987696 TCATATACGT
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
19 2 0.03
20 16 0.25
21 41 0.65
22 4 0.06
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (21 bp):
TTGTACTTCGGTGCCCCTGAA
Found at i:33987690 original size:41 final size:41
Alignment explanation
Indices: 33987589--33987756 Score: 192
Period size: 41 Copynumber: 4.1 Consensus size: 41
33987579 TGATTACCTG
* * * *
33987589 TTTGTACTTCGGTACCCCTGAATTGTAGATGCGTGCCCCTTG
1 TTTGTACTTCGGTACCCCTGAATTGCATATACGTGCCCC-TA
* * *
33987631 TTTGTACTTAGGTGCCCCTGAATTGCACATACGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATTGCATATACGTGCCCCTA
* * *
33987672 CTTGTACTTCGGTACCCCTAAATTTCATATACGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATTGCATATACGTGCCCCTA
* * * * *
33987713 TTTGTAGTTCAGTACGCCTGAATTACATATATGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATTGCATATACGTGCCCCTA
33987754 TTT
1 TTT
33987757 ACACTTCAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 73 0.68
42 34 0.32
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
TTTGTACTTCGGTACCCCTGAATTGCATATACGTGCCCCTA
Found at i:33992243 original size:23 final size:23
Alignment explanation
Indices: 33992213--33992262 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
33992203 ACCAAAAGAG
33992213 CCAATGGATAGTGTGATTTATCT
1 CCAATGGATAGTGTGATTTATCT
33992236 CCAATGGATAGTGTGATTTATCT
1 CCAATGGATAGTGTGATTTATCT
33992259 CCAA
1 CCAA
33992263 CAAGCTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (23 bp):
CCAATGGATAGTGTGATTTATCT
Found at i:33997915 original size:21 final size:22
Alignment explanation
Indices: 33997889--33997948 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 22
33997879 TATACTTTGG
33997889 TACCCCTAAATTGCACATAC-A
1 TACCCCTAAATTGCACATACGA
* * * *
33997910 TACCCCT-ATTTGTAC-TTCGG
1 TACCCCTAAATTGCACATACGA
33997930 TACCCCTAAATTGCACATA
1 TACCCCTAAATTGCACATA
33997949 TGTGCCCCTG
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 13 0.45
22 1 0.03
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (22 bp):
TACCCCTAAATTGCACATACGA
Found at i:33997938 original size:41 final size:41
Alignment explanation
Indices: 33997873--33998084 Score: 244
Period size: 41 Copynumber: 5.2 Consensus size: 41
33997863 TATGTGATTA
* * *
33997873 CCTGTTTATACTTTGGTACCCCTAAATTGCACATACATACC
1 CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
* * *
33997914 CCTATTTGTACTTCGGTACCCCTAAATTGCACATATGTGCC
1 CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
* *
33997955 CCTGTTTGTACTTTGGTACCTCTGAATTGCACATACGTGCC
1 CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
* * *
33997996 CCTGTTTGTACTTTAGTACCCCTGAATTGCATATACGTGCC
1 CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
* * * * * * * *
33998037 CTTTTTTGTGCTTCGGTACCCTTGAATTTCAAATACGTGCC
1 CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
*
33998078 CTTGTTT
1 CCTGTTT
33998085 ACACTCTAGT
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.38
Consensus pattern (41 bp):
CCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCC
Found at i:33998019 original size:20 final size:20
Alignment explanation
Indices: 33997953--33998019 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
33997943 CACATATGTG
*
33997953 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTAGTA
* * * * *
33997973 CCTCTGAATTGCAC-ATACGTG
1 CCCCTG-TTTGTACTTTA-GTA
33997994 CCCCTGTTTGTACTTTAGTA
1 CCCCTGTTTGTACTTTAGTA
33998014 CCCCTG
1 CCCCTG
33998020 AATTGCATAT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTAGTA
Found at i:33999071 original size:25 final size:25
Alignment explanation
Indices: 33999042--33999097 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
33999032 ATCAATAACG
33999042 TCAAATCAAAGTGTCGATAACCAGC
1 TCAAATCAAAGTGTCGATAACCAGC
33999067 TCAAATCAAAGTGTCGATAACCAGC
1 TCAAATCAAAGTGTCGATAACCAGC
*
33999092 TGAAAT
1 TCAAAT
33999098 TTCTTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (25 bp):
TCAAATCAAAGTGTCGATAACCAGC
Found at i:34010123 original size:37 final size:37
Alignment explanation
Indices: 34010073--34010151 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
34010063 TTATTACGAA
* * *
34010073 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
34010110 GTCTTACCCGGACAAAATCCCCACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
34010147 GTCTT
1 GTCTT
34010152 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:34010348 original size:47 final size:47
Alignment explanation
Indices: 34010270--34010878 Score: 986
Period size: 47 Copynumber: 12.7 Consensus size: 47
34010260 CCCTTCGGGA
* * * * * *
34010270 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34010317 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34010458 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010507 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34010556 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34010603 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010652 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010701 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34010750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34010797 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34010844 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
34010879 AGAATCCTAA
Statistics
Matches: 538, Mismatches: 19, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 301 0.56
49 236 0.44
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34010564 original size:145 final size:141
Alignment explanation
Indices: 34010270--34010878 Score: 986
Period size: 145 Copynumber: 4.2 Consensus size: 141
34010260 CCCTTCGGGA
* * * * * * * *
34010270 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
34010335 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
34010400 GGCCATTAGGC
131 GGCCATTAGGC
34010411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
34010476 ACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
34010541 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
34010556 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
34010621 ACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
34010686 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
34010701 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
34010766 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
34010831 TTGGCCATTAGGC
129 TCGGCCATTAGGC
* *
34010844 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
34010879 AGAATCCTAA
Statistics
Matches: 444, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.00
141 70 0.16
143 92 0.21
145 235 0.53
147 46 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:34015571 original size:16 final size:17
Alignment explanation
Indices: 34015552--34015586 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34015542 AGTGAAGGAA
34015552 AAAGATGTGTGG-AATG
1 AAAGATGTGTGGAAATG
*
34015568 AAAGGTGTGTGGAAATG
1 AAAGATGTGTGGAAATG
34015585 AA
1 AA
34015587 TAGGTGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (17 bp):
AAAGATGTGTGGAAATG
Found at i:34015578 original size:18 final size:18
Alignment explanation
Indices: 34015557--34015592 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
34015547 AGGAAAAAGA
34015557 TGTGTGG-AATGAA-AGG
1 TGTGTGGAAATGAATAGG
34015573 TGTGTGGAAATGAATAGG
1 TGTGTGGAAATGAATAGG
34015591 TG
1 TG
34015593 AAGGGGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.28
Consensus pattern (18 bp):
TGTGTGGAAATGAATAGG
Found at i:34021660 original size:16 final size:15
Alignment explanation
Indices: 34021639--34021677 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
34021629 AAGTTCATAA
34021639 AATTAATATACATTAT
1 AATTAATATA-ATTAT
34021655 AATTAATATAATTAT
1 AATTAATATAATTAT
34021670 ATATTAAT
1 A-ATTAAT
34021678 TATTAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAATATAATTAT
Found at i:34025899 original size:17 final size:18
Alignment explanation
Indices: 34025877--34025910 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34025867 AGATGTGTGG
*
34025877 AATGAA-AGGTGTATGGA
1 AATGAATAGGTGAATGGA
34025894 AATGAATAGGTGAATGG
1 AATGAATAGGTGAATGG
34025911 GGTATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (18 bp):
AATGAATAGGTGAATGGA
Found at i:34054095 original size:12 final size:13
Alignment explanation
Indices: 34054078--34054106 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34054068 CTCATACATG
34054078 AATAAATAAA-GC
1 AATAAATAAATGC
34054090 AATAAATAAATGC
1 AATAAATAAATGC
34054103 AATA
1 AATA
34054107 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:34057748 original size:16 final size:16
Alignment explanation
Indices: 34057727--34057760 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34057717 TTAATTGTTT
34057727 TTTATTTCTTTAGGAA
1 TTTATTTCTTTAGGAA
*
34057743 TTTATTTCTTTAGTAA
1 TTTATTTCTTTAGGAA
34057759 TT
1 TT
34057761 AGGACTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTATTTCTTTAGGAA
Found at i:34059964 original size:16 final size:17
Alignment explanation
Indices: 34059932--34059964 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34059922 TTTCAATCAT
34059932 CCCTCATCTCATCATCC
1 CCCTCATCTCATCATCC
34059949 CCCTCATCTC-TCATCC
1 CCCTCATCTCATCATCC
34059965 TCTCTCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.55, G:0.00, T:0.30
Consensus pattern (17 bp):
CCCTCATCTCATCATCC
Found at i:34071475 original size:49 final size:49
Alignment explanation
Indices: 34071394--34071494 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
34071384 ATGAGTACTT
*
34071394 TCGGTAAGTGATATGTGATTCTGTATAGGACCATAGCTGGGCTATGGCA
1 TCGGTAAGTGATATGTGATTCTGTATAGGACCATAGCTGGACTATGGCA
*
34071443 TCGGTACA-TGATATGTGATTACATGTA-A-GACCATAGTTGGACTATGGCA
1 TCGGTA-AGTGATATGTGATT-C-TGTATAGGACCATAGCTGGACTATGGCA
34071492 TCG
1 TCG
34071495 AGAAAACGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
49 40 0.85
50 3 0.06
51 4 0.09
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (49 bp):
TCGGTAAGTGATATGTGATTCTGTATAGGACCATAGCTGGACTATGGCA
Found at i:34082505 original size:28 final size:28
Alignment explanation
Indices: 34082474--34082916 Score: 625
Period size: 28 Copynumber: 15.8 Consensus size: 28
34082464 GTAATAGTAC
34082474 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
34082502 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
34082530 ATTGTTGGCCTTAGCCTAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
34082558 AATGTGGTCCTTAGCCCAATACAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
34082586 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
34082614 AATGTGGGCCTTAGCCCAATGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * * *
34082642 AACGTGGGCCTTAGCCTAATGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
*
34082670 AATATGGGCCTTAGCCCAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
34082698 ATTGTGCGCCTTAGCCAAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
34082726 AATGTAGGCCTTTGCCCAATACAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
*
34082754 AATGTGGGCCTTAGCCTAATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
34082782 AATGTGGGCCTTAGCCCAGTGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
34082810 AATGTGGGCCTTAGCCCAATGCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* * *
34082838 AACGTGGCCCTTAGCCCAATAAAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
* *
34082866 AATATGGGCCTTAGCCCAGTACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
34082894 AATGTGGGCCTTAGCCCAATACA
1 AATGTGGGCCTTAGCCCAATACA
34082917 ATATTCATAC
Statistics
Matches: 365, Mismatches: 50, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 365 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAGTAAT
Found at i:34083065 original size:26 final size:26
Alignment explanation
Indices: 34083026--34083102 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
34083016 AACACACCAA
* *
34083026 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCACAGCAAAGCTGCTAGTAACAG
* *
34083052 TATCATAGCGAAGCTG-TCAGTAACAG
1 TATCACAGCAAAGCTGCT-AGTAACAG
* *
34083078 TATCGCAGCAAAGCTGCCAGTAACA
1 TATCACAGCAAAGCTGCTAGTAACA
34083103 ATATACTTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCTAGTAACAG
Found at i:34083561 original size:80 final size:80
Alignment explanation
Indices: 34083254--34083613 Score: 413
Period size: 80 Copynumber: 4.5 Consensus size: 80
34083244 GGGTATAACA
* **
34083254 GTCATTTTACCCTAT-AGAGGTAATTCGGTCATTTTACCCTATGAGGGTAATTTGGTCATTTTAC
1 GTCATTTTACCCTATGAG-GGTATTTCGGTCATTTTACCCTATGAGGGTAATTCAGTCATTTTAC
* * * *
34083318 CCTATAGGGATATTTCA
65 CTTAT-GGGGTAATTCG
* *
34083335 GTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTAATTCAGTAATTTTATC
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTAATTCAGTCATTTTA-C
34083400 C-TATGGGGTAATTCG
65 CTTATGGGGTAATTCG
* * *
34083415 ATCATTTTACCCTATGAGGGTAATTT-GGTCATTTTAGCCTATGGGGGTAATTCAGTCATTTTAC
1 GTCATTTTACCCTATGAGGGT-ATTTCGGTCATTTTACCCTATGAGGGTAATTCAGTCATTTTAC
34083479 CTTATGGGGTAATTCG
65 CTTATGGGGTAATTCG
* * * * * *
34083495 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTATCCTGTGAGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTAATTCAGTCATTTTACC
* * *
34083560 TTGTGGGGATATTTTG
66 TTATGGGG-TAATTCG
* * * *
34083576 GTCATTCTACCCTATAAGACG-ATTTCAGTCATTTTACC
1 GTCATTTTACCCTATGAG-GGTATTTCGGTCATTTTACC
34083614 TATTTTGAGG
Statistics
Matches: 242, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
79 6 0.02
80 135 0.56
81 96 0.40
82 5 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (80 bp):
GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTAATTCAGTCATTTTACC
TTATGGGGTAATTCG
Found at i:34083564 original size:27 final size:27
Alignment explanation
Indices: 34083254--34083613 Score: 376
Period size: 27 Copynumber: 13.4 Consensus size: 27
34083244 GGGTATAACA
*
34083254 GTCATTTTACCCTAT-AGAGGTAATTCG
1 GTCATTTTACCCTATGAG-GGTATTTCG
34083281 GTCATTTTACCCTATGAGGGTAATTT-G
1 GTCATTTTACCCTATGAGGGT-ATTTCG
*
34083308 GTCATTTTACCCTAT-AGGGATATTTCA
1 GTCATTTTACCCTATGAGGG-TATTTCG
*
34083335 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
34083362 GTCATTTTACCCTATGAGGGTAATTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
34083389 GTAATTTTATCCTATG-GGGTAATTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
34083415 ATCATTTTACCCTATGAGGGTAATTT-G
1 GTCATTTTACCCTATGAGGGT-ATTTCG
* * * *
34083442 GTCATTTTAGCCTATGGGGGTAATTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
34083469 GTCATTTTACCTTATG-GGGTAATTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
34083495 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
34083522 GTCATTCTATCCTGTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
34083549 GTCATTTTACCTTGTG-GGGATATTTTG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* * * *
34083576 GTCATTCTACCCTATAAGACG-ATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
34083603 GTCATTTTACC
1 GTCATTTTACC
34083614 TATTTTGAGG
Statistics
Matches: 281, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 60 0.21
27 207 0.74
28 13 0.05
29 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:34085423 original size:23 final size:23
Alignment explanation
Indices: 34085395--34085439 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34085385 TTCATATAAA
*
34085395 CATTTAATACCAAATATTCATCC
1 CATTTAATACCAAATATACATCC
*
34085418 CATTTAATACCAATTATACATC
1 CATTTAATACCAAATATACATC
34085440 AACACTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (23 bp):
CATTTAATACCAAATATACATCC
Found at i:34096904 original size:21 final size:21
Alignment explanation
Indices: 34096855--34096904 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
34096845 TCGAAAAATG
* *
34096855 GAAGTTGATGCTGCAGAAGAA
1 GAAGTTGTTGCTGCAAAAGAA
*
34096876 GAAGTTGTTGCTGCAAAATAA
1 GAAGTTGTTGCTGCAAAAGAA
34096897 GAAGTTGT
1 GAAGTTGT
34096905 CACTAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (21 bp):
GAAGTTGTTGCTGCAAAAGAA
Found at i:34096919 original size:21 final size:22
Alignment explanation
Indices: 34096869--34096923 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
34096859 TTGATGCTGC
** *
34096869 AGAAGAAGAAGTTGTTGCTGCA
1 AGAAGAAGAAGTTGTCACTGAA
*
34096891 A-AATAAGAAGTTGTCACT-AA
1 AGAAGAAGAAGTTGTCACTGAA
34096911 AGAAGAAGAAGTT
1 AGAAGAAGAAGTT
34096924 ACTGAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (22 bp):
AGAAGAAGAAGTTGTCACTGAA
Found at i:34099601 original size:22 final size:22
Alignment explanation
Indices: 34099576--34099643 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
34099566 TAGGCATCAA
*
34099576 AGTGTGAATCAGTAGGCACTGT
1 AGTGCGAATCAGTAGGCACTGT
* * * *
34099598 AGTGCAAATAAGTATGCACTAT
1 AGTGCGAATCAGTAGGCACTGT
* *
34099620 ATTGCGAACCAGTAGGCACTGT
1 AGTGCGAATCAGTAGGCACTGT
34099642 AG
1 AG
34099644 CGCAAACCCC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (22 bp):
AGTGCGAATCAGTAGGCACTGT
Found at i:34099651 original size:22 final size:22
Alignment explanation
Indices: 34099585--34099651 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
34099575 AAGTGTGAAT
*
34099585 CAGTAGGCACTGTAGTGCAAAT
1 CAGTAGGCACTGTAGTGCAAAC
* * * * *
34099607 AAGTATGCACTATATTGCGAAC
1 CAGTAGGCACTGTAGTGCAAAC
*
34099629 CAGTAGGCACTGTAGCGCAAAC
1 CAGTAGGCACTGTAGTGCAAAC
34099651 C
1 C
34099652 CCGTACAAGC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (22 bp):
CAGTAGGCACTGTAGTGCAAAC
Found at i:34100120 original size:60 final size:60
Alignment explanation
Indices: 34100007--34100120 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
34099997 AAGGTGGAAG
* * *
34100007 TACTAGCAATTAATCTGCATCACTGGTGGCTTGTCCATATTACTGCCATCTTGTTTGCAT
1 TACTAGCAATTAATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGTTTGCAT
* * * * **
34100067 TACTAGCAGTTTATCTGCATTACTGGTAGCTTGTCTACATTACTGGTAGCTTGT
1 TACTAGCAATTAATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGT
34100121 CAGCATTAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (60 bp):
TACTAGCAATTAATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGTTTGCAT
Found at i:34100127 original size:20 final size:21
Alignment explanation
Indices: 34100083--34100128 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
34100073 CAGTTTATCT
34100083 GCATTACTGGTAGCTTGTCTA
1 GCATTACTGGTAGCTTGTCTA
34100104 -CATTACTGGTAGCTTGTC-A
1 GCATTACTGGTAGCTTGTCTA
34100123 GCATTA
1 GCATTA
34100129 ATGGAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (21 bp):
GCATTACTGGTAGCTTGTCTA
Found at i:34100138 original size:60 final size:60
Alignment explanation
Indices: 34100019--34100140 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 60
34100009 CTAGCAATTA
* * * ** * *
34100019 ATCTGCATCACTGGTGGCTTGTCCATATTACTGCCATCTTGTTTGCATTACTAGCAGTTT
1 ATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGTCAGCATTAATAGAAGTTT
* * ** *
34100079 ATCTGCATTACTGGTAGCTTGTCTACATTACTGGTAGCTTGTCAGCATTAATGGAAGTTT
1 ATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGTCAGCATTAATAGAAGTTT
34100139 AT
1 AT
34100141 TTCATTTTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (60 bp):
ATCTGCATCACTGGTAGCTTGTCCACATTACTGCCAGCTTGTCAGCATTAATAGAAGTTT
Found at i:34106998 original size:23 final size:21
Alignment explanation
Indices: 34106972--34107018 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
34106962 GCTTATACAT
34106972 ACCAAAACACCATTAACAAATGC
1 ACCAAAACACCATT-ACAAAT-C
* *
34106995 ACCATAATACCATTACAAATC
1 ACCAAAACACCATTACAAATC
34107016 ACC
1 ACC
34107019 CTATACATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.17
Consensus pattern (21 bp):
ACCAAAACACCATTACAAATC
Found at i:34110071 original size:25 final size:25
Alignment explanation
Indices: 34110027--34110090 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
34110017 CATGTCTACT
*
34110027 CACACGAGTTGT-AATTAGAATGCA
1 CACACGAGCTGTGAATTAGAATGCA
* *
34110051 CACACGAGCTGTGAATTAGAATTCT
1 CACACGAGCTGTGAATTAGAATGCA
* *
34110076 CATATGAGCTGTGAA
1 CACACGAGCTGTGAA
34110091 AAATAGGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.32
25 23 0.68
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (25 bp):
CACACGAGCTGTGAATTAGAATGCA
Found at i:34123491 original size:100 final size:100
Alignment explanation
Indices: 34123361--34123872 Score: 727
Period size: 100 Copynumber: 5.1 Consensus size: 100
34123351 ATTACAGTGC
* * * *
34123361 AATAGATTGAAGCCACAATGGCGATTCTTACTTCCTTGGCGATGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
34123426 CGATGACGGATCTTGTTTCCCCGACATTGCAGTTA
66 CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
34123461 AATAGATTGAACCCACAACGCCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGGTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
34123526 CGATGACGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
34123561 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
34123626 CGACGGTGAATCTTGTTTCCCCGATATTGCAGTTA
66 CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
34123661 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * *
34123726 CGACGGTGAATCTTGTTTCCCCAACATTGAAGTTA
66 CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** * * * * *
34123761 AATAGATTAAAGCTACAATAGCAAATCTTACTTCCCTGACGGTGCAGAGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
34123826 CGATGGCGAATCTTGTTTCCCCGACATTACAGTTA
66 CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
34123861 AACAGATTGAAG
1 AATAGATTGAAG
34123873 ATGGCGAATC
Statistics
Matches: 368, Mismatches: 44, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 368 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGATGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:34123846 original size:50 final size:50
Alignment explanation
Indices: 34123355--34123851 Score: 280
Period size: 50 Copynumber: 9.9 Consensus size: 50
34123345 TTTGGCATTA
* * * * ** * *
34123355 CAGTGCAATAGATTGAAGCCACAATGGCGATTCTTACTTCCTTGGC-GATG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAG-TG
* * * * * * * *
34123405 TAGTGGAACAGATTGAAGCTACGATGACGGATCTTGTTTCCCCGACATTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
** * * * * * *
34123455 CAGTTAAATAGATTGAACCCACAACGCCGAATCTTACTTT-CCTGGCGGTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTT-GTTTCCCTGACAGTG
* * * * * * * *
34123505 TAGTGGAACAGATTGAAGGTACGATGACGAATCTTGTTTCCCCGACATTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
** * ** **
34123555 CAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-AGTGGTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGA-CAGTG
* * * * * * *
34123605 TAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGATATTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
** * * ** *
34123655 CAGTTAAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* * * * ** *
34123705 TAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* ** * ** * ** *
34123755 AAGTTAAATAGATTAAAGCTACAATAGCAAATCTTACTTCCCTGACGGTG
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* * * *
34123805 CAGAGGAATAGATTGAAGCTACGATGGCGAATCTTGTTTCCCCGACA
1 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACA
34123852 TTACAGTTAA
Statistics
Matches: 319, Mismatches: 123, Indels: 10
0.71 0.27 0.02
Matches are distributed among these distances:
49 4 0.01
50 311 0.97
51 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
CAGTGGAATAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
Found at i:34123868 original size:50 final size:50
Alignment explanation
Indices: 34123411--34123872 Score: 309
Period size: 50 Copynumber: 9.2 Consensus size: 50
34123401 GATGTAGTGG
* * *
34123411 AACAGATTGAAGCTACGATGACGGATCTTGTTTCCCCGACATTGCAGTTA
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * * * * ** * **
34123461 AATAGATTGAACCCACAACGCCGAATCTTACTTT-CCTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGCGAATCTT-GTTTCCCCGACATTGCAGTTA
* * *
34123511 AACAGATTGAAGGTACGATGACGAATCTTGTTTCCCCGACATTGCAGTTA
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * ** * * * **
34123561 AATAGATTGAAGCCACAACGGCGAATCTTACTT-CCCTA-GTGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACAT--TGCAGTTA
* *
34123611 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGATATTGCAGTTA
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * ** * * * * **
34123661 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGG
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
34123711 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTGAAGTTA
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * ** * ** * ** ***
34123761 AATAGATTAAAGCTACAATAGCAAATCTTACTTCCCTGACGGTGCAGAGG
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
34123811 AATAGATTGAAGCTACGATGGCGAATCTTGTTTCCCCGACATTACAGTTA
1 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
34123861 AACAGATTGAAG
1 AACAGATTGAAG
34123873 ATGGCGAATC
Statistics
Matches: 297, Mismatches: 109, Indels: 12
0.71 0.26 0.03
Matches are distributed among these distances:
48 1 0.00
49 7 0.02
50 281 0.95
51 7 0.02
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:34124551 original size:9 final size:9
Alignment explanation
Indices: 34124534--34124576 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
34124524 GCCTAAAACA
*
34124534 CCAAGTGGC
1 CCAAATGGC
34124543 CCAAATGGC
1 CCAAATGGC
*
34124552 CCAAATGTAAC
1 CCAAATG--GC
34124563 CCAAATGGC
1 CCAAATGGC
34124572 CCAAA
1 CCAAA
34124577 CAGAAACCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 21 0.72
11 8 0.28
ACGTcount: A:0.37, C:0.33, G:0.19, T:0.12
Consensus pattern (9 bp):
CCAAATGGC
Found at i:34127456 original size:80 final size:81
Alignment explanation
Indices: 34127323--34127549 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 81
34127313 TTTGAATGAT
* * * **
34127323 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCGT-ATCCGGACTAAGATCCGAAGGCA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAATCCGGACTAAGATCCGAAGGCA
34127386 TTTGTGCAAGATACTAA
65 TTTGTGCAAGATACTAA
34127403 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGACTAAGATCCGAAGGC
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATAATCCGGACTAAGATCCGAAGGC
* *
34127465 ATTTGTGCGAGTTACTAA
64 ATTTGTGCAAGATACTAA
** * *
34127483 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCCGGACTAAGAT-CCGAAGGCA
34127546 TTTG
65 TTTG
34127550 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
79 3 0.02
80 113 0.88
81 11 0.09
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAATCCGGACTAAGATCCGAAGGCAT
TTGTGCAAGATACTAA
Found at i:34127513 original size:40 final size:40
Alignment explanation
Indices: 34127363--34127549 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
34127353 AAGTGACCGT
* *
34127363 ATCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
34127403 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
34127443 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
** *
34127483 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAATTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
* *
34127524 A-CCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
34127550 AACGAGGAGC
Statistics
Matches: 138, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 135 0.98
41 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:34127567 original size:80 final size:79
Alignment explanation
Indices: 34127363--34127582 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 79
34127353 AAGTGACCGT
** * *
34127363 ATCCGGACTAAGATCCGAAGGCATTTGTGCAAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCA
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCA
34127426 TTTGTGCGAGATACTAA
63 TTTGTGCGAGATACTAA
** * *
34127443 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATT
34127508 TGTGCGA-ATTACTATA
65 TGTGCGAGA-TACTA-A
* * * *
34127524 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
34127583 TACGTGATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
79 19 0.16
80 99 0.81
81 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (79 bp):
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:34131092 original size:8 final size:8
Alignment explanation
Indices: 34131073--34131113 Score: 59
Period size: 7 Copynumber: 5.2 Consensus size: 8
34131063 TAAAAAAATG
34131073 AAATGAAAA
1 AAATG-AAA
34131082 AAATGAAA
1 AAATGAAA
34131090 AAATG-AA
1 AAATGAAA
34131097 AAATG-AA
1 AAATGAAA
34131104 AAATGAAA
1 AAATGAAA
34131112 AA
1 AA
34131114 TGGAAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 14 0.45
8 12 0.39
9 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:34131093 original size:22 final size:21
Alignment explanation
Indices: 34131065--34131128 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
34131055 TTGAGTCGTA
34131065 AAAAAATGAAATGAA-AAAAATG
1 AAAAAATGAAA--AAGAAAAATG
34131087 AAAAAATGAAAAATGAAAAATG
1 AAAAAATGAAAAA-GAAAAATG
*
34131109 -AAAAATGGAAAAAGTAAAAT
1 AAAAAAT-GAAAAAGAAAAAT
34131129 TGGAAAGGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 24 0.63
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAAATGAAAAAGAAAAATG
Found at i:34131098 original size:7 final size:7
Alignment explanation
Indices: 34131080--34131121 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
34131070 ATGAAATGAA
34131080 AAAAATG
1 AAAAATG
34131087 AAAAAATG
1 -AAAAATG
34131095 AAAAATG
1 AAAAATG
34131102 AAAAATG
1 AAAAATG
34131109 AAAAATGG
1 AAAAAT-G
34131117 AAAAA
1 AAAAA
34131122 GTAAAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:34131127 original size:14 final size:15
Alignment explanation
Indices: 34131080--34131134 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
34131070 ATGAAATGAA
*
34131080 AAAAATGAAAAAATG
1 AAAAATGGAAAAATG
34131095 AAAAAT-GAAAAATG
1 AAAAATGGAAAAATG
34131109 AAAAATGGAAAAA-G
1 AAAAATGGAAAAATG
*
34131123 TAAAATTGGAAA
1 -AAAAATGGAAA
34131135 GGCTAATGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 14 0.39
15 22 0.61
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (15 bp):
AAAAATGGAAAAATG
Found at i:34132664 original size:50 final size:50
Alignment explanation
Indices: 34132613--34133344 Score: 374
Period size: 50 Copynumber: 14.5 Consensus size: 50
34132603 ATCTCTTTGG
* *
34132613 CATTACAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* * * * * * * * ** **
34132663 CAATGTAGTGGGACAGATTGAAGCTACGACGGCGGATCATGTTTCCCCAA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* ** * **
34132713 CATTGCATTTAAATAGATTGAAGCCATAACGATGAATCTTACTTCCCTAGA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GA
* * * * ** *
34132764 GA-TGTAGTGGAATAGATT-AAACCTACGACGGC-AGATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCC-ACAACGGCGA-ATCTTACTTCCCTGA
* ** * *
34132813 CATTACAGTTAAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* * * * *** ** *
34132863 CAGTGTAGTGGAACAGATTGAAGCTATGGCGGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
** * * * *
34132913 CATTGCAGTTAAATAGATTGAACCCACAATGGTGAATCTTACTTCCCTTA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* ** * * ** *
34132963 CATCCCTGGCAGTGTGGTGGAACAGATTGAAGCTGCGACGACGAATCTTGTTTCCCCGA
1 CAT---T-GCA-----GTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
** * *
34133022 CATTGCAGTTAAATAGATTGAACCCACAACGGCGAATCTTACTTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
** * * * * * **
34133072 CGGTGTAGTGGAACAGATTAAAGCTACGACGGCGAATCTTGTTTCCCTGA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
** * *
34133122 CATTGCAGTTAAATAGATTGGAGCCACAACGGCGAATCTTACTTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
*** * * * * * ** *
34133172 TGGTGTAATGGAACAGATTGAAGCTACGACGGCGAATCTTTTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* * * ** * *
34133222 CATTGAAGT-TAAGTAGATTGAAGCTACAATAGCAAATCTTACTTCCCTGG
1 CATTGCAGTGGAA-TAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
** * ** * * ** *
34133272 CGGTGCAGAGGACCAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
* ** *
34133322 CATTGTAGTTAAACAGATTGAAG
1 CATTGCAGTGGAATAGATTGAAG
34133345 ATGGTGAATC
Statistics
Matches: 473, Mismatches: 192, Indels: 34
0.68 0.27 0.05
Matches are distributed among these distances:
49 10 0.02
50 415 0.88
51 8 0.02
53 1 0.00
54 3 0.01
55 3 0.01
56 1 0.00
59 32 0.07
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (50 bp):
CATTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA
Found at i:34132750 original size:100 final size:100
Alignment explanation
Indices: 34132624--34133344 Score: 924
Period size: 100 Copynumber: 7.1 Consensus size: 100
34132614 ATTACAGTGG
* * *
34132624 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGTAGTGGGACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
* * * *
34132689 CGACGGCGGATCATGTTTCCCCAACATTGCATTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
34132724 AATAGATTGAAGCCATAACGATGAATCTTACTTCCCTAG-AGATGTAGTGGAATAGATTAAACCT
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAG-TGTAGTGGAACAGATTGAAGCT
*
34132788 ACGACGGC-AGATCTTGTTTCCCCGACATTACAGTTA
65 ACGACGGCGA-ATCTTGTTTCCCCGACATTGCAGTTA
34132824 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
* *
34132889 TGGCGGCGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
34132924 AATAGATTGAACCCACAATGGTGAATCTTACTTCCCTTACATCCCTGGCAGTGTGGTGGAACAGA
1 AATAGATTGAAGCCACAACGGTGAATCTTA-----C-T---TCCCTGGCAGTGTAGTGGAACAGA
* *
34132989 TTGAAGCTGCGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
57 TTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
34133033 AATAGATTGAACCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
*
34133098 CGACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** *
34133133 AATAGATTGGAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAATGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
* *
34133198 CGACGGCGAATCTTTTTTCCCCGACATTGAAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** ** * * * *
34133233 AGTAGATTGAAGCTACAATAGCAAATCTTACTTCCCTGGCGGTGCAGAGGACCAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
*
34133298 CGACGGCGAATCTTGTTTCCCCGACATTGTAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
34133333 AACAGATTGAAG
1 AATAGATTGAAG
34133345 ATGGTGAATC
Statistics
Matches: 547, Mismatches: 61, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
99 1 0.00
100 448 0.82
101 3 0.01
103 1 0.00
104 1 0.00
105 1 0.00
106 1 0.00
109 91 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:34133219 original size:309 final size:300
Alignment explanation
Indices: 34132624--34133343 Score: 938
Period size: 309 Copynumber: 2.4 Consensus size: 300
34132614 ATTACAGTGG
* ** * * *
34132624 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGTAGTGGGACAGATTGAAGCTA
1 AATAGATTGAACCCACAATAGCAAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
* * * * * * *
34132689 CGACGGCGGATCATGTTTCCCCAACATTGCATTTAAATAGATTGAAGCCATAACGATGAATCTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGACGAATCTTA
*
34132754 CTTCCCTAGAGATGTAGTGGAATAGATTAAACCTACGACGGCAGATCTTGTTTCCCCGACATTAC
131 CTTCCCTAGAGATGTAGTGGAACAGATTAAACCTACGACGGCAGATCTTGTTTCCCCGACATTAC
* *
34132819 AGTTAAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGA
196 AGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTAATGGAACAGATTGA
* * *
34132884 AGCTATGGCGGCGAATCTTGTTTCCCCGACATTGCAGTTA
261 AGCTACGACGGCGAATCTTGTTTCCCCGACATTGAAGTTA
* * * *
34132924 AATAGATTGAACCCACAATGGTGAATCTTACTTCCCTTACATCCCTGGCAGTGTGGTGGAACAGA
1 AATAGATTGAACCCACAATAG-CAA----A--T--CTTACTTCCCTGGCAGTGTAGTGGAACAGA
* * *
34132989 TTGAAGCTGCGACGACGAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGG
57 TTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGA
* * * *
34133054 CGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGC-GAATCTTGTTTCC
122 CGAATCTTACTTCCCTAGAGATGTAGTGGAACAGATTAAACCTACGACGGCAG-ATCTTGTTTCC
* * * **
34133118 CTGACATTGCAGTTAAATAGATTGGAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAATGG
186 CCGACATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTAATGG
*
34133183 AACAGATTGAAGCTACGACGGCGAATCTTTTTTCCCCGACATTGAAGTTA
251 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGAAGTTA
* * * * * * *
34133233 AGTAGATTGAAGCTACAATAGCAAATCTTACTTCCCTGGCGGTGCAGAGGACCAGATTGAAGCTA
1 AATAGATTGAACCCACAATAGCAAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
* *
34133298 CGACGGCGAATCTTGTTTCCCCGACATTGTAGTTAAACAGATTGAA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAA
34133344 GATGGTGAAT
Statistics
Matches: 361, Mismatches: 49, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
300 94 0.26
301 1 0.00
302 1 0.00
304 1 0.00
305 1 0.00
307 1 0.00
308 3 0.01
309 259 0.72
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (300 bp):
AATAGATTGAACCCACAATAGCAAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAACCCACAACGACGAATCTTA
CTTCCCTAGAGATGTAGTGGAACAGATTAAACCTACGACGGCAGATCTTGTTTCCCCGACATTAC
AGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTAATGGAACAGATTGA
AGCTACGACGGCGAATCTTGTTTCCCCGACATTGAAGTTA
Found at i:34141728 original size:8 final size:8
Alignment explanation
Indices: 34141715--34141757 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
34141705 TAATCTCTTT
34141715 ATTTTAAA
1 ATTTTAAA
34141723 ATTTTAAA
1 ATTTTAAA
*
34141731 ATTTCAAA
1 ATTTTAAA
34141739 ATTTTAAA
1 ATTTTAAA
*
34141747 ATTGTAAA
1 ATTTTAAA
34141755 ATT
1 ATT
34141758 GTAGTACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:34167811 original size:30 final size:31
Alignment explanation
Indices: 34167750--34167814 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
34167740 AAAATAGATA
34167750 CATGTGGCAAATGGAATAATTTTTGAGCAAG
1 CATGTGGCAAATGGAATAATTTTTGAGCAAG
34167781 CATGTGGCAAAAT-GAATAATTTTT-AGCAAG
1 CATGTGGC-AAATGGAATAATTTTTGAGCAAG
34167811 CATG
1 CATG
34167815 ATCAAATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 10 0.30
31 19 0.58
32 4 0.12
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (31 bp):
CATGTGGCAAATGGAATAATTTTTGAGCAAG
Found at i:34170830 original size:23 final size:23
Alignment explanation
Indices: 34170797--34170843 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34170787 TTTGTTTAAG
* *
34170797 TTAAACGAACATATTCGTGAACA
1 TTAAACAAACATATTCATGAACA
*
34170820 TTAAACAAACATGTTCATGAACA
1 TTAAACAAACATATTCATGAACA
34170843 T
1 T
34170844 ATAATTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (23 bp):
TTAAACAAACATATTCATGAACA
Found at i:34184994 original size:23 final size:24
Alignment explanation
Indices: 34184964--34185010 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
34184954 ACGATTTATC
*
34184964 GCATTTTTACTGGCA-ACTTTTCT
1 GCATTTTTACTGGCAGAATTTTCT
34184987 GCATTTTTACTGGCAGAATTTTCT
1 GCATTTTTACTGGCAGAATTTTCT
34185011 ACATATTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (24 bp):
GCATTTTTACTGGCAGAATTTTCT
Found at i:34190379 original size:25 final size:25
Alignment explanation
Indices: 34190351--34190401 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34190341 ATCAAGTGGG
34190351 GGTTCTTCAGTTCGAAAACACTACA
1 GGTTCTTCAGTTCGAAAACACTACA
34190376 GGTTCTTCAGTTCGAAAACACTACA
1 GGTTCTTCAGTTCGAAAACACTACA
34190401 G
1 G
34190402 CCTCCTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
GGTTCTTCAGTTCGAAAACACTACA
Found at i:34192430 original size:26 final size:27
Alignment explanation
Indices: 34192372--34192431 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
34192362 CTCGTAATAG
34192372 ATGTTTGAGACTTACATTTGGATTTTA
1 ATGTTTGAGACTTACATTTGGATTTTA
* *
34192399 AT-TTTGAGATGTTATATTT-G-TTTTA
1 ATGTTTGAGA-CTTACATTTGGATTTTA
34192424 ATGTTTGA
1 ATGTTTGA
34192432 TTTTATGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 7 0.24
26 13 0.45
27 9 0.31
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
ATGTTTGAGACTTACATTTGGATTTTA
Found at i:34205938 original size:20 final size:20
Alignment explanation
Indices: 34205901--34205939 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34205891 TAAAAAGATA
* *
34205901 TATAATTATTCATCTAATAC
1 TATAACTATTCAACTAATAC
*
34205921 TATAACTATTCAAGTAATA
1 TATAACTATTCAACTAATA
34205940 TTGTTTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
TATAACTATTCAACTAATAC
Found at i:34212237 original size:27 final size:27
Alignment explanation
Indices: 34212207--34212307 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 27
34212197 TCCAAAGTTG
*
34212207 TATGTAAGTTATGGTATGATATATATT
1 TATGTAAGTTATGATATGATATATATT
* *
34212234 TATGGAAGTTATAATATGATACATATTTATGT
1 TATGTAAGTTATGATATGAT--ATA--TAT-T
34212266 ATCATGTAAGTTATGATATGATATATATT
1 -T-ATGTAAGTTATGATATGATATATATT
34212295 TATGTAAGTTATG
1 TATGTAAGTTATG
34212308 TAAATTGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
27 29 0.47
28 1 0.02
29 4 0.06
30 3 0.05
31 3 0.05
32 4 0.06
33 1 0.02
34 17 0.27
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (27 bp):
TATGTAAGTTATGATATGATATATATT
Found at i:34212559 original size:14 final size:14
Alignment explanation
Indices: 34212542--34212591 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
34212532 TAGCTAAATT
34212542 TAAAATTATAAAAA
1 TAAAATTATAAAAA
**
34212556 TAAAAAAATAAAAAA
1 TAAAATTAT-AAAAA
*
34212571 TAAAATGATAAAAA
1 TAAAATTATAAAAA
*
34212585 TATAATT
1 TAAAATT
34212592 TAACAGAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAAATTATAAAAA
Found at i:34212569 original size:15 final size:15
Alignment explanation
Indices: 34212551--34212589 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
34212541 TTAAAATTAT
34212551 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
**
34212566 AAAAATAAAATGATA
1 AAAAATAAAAAAATA
34212581 AAAATATAA
1 AAAA-ATAA
34212590 TTTAACAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:34212584 original size:9 final size:8
Alignment explanation
Indices: 34212537--34212589 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
34212527 TATTTTAGCT
*
34212537 AAATTTAA
1 AAATATAA
*
34212545 AATTATAA
1 AAATATAA
34212553 AAATA-AA
1 AAATATAA
34212560 AAA-ATAA
1 AAATATAA
34212567 AAA-AT-A
1 AAATATAA
34212573 AAATGATAA
1 AAAT-ATAA
34212582 AAATATAA
1 AAATATAA
34212590 TTTAACAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.13
7 12 0.32
8 16 0.42
9 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
AAATATAA
Found at i:34213025 original size:37 final size:37
Alignment explanation
Indices: 34212982--34213111 Score: 122
Period size: 37 Copynumber: 3.5 Consensus size: 37
34212972 CCACCTTCAT
** *
34212982 CCGATTTGCTTCCTTGTTTCATTGCTTTTCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCATTTCTTTTCTTTTCTG
* **
34213019 CCGATTTG-GTCCCAGTTT-ATTTTCTTGCCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCA-TTTCTTTTCTTTTCTG
* * * *
34213055 CCGATTTGCTTCCCCGATTCTTTTCTTTTCTATTTCGG
1 CCGATTTGCTTCCCAGTTTCATTTCTTTTCT-TTTCTG
*
34213093 CCGATTTGC-TCACAGTTTC
1 CCGATTTGCTTCCCAGTTTC
34213112 TGCCGATTTG
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
35 1 0.01
36 28 0.38
37 30 0.41
38 14 0.19
ACGTcount: A:0.08, C:0.27, G:0.15, T:0.50
Consensus pattern (37 bp):
CCGATTTGCTTCCCAGTTTCATTTCTTTTCTTTTCTG
Found at i:34214259 original size:69 final size:70
Alignment explanation
Indices: 34214134--34214263 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 70
34214124 GTTCTGGACA
* *
34214134 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTAGTTTGTTAGTGAGTAGAAGATGAAACTGTTGT
1 TTGTTTTGATAGTCTGCTGGAAAATGTTATTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTGT
34214199 GGCAG
66 GGCAG
* ** * *
34214204 TTGTTTTGATTGTCTGCTGGAACTTGTTCTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTATTGAGTTTGTTAGTCAGTAGAAGATGAAACTG
34214264 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
69 25 0.47
70 28 0.53
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (70 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTATTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTGT
GGCAG
Found at i:34215421 original size:37 final size:37
Alignment explanation
Indices: 34215378--34215466 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
34215368 ATCATAAATA
34215378 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAACTTTGAACATGCTTT
* * *
34215415 ATTAAACTAATCAATGTGAGGACTTTGAACATGCTTT
1 AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
34215452 AATAAACTAATCAAT
1 AATAAACTAATCAAT
34215467 ATATTTATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
36 2 0.04
37 45 0.96
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
Found at i:34215632 original size:33 final size:33
Alignment explanation
Indices: 34215524--34215639 Score: 171
Period size: 33 Copynumber: 3.5 Consensus size: 33
34215514 CAATGTATAC
*
34215524 TTAGATCAATTATACATACACCAACAATTAATT
1 TTAGGTCAATTATACATACACCAACAATTAATT
* * * *
34215557 TTAGGGT-AAATAAAAATAAACCAACAATTAATT
1 TTA-GGTCAATTATACATACACCAACAATTAATT
34215590 TTAGGTCAATTATACATACACCAACAATTAATT
1 TTAGGTCAATTATACATACACCAACAATTAATT
34215623 TTAGGTCAATTATACAT
1 TTAGGTCAATTATACAT
34215640 GCTTTATAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
32 3 0.04
33 67 0.93
34 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (33 bp):
TTAGGTCAATTATACATACACCAACAATTAATT
Found at i:34218762 original size:47 final size:48
Alignment explanation
Indices: 34218680--34218771 Score: 159
Period size: 47 Copynumber: 1.9 Consensus size: 48
34218670 TTGATTTTAG
* *
34218680 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATA
34218728 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATT
34218772 TAATATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 26 0.62
48 16 0.38
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (48 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATA
Found at i:34218800 original size:29 final size:26
Alignment explanation
Indices: 34218758--34218819 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
34218748 TATTATCAAG
*
34218758 AATTTTATGAAATTTAATATTAATTATTA
1 AATTATATGAAA-TTAATATT-ATT-TTA
* *
34218787 AATTATATGTAATTATTATTATTTTA
1 AATTATATGAAATTAATATTATTTTA
34218813 AATTATA
1 AATTATA
34218820 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.33
27 3 0.10
28 7 0.23
29 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
AATTATATGAAATTAATATTATTTTA
Found at i:34218998 original size:120 final size:120
Alignment explanation
Indices: 34218864--34219391 Score: 927
Period size: 120 Copynumber: 4.4 Consensus size: 120
34218854 ATTTTAAATC
* * * * *
34218864 TTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTTTA-TTTAT
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATTTTAC
34218927 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
64 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* *
34218984 TTATTAAGTTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
34219049 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* *
34219104 TTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAATTTATATTTTACAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
*
34219169 TATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
34219224 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
34219289 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
34219344 TTATTAAATTATA-ATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
34219392 TAAATATGAT
Statistics
Matches: 393, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
119 42 0.11
120 349 0.89
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
Found at i:34219015 original size:16 final size:16
Alignment explanation
Indices: 34218994--34219036 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
34218984 TTATTAAGTT
34218994 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
34219010 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
34219025 AT-TATGTTAATT
1 ATATATTTTAATT
34219037 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:34219249 original size:18 final size:17
Alignment explanation
Indices: 34219221--34219255 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34219211 ATTATTAAGA
*
34219221 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34219238 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34219256 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34219359 original size:16 final size:17
Alignment explanation
Indices: 34219340--34219373 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34219330 AATTATTAAG
*
34219340 AATTTT-ATTAAATTAT
1 AATTTTAATTAAAATAT
34219356 AATTTTAATTAAAATAT
1 AATTTTAATTAAAATAT
34219373 A
1 A
34219374 TTTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTAATTAAAATAT
Found at i:34222886 original size:15 final size:15
Alignment explanation
Indices: 34222866--34222895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34222856 TTAACCATAT
*
34222866 ACCATAAACTCTAAA
1 ACCATAAACCCTAAA
34222881 ACCATAAACCCTAAA
1 ACCATAAACCCTAAA
34222896 CACTAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCATAAACCCTAAA
Found at i:34222886 original size:22 final size:22
Alignment explanation
Indices: 34222858--34222902 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34222848 CTAATATATT
* *
34222858 AACCATATACCATAAACTCTAA
1 AACCATAAACCATAAACACTAA
*
34222880 AACCATAAACCCTAAACACTAA
1 AACCATAAACCATAAACACTAA
34222902 A
1 A
34222903 TTCCAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCATAAACCATAAACACTAA
Found at i:34233561 original size:24 final size:24
Alignment explanation
Indices: 34233527--34233573 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
34233517 ATTATACCCT
34233527 CCATCGAATTCCTACCTTAATTGC
1 CCATCGAATTCCTACCTTAATTGC
*
34233551 CCATCGGATTCCTACCTTAATTG
1 CCATCGAATTCCTACCTTAATTG
34233574 GTCCCTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (24 bp):
CCATCGAATTCCTACCTTAATTGC
Found at i:34234491 original size:43 final size:43
Alignment explanation
Indices: 34234425--34234747 Score: 208
Period size: 43 Copynumber: 7.6 Consensus size: 43
34234415 AGAAATAAAT
* * * * *
34234425 GCCGCTATAAATCATAACCTTTAGCGGCACTTTTCCCAAAAAT
1 GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
* *
34234468 GCCGCTATAGAT-AAGGACTTTTAGCGGCGCATTTT-CCACAAAC
1 GCCGCTATAGATCAA-AACCTTTAGCGGCGC-TTTTCCCACAAAC
*** * *
34234511 GCCGCTATAGATC-AAACCTTTAGTTACGCTTTT-ACATAAAC
1 GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
34234552 GTCGCTGTAGATCAAGAA-CTTTAGCGACGCTTTTCCCACAGAC
1 GCCGCTATAGATCAA-AACCTTTAGCGGCGCTTTTCCCACAAAC
* ** * *
34234595 GCCGCTATAGATCAAGAGTTTTAGCGGCACTTTTCCCACAAAT
1 GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
*** * * * * *
34234638 GCTATTATAGCTCAAGACCTTTAACGGCGCTTATCTCACAAAC
1 GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
* * * ** * ** *
34234681 GCCACCATAGCTCAGGACCTTTAACGATGCTTTTCTCACAAAC
1 GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
34234724 GCCACTATAAAAC-AAACCTTTAGC
1 GCCGCTATAGATCAAAACCTTTAGC
34234748 AACGCTTCTC
Statistics
Matches: 219, Mismatches: 54, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
41 21 0.10
42 35 0.16
43 159 0.73
44 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (43 bp):
GCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:34236194 original size:2 final size:2
Alignment explanation
Indices: 34236187--34236244 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
34236177 CCAACAACTT
34236187 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34236229 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
34236245 AGGGAAAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34237075 original size:39 final size:39
Alignment explanation
Indices: 34237026--34237104 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
34237016 GCACTGGCAA
* *
34237026 TCATTGAATTTATACCAAAGGCCTATCCATCATAACATG
1 TCATAGAATTTATACCAAAGGCCCATCCATCATAACATG
* *
34237065 TCATAGAATTTATACCATAGGCCCATGCATCATAACATG
1 TCATAGAATTTATACCAAAGGCCCATCCATCATAACATG
34237104 T
1 T
34237105 TTGCATTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.30
Consensus pattern (39 bp):
TCATAGAATTTATACCAAAGGCCCATCCATCATAACATG
Done.