Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 47 of 373
Found at i:13797475 original size:93 final size:93
Alignment explanation
Indices: 13797363--13797534 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13797353 GCCCATAAGT
* *
13797363 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13797428 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13797456 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13797521 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13797535 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13797530 original size:46 final size:46
Alignment explanation
Indices: 13797355--13797530 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13797345 TGTAACCCGC
* * *
13797355 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13797401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13797451 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13797494 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13797531 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13813303 original size:38 final size:38
Alignment explanation
Indices: 13813239--13813313 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
13813229 AATCCGAGTT
*
13813239 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
13813277 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
13813314 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:13813430 original size:40 final size:40
Alignment explanation
Indices: 13813367--13813730 Score: 514
Period size: 40 Copynumber: 9.1 Consensus size: 40
13813357 AGGTCTCGAC
*
13813367 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
13813406 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
13813446 GATGTATCGGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
13813486 GATGTATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
13813526 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
13813566 GATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* ** *
13813606 GATGTATCCGGGCTAAGTTCTAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
13813646 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
13813686 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGATGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
13813726 GATGT
1 GATGT
13813731 GTATTCGGGC
Statistics
Matches: 289, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
39 4 0.01
40 285 0.99
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:13817102 original size:47 final size:47
Alignment explanation
Indices: 13817050--13817502 Score: 692
Period size: 47 Copynumber: 9.6 Consensus size: 47
13817040 GATAATTGTG
* * *
13817050 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
13817097 ATGTGAAAGTGTATATATATATGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
13817146 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGCGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
13817193 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13817242 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13817289 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13817336 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13817383 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
13817430 ATGTGAAAGTGTATATATGTGACACGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13817477 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
13817503 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 27, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 284 0.76
49 86 0.23
50 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:13826961 original size:17 final size:18
Alignment explanation
Indices: 13826939--13826974 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13826929 CACATTGAAG
13826939 TGTTTT-ATCGAAAACCT
1 TGTTTTAATCGAAAACCT
*
13826956 TGTTTTAATTGAAAACCT
1 TGTTTTAATCGAAAACCT
13826974 T
1 T
13826975 TCTTAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTAATCGAAAACCT
Found at i:13828241 original size:28 final size:29
Alignment explanation
Indices: 13828204--13828271 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
13828194 AAGTCTACAT
*
13828204 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
13828232 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
13828261 ACATTCATATG
1 ACATTCATATG
13828272 ACCATCAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:13831741 original size:93 final size:93
Alignment explanation
Indices: 13831629--13831800 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13831619 GCCCATAAGT
* *
13831629 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13831694 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13831722 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13831787 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13831801 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13831796 original size:46 final size:46
Alignment explanation
Indices: 13831621--13831796 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13831611 TGTAACCCGC
* * *
13831621 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13831667 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13831717 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13831760 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13831797 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13834218 original size:30 final size:30
Alignment explanation
Indices: 13834174--13834262 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13834164 CAAAGATAAC
13834174 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13834203 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13834233 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13834263 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13834222 original size:15 final size:15
Alignment explanation
Indices: 13834174--13834253 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13834164 CAAAGATAAC
*
13834174 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13834188 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13834203 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13834218 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13834233 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13834248 AAGAAA
1 AAGAAA
13834254 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13834262 original size:15 final size:15
Alignment explanation
Indices: 13834185--13834262 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13834175 AGAAAACCGA
13834185 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13834200 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13834214 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13834229 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13834245 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13834260 ATA
1 ATA
13834263 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13837327 original size:93 final size:93
Alignment explanation
Indices: 13837215--13837386 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13837205 GCCCATAAGT
* *
13837215 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13837280 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13837308 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13837373 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13837387 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13837382 original size:46 final size:46
Alignment explanation
Indices: 13837207--13837382 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13837197 TGTAACCCGC
* * *
13837207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13837253 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13837303 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13837346 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13837383 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13843033 original size:25 final size:26
Alignment explanation
Indices: 13842979--13843035 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
13842969 TTTTGGGCTG
* * * *
13842979 TTTATTGTTTTTGTTTTTTTATTATT
1 TTTATTATTTTGGTTTTTTTATAATA
13843005 TTTATTATTTTGGTTTTTTT-TAATA
1 TTTATTATTTTGGTTTTTTTATAATA
13843030 TTTATT
1 TTTATT
13843036 TTGGTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (26 bp):
TTTATTATTTTGGTTTTTTTATAATA
Found at i:13843496 original size:43 final size:45
Alignment explanation
Indices: 13843435--13843529 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
13843425 CTTCTTTGGG
** * *
13843435 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCGGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
*
13843480 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
13843523 AGATAAG
1 AGATAAG
13843530 GCCAGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:13843948 original size:176 final size:177
Alignment explanation
Indices: 13843276--13844303 Score: 1430
Period size: 176 Copynumber: 5.8 Consensus size: 177
13843266 AGATCTACAA
* * * * *
13843276 TCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAAT-TGCCAATCGGCTCTCTTGCTTC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTAC
* * * * * *
13843340 CTCAAAAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCC
64 CTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC
* *
13843405 -TCTTTCGATCTGCTCCACTACT-TCTTTGGGAGATAAGATCTTCAA-TCT
129 ATC-TTCGATCTGCTCCGCTACTGT-TTAGGGAGATAAGATCTTCAATTCT
*
13843453 TCAGTCTGCTTTCTTGCTACCTC-GGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACC
1 TCAGTCTGCTTCCTTGCTACCTCAGG-AAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACC
* ** * *
13843517 TCAGAGAGATAAGGCCAGTGGTACTTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCA
65 TCAGAGAGATAAGG-C-TTGGGGC-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCG
*
13843582 CCATCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATT-T
127 CCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATTCT
13843632 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGC-CTCTTGCTACCT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* * *
13843696 CAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTACCGATACATGGAGATAAGATTTGCCAT
66 CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
* *
13843761 CTTCGATCTGCTCTGCTACTGTTTAGGGAGATAAGGTCTTCAATTCT
131 CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATTCT
*
13843808 T-AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* *
13843872 CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCGTTACCGATACATGGAGATAAGATTCGCCAT
66 CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
13843937 CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAA-TCT
131 CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATTCT
* * *
13843983 TCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTTAACCTGCTCTCTTGCTACTT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* * * * * *
13844048 CAGAAAGATAAAGCTTGGGGCATAAATCTGCTCCATTTCCGATACATAGAGATAAGATTCACCAT
66 CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
* * * *
13844113 ATTTGATCTGCTCTGCTACTGTTTAGGGAGATAAGATCTTCAA-TAT
131 CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATTCT
* * **
13844159 TCAGTCTACTTCTTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCTTCAACCTGCTCTCTTGCTACC
* ** *
13844224 TCAGAGAGATAAGGC-TGGTGGCTAAAATCTGCTCCATTGCTAATACATGGAGAAAAGATTCGCC
65 TCAGAGAGATAAGGCTTGG-GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC
* *
13844288 ATCTTTGATCTACTCC
129 ATCTTCGATCTGCTCC
13844304 ACTGCAACTT
Statistics
Matches: 767, Mismatches: 70, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
175 136 0.18
176 352 0.46
177 121 0.16
178 27 0.04
179 125 0.16
180 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATTCT
Found at i:13845188 original size:21 final size:21
Alignment explanation
Indices: 13845162--13845205 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13845152 TTGAAAAAGA
13845162 AAGAATAATTCAAAGATATCC
1 AAGAATAATTCAAAGATATCC
13845183 AAGAATAATTCAAAGATATCC
1 AAGAATAATTCAAAGATATCC
13845204 AA
1 AA
13845206 TTTGTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGAATAATTCAAAGATATCC
Found at i:13845599 original size:61 final size:64
Alignment explanation
Indices: 13845448--13845609 Score: 190
Period size: 61 Copynumber: 2.6 Consensus size: 64
13845438 AATCCCCTTT
* * * *
13845448 GGTCTCAAGGCGCCCTTTGCAGGTTTTCACCTTGGCCTCTCCATTTTTCCTTTTATTTTTATTGA
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG-CTCTCCATTTTTCCTTTTATTTTTATAGA
* * *
13845513 -GTCTCAAAGTGCCCTTTGCGAGTTTTCACTTTGGC-C-CC-TTTTTCCTTTTTTTTTTA-AGAA
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTCTCCATTTTTCCTTTTATTTTTATAG-A
* *
13845573 GGTCTCAAAGCACCCTTTGTGGGTTTTCACTTTGGCT
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCT
13845610 TCTTCCCCTC
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
59 1 0.01
60 18 0.22
61 33 0.40
62 1 0.01
63 1 0.01
64 29 0.35
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (64 bp):
GGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTCTCCATTTTTCCTTTTATTTTTATAGA
Found at i:13848699 original size:42 final size:42
Alignment explanation
Indices: 13848653--13848755 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
13848643 CAAGCTTGTA
* *
13848653 TTTAACTCATATGAGTTTTCGC-TT-AGCTCTATTGAGCTTCTT
1 TTTAACTCTTATG-GTTTTC-CATTCAGCTCTATTGAGCTTCTC
*
13848695 TTTAAC-CTTTATGGGTTTCCATTCAGCTCTATTGAGCTTCTC
1 TTTAACTC-TTATGGTTTTCCATTCAGCTCTATTGAGCTTCTC
* *
13848737 TTTATCTCTTATGGGTTTC
1 TTTAACTCTTATGGTTTTC
13848756 TGTTCAACTC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
40 1 0.02
41 8 0.15
42 43 0.81
43 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.49
Consensus pattern (42 bp):
TTTAACTCTTATGGTTTTCCATTCAGCTCTATTGAGCTTCTC
Found at i:13849368 original size:23 final size:24
Alignment explanation
Indices: 13849341--13849387 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
13849331 TGGTTAAGTG
13849341 ATGAAT-AGTT-TATAGGTATGTTA
1 ATGAATGAGTTGTATA-GTATGTTA
13849364 ATGAATGAGTTGGTATAGTATGTT
1 ATGAATGAGTT-GTATAGTATGTT
13849388 TGATATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 7 0.33
26 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.43
Consensus pattern (24 bp):
ATGAATGAGTTGTATAGTATGTTA
Found at i:13851057 original size:141 final size:141
Alignment explanation
Indices: 13850803--13851223 Score: 698
Period size: 141 Copynumber: 3.0 Consensus size: 141
13850793 CTATAAAGGT
* * * * *
13850803 TTTGAGATATCAAGGTTGTATAAAGTTTTTCATAAAATTAAGTCGTTGAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
*
13850868 TATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCGAGTAGTTGAACTTGTGATTATT
66 TATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTATT
*
13850933 GAATTTGAATG
131 GAATATGAATG
*
13850944 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTAAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
* * *
13851009 TATTAGCTTGATGGATAGAATAGCATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTGTT
66 TATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTATT
13851074 GAATATGAATG
131 GAATATGAATG
*
13851085 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATGAAGTGGTTGAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
* * *
13851150 TATTAGCTTGATGGATGGAATAGTATGCTTGATAAGATTATCAAGTAGTTGAACTTGTGATTGTT
66 TATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTATT
*
13851215 TAATATGAA
131 GAATATGAA
13851224 CTTAGTTTGA
Statistics
Matches: 262, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 262 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (141 bp):
TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
TATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTATT
GAATATGAATG
Found at i:13852498 original size:28 final size:31
Alignment explanation
Indices: 13852440--13852499 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 31
13852430 TATCTAGTTG
*
13852440 TTTATGACATAATTGAATGTTTGAATGATTTA
1 TTTATGACATAATTGAA-GTTTGAATAATTTA
*
13852472 TTTATGACATACTTG-A-TTTGAA-AATTTA
1 TTTATGACATAATTGAAGTTTGAATAATTTA
13852500 AAATTGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
31 1 0.04
32 14 0.54
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (31 bp):
TTTATGACATAATTGAAGTTTGAATAATTTA
Found at i:13853853 original size:24 final size:23
Alignment explanation
Indices: 13853809--13853881 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
13853799 GAAACCTTAT
* * **
13853809 AATATATATAATTTATAAATATCT
1 AATATAAATATTTTAT-AATATAA
13853833 AATAATAAATATTTTATAATATAA
1 AAT-ATAAATATTTTATAATATAA
*
13853857 AATATGAATATTTTAATAATATAA
1 AATATAAATATTTT-ATAATATAA
13853881 A
1 A
13853882 TTAATCTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 10 0.24
24 21 0.50
25 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
AATATAAATATTTTATAATATAA
Found at i:13854244 original size:2 final size:2
Alignment explanation
Indices: 13854237--13854285 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
13854227 ATATGTATGC
13854237 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13854279 CT CT CT C
1 CT CT CT C
13854286 GTCAAATGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:13858116 original size:12 final size:12
Alignment explanation
Indices: 13858094--13858126 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13858084 TTTTTTTAGC
13858094 TTTAC-TTTATT
1 TTTACTTTTATT
*
13858105 TTTATTTTTATT
1 TTTACTTTTATT
13858117 TTTACTTTTA
1 TTTACTTTTA
13858127 AAAATGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTACTTTTATT
Found at i:13862906 original size:49 final size:49
Alignment explanation
Indices: 13862765--13863018 Score: 269
Period size: 49 Copynumber: 5.1 Consensus size: 49
13862755 GATCCCATCA
* * **
13862765 GAACAAAGTAAAAAGATAAAACTTCGATTGAAAATGGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
* * *
13862814 GAACAAAGTAAAATGATATAAAACCTTGATCGAAAAC-GAGTTCTCGACTCG
1 GAACAAAGTAAAA--AGATAAAACCTCGATCGAAAACAG-GTTCTCGGCTCG
*
13862865 GAATAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
* * * * * * *
13862914 AAACGAAGTAAAATGATATAAAACCTCGATCGAAAA-TGAATTTTCGGCTCT
1 GAACAAAGTAAAA--AGATAAAACCTCGATCGAAAACAG-GTTCTCGGCTCG
* * **
13862965 AAATAAAGTAAAAAGATAAAACCTTAATCGAAAACAGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
13863014 GAACA
1 GAACA
13863019 TGATAAAAGG
Statistics
Matches: 168, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 84 0.50
50 4 0.02
51 80 0.48
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (49 bp):
GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
Found at i:13862945 original size:100 final size:100
Alignment explanation
Indices: 13862769--13863018 Score: 356
Period size: 100 Copynumber: 2.5 Consensus size: 100
13862759 CCATCAGAAC
* * ** *
13862769 AAAGTAAAAAGATAAAACTTCGATTGAAAATGGGTTCTCGGCTCGGAACAAAGTAAAATGATATA
1 AAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGATATA
* * *
13862834 AAACCTTGATCGAAAACGAGTTCTCGACTCGGAAT
66 AAACCTCGATCGAAAACGAATTCTCGACTCGAAAT
*
13862869 AAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACGAAGTAAAATGATATA
1 AAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGATATA
* * * *
13862934 AAACCTCGATCGAAAATGAATTTTCGGCTCTAAAT
66 AAACCTCGATCGAAAACGAATTCTCGACTCGAAAT
** *
13862969 AAAGTAAAAAGATAAAACCTTAATCGAAAACAGGTTCTCGGCTCGGAACA
1 AAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACA
13863019 TGATAAAAGG
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 133 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (100 bp):
AAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGATATA
AAACCTCGATCGAAAACGAATTCTCGACTCGAAAT
Found at i:13863242 original size:7 final size:7
Alignment explanation
Indices: 13863230--13863264 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
13863220 CAGCAAATAT
13863230 GAGAGAA
1 GAGAGAA
13863237 GAGAGAA
1 GAGAGAA
13863244 GAGAGAA
1 GAGAGAA
13863251 GAGAGAA
1 GAGAGAA
13863258 GAGAGAA
1 GAGAGAA
13863265 AGGGGGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAGAGAA
Found at i:13864530 original size:3 final size:3
Alignment explanation
Indices: 13864522--13864561 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13864512 AAGGTAAAGA
*
13864522 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13864562 TATGTTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13871366 original size:48 final size:48
Alignment explanation
Indices: 13871284--13871377 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
13871274 TTTCTTGGCT
* *
13871284 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
13871332 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGTATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
13871378 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:13873883 original size:48 final size:48
Alignment explanation
Indices: 13873792--13873885 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
13873782 TTTCTTGGCT
* **
13873792 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAAGATTCAACCG
*
13873840 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAATATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAAGATTCAAC
13873886 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAAGATTCAACCG
Found at i:13875920 original size:26 final size:28
Alignment explanation
Indices: 13875877--13875932 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
13875867 AAATAAAAAT
*
13875877 ATTATCATAAATAAAAATA-TTAT-TTA
1 ATTATCATAAAGAAAAATATTTATCTTA
* *
13875903 ATTATCATTAAGATAAATATTTATCTTA
1 ATTATCATAAAGAAAAATATTTATCTTA
13875931 AT
1 AT
13875933 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.64
27 4 0.16
28 5 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTATCATAAAGAAAAATATTTATCTTA
Found at i:13875989 original size:21 final size:23
Alignment explanation
Indices: 13875944--13875991 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
13875934 TTTAAATTTG
**
13875944 TTATCATTAATTTTTTTTAAAAA
1 TTATCATTAATTTAATTTAAAAA
13875967 TTATCA-TAATTTAATTT-AAAA
1 TTATCATTAATTTAATTTAAAAA
13875988 TTAT
1 TTAT
13875992 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATCATTAATTTAATTTAAAAA
Found at i:13882620 original size:6 final size:6
Alignment explanation
Indices: 13882595--13882637 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
13882585 GCAAATGAAT
13882595 CATTTC ACATTTC ACATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC -CATTTC CATTTC CATTTC CATTTC CATTT
13882638 TGAGAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (6 bp):
CATTTC
Found at i:13882701 original size:45 final size:45
Alignment explanation
Indices: 13882624--13882727 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
13882614 CCATTTCCAT
*
13882624 TTCCA-TT-TCCATTTTGAGAAAACCACATTCATTTCTAAATG-A
1 TTCCATTTCTCCATTTTGAGAAAACCACAGTCATTTCTAAATGTA
* * * *
13882666 TTCCATTTCTCCATTTTAGAGAAAACCATAGTCATTTTTTAATGTT
1 TTCCATTTCTCCATTTT-GAGAAAACCACAGTCATTTCTAAATGTA
*
13882712 TTCCATTTCTCTATTT
1 TTCCATTTCTCCATTT
13882728 CTATTCATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.10
43 2 0.04
44 8 0.15
45 22 0.42
46 15 0.29
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (45 bp):
TTCCATTTCTCCATTTTGAGAAAACCACAGTCATTTCTAAATGTA
Found at i:13891683 original size:14 final size:14
Alignment explanation
Indices: 13891660--13891689 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13891650 TATTAAAACT
13891660 TAGCTAAAAGCTGA
1 TAGCTAAAAGCTGA
*
13891674 TAGCTGAAAGCTGA
1 TAGCTAAAAGCTGA
13891688 TA
1 TA
13891690 TGTGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (14 bp):
TAGCTAAAAGCTGA
Found at i:13895057 original size:48 final size:48
Alignment explanation
Indices: 13894977--13895197 Score: 237
Period size: 48 Copynumber: 4.6 Consensus size: 48
13894967 ACTAGGGTTC
*
13894977 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATA
1 TGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATA
* * * * * **
13895025 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATA
1 TGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATA
* * ** *
13895073 TGAGAGCTAGTGTAAGACAATGTCTGGGACATGGCATTAGCCTCGACA
1 TGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATA
* * * * *
13895121 TGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCAC-CAATATA
1 TGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGC-CTC--GATA
*
13895171 TGAGAGCCAGTGTAAGACCATGTCTGG
1 TGAGAGCTAGTGTAAGACCATGTCTGG
13895198 GATATGACAT
Statistics
Matches: 138, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
48 112 0.81
49 1 0.01
50 25 0.18
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATA
Found at i:13895141 original size:96 final size:98
Alignment explanation
Indices: 13894977--13895208 Score: 335
Period size: 96 Copynumber: 2.4 Consensus size: 98
13894967 ACTAGGGTTC
** *
13894977 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTGTAAGA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCTCGACATGTGAGCCAGTGTAAGA
*
13895042 CCATGTTTGGAACATGGCA-TCG-A-CATTTATA
66 CCATGTTTGGAACATGGCATTCGCACCA-ATATA
* * *
13895073 TGAGAGCTAGTGTAAGACAATGTCTGGGACATGGCATTAGCCTCGACATGTGGGCTAGTGTAAGA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCTCGACATGTGAGCCAGTGTAAGA
*
13895138 CCATGTTTGGAACATGGCATTGGCACCAATATA
66 CCATGTTTGGAACATGGCATTCGCACCAATATA
* * *
13895171 TGAGAGCCAGTGTAAGACCATGTCTGGGATATGACATT
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATT
13895209 GGCATCTTAC
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
96 78 0.64
97 2 0.02
98 39 0.32
99 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (98 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCTCGACATGTGAGCCAGTGTAAGA
CCATGTTTGGAACATGGCATTCGCACCAATATA
Found at i:13899028 original size:47 final size:47
Alignment explanation
Indices: 13898959--13899131 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
13898949 TTTTATGTGT
* *
13898959 ATATATGAGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
13899006 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
13899053 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
13899100 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
13899132 AATATGTATG
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:13899384 original size:37 final size:37
Alignment explanation
Indices: 13899334--13899441 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
13899324 GAAAATATAT
13899334 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
13899371 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
13899408 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
13899442 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:13902831 original size:48 final size:48
Alignment explanation
Indices: 13902740--13903117 Score: 641
Period size: 48 Copynumber: 7.9 Consensus size: 48
13902730 TATATATGTG
*
13902740 TGTGGTAAAGCCGAATGGCTAAT-TGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
13902787 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* **
13902835 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATACATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
13902883 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
13902931 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
13902979 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATATATATGAGATATGCATA
1 TGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATGTATA
13903029 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
13903077 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
13903118 GTGTGTATAT
Statistics
Matches: 312, Mismatches: 16, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
47 22 0.07
48 242 0.78
49 4 0.01
50 44 0.14
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:13903001 original size:144 final size:146
Alignment explanation
Indices: 13902740--13903117 Score: 654
Period size: 146 Copynumber: 2.6 Consensus size: 146
13902730 TATATATGTG
13902740 TGTGGTAAAGCCGAATGGCTAAT-TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
13902804 GCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAGTGTG-AA-ATAT
66 GCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGACTAGTGTGAAATATAT
* *
13902867 GTATGAGATACATATA
131 ATATGAGATACACATA
13902883 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
13902948 GCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATAT
66 GCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGACTAGTGTGAAATATAT
**
13903013 ATATGAGATATGCATA
131 ATATGAGATACACATA
*
13903029 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
13903094 GCTAGTGTGAAATATGTAGGAGAT
66 GCTAGTGTGAAATATGTATGAGAT
13903118 GTGTGTATAT
Statistics
Matches: 222, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
143 23 0.10
144 95 0.43
145 2 0.01
146 102 0.46
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (146 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGACTAGTGTGAAATATAT
ATATGAGATACACATA
Found at i:13903311 original size:37 final size:37
Alignment explanation
Indices: 13903261--13903360 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
13903251 AATATATTCT
13903261 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
13903298 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
13903335 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
13903361 GGACTATTCG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:13905030 original size:40 final size:40
Alignment explanation
Indices: 13904650--13905021 Score: 600
Period size: 40 Copynumber: 9.3 Consensus size: 40
13904640 GAGTTATATA
* * *
13904650 TATCTGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
13904690 TATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* *
13904730 TATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* *
13904770 TATCCGAGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
13904810 AATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* *
13904850 TATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
13904890 AATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
13904930 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* * *
13904970 TATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
13905010 TATCCGGGCTAA
1 TATCCGGGCTAA
13905022 ACCTCGAAGG
Statistics
Matches: 307, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
Found at i:13905140 original size:57 final size:57
Alignment explanation
Indices: 13905049--13905216 Score: 230
Period size: 57 Copynumber: 2.9 Consensus size: 57
13905039 GCTAGAGTTA
* * * **
13905049 TGAGGCACTGTGTGTGCAAGTTCTTCAA-CGGAGCACTATGTGTGCCAGATCAGTGGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATC-GAGCACTATGTGTGCGAGATCAGTAAT
**
13905106 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
13905163 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
13905217 TAGTGGGCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
57 97 0.99
58 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:13905150 original size:28 final size:27
Alignment explanation
Indices: 13905110--13905209 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 27
13905100 AGTGGTTGAG
13905110 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
** *
13905138 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
13905166 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
13905195 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
13905210 AATCAGTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
28 37 0.60
29 25 0.40
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:13905180 original size:29 final size:29
Alignment explanation
Indices: 13905081--13905182 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
13905071 CTTCAACGGA
* * **
13905081 GCACTATGTGTGCCAGATCAGTGGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
** *
13905110 GCACTATGTGTGCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
*
13905138 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
13905167 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
13905183 TTCTTTAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:13905191 original size:29 final size:28
Alignment explanation
Indices: 13905053--13905209 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
13905043 GAGTTATGAG
* * * **
13905053 GCACTGTGTGTGCAAGTTCTTCAACGGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
* * ** **
13905081 GCACTATGTGTGCCAGATCAGTGGTTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
* *
13905109 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
**
13905138 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATTGA
*
13905166 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
*
13905195 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
13905210 AATCAGTTAG
Statistics
Matches: 99, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
28 55 0.56
29 44 0.44
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATTGA
Found at i:13908410 original size:48 final size:48
Alignment explanation
Indices: 13908339--13908774 Score: 755
Period size: 48 Copynumber: 9.0 Consensus size: 48
13908329 CAAGATAAAT
* *
13908339 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
13908387 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
13908435 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
13908483 ATATGTATATGTGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
13908531 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
13908579 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
13908627 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
13908677 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
13908725 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
13908773 AT
1 AT
13908775 GTGTGTATAT
Statistics
Matches: 371, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 322 0.87
49 4 0.01
50 45 0.12
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:13908968 original size:37 final size:37
Alignment explanation
Indices: 13908915--13909017 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
13908905 GGAAATATAT
13908915 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
13908952 TCTGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
13908989 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
13909018 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:13912605 original size:29 final size:27
Alignment explanation
Indices: 13912573--13912628 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
13912563 TTCTTTTACA
*
13912573 ATCACTTATTCCTTTTTTTTATTTTCTTT
1 ATCACTTATT-CTTTTTTTT-GTTTCTTT
* *
13912602 ATCATTTATTGTTTTTTTTGTTTCTTT
1 ATCACTTATTCTTTTTTTTGTTTCTTT
13912629 CTTTTACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.29
28 8 0.33
29 9 0.38
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (27 bp):
ATCACTTATTCTTTTTTTTGTTTCTTT
Found at i:13917813 original size:21 final size:19
Alignment explanation
Indices: 13917760--13917813 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
13917750 AGGAGCAGCA
13917760 CACGGCCGTGTGGCAGAGG
1 CACGGCCGTGTGGCAGAGG
* *
13917779 CACATGTCCATGTGGTACAGAGG
1 CAC--GGCCGTGTGG--CAGAGG
13917802 CACGGCCGTGTG
1 CACGGCCGTGTG
13917814 ATCAGGCCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.11
21 15 0.56
23 9 0.33
ACGTcount: A:0.19, C:0.26, G:0.39, T:0.17
Consensus pattern (19 bp):
CACGGCCGTGTGGCAGAGG
Found at i:13917900 original size:13 final size:13
Alignment explanation
Indices: 13917882--13917911 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13917872 CCATGTGAAT
*
13917882 GTGTCACACGCTC
1 GTGTCACACGCCC
13917895 GTGTCACACGCCC
1 GTGTCACACGCCC
13917908 GTGT
1 GTGT
13917912 GGCAATTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.37, G:0.27, T:0.23
Consensus pattern (13 bp):
GTGTCACACGCCC
Found at i:13918518 original size:13 final size:14
Alignment explanation
Indices: 13918485--13918515 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13918475 CGTGCAAAGT
*
13918485 AAAAGAAAATAAAA
1 AAAATAAAATAAAA
13918499 AAAATAAAATAAAA
1 AAAATAAAATAAAA
13918513 AAA
1 AAA
13918516 TAACCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAATAAAATAAAA
Found at i:13936793 original size:47 final size:47
Alignment explanation
Indices: 13936627--13936926 Score: 429
Period size: 47 Copynumber: 6.3 Consensus size: 47
13936617 CTCGTAGTGA
*
13936627 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TAT
*
13936676 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG----TAT
*
13936727 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
* *
13936774 ATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
*
13936821 ATATGTGATAAGGCCTAATGGCCAATGTGAAGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
* * * * * *
13936868 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
*
13936915 AAATGTGATAAG
1 ATATGTGATAAG
13936927 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
47 142 0.61
49 42 0.18
51 49 0.21
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT
Found at i:13937101 original size:37 final size:37
Alignment explanation
Indices: 13937045--13937123 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13937035 CCGAGCTCTA
* * *
13937045 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13937082 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13937119 AAGAC
1 AAGAC
13937124 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13939760 original size:48 final size:47
Alignment explanation
Indices: 13939689--13940004 Score: 411
Period size: 48 Copynumber: 6.6 Consensus size: 47
13939679 TAAAGTACCA
* * *
13939689 ATGCCATGTCCCCGACATGGTCTTAC-ATGAATCCACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAAGGCA--CACATATCATCGCCG
* *
13939737 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACA-AGGCACACATATCATCGCCG
13939785 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-AGGCACACATATCATCGCCG
* *
13939833 ATGCCATGTCCCAGACATGGTCTTACAAAGGCGCAAATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTAC-AAGGCACACATATCATCGCCG
* * *
13939881 ATGCCATGTTCCAGACATGGTCTTACACAGGCACATATATCAGCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-AGGCACACATATCATCGCCG
* **
13939929 ATGCCATGTCCCAGACATGGTCTTACATAGGCACACATCTCAGAT-GTTG
1 ATGCCATGTCCCAGACATGGTCTTACA-AGGCACACATATC--ATCGCCG
*
13939978 ATACCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
13940005 CGAAATCTTA
Statistics
Matches: 241, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.00
48 208 0.86
49 29 0.12
50 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACAAGGCACACATATCATCGCCG
Found at i:13939949 original size:144 final size:143
Alignment explanation
Indices: 13939689--13940004 Score: 456
Period size: 144 Copynumber: 2.2 Consensus size: 143
13939679 TAAAGTACCA
* * *
13939689 ATGCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACA-GAAGCCAAATATCATCGCCGATGCCATGTCCCAGACA
* * *
13939754 TGGTCTTACACTGGCACACATATCATCGTCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
65 TGGTCTTACACAGGCACACATATCAGCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
13939819 ACATATC-ATCGCCG
130 ACATATCAAT-GCCG
*
13939833 ATGCCATGTCCCAGACATGGTCTTACA-AAGGCGCAAATATCATCGCCGATGCCATGTTCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACAGAA-GC-CAAATATCATCGCCGATGCCATGTCCCAGAC
* *
13939897 ATGGTCTTACACAGGCACATATATCAGCGCCGATGCCATGTCCCAGACATGGTCTTACATAGGCA
64 ATGGTCTTACACAGGCACACATATCAGCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* **
13939962 CACATCTCAGATGTTG
129 CACATATCA-ATGCCG
*
13939978 ATACCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
13940005 CGAAATCTTA
Statistics
Matches: 155, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 122 0.79
145 28 0.18
146 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACAGAAGCCAAATATCATCGCCGATGCCATGTCCCAGACAT
GGTCTTACACAGGCACACATATCAGCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
CATATCAATGCCG
Found at i:13944321 original size:27 final size:27
Alignment explanation
Indices: 13944285--13944341 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
13944275 CAGTATGTCA
* *
13944285 TTAACTTATAAAATCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
13944312 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
13944339 TTA
1 TTA
13944342 CTCCCACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:13944322 original size:15 final size:14
Alignment explanation
Indices: 13944300--13944341 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
13944290 TTATAAAATC
13944300 AAATATAAAACTTT
1 AAATATAAAACTTT
*
13944314 AACATATAAAAC--C
1 AA-ATATAAAACTTT
13944327 AAATATAAAACTTT
1 AAATATAAAACTTT
13944341 A
1 A
13944342 CTCCCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 3 0.13
15 9 0.39
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATAAAACTTT
Found at i:13949161 original size:26 final size:26
Alignment explanation
Indices: 13949132--13949239 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13949122 TAGTACAAAT
13949132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13949158 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13949184 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13949210 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13949236 TGAT
1 TGAT
13949240 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13956245 original size:26 final size:26
Alignment explanation
Indices: 13956216--13956323 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13956206 TGGTACAAAT
13956216 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13956242 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13956268 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13956294 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13956320 TGAT
1 TGAT
13956324 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13961261 original size:40 final size:40
Alignment explanation
Indices: 13961186--13961329 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 40
13961176 TATTTGAAAA
*
13961186 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAAGTC---GCCTTTAGCGGCGCTTTTACCAC
* * *
13961229 AAACGCCACTAAAAGTCGCCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAAGTCGCCTTTAGCGGCGCTTTTACCAC
* *
13961269 AAACGCCGCTAAAAGGTTATGGCCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAA-G---TCGCCTTTAGCGGCGCTTTTACCAC
* *
13961313 AAATGCTGCTAAAAGTC
1 AAACGCCGCTAAAAGTC
13961330 ATGAAATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
40 35 0.41
41 1 0.01
43 16 0.19
44 34 0.40
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AAACGCCGCTAAAAGTCGCCTTTAGCGGCGCTTTTACCAC
Found at i:13961313 original size:44 final size:43
Alignment explanation
Indices: 13961186--13961327 Score: 175
Period size: 44 Copynumber: 3.3 Consensus size: 43
13961176 TATTTGAAAA
13961186 AAACGCCGCT-AAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAAGGT-ATGGCCTTTAGCGGCGCTTTTACCAC
* * * *
13961229 AAACGCCACTAAAA-G--TCGCCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAAGGTATGGCCTTTAGCGGCGCTTTTACCAC
*
13961269 AAACGCCGCTAAAAGGTTATGGCCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAAGG-TATGGCCTTTAGCGGCGCTTTTACCAC
* *
13961313 AAATGCTGCTAAAAG
1 AAACGCCGCTAAAAG
13961328 TCATGAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
40 35 0.42
41 1 0.01
43 10 0.12
44 38 0.45
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAAGGTATGGCCTTTAGCGGCGCTTTTACCAC
Found at i:13961516 original size:19 final size:19
Alignment explanation
Indices: 13961471--13961517 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13961461 ATCAAATTAA
*
13961471 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
13961490 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
13961509 AATAAAAAT
1 AATAAAAAT
13961518 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:13965742 original size:7 final size:7
Alignment explanation
Indices: 13965730--13965836 Score: 58
Period size: 7 Copynumber: 15.1 Consensus size: 7
13965720 ACTAATTAAT
13965730 CTAAACC
1 CTAAACC
13965737 CTAAACC
1 CTAAACC
*
13965744 TCTTAACCC
1 -C-TAAACC
*
13965753 CT-ATCC
1 CTAAACC
* *
13965759 ATAAACA
1 CTAAACC
*
13965766 CTAAACT
1 CTAAACC
13965773 CTAAACC
1 CTAAACC
*
13965780 CTTAACC
1 CTAAACC
*
13965787 CTTAACC
1 CTAAACC
*
13965794 CCAAACC
1 CTAAACC
*
13965801 CTTACACC
1 C-TAAACC
*
13965809 TTAAACTC
1 CTAAAC-C
13965817 C--AACC
1 CTAAACC
*
13965822 CTAACCC
1 CTAAACC
13965829 CTAAACC
1 CTAAACC
13965836 C
1 C
13965837 ATAATTCATC
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.03
6 7 0.09
7 54 0.72
8 7 0.09
9 5 0.07
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:13965905 original size:21 final size:21
Alignment explanation
Indices: 13965879--13965963 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
13965869 ACTCCTAAAC
*
13965879 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* * *
13965900 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
* *
13965925 CTTAACCCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
13965946 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
13965964 AACTATAATG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 30 0.61
22 3 0.06
24 3 0.06
25 13 0.27
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:13965916 original size:46 final size:46
Alignment explanation
Indices: 13965863--13965952 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
13965853 CTTCAAATAC
*
13965863 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
*
13965909 TAGTTAACTCATAAACCTTAACCCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
13965953 CATAAACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:13966297 original size:81 final size:80
Alignment explanation
Indices: 13966120--13966365 Score: 264
Period size: 81 Copynumber: 3.0 Consensus size: 80
13966110 GTTATATGAC
** *
13966120 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGCTTT-CCAAAAGC
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCATTTTGCAAAAAGC
*
13966184 GCCACTAATGCTCTGGT
65 GCCGCTAATGCTCT-GT
* * *
13966201 TTTTAGCAGCATTTTTCCAAAAGCACCGCTAATGCTCTAGTTTTTAGCGGCATTTTGCAAAAAGC
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCATTTTGCAAAAAGC
13966266 GCCGCTAATGCTCTGT
65 GCCGCTAATGCTCTGT
* * * * * * **
13966282 TTTTTGTGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGTTTTTAGTGGCGTTTTTGGTAAAA
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGC-ATTTTGCAAAAA
* *
13966346 -CGCCGCTATTGCTGTGT
63 GCGCCGCTAATGCTCTGT
13966363 TTT
1 TTT
13966366 ACAATTTTTG
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
81 88 0.63
82 47 0.34
83 5 0.04
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCATTTTGCAAAAAGCG
CCGCTAATGCTCTGT
Found at i:13966338 original size:40 final size:41
Alignment explanation
Indices: 13966120--13966338 Score: 266
Period size: 41 Copynumber: 5.4 Consensus size: 41
13966110 GTTATATGAC
13966120 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
13966161 TTTTAGCGGCG-CTTTCCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
13966201 TTTTAGCAGCATTTTTCCAAAAGCACCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
13966242 TTTTAGCGGCATTTTGCAAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
13966282 TTTTTGTGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
*
13966323 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
13966339 GGTAAAACGC
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 51 0.33
41 100 0.64
42 5 0.03
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:13966345 original size:40 final size:40
Alignment explanation
Indices: 13966120--13966365 Score: 205
Period size: 41 Copynumber: 6.1 Consensus size: 40
13966110 GTTATATGAC
* *
13966120 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGTGGCGTTTTTGCTAAAA-CGCCGCTAATGCTCT-GT
* * * *
13966161 TTTTAGCGGCG-CTTT-CCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGTGGCGTTTTTGCTAAAA-CGCCGCTAATGCTCT-GT
** * * *
13966201 TTTTAGCAGCATTTTT-CCAAAAGCACCGCTAATGCTCTAGT
1 TTTTAGTGGCGTTTTTGCTAAAA-CGCCGCTAATGCTCT-GT
* * *
13966242 TTTTAGCGGC-ATTTTGCAAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGTGGCGTTTTTGCTAAAA-CGCCGCTAATGCTCTGT
* * *
13966282 TTTTTGTGGCGTTTTTTACTAAAACGCCGCTATTGCTCTGT
1 TTTTAGTGGCG-TTTTTGCTAAAACGCCGCTAATGCTCTGT
* * *
13966323 TTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTGTGT
1 TTTTAGTGGCGTTTTTGCTAAAACGCCGCTAATGCTCTGT
13966363 TTT
1 TTT
13966366 ACAATTTTTG
Statistics
Matches: 179, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
40 79 0.44
41 91 0.51
42 9 0.05
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTAGTGGCGTTTTTGCTAAAACGCCGCTAATGCTCTGT
Found at i:13966405 original size:12 final size:12
Alignment explanation
Indices: 13966390--13966415 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13966380 GTTTTTTGAT
13966390 AAAACGCCGCTA
1 AAAACGCCGCTA
13966402 AAAACGCCGCTA
1 AAAACGCCGCTA
13966414 AA
1 AA
13966416 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:13966597 original size:26 final size:26
Alignment explanation
Indices: 13966566--13966673 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13966556 TGAAATGCCC
13966566 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
13966592 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
13966618 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
13966644 ATCATGGAACATTTACCTAAGCAATT
1 ATCATGGAACATTTACCTAAACCATT
13966670 ATCA
1 ATCA
13966674 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:13972855 original size:15 final size:15
Alignment explanation
Indices: 13972835--13972863 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13972825 AAAATAGACT
13972835 CATATATCTTCTATC
1 CATATATCTTCTATC
13972850 CATATATCTTCTAT
1 CATATATCTTCTAT
13972864 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
CATATATCTTCTATC
Found at i:13974635 original size:31 final size:31
Alignment explanation
Indices: 13974600--13974662 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
13974590 TAGCCCCTAA
13974600 GCTCGTAAAATAAATTTCATTCAATTTCTTT
1 GCTCGTAAAATAAATTTCATTCAATTTCTTT
13974631 GCTCGTAAAATAAATTTCATTCAATTTCTTT
1 GCTCGTAAAATAAATTTCATTCAATTTCTTT
13974662 G
1 G
13974663 TACTTTAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (31 bp):
GCTCGTAAAATAAATTTCATTCAATTTCTTT
Found at i:13976086 original size:30 final size:30
Alignment explanation
Indices: 13976040--13976102 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13976030 TTCAATCTTC
13976040 CCTACTGTTCAATAGAATTGCTATGGTAAT
1 CCTACTGTTCAATAGAATTGCTATGGTAAT
* * *
13976070 CCTATTGTTTAATAGAATTTCTATGGTAAT
1 CCTACTGTTCAATAGAATTGCTATGGTAAT
13976100 CCT
1 CCT
13976103 CCAATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (30 bp):
CCTACTGTTCAATAGAATTGCTATGGTAAT
Found at i:13994281 original size:32 final size:32
Alignment explanation
Indices: 13994244--13994339 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
13994234 ACTAAACCAA
* *
13994244 TACAACACACACATACTATAACTTGCACATAC
1 TACAACACACACATACTACAACTCGCACATAC
**** *
13994276 TACAACATGTGCATACTACAGCTCGCACATAC
1 TACAACACACACATACTACAACTCGCACATAC
* * *
13994308 TACGACTCACACATACTACAACTCGTACATAC
1 TACAACACACACATACTACAACTCGCACATAC
13994340 AATAGCTAAC
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (32 bp):
TACAACACACACATACTACAACTCGCACATAC
Found at i:13994288 original size:18 final size:16
Alignment explanation
Indices: 13994253--13994330 Score: 75
Period size: 16 Copynumber: 4.9 Consensus size: 16
13994243 ATACAACACA
*
13994253 CACATACTATAACTTG
1 CACATACTACAACTTG
*
13994269 CACATACTACAACATG
1 CACATACTACAACTTG
** * *
13994285 TGCATACTACAGCTCG
1 CACATACTACAACTTG
* **
13994301 CACATACTACGACTCA
1 CACATACTACAACTTG
13994317 CACATACTACAACT
1 CACATACTACAACT
13994331 CGTACATACA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.23
Consensus pattern (16 bp):
CACATACTACAACTTG
Found at i:13994331 original size:16 final size:16
Alignment explanation
Indices: 13994244--13994369 Score: 74
Period size: 16 Copynumber: 7.9 Consensus size: 16
13994234 ACTAAACCAA
*
13994244 TACAACACACACATAC
1 TACAACTCACACATAC
* **
13994260 TATAACTTGCACATAC
1 TACAACTCACACATAC
***
13994276 TACAACAT-GTGCATAC
1 TACAAC-TCACACATAC
* *
13994292 TACAGCTCGCACATAC
1 TACAACTCACACATAC
*
13994308 TACGACTCACACATAC
1 TACAACTCACACATAC
**
13994324 TACAACTCGTACATAC
1 TACAACTCACACATAC
* * * * **
13994340 AATAGCTAACGTATAC
1 TACAACTCACACATAC
13994356 TACAACTCACACAT
1 TACAACTCACACAT
13994370 TTTTCATCTC
Statistics
Matches: 78, Mismatches: 30, Indels: 4
0.70 0.27 0.04
Matches are distributed among these distances:
15 1 0.01
16 76 0.97
17 1 0.01
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (16 bp):
TACAACTCACACATAC
Found at i:13994568 original size:24 final size:24
Alignment explanation
Indices: 13994491--13994568 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
13994481 ATCACACATT
* *
13994491 CAATACAGTGATAGTTCGCATATA
1 CAATACAATGAAAGTTCGCATATA
* * * * *
13994515 CAATACATTGAAAATTCACACATTT
1 CAATACAATGAAAGTTCGCATA-TA
* *
13994540 C-ATACAATGACAGTTCGCATATC
1 CAATACAATGAAAGTTCGCATATA
13994563 CAATAC
1 CAATAC
13994569 TTGCAAAGAC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (24 bp):
CAATACAATGAAAGTTCGCATATA
Found at i:13998027 original size:22 final size:22
Alignment explanation
Indices: 13997977--13998030 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
13997967 GCAAACTAAC
* * *
13997977 GAGCTCACAAAGCAGAAGTGAC
1 GAGCTCGCAAAACAGAAGTGAA
13997999 GAGCTCGCAAAACAGAAGTGAA
1 GAGCTCGCAAAACAGAAGTGAA
*
13998021 GATCTCGCAA
1 GAGCTCGCAA
13998031 TAAGGCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.26, T:0.11
Consensus pattern (22 bp):
GAGCTCGCAAAACAGAAGTGAA
Found at i:14002254 original size:22 final size:22
Alignment explanation
Indices: 14002228--14002296 Score: 56
Period size: 25 Copynumber: 3.1 Consensus size: 22
14002218 AAAATGGTTA
14002228 ATATAGAAAAATATAT-TATAT
1 ATATAGAAAAATATATATATAT
14002249 GATATA-ATAACTTAATATATATATAT
1 -ATATAGA-AA---AATATATATATAT
*
14002275 ATTTAGAAAAATAT-TA-ATAT
1 ATATAGAAAAATATATATATAT
14002295 AT
1 AT
14002297 TAAATAGGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
20 6 0.15
21 3 0.08
22 12 0.30
25 13 0.32
26 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (22 bp):
ATATAGAAAAATATATATATAT
Found at i:14002477 original size:20 final size:19
Alignment explanation
Indices: 14002417--14002489 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
14002407 TACATAATAA
*
14002417 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
14002437 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
14002456 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
14002476 ATAATATATAATAA
1 ATAATA-ATAATAA
14002490 TTTTTACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:14004164 original size:90 final size:90
Alignment explanation
Indices: 14004048--14004377 Score: 471
Period size: 90 Copynumber: 3.7 Consensus size: 90
14004038 CCATGCTGAA
* * * *
14004048 ATCTTTGATCTGTTCCCCGCCTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCAATG
* *
14004113 TAAACACACAAATGTCAGATCTGCT
66 TAAACACACGAATGTCAAATCTGCT
* * * * *
14004138 ATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCAATG
14004203 TAAACACACGAATGTCAAATCTGCT
66 TAAACACACGAATGTCAAATCTGCT
** * * *
14004228 ATCTTCGATCTGCTCCATGTCTATTACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCAATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCAATG
*
14004293 TAAACATACGAATGTCAAATCTGCT
66 TAAACACACGAATGTCAAATCTGCT
* * * *
14004318 ATCTTTGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCTTCGATCTGCTT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTT
14004378 TGAATGTCAG
Statistics
Matches: 213, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 213 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCAATG
TAAACACACGAATGTCAAATCTGCT
Found at i:14004357 original size:45 final size:45
Alignment explanation
Indices: 14004068--14004376 Score: 227
Period size: 45 Copynumber: 6.9 Consensus size: 45
14004058 TGTTCCCCGC
* * * * *
14004068 CTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATGT
1 CTAACACAGAGATGCCAAATCTGCTATCTTCGATCTGC-TCCATGT
* * * * * * * **
14004114 -AAACACACAAATGTCAGATCTGCTATCCTCAATCTGCTCCCCGT
1 CTAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCATGT
* * * *
14004158 CTAATACAGAGACGCCAAATCTG-TCATCTTCGATCTACTTCGATGT
1 CTAACACAGAGATGCCAAATCTGCT-ATCTTCGATCTGC-TCCATGT
* *
14004204 -AAACACACGA-ATGTCAAATCTGCTATCTTCGATCTGCTCCATGT
1 CTAACACA-GAGATGCCAAATCTGCTATCTTCGATCTGCTCCATGT
** *
14004248 CTATTACAGAGATGCCAAATCTG-TCATCTTCGATCTGCTTCAATGT
1 CTAACACAGAGATGCCAAATCTGCT-ATCTTCGATCTGC-TCCATGT
* * * * *
14004294 -AAACATACGA-ATGTCAAATCTGCTATCTTTGATCTGCTCCCTGT
1 CTAACACA-GAGATGCCAAATCTGCTATCTTCGATCTGCTCCATGT
* **
14004338 CTAACACAGAGACGCCAAATCTATTATCTTCGATCTGCT
1 CTAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCT
14004377 TTGAATGTCA
Statistics
Matches: 197, Mismatches: 53, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
44 21 0.11
45 160 0.81
46 16 0.08
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (45 bp):
CTAACACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCATGT
Found at i:14004434 original size:77 final size:77
Alignment explanation
Indices: 14004302--14004454 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 77
14004292 GTAAACATAC
* *
14004302 GAATGTCAAATCTGCTATCTTTGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCT
1 GAATGTCAAATATGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCT
14004367 TCGATCTGCTTT
66 TCGATCTGCTTT
* * * * *
14004379 GAATGTCAGATATGTTATCTTCGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTGTTATCT
1 GAATGTCAAATATGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCT
14004444 TCGATCTGCTT
66 TCGATCTGCTT
14004455 CGATGTAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (77 bp):
GAATGTCAAATATGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCT
TCGATCTGCTTT
Found at i:14004482 original size:45 final size:45
Alignment explanation
Indices: 14004379--14004678 Score: 195
Period size: 45 Copynumber: 6.7 Consensus size: 45
14004369 GATCTGCTTT
* * ** * *
14004379 GAATGTCAGATATGTTATCTTCGATCTGC-TCCCTGTCTAATACA-
1 GAATGTCAGATCTGCTATCTTCGATCTGCTTCGATGT-AAACACAC
* * *
14004423 GAGACGTCAAATCTGTTATCTTCGATCTGCTTCGATGTAAACACAC
1 GA-ATGTCAGATCTGCTATCTTCGATCTGCTTCGATGTAAACACAC
* *** * *
14004469 GAATATCAGATCTGCTATCTTCGATCTG-TTCCCCGTCTAATACA-
1 GAATGTCAGATCTGCTATCTTCGATCTGCTTCGATGT-AAACACAC
* * * *
14004513 GAGACGCCAAATTTG-TCATCTTCGATCTGCTTCGATGTAAACACAC
1 GA-ATGTCAGATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACAC
* *
14004559 GAATGTCAGATCTGCTATCTTCGATCTGCTCCTC-ATCT-AATACA-
1 GAATGTCAGATCTGCTATCTTCGATCTGCT--TCGATGTAAACACAC
* * * ** * * *
14004603 GAGATGCCAAATCT-ATCATCTTTAATCTACTTCAATGTAAACACTC
1 GA-ATGTCAGATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACAC
14004649 GAATGTCAGATCTGCTATCTTCGATCTGCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCT
14004679 CCCTGTCTAA
Statistics
Matches: 192, Mismatches: 47, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
43 2 0.01
44 16 0.08
45 151 0.79
46 21 0.11
47 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (45 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTTCGATGTAAACACAC
Found at i:14004537 original size:90 final size:90
Alignment explanation
Indices: 14004379--14004706 Score: 485
Period size: 90 Copynumber: 3.6 Consensus size: 90
14004369 GATCTGCTTT
* * * * *
14004379 GAATGTCAGATATGTTATCTTCGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTGTTATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
14004444 TCGATCTGCTTCGATGTAAACACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
14004469 GAATATCAGATCTGCTATCTTCGATCTGTTCCCCGTCTAATACAGAGACGCCAAATTTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
14004534 TCGATCTGCTTCGATGTAAACACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * * *
14004559 GAATGTCAGATCTGCTATCTTCGATCTGCTCCTCATCTAATACAGAGATGCCAAATCTATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
** * * *
14004624 TTAATCTACTTCAATGTAAACACTC
66 TCGATCTGCTTCGATGTAAACACAC
* *
14004649 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGACACCAAATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
14004707 ACTATCAGTG
Statistics
Matches: 213, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 213 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (90 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
TCGATCTGCTTCGATGTAAACACAC
Found at i:14004579 original size:257 final size:257
Alignment explanation
Indices: 14004123--14004624 Score: 772
Period size: 257 Copynumber: 2.0 Consensus size: 257
14004113 TAAACACACA
*
14004123 AATGTCAGATCTGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATATGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
* * *
14004188 CGATCTACTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGATCTGCTCCATGTCTATT
66 CGATCTACTTCGATGTAAACACACGAATATCAAATCTGCTATCTTCGATCTGCTCCACGTCTAAT
* *
14004253 ACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACATACGAATGTCAAATCTGCT
131 ACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAAATCTGCT
* * *
14004318 ATCTTTGATCTGCTCC-CTGTCTAACACAGAGACGCCAAATCTATTATCTTCGATCTGCTTTG
196 ATCTTCGATCTGCTCCTC-ATCTAACACAGAGACGCCAAATCTATCATCTTCGATCTGCTTTG
* * * * * *
14004380 AATGTCAGATATGTTATCTTCGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTGTTATCTT
1 AATGTCAGATATGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
* * * *
14004445 CGATCTGCTTCGATGTAAACACACGAATATCAGATCTGCTATCTTCGATCTGTTCCCCGTCTAAT
66 CGATCTACTTCGATGTAAACACACGAATATCAAATCTGCTATCTTCGATCTGCTCCACGTCTAAT
* * *
14004510 ACAGAGACGCCAAATTTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
131 ACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAAATCTGCT
* *
14004575 ATCTTCGATCTGCTCCTCATCTAATACAGAGATGCCAAATCTATCATCTT
196 ATCTTCGATCTGCTCCTCATCTAACACAGAGACGCCAAATCTATCATCTT
14004625 TAATCTACTT
Statistics
Matches: 220, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
257 219 1.00
258 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (257 bp):
AATGTCAGATATGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
CGATCTACTTCGATGTAAACACACGAATATCAAATCTGCTATCTTCGATCTGCTCCACGTCTAAT
ACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAAATCTGCT
ATCTTCGATCTGCTCCTCATCTAACACAGAGACGCCAAATCTATCATCTTCGATCTGCTTTG
Found at i:14004705 original size:347 final size:347
Alignment explanation
Indices: 14004048--14004712 Score: 1046
Period size: 347 Copynumber: 1.9 Consensus size: 347
14004038 CCATGCTGAA
* *
14004048 ATCTTTGATCTGTTCCCCGCCTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATG
1 ATCTTCGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATG
*
14004113 TAAACACACAAATGTCAGATCTGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
66 TAAACACACAAATATCAGATCTGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
14004178 CTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGATCTGCTC
131 CTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGATCTGCTC
* * * * *
14004243 CATGTCTATTACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCAATGTAAACATACGAATGT
196 CATATCTAATACAGAGATGCCAAATCTATCATCTTCAATCTACTTCAATGTAAACATACGAATGT
* * *
14004308 CAAATCTGCTATCTTTGATCTGCTCCCTGTCTAACACAGAGACGCCAAATCTATTATCTTCGATC
261 CAAATCTGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACACCAAATCTACTATCTTCGATC
14004373 TGCTTTGAATGTCAGATATGTT
326 TGCTTTGAATGTCAGATATGTT
* * * *** *
14004395 ATCTTCGATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTGTTATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATG
* * * *
14004460 TAAACACACGAATATCAGATCTGCTATCTTCGATCTGTTCCCCGTCTAATACAGAGACGCCAAAT
66 TAAACACACAAATATCAGATCTGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* * *
14004525 TTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTC
131 CTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGATCTGCTC
*
14004590 C-TCATCTAATACAGAGATGCCAAATCTATCATCTTTAATCTACTTCAATGTAAACACT-CGAAT
196 CAT-ATCTAATACAGAGATGCCAAATCTATCATCTTCAATCTACTTCAATGTAAACA-TACGAAT
* *
14004653 GTCAGATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGACACCAAATCTACTATC
259 GTCAAATCTGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACACCAAATCTACTATC
14004713 AGTGATCTAC
Statistics
Matches: 288, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
346 1 0.00
347 286 0.99
348 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (347 bp):
ATCTTCGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCTACCATCTTCGATCTGCTTCAATG
TAAACACACAAATATCAGATCTGCTATCCTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
CTGTCATCTTCGATCTACTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGATCTGCTC
CATATCTAATACAGAGATGCCAAATCTATCATCTTCAATCTACTTCAATGTAAACATACGAATGT
CAAATCTGCTATCTTCGATCTGCTCCCTGTCTAACACAGAGACACCAAATCTACTATCTTCGATC
TGCTTTGAATGTCAGATATGTT
Found at i:14012641 original size:12 final size:12
Alignment explanation
Indices: 14012605--14012643 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14012595 GCTTCCAAGT
*
14012605 TTTCTTTCTCTC
1 TTTCTCTCTCTC
**
14012617 ACTCTCTCTCTC
1 TTTCTCTCTCTC
14012629 TTTCTCTCTCTC
1 TTTCTCTCTCTC
14012641 TTT
1 TTT
14012644 GTAATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCTCTCTCTC
Found at i:14016700 original size:18 final size:20
Alignment explanation
Indices: 14016668--14016731 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
14016658 TACATAATAA
*
14016668 ATAATTAATAATAAAATGAT
1 ATAATGAATAATAAAATGAT
* *
14016688 ATAGT-AA-AATAAAAATAAT
1 ATAATGAATAAT-AAAATGAT
*
14016707 ATAATGAATAATAAAAAGAT
1 ATAATGAATAATAAAATGAT
14016727 ATAAT
1 ATAAT
14016732 ATAGAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 3 0.08
19 13 0.36
20 17 0.47
21 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATGAATAATAAAATGAT
Found at i:14016708 original size:19 final size:21
Alignment explanation
Indices: 14016663--14016731 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 21
14016653 AATTATACAT
*
14016663 AATAA-ATAATTAATAAT-AA
1 AATAATATAATGAATAATAAA
* *
14016682 AATGATATAGT-AA-AATAAA
1 AATAATATAATGAATAATAAA
14016701 AATAATATAATGAATAATAAA
1 AATAATATAATGAATAATAAA
*
14016722 AA-GATATAAT
1 AATAATATAAT
14016732 ATAGAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 17 0.41
20 13 0.32
21 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAATATAATGAATAATAAA
Found at i:14026602 original size:79 final size:78
Alignment explanation
Indices: 14026500--14026722 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
14026490 GCTCCTCGTT
* *
14026500 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14026565 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
14026580 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14026643 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
14026658 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGC-CCAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
14026721 GA
63 GA
14026723 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 58 0.47
80 18 0.15
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:14026617 original size:39 final size:40
Alignment explanation
Indices: 14026500--14026722 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
14026490 GCTCCTCGTT
* *
14026500 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
14026540 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14026580 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14026619 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
14026658 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGC-
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
14026698 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14026723 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 65 0.39
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:14031539 original size:43 final size:43
Alignment explanation
Indices: 14031474--14031561 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
14031464 AAGGAATGCT
*
14031474 TAGGATTCGAATATCATAACACCATGGTTAATGAGATCCCGTG
1 TAGGATTCGAATATCATAACACCATGGTTAATGAGATCCCATG
* *
14031517 TAGGATTCGATTATCATGACACCATGGTTAATGAGATCCCATG
1 TAGGATTCGAATATCATAACACCATGGTTAATGAGATCCCATG
14031560 TA
1 TA
14031562 AGACCATGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (43 bp):
TAGGATTCGAATATCATAACACCATGGTTAATGAGATCCCATG
Found at i:14036812 original size:47 final size:47
Alignment explanation
Indices: 14036754--14036875 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
14036744 GTATTGGCAC
14036754 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
14036801 TAAGAAAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
**
14036848 TAAGATAAGGATATTATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
14036876 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:14036995 original size:55 final size:54
Alignment explanation
Indices: 14036863--14037042 Score: 181
Period size: 55 Copynumber: 3.3 Consensus size: 54
14036853 TAAGGATATT
* * **
14036863 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATCAGAGGAAAAAAT--C
1 ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTAT-A-AGGCAAAGGTCCC
* ** *
14036917 ATATAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCC
1 ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAAGGTCCC
* *
14036972 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC-AAGGACGCC
1 ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTC-CC
*
14037025 ACT-TAAGACCATGTCAAG
1 A-TGTAAGACCATGCCAAG
14037043 ACACAGCAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
52 5 0.05
53 31 0.29
54 34 0.32
55 36 0.34
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTCCC
Found at i:14037036 original size:53 final size:55
Alignment explanation
Indices: 14036863--14037045 Score: 173
Period size: 54 Copynumber: 3.4 Consensus size: 55
14036853 TAAGGATATT
* * * * **
14036863 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATCAGAGG-AAA-AAATC
1 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTAT-A-AGGCAAAGGACCC
* * *
14036917 ATATAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCC
1 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGACCC
* * *
14036972 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGACGCC
1 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGAC-CC
14037025 ACT-TAAGACCATGTCAAGACA
1 A-TGTAAGACCATGTCAAGACA
14037046 CAGCAATGGT
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 5 0.05
53 29 0.27
54 37 0.35
55 36 0.34
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (55 bp):
ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGACCC
Found at i:14044705 original size:33 final size:33
Alignment explanation
Indices: 14044658--14044729 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
14044648 ATAGAATCAA
14044658 TACAGTCTGCGCCAAAGCCCTATTCAGTACCAG
1 TACAGTCTGCGCCAAAGCCCTATTCAGTACCAG
* * *
14044691 TACAGTTTGGGCCAAAGCCCTATTCAGTATCAG
1 TACAGTCTGCGCCAAAGCCCTATTCAGTACCAG
14044724 TACAGT
1 TACAGT
14044730 GCAAAATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (33 bp):
TACAGTCTGCGCCAAAGCCCTATTCAGTACCAG
Found at i:14051607 original size:15 final size:15
Alignment explanation
Indices: 14051577--14051615 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
14051567 TATGTTAACT
14051577 TAATATATATAAGTTA
1 TAATA-ATATAAGTTA
*
14051593 TAATAATATATGTTA
1 TAATAATATAAGTTA
14051608 TAATAATA
1 TAATAATA
14051616 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
TAATAATATAAGTTA
Found at i:14052841 original size:43 final size:43
Alignment explanation
Indices: 14052793--14052878 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
14052783 TATGTGATTG
14052793 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
* ** * *
14052836 ATATTGAAATGGCAATTATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
14052879 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.51, C:0.01, G:0.23, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATGAGAAA
Found at i:14055320 original size:59 final size:59
Alignment explanation
Indices: 14055228--14055352 Score: 241
Period size: 59 Copynumber: 2.1 Consensus size: 59
14055218 ATTCCACAGA
14055228 ACCTACATAGAAGAAGATGTGATAGCAAACATAATAACATGATGAATAATATTAGGTAT
1 ACCTACATAGAAGAAGATGTGATAGCAAACATAATAACATGATGAATAATATTAGGTAT
14055287 ACCTACATAGAAGAAGATGTGATAGCAAACATAATAACATGATGAATAATATTAGGTAT
1 ACCTACATAGAAGAAGATGTGATAGCAAACATAATAACATGATGAATAATATTAGGTAT
*
14055346 AACTACA
1 ACCTACA
14055353 GCATGGAGAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (59 bp):
ACCTACATAGAAGAAGATGTGATAGCAAACATAATAACATGATGAATAATATTAGGTAT
Found at i:14056848 original size:22 final size:22
Alignment explanation
Indices: 14056823--14056873 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
14056813 TAAAGAAGTG
14056823 ATTAAAAACTAAAATTTAACTA
1 ATTAAAAACTAAAATTTAACTA
*
14056845 ATTAAAAGCTAAAATTTAACTA
1 ATTAAAAACTAAAATTTAACTA
*
14056867 AGTAAAA
1 ATTAAAA
14056874 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (22 bp):
ATTAAAAACTAAAATTTAACTA
Found at i:14059625 original size:19 final size:19
Alignment explanation
Indices: 14059600--14059688 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
14059590 ATAATCCTCA
14059600 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14059619 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14059638 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14059655 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14059673 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
14059689 AAATATATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14059640 original size:14 final size:15
Alignment explanation
Indices: 14059621--14059676 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
14059611 TCTTAGATGT
14059621 GATATG-CAATCTTA
1 GATATGACAATCTTA
14059635 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
14059652 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
14059670 GATATGA
1 GATATGA
14059677 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:14059670 original size:35 final size:37
Alignment explanation
Indices: 14059608--14059688 Score: 130
Period size: 35 Copynumber: 2.2 Consensus size: 37
14059598 CAATGATATG
*
14059608 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
14059644 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
14059681 CAATCTTA
1 CAATCTTA
14059689 AAATATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 16 0.38
36 15 0.36
37 11 0.26
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:14061076 original size:26 final size:26
Alignment explanation
Indices: 14061038--14061112 Score: 132
Period size: 26 Copynumber: 2.9 Consensus size: 26
14061028 TGATACAAAT
*
14061038 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14061064 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14061090 TGATAATGGGGTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTT
14061113 AAATGTTCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14062643 original size:26 final size:26
Alignment explanation
Indices: 14062614--14062666 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14062604 TTTACAGTTT
14062614 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
14062640 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
14062666 T
1 T
14062667 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:14068509 original size:9 final size:9
Alignment explanation
Indices: 14068495--14068553 Score: 77
Period size: 9 Copynumber: 6.6 Consensus size: 9
14068485 TTCTATTTCA
14068495 AAAAAAAAG
1 AAAAAAAAG
14068504 AAAAAAAAG
1 AAAAAAAAG
14068513 AAAAAAAAG
1 AAAAAAAAG
14068522 AGACAAAAAAG
1 A-A-AAAAAAG
14068533 --AAAAAAG
1 AAAAAAAAG
*
14068540 AAAAAAGAG
1 AAAAAAAAG
14068549 AAAAA
1 AAAAA
14068554 GAAAAATGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.16
9 30 0.67
10 1 0.02
11 7 0.16
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:14068552 original size:15 final size:14
Alignment explanation
Indices: 14068497--14068559 Score: 67
Period size: 15 Copynumber: 4.4 Consensus size: 14
14068487 CTATTTCAAA
14068497 AAAAAAGAAAAAA-
1 AAAAAAGAAAAAAG
*
14068510 AAGAAAA-AAAAGAGAC
1 AA-AAAAGAAAA-A-AG
14068526 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
14068540 AAAAAAGAGAAAAAG
1 AAAAAAGA-AAAAAG
14068555 AAAAA
1 AAAAA
14068560 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
13 6 0.14
14 14 0.33
15 17 0.40
16 6 0.14
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:14069801 original size:84 final size:85
Alignment explanation
Indices: 14069506--14069833 Score: 440
Period size: 84 Copynumber: 3.9 Consensus size: 85
14069496 CAAAATTTAG
* *
14069506 CGCCTTAATCCCCTAAGCAGTAGGCTAACATGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
14069571 GTGGAGCAGATAGAAGA-CT
66 GCGGAGCAGATCGAAGACCT
* * * *
14069590 CACCTTAATCCCCTAAGCAATAGGGTAAC-----AAGTTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
14069650 GCGGAGCAAATCGATGACGACT
66 GCGGAGCAGATCGAAGAC--CT
* *
14069672 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
14069737 GTGGAGCAGATCGAAGACCT
66 GCGGAGCAGATCGAAGACCT
* *
14069757 -GCCTTAATCCTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGAAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
14069819 GCGGAGCAGATCGAA
66 GCGGAGCAGATCGAA
14069834 AATGATGCAC
Statistics
Matches: 213, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
79 42 0.20
82 54 0.25
84 72 0.34
85 2 0.01
87 43 0.20
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GCGGAGCAGATCGAAGACCT
Found at i:14069813 original size:41 final size:41
Alignment explanation
Indices: 14069682--14069819 Score: 106
Period size: 41 Copynumber: 3.3 Consensus size: 41
14069672 CGCCTTAATC
* *
14069682 CCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--T
* * * **
14069725 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACCTGC----CTTAAT
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-AT
14069765 CCTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTAT
1 CC-CTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTAT
*
14069807 CCCTAAGAAGTAG
1 CCCTAAGCAGTAG
14069820 CGGAGCAGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
39 4 0.06
40 7 0.10
41 29 0.40
42 5 0.07
43 20 0.28
44 4 0.06
45 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTAT
Found at i:14070270 original size:206 final size:206
Alignment explanation
Indices: 14069878--14070456 Score: 944
Period size: 206 Copynumber: 2.8 Consensus size: 206
14069868 TAGACTAAAG
* * * * * *
14069878 CATAGCAGATCTCACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * *
14069943 CTTACAAGGAGCAAATCGAAGACATA-CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
*
14070007 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACA
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACA
14070072 GAGGGCAGACA
196 GAGGGCAGACA
14070083 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * * *
14070148 CTTACAAGGAGCAAATTGAAGACATAGCTAATTTGGTTTTTGCATGCTTACGCTGAAGCAAGTCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* *
14070213 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAATGTTTGGCGCCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACA
14070278 GAGGGCAGACA
196 GAGGGCAGACA
* * * *
14070289 CATAGTAGATCTAACCTTCAGAAGATTAGACTGAAGCAGATCCTAGATGGTTTGGTATCTTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
*
14070354 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
14070419 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
14070457 TGAAGAAGCA
Statistics
Matches: 345, Mismatches: 28, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
205 84 0.24
206 261 0.76
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACA
GAGGGCAGACA
Found at i:14070889 original size:18 final size:18
Alignment explanation
Indices: 14070860--14070971 Score: 174
Period size: 18 Copynumber: 6.3 Consensus size: 18
14070850 ATAATCTTCA
14070860 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
14070879 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14070897 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
14070914 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14070932 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14070949 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
14070967 ATGAT
1 ATGAT
14070972 AAACAATCTT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 31 0.36
18 49 0.58
19 5 0.06
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:14070891 original size:35 final size:35
Alignment explanation
Indices: 14070868--14070982 Score: 203
Period size: 35 Copynumber: 3.2 Consensus size: 35
14070858 CAATGATATG
14070868 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
14070903 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
14070938 CAATCTTAGATGTGATTGCAATCTTAGATATGATAAA
1 CAATCTTAGATATGATTGCAATCTTAGATATGAT--A
14070975 CAATCTTA
1 CAATCTTA
14070983 AAAGATATGA
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 68 0.88
37 9 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:14074418 original size:20 final size:20
Alignment explanation
Indices: 14074388--14074432 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14074378 CTGTTTTATT
14074388 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
14074407 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
14074427 ATGGGC
1 ATGGGC
14074433 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:14074595 original size:62 final size:61
Alignment explanation
Indices: 14074456--14074597 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 61
14074446 TCTCGACTTG
* * * * * *
14074456 TAATAGGGCTACGGCCCGGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATATTG
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGAAATTC
* *
14074517 TAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACT-AAATTC
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGAAATTC
14074578 TGAATAGGGCTTA-GGCCCAG
1 T-AATAGGGC-TACGGCCCAG
14074598 TAAAGCTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 40 0.58
62 27 0.39
63 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGAAATTC
Found at i:14076804 original size:20 final size:19
Alignment explanation
Indices: 14076775--14076813 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14076765 ATTGATTTAT
*
14076775 GGAAATTATAAATATTATTA
1 GGAAAATATAAATA-TATTA
*
14076795 GGAAAATATATATATATTA
1 GGAAAATATAAATATATTA
14076814 TCGTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
GGAAAATATAAATATATTA
Done.