Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 65 of 438
Found at i:17017418 original size:78 final size:78
Alignment explanation
Indices: 17017244--17017464 Score: 297
Period size: 78 Copynumber: 2.8 Consensus size: 78
17017234 TCGAATGATG
* * *
17017244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
17017308 CGTGCGAGTTACTAA
64 CGTGCGAGTTACTAA
*
17017323 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGTCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATT
17017386 -GTGCGAGTTACTAAA
64 CGTGCGAGTTACT-AA
* * *
17017401 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATT
17017465 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
77 13 0.10
78 59 0.46
79 47 0.37
80 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTCG
TGCGAGTTACTAA
Found at i:17023449 original size:79 final size:79
Alignment explanation
Indices: 17023286--17023508 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 79
17023276 TCGAATGATG
* ** * * * *
17023286 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTCATGC-GAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
*
17023350 CGTGCGAGTTACTAAT
64 CGTGCGAGTTACTAAA
17023366 TCCGGACTAAGAT-CCGAAGGCATTCATGCGAGTTACTA-ATTCCGGGCTAAGTCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTCATGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATT
*
17023429 GGTGCGAGTTACTAAA
64 CGTGCGAGTTACTAAA
** ** * *
17023445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTCATGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATT
17023509 TGAACGAGTA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.56
80 47 0.39
81 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTCATGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTCG
TGCGAGTTACTAAA
Found at i:17023490 original size:40 final size:38
Alignment explanation
Indices: 17023286--17023510 Score: 236
Period size: 40 Copynumber: 5.7 Consensus size: 38
17023276 TCGAATGATG
* *
17023286 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
* * *
17023326 TCCGGACTAAGATCTGAAGGCATTCGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* **
17023365 TTCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAA
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
*
17023405 TTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AA
*
17023445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-A
* *
17023485 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
17023511 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 36 0.22
40 121 0.74
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:17023502 original size:119 final size:120
Alignment explanation
Indices: 17023286--17023508 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
17023276 TCGAATGATG
* * *
17023286 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
*
17023351 GTGCGAGTTACTAATTCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAT
66 GTGCGAGTTACTAATACCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAT
* * **
17023406 TCCGGGCTAAGT-CCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
17023468 TTGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATT
64 TCGTGCGAGTTACTAAT-ACCGGACTAAGAT-CCGAAGGCATT
17023509 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.05
119 66 0.75
120 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAATACCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAT
Found at i:17023532 original size:79 final size:79
Alignment explanation
Indices: 17023327--17023543 Score: 199
Period size: 79 Copynumber: 2.7 Consensus size: 79
17023317 GTGACTATAT
* * * ** * **
17023327 CCGGACTAAGATCTGAAGGCATTCGTGCGAGTTACTAATTCCGGACTAAGAT-CCGAAGGCATTC
1 CCGGGCTAAG-TCCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTC
*
17023391 ATGCGAGTTACTAATT
64 ATGCGAGTTACTAATA
** * **
17023407 CCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTCAT
17023472 GCGAGTTACT-ATAA
66 GCGAGTTACTAAT-A
* * * *
17023486 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGT-CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
17023544 TACGTGATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 81 0.70
80 32 0.28
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTCAT
GCGAGTTACTAATA
Found at i:17026523 original size:20 final size:20
Alignment explanation
Indices: 17026500--17026541 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
17026490 CAAGGGACAA
17026500 GGGCATGTCCCAAGCCACAC
1 GGGCATGTCCCAAGCCACAC
*
17026520 GGGCGTGTCCCAAGCCACAC
1 GGGCATGTCCCAAGCCACAC
17026540 GG
1 GG
17026542 CCTAATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.38, G:0.31, T:0.10
Consensus pattern (20 bp):
GGGCATGTCCCAAGCCACAC
Found at i:17030552 original size:19 final size:18
Alignment explanation
Indices: 17030517--17030556 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
17030507 AGTTTAACTT
17030517 TTAATTAAACATAATTAA
1 TTAATTAAACATAATTAA
*
17030535 TTAATTAAATCTTAATTAA
1 TTAATTAAA-CATAATTAA
17030554 TTA
1 TTA
17030557 GGATTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTAAACATAATTAA
Found at i:17038293 original size:22 final size:22
Alignment explanation
Indices: 17038267--17038315 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
17038257 TTTCTATTTG
*
17038267 ATAAAAAAATTGA-AAAATAAAA
1 ATAAAAAAA-TCATAAAATAAAA
* *
17038289 ATAAATATATCATAAAATAAAA
1 ATAAAAAAATCATAAAATAAAA
17038311 ATAAA
1 ATAAA
17038316 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAAAAAAATCATAAAATAAAA
Found at i:17038835 original size:76 final size:76
Alignment explanation
Indices: 17038754--17038896 Score: 277
Period size: 76 Copynumber: 1.9 Consensus size: 76
17038744 CATTCTCTCT
*
17038754 CCCCCCCAACGATAAAAAAAATAAAAAATATAAACCCTCAACACCTTCTTCTCACTCACATTTCT
1 CCCCCCCAACGATAAAAAAAATAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
17038819 CATAGTCGTTG
66 CATAGTCGTTG
17038830 CCCCCCCAACGATAAAAAAAATAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
1 CCCCCCCAACGATAAAAAAAATAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
17038895 CA
66 CA
17038897 CAATTCTCTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.40, C:0.34, G:0.03, T:0.23
Consensus pattern (76 bp):
CCCCCCCAACGATAAAAAAAATAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
CATAGTCGTTG
Found at i:17040360 original size:2 final size:2
Alignment explanation
Indices: 17040349--17040389 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
17040339 ATTAAGTTAT
* *
17040349 TA TA -A TA TA TA TA AA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17040390 AAAAGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:17040414 original size:15 final size:15
Alignment explanation
Indices: 17040387--17040430 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
17040377 ATATATATAT
*
17040387 ATAAAAAGTAAAAGGA
1 ATAAAAAG-AAAAAGA
17040403 ATAAAAAGAAAAAGA
1 ATAAAAAGAAAAAGA
17040418 ATAGAAAAAGAAA
1 AT--AAAAAGAAA
17040431 GAAAGGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
ATAAAAAGAAAAAGA
Found at i:17042047 original size:6 final size:6
Alignment explanation
Indices: 17042036--17042098 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
17042026 ATGTGCCGAC
* * * *
17042036 TACTGT TACTGT TACCGT TACTGT TACTGA TACTCTGT GTACCG- TAATGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TA--CTGT -TACTGT TACTGT
17042086 TACTGT TACTGT T
1 TACTGT TACTGT T
17042099 TCGGATTTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 3 0.07
6 35 0.78
7 2 0.04
8 3 0.07
9 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:17042086 original size:26 final size:26
Alignment explanation
Indices: 17042044--17042095 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17042034 ACTACTGTTA
*
17042044 CTGTTACCGTTACTGTTACTGATACT
1 CTGTTACCGTTAATGTTACTGATACT
*
17042070 CTGTGTACCG-TAATGTTACTGTTACT
1 CTGT-TACCGTTAATGTTACTGATACT
17042096 GTTTCGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (26 bp):
CTGTTACCGTTAATGTTACTGATACT
Found at i:17042332 original size:18 final size:18
Alignment explanation
Indices: 17042269--17042339 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
17042259 TGGAAAGATC
17042269 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
17042288 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
17042306 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
17042324 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
17042340 CCGATCAGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:17043839 original size:41 final size:41
Alignment explanation
Indices: 17043782--17043865 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
17043772 TATCAACATG
17043782 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
1 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
17043823 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
1 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
17043864 TA
1 TA
17043866 TCATTCCAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (41 bp):
TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
Found at i:17048289 original size:18 final size:19
Alignment explanation
Indices: 17048273--17048323 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
17048263 ACTAATTAAT
17048273 AAACACTTAAAAATTAAATA
1 AAACAC-TAAAAATTAAATA
*
17048293 AAACACT-AAAATCCTAATTA
1 AAACACTAAAAAT--TAAATA
17048313 AAACACTAAAA
1 AAACACTAAAA
17048324 CCCTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 18 0.67
21 3 0.11
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACACTAAAAATTAAATA
Found at i:17048294 original size:19 final size:18
Alignment explanation
Indices: 17048266--17048323 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
17048256 CCAAAACACT
17048266 AATTAAT-AAACACTTAAA
1 AATTAATAAAACAC-TAAA
17048284 AATTAAATAAAACACT-AA
1 AATT-AATAAAACACTAAA
17048302 AATCCTAATTAAAACACTAAA
1 AAT--TAA-TAAAACACTAAA
17048323 A
1 A
17048324 CCCTAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 16 0.47
21 3 0.09
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (18 bp):
AATTAATAAAACACTAAA
Found at i:17048314 original size:20 final size:20
Alignment explanation
Indices: 17048291--17048331 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17048281 AAAAATTAAA
*
17048291 TAAAACACTAAAATCCTAAT
1 TAAAACACTAAAACCCTAAT
17048311 TAAAACACTAAAACCCTAAT
1 TAAAACACTAAAACCCTAAT
17048331 T
1 T
17048332 TAATAACCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAACACTAAAACCCTAAT
Found at i:17050786 original size:54 final size:54
Alignment explanation
Indices: 17050676--17050866 Score: 287
Period size: 54 Copynumber: 3.6 Consensus size: 54
17050666 CCATATGTCG
*
17050676 TTACAGGGGATTTAACCTGGACTGGT-ATCTCGATGACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
* *
17050729 TTACGGGGGATTTAACCTGGACTGGTAATTTTGACT-ACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGA-TGACATTCTATGAGTTTATA
* *
17050783 TTACGAGGGATTTAACCTGGACTGGTAATCCCGATGACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
* * *
17050837 TTACGGGGGATTTAGCCTGAACTAGTAATC
1 TTACGGGGGATTTAACCTGGACTGGTAATC
17050867 CTGCTGTAGG
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
53 26 0.21
54 97 0.78
55 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (54 bp):
TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
Found at i:17056216 original size:67 final size:66
Alignment explanation
Indices: 17056103--17056314 Score: 271
Period size: 67 Copynumber: 3.2 Consensus size: 66
17056093 ATGGGCTGTA
** * *
17056103 ATGGGGTATAATGTGTAAGATTATAGTTTGACTATGGCAACATAGAGAGTCCACCAAGGCATTAA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCCGCC-AGGCATTAA
17056168 AC
65 AC
* * ** *
17056170 ATGGGGTATAATGTGTAAGACCATAGCTTGACTATGGCAACTTAGAGAGTCCGTTGAGACATTAA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCCG-CCAGGCATTAA
17056235 AC
65 AC
* * * *
17056237 ATGGGGTATAATGTGTAAGAACATAGCTCGACTATGGAAAACATAGAAAGTCTGCCAGGACATTA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGG-CAACATAGAGAGTCCGCCAGG-CATTA
17056302 AAC
64 AAC
17056305 ATGGGGTATA
1 ATGGGGTATA
17056315 GAAAGTCTGC
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
67 95 0.76
68 30 0.24
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (66 bp):
ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCCGCCAGGCATTAAA
C
Found at i:17056321 original size:33 final size:33
Alignment explanation
Indices: 17056279--17056347 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
17056269 TATGGAAAAC
17056279 ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
1 ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
17056312 ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
1 ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
17056345 ATA
1 ATA
17056348 ATGTGTAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (33 bp):
ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
Found at i:17056428 original size:67 final size:67
Alignment explanation
Indices: 17056326--17056781 Score: 413
Period size: 67 Copynumber: 6.8 Consensus size: 67
17056316 AAAGTCTGCC
* * *
17056326 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTGGACTATGGCAACATAAAAAGTCCA
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
17056391 CT
66 CT
* * * * *
17056393 AGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTC-AATAATTGCAATATAGAGAGT-C
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACT-ATGGCAACATAGAGAGTCC
**
17056456 TGT
65 ACT
* * * * * * * **
17056459 CAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTATGGAAACATAGAGAGTTT
1 -AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCC
* *
17056524 GCC
65 ACT
* * *
17056527 AAGACATTAAACATGGGGTATAATGTGTAA-AGCAATAGCTCGACTATGGCAATATAGAGAGTCC
1 AGGACATTAAACATGGGGTATAATGTGTAAGA-CCATAGCTCGACTATGGCAACATAGAGAGTCC
*
17056591 ATT
65 ACT
** * * * *
17056594 AGGACATTAAACATAAGGTATAATGTGTAAGGCCATAGCTCGACTATGGCAAAATAAAGAGTCCG
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
*
17056659 CC
66 CT
* * * * * *
17056661 AAGACATTAAACATGGGATATAATGTGTAAGACCATAGCTC-AGTTATAGAAAGATAGAGAGTCC
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGA-CTATGGCAACATAGAGAGTCC
*
17056725 -GT
65 ACT
** * * * *
17056727 CAGGACATT-AACATGGCTTATGACGTGTAAGA-CATAGCTCGATTATGGCAGCATA
1 -AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
17056782 TGGACTTTTT
Statistics
Matches: 310, Mismatches: 70, Indels: 20
0.77 0.17 0.05
Matches are distributed among these distances:
65 17 0.05
66 26 0.08
67 265 0.85
68 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (67 bp):
AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
CT
Found at i:17056551 original size:134 final size:133
Alignment explanation
Indices: 17056311--17056774 Score: 511
Period size: 134 Copynumber: 3.5 Consensus size: 133
17056301 AAACATGGGG
* * * * *
17056311 TATAGAAAGTCTGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTGGACTATGGC
1 TATAGAGAGTCCGTCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGA
* * * * * *
17056376 AACATAAAAAGTCCACTAGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTCAATAATT
66 AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCAAT-ATA
17056441 GCAA
130 GCAA
* * * * * * *
17056445 TATAGAGAGTCTGTCAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTATGGA
1 TATAGAGAGTCCGTCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGA
* ** * * * *
17056510 AACATAGAGAGTTTGCCAAGACATTAAACATGGGGTATAATGTGTAAAGCAATAGCTCGACTATG
66 AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTC-AATATA
17056575 GCAA
130 GCAA
* * ** *
17056579 TATAGAGAGTCCATTAGGACATTAAACATAAGGTATAATGTGTAAGGCCATAGCTCGACTATGGC
1 TATAGAGAGTCCGTCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGG-
* * *
17056644 AAA-ATAAAGAGTCCGCCAAGACATTAAACATGGGATATAATGTGTAAGACCATAGCTCAGTTAT
65 AAACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCA-ATAT
*
17056708 AGAAA
129 AGCAA
* ** * * *
17056713 GATAGAGAGTCCGTCAGGACATT-AACATGGCTTATGACGTGTAAGA-CATAGCTCGATTATGG
1 TATAGAGAGTCCGTCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGG
17056775 CAGCATATGG
Statistics
Matches: 273, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
132 15 0.05
133 17 0.06
134 236 0.86
135 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (133 bp):
TATAGAGAGTCCGTCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGA
AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCAATATAG
CAA
Found at i:17056673 original size:201 final size:201
Alignment explanation
Indices: 17056312--17056781 Score: 509
Period size: 201 Copynumber: 2.3 Consensus size: 201
17056302 AACATGGGGT
* * *
17056312 ATAGAAAGTCTGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTGGACTATGGCA
1 ATAGAAAGTCTGCCAAGACATTAAACATGGGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
** * *
17056377 ACATAAAAAGTCCACTAGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTCAATAATTG
66 ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
* * * * * * * *
17056442 CAATATAGAGAGTCTGTCAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTAT
131 CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTTGACTAT
17056507 GGAAAC
196 GGAAAC
* *
17056513 ATAGAGAGTTTGCCAAGACATTAAACATGGGGTATAATGTGTAA-AGCAATAGCTCGACTATGGC
1 ATAGAAAGTCTGCCAAGACATTAAACATGGGGTATAATGTGTAAGA-CAATAGCTCGACTATGGC
* * * * ** *
17056577 AATATAGAGAGTCCATTAGGACATTAAACATAAGGTATAATGTGTAAGGCCATAGCTCGACT-AT
65 AACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTC-AATAAT
* * * * *
17056641 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGATATAATGTGTAAGACCATAGC-TCAGT
129 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTTGA-C
* *
17056705 TATAGAAAG
193 TATGGAAAC
* * * * ** * * *
17056714 ATAGAGAGTCCGTCAGGACATT-AACATGGCTTATGACGTGTAAGAC-ATAGCTCGATTATGGCA
1 ATAGAAAGTCTGCCAAGACATTAAACATGGGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
*
17056777 GCATA
66 ACATA
17056782 TGGACTTTTT
Statistics
Matches: 223, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
199 19 0.09
200 21 0.09
201 181 0.81
202 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (201 bp):
ATAGAAAGTCTGCCAAGACATTAAACATGGGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTTGACTAT
GGAAAC
Found at i:17058800 original size:135 final size:135
Alignment explanation
Indices: 17058558--17058829 Score: 395
Period size: 135 Copynumber: 2.0 Consensus size: 135
17058548 CTTAATTGAT
* *
17058558 ATAATTGTGGTAAATGCTATATTATTGAAATGAAAGGTGAATGCTATTGATTATGATACTACGAA
1 ATAATTGTGGCAAATGCTATATTATTGAAATGAAAGGTGAATGCTATTGAGTATGATACTACGAA
* * * *
17058623 AATGACCGATAGAGTTTCAATATAGCGAAAGTCCTTATTGAACCTTAGGAATAGATAGGATACAG
66 AATGACCGATAGAGTTTCAATAAAGCGAAAGTCCTTATTGAACCGTAAGAATAGATAGGATACAA
17058688 ATGTC
131 ATGTC
* *
17058693 ATAATTGTGGCAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGAGTATGATACTACGTA
1 ATAATTGTGGCAAATGCTATATTATTGAAATGAAAGGTGAATGCTATTGAGTATGATACTACGAA
* *** *
17058758 AATGATCGATAGAGTTTTGTTACAAG-GAAAGT-CTTGGTTGAACCGTAAGAATAGATAGGATAC
66 AATGACCGATAGAGTTTCAATA-AAGCGAAAGTCCTT-ATTGAACCGTAAGAATAGATAGGATAC
17058821 AAATGTC
129 AAATGTC
17058828 AT
1 AT
17058830 GACATTAGGG
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
134 3 0.02
135 117 0.96
136 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (135 bp):
ATAATTGTGGCAAATGCTATATTATTGAAATGAAAGGTGAATGCTATTGAGTATGATACTACGAA
AATGACCGATAGAGTTTCAATAAAGCGAAAGTCCTTATTGAACCGTAAGAATAGATAGGATACAA
ATGTC
Found at i:17058943 original size:43 final size:42
Alignment explanation
Indices: 17058845--17058961 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
17058835 TAGGGTTACT
* * *
17058845 GAGATAACATGTAAAACCATATCTGGAATATGACATCGATAT
1 GAGATTACATGTAAGACCATATCTGGAATATGACATCGATAC
** * * *
17058887 GAGACTT-TGTGTAAGACCATAGCTGGACTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGAATA-TGACATCGATAC
*
17058930 GAGATTACATGTAAGACCATATCTGGGATATG
1 GAGATTACATGTAAGACCATATCTGGAATATG
17058962 GCATTGGTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGAATATGACATCGATAC
Found at i:17070032 original size:21 final size:21
Alignment explanation
Indices: 17070008--17070088 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
17069998 AGCAGAAGCA
17070008 CATAAGAGCTAAACAAAAACT
1 CATAAGAGCTAAACAAAAACT
* *
17070029 CATAAGGGTTAAACAAAAACT
1 CATAAGAGCTAAACAAAAACT
* * ** *
17070050 CATATGAG-TTAACTGAAGCT
1 CATAAGAGCTAAACAAAAACT
* *
17070070 CATGAGAGCTAAACGAAAA
1 CATAAGAGCTAAACAAAAA
17070089 GTAAACATGA
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 14 0.31
21 31 0.69
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
CATAAGAGCTAAACAAAAACT
Found at i:17070295 original size:7 final size:7
Alignment explanation
Indices: 17070283--17070321 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
17070273 CCATTCATCA
17070283 ATTTAAC
1 ATTTAAC
17070290 ATTTAAC
1 ATTTAAC
17070297 ATTTAAC
1 ATTTAAC
17070304 ATTTAA-
1 ATTTAAC
17070310 ATTTAACC
1 ATTTAA-C
17070318 ATTT
1 ATTT
17070322 GAACTTACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAC
Found at i:17071393 original size:13 final size:13
Alignment explanation
Indices: 17071375--17071407 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
17071365 AATGCACACG
17071375 CCCGTGTCCCACA
1 CCCGTGTCCCACA
17071388 CCCGTGTCCCACA
1 CCCGTGTCCCACA
17071401 CCCGTGT
1 CCCGTGT
17071408 TGAGTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.52, G:0.18, T:0.18
Consensus pattern (13 bp):
CCCGTGTCCCACA
Found at i:17073157 original size:12 final size:12
Alignment explanation
Indices: 17073140--17073164 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17073130 TGCAATTAGG
17073140 TATATTATGAGT
1 TATATTATGAGT
17073152 TATATTATGAGT
1 TATATTATGAGT
17073164 T
1 T
17073165 TACTTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATATTATGAGT
Found at i:17082081 original size:43 final size:42
Alignment explanation
Indices: 17082016--17082295 Score: 249
Period size: 43 Copynumber: 6.5 Consensus size: 42
17082006 GTAAAAATAG
*
17082016 GCCGCTATAGAATATGACCTTTAGCGACGCTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGC-TTTTCCACAAAC
* *
17082059 GCCTCTATAGAACATGACCTTTAG-TAGCGCTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGA-CGC-TTTTCCACAAAC
* * * * * *
17082102 ACAGCTATAGAACGTTACCTTTAGCAACGATTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTT-CCACAAAC
** * * * *
17082145 ATCGCTAAAGAGCATAACCTTTAGCGGCGCTTTTCCTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTTCC-ACAAAC
* * * *
17082188 GCCGCTAAAGAACATAACCTTTAGTGGCGCTTTTCCTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTTCC-ACAAAC
** * *
17082231 GTGGCTATAAAACA-GACCTTTAGCGGCGCTTTTCTCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTTC-CACAAAC
* * *
17082273 GCTGCTAAAGAACATGACGTTTA
1 GCCGCTATAGAACATGACCTTTA
17082296 AAAAATTTTA
Statistics
Matches: 197, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
42 41 0.21
43 155 0.79
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
GCCGCTATAGAACATGACCTTTAGCGACGCTTTTCCACAAAC
Found at i:17082418 original size:34 final size:35
Alignment explanation
Indices: 17082380--17082447 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
17082370 TTTCTATTAA
*
17082380 AATTTAACTTTA-AAACTAAATATAA-AAATTAATG
1 AATTTAAATTTAGAAACTAAA-ATAATAAATTAATG
**
17082414 AATTTAAATTTAGAATTTAAAATAATAAATTAAT
1 AATTTAAATTTAGAAACTAAAATAATAAATTAAT
17082448 AACACAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
AATTTAAATTTAGAAACTAAAATAATAAATTAATG
Found at i:17082502 original size:12 final size:12
Alignment explanation
Indices: 17082487--17082559 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
17082477 TTAGTTATCT
*
17082487 TAAATATTAAAA
1 TAAATATAAAAA
*
17082499 TAAAAATAAAAA
1 TAAATATAAAAA
*
17082511 TTTAGATATCAAAAA
1 --TAAATAT-AAAAA
17082526 TAAA-ATAAATAA
1 TAAATATAAA-AA
* *
17082538 TAAATATTAAAT
1 TAAATATAAAAA
17082550 TAAATATAAA
1 TAAATATAAA
17082560 GATATCAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.06
12 28 0.58
13 7 0.15
14 5 0.10
15 5 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (12 bp):
TAAATATAAAAA
Found at i:17085639 original size:42 final size:42
Alignment explanation
Indices: 17085576--17085733 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
17085566 CTTCGTTTTC
** * *
17085576 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
17085619 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
17085660 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-ATT-ACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
* *
17085701 CCTCACTGATGCCATATCCCAGATATGGTCTTA
1 --T--C-GATGCCATAGCCCAGCTATGGTCTTA
17085734 TACAGTAGCA
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
41 6 0.06
42 66 0.66
43 3 0.03
45 1 0.01
46 24 0.24
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:17085837 original size:31 final size:31
Alignment explanation
Indices: 17085802--17085950 Score: 174
Period size: 31 Copynumber: 4.8 Consensus size: 31
17085792 CTTGTCACTT
* *
17085802 GTAGCTGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* * *
17085833 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* * *
17085864 GTAGCCGGAGCTACCACTTTTCTCTAATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* * *
17085895 GTAGCCGGAA-CTACCACTTTTCATTGCTCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAA
*
17085926 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
17085951 TGTCATTTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
30 3 0.03
31 94 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAA
Found at i:17085899 original size:62 final size:62
Alignment explanation
Indices: 17085802--17085950 Score: 208
Period size: 62 Copynumber: 2.4 Consensus size: 62
17085792 CTTGTCACTT
* * * * *
17085802 GTAGCTGAAGCTACCACTATTCACTGATCAAGTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTAATCAAGTAGCCGGAACTACCACTTTTCACTGATCAG
* * * * *
17085864 GTAGCCGGAGCTACCACTTTTCTCTAATCAAGTAGCCGGAACTACCACTTTTCATTGCTCAG
1 GTAGCAGAAGCTACCACTTTTCACTAATCAAGTAGCCGGAACTACCACTTTTCACTGATCAG
17085926 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
17085951 TGTCATTTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 75 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (62 bp):
GTAGCAGAAGCTACCACTTTTCACTAATCAAGTAGCCGGAACTACCACTTTTCACTGATCAG
Found at i:17086034 original size:50 final size:51
Alignment explanation
Indices: 17085926--17086054 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
17085916 CATTGCTCAG
* * *
17085926 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
17085977 GTTGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
17086027 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
17086055 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:17091919 original size:47 final size:48
Alignment explanation
Indices: 17091847--17092016 Score: 227
Period size: 49 Copynumber: 3.5 Consensus size: 48
17091837 CCCTTCGGGA
* * * ** * *
17091847 CTTATCAC-ATTTATACACTTCCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACTATATATACACTTTCACATTCATCACATTGGCCATTAGGC
17091894 CTTATCAC-ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACTATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
17091941 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC-TATATATACACTTTCACATTCATCACATTGGCCATTAGGC
17091990 CTTATCACGTATATATACACTTTCACA
1 CTTATCAC-TATATATACACTTTCACA
17092017 AATTTTAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 48 0.44
49 62 0.56
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACTATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:17094787 original size:115 final size:115
Alignment explanation
Indices: 17094572--17094792 Score: 241
Period size: 115 Copynumber: 1.9 Consensus size: 115
17094562 AAAAAGGCGC
** *
17094572 CGTTTTGATTAAAACAAAATAACATTTTGCGGCATTTTTCACCTAGTGCCGCTAAAGCCCGACCT
1 CGTTTTGATTAAAACAAAATAACATTTTGCGGCATTTTTCACCTAGCACCGCTAAAGCCCGACAT
* **
17094637 ATTGCAGCGTTTTAACAAAAATTCCACTAAAAAATCAAATAAAACAGTGT
66 ATTGCAGCGTTTCAACAAAAACGCCACTAAAAAATCAAATAAAACAGTGT
* * * * *
17094687 CGTTTTGATTAAAACATAATAA-ATTTTTGCTGCTTTTTTTGA-CTAGCACTGCTAGAA-CCCGA
1 CGTTTTGATTAAAACAAAATAACA-TTTTGCGGC-ATTTTTCACCTAGCACCGCTA-AAGCCCGA
* * * * * *
17094749 CATATTGCGGTGTTTCACCAAAAACGCCATTAAGAAATCCAATA
63 CATATTGCAGCGTTTCAACAAAAACGCCACTAAAAAATCAAATA
17094793 GAACGGCACC
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
114 1 0.01
115 77 0.90
116 8 0.09
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (115 bp):
CGTTTTGATTAAAACAAAATAACATTTTGCGGCATTTTTCACCTAGCACCGCTAAAGCCCGACAT
ATTGCAGCGTTTCAACAAAAACGCCACTAAAAAATCAAATAAAACAGTGT
Found at i:17095622 original size:21 final size:21
Alignment explanation
Indices: 17095598--17095650 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
17095588 ATTAATCTAA
17095598 ACCCTAAACCCCTAACCCCTG
1 ACCCTAAACCCCTAACCCCTG
* * *
17095619 ACCCTTAACCCTTGACCCCTG
1 ACCCTAAACCCCTAACCCCTG
17095640 ACCCTTAAACC
1 ACCC-TAAACC
17095651 TTAAACCCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCCCTG
Found at i:17095644 original size:14 final size:14
Alignment explanation
Indices: 17095605--17095645 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17095595 TAAACCCTAA
*
17095605 ACCCCTAACCCCTG
1 ACCCCTAACCCTTG
*
17095619 ACCCTTAACCCTTG
1 ACCCCTAACCCTTG
*
17095633 ACCCCTGACCCTT
1 ACCCCTAACCCTT
17095646 AAACCTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.51, G:0.07, T:0.22
Consensus pattern (14 bp):
ACCCCTAACCCTTG
Found at i:17095652 original size:21 final size:22
Alignment explanation
Indices: 17095611--17095671 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
17095601 CTAAACCCCT
*
17095611 AACCCCTGACCCTTAACCCTT-
1 AACCCCTGACCCTTAAACCTTA
*
17095632 GACCCCTGACCCTTAAACCTTA
1 AACCCCTGACCCTTAAACCTTA
*
17095654 AACCCC-AACCCTTAAACC
1 AACCCCTGACCCTTAAACC
17095672 ATAATCCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.30, C:0.46, G:0.05, T:0.20
Consensus pattern (22 bp):
AACCCCTGACCCTTAAACCTTA
Found at i:17095687 original size:21 final size:21
Alignment explanation
Indices: 17095663--17095739 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
17095653 AAACCCCAAC
17095663 CCTTAAACCATAATCCATAAA
1 CCTTAAACCATAATCCATAAA
**
17095684 CCTTAAAATAGTAACTCC-TAAA
1 CCTTAAACCA-TAA-TCCATAAA
* *
17095706 CCTTAAACCCTAAAT-CATATA
1 CCTTAAACCAT-AATCCATAAA
17095727 -CTCTAAACCATAA
1 CCT-TAAACCATAA
17095740 ACCCTAACCT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
20 5 0.11
21 20 0.45
22 16 0.36
23 3 0.07
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.26
Consensus pattern (21 bp):
CCTTAAACCATAATCCATAAA
Found at i:17095719 original size:14 final size:14
Alignment explanation
Indices: 17095640--17095746 Score: 65
Period size: 14 Copynumber: 7.5 Consensus size: 14
17095630 TTGACCCCTG
*
17095640 ACCCTTAAACCTTAA
1 ACCC-TAAACCATAA
* * *
17095655 ACCCCAACCCTTAA
1 ACCCTAAACCATAA
* *
17095669 ACCATAATCCATAA
1 ACCCTAAACCATAA
*
17095683 ACCTTAAA--ATAGTA
1 ACCCTAAACCATA--A
*
17095697 ACTCCTAAACCTTAA
1 AC-CCTAAACCATAA
* *
17095712 ACCCTAAATCATAT
1 ACCCTAAACCATAA
*
17095726 ACTCTAAACCATAA
1 ACCCTAAACCATAA
17095740 ACCCTAA
1 ACCCTAA
17095747 CCTATAATGA
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
12 3 0.04
14 53 0.76
15 12 0.17
17 2 0.03
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
ACCCTAAACCATAA
Found at i:17096161 original size:58 final size:58
Alignment explanation
Indices: 17096077--17096190 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
17096067 TAAAGCGCCG
*
17096077 CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAACGTCGCTAATGCCACTAAAGCCA
1 CTAAAGCTCGATCTATAACGGCGTTTTTCAAAAAACGTCGCTAATGCCACTAAAGCCA
* * ** * *
17096135 CTAAAGCTCGATCTATAATGGTGTTTTTCAAAAAGTGTTGCTAGTGCCACTAAAGC
1 CTAAAGCTCGATCTATAACGGCGTTTTTCAAAAAACGTCGCTAATGCCACTAAAGC
17096191 TCACGGCGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (58 bp):
CTAAAGCTCGATCTATAACGGCGTTTTTCAAAAAACGTCGCTAATGCCACTAAAGCCA
Found at i:17097555 original size:30 final size:29
Alignment explanation
Indices: 17097508--17097568 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
17097498 CAAGTAGCCG
17097508 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
17097537 AAGCTAGTTTAGATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
17097567 AA
1 AA
17097569 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:17098786 original size:40 final size:40
Alignment explanation
Indices: 17098725--17098871 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 40
17098715 ATTTTTTGCA
* **
17098725 GCGTTTTTCAAAAAGTGCTGCTAATGCTCGATCTATAGCG
1 GCGTTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
* * *
17098765 GCGTTTTTAAAAAAGCACTGCTAATGCTTGATCAATAGCA
1 GCGTTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
**
17098805 ATGTTTTTCAAAAAACGC-C-GCTAATGCTCGATCTATAGCG
1 GCGTTTTT-AAAAAA-GCACTGCTAATGCTCGATCTATAGCG
* * *
17098845 GCGATTTTCAAAAAGCACCGCTAATGC
1 GCGTTTTTAAAAAAGCACTGCTAATGC
17098872 CACTAAAGCT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 6 0.07
40 71 0.81
41 7 0.08
42 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (40 bp):
GCGTTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
Found at i:17099335 original size:26 final size:26
Alignment explanation
Indices: 17099299--17099382 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
17099289 TGATACAAAT
*
17099299 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
17099325 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
17099351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
17099377 TGATAA
1 TGATAA
17099383 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:17100921 original size:26 final size:25
Alignment explanation
Indices: 17100869--17100921 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
17100859 TTTACAGTTT
17100869 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
17100895 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
17100921 T
1 T
17100922 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:17104748 original size:40 final size:40
Alignment explanation
Indices: 17104663--17104813 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
17104653 AATTGAATGA
* * * *
17104663 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17104703 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17104744 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17104783 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17104814 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17104827 original size:40 final size:40
Alignment explanation
Indices: 17104700--17104829 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
17104690 ATGCTGGAAA
* * *
17104700 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
17104740 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
17104780 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17104820 TTATATCCGG
1 TTATATCCGG
17104830 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17104828 original size:80 final size:80
Alignment explanation
Indices: 17104662--17104829 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
17104652 AAATTGAATG
* *
17104662 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
17104727 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
17104742 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17104805 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
17104822 ATATCCGG
1 ATATCCGG
17104830 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:17108286 original size:26 final size:26
Alignment explanation
Indices: 17108247--17108356 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
17108237 TGATACAAAT
17108247 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
17108273 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17108299 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17108325 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17108351 TGATAA
1 TGATAA
17108357 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:17113366 original size:21 final size:21
Alignment explanation
Indices: 17113340--17113386 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
17113330 AAAATCACTT
17113340 AACAAATGTTGTTTATCTAGA
1 AACAAATGTTGTTTATCTAGA
17113361 AACAAATGTTGTTTATCTAGA
1 AACAAATGTTGTTTATCTAGA
17113382 AACAA
1 AACAA
17113387 TCATTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (21 bp):
AACAAATGTTGTTTATCTAGA
Found at i:17114757 original size:16 final size:18
Alignment explanation
Indices: 17114738--17114770 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17114728 CATACAAATT
17114738 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
17114754 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
17114771 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:17115376 original size:43 final size:43
Alignment explanation
Indices: 17115307--17115474 Score: 234
Period size: 43 Copynumber: 4.0 Consensus size: 43
17115297 AAGTCTGAAC
*
17115307 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
*
17115348 TCATCTCACCAGCATTATAGCCTGCTAGGC-CTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGATA
* * * *
17115391 TCATCTCACCGGTATTATAACATGCTAGGCTCGAAGCTCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* *
17115434 TCATATCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGA
17115475 ATGTCACATT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.04
42 11 0.10
43 94 0.85
44 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:17120922 original size:16 final size:17
Alignment explanation
Indices: 17120891--17120923 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17120881 GTGTCAGTAG
17120891 AGTTTTGATAGATTGAA
1 AGTTTTGATAGATTGAA
*
17120908 AGTTTTG-TTGATTGAA
1 AGTTTTGATAGATTGAA
17120924 GCACCTGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (17 bp):
AGTTTTGATAGATTGAA
Found at i:17124276 original size:24 final size:24
Alignment explanation
Indices: 17124230--17124281 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17124220 ACACACCTTA
*
17124230 GCTCTTATGAGCATCCTGTATATG
1 GCTCTTATGAGCATCCTGAATATG
*
17124254 GCTCTTTATGAGCTTCCT-AATATG
1 GCTC-TTATGAGCATCCTGAATATG
17124278 GCTC
1 GCTC
17124282 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
GCTCTTATGAGCATCCTGAATATG
Found at i:17124317 original size:25 final size:25
Alignment explanation
Indices: 17124289--17124340 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
17124279 CTCGCTTGAA
* * *
17124289 CTTCCCGATATATGGTTATTGGGAG
1 CTTCCCGATAAATGGCTATTCGGAG
*
17124314 CTTCCTGATAAATGGCTATTCGGAG
1 CTTCCCGATAAATGGCTATTCGGAG
17124339 CT
1 CT
17124341 ACCTGTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (25 bp):
CTTCCCGATAAATGGCTATTCGGAG
Found at i:17124450 original size:25 final size:25
Alignment explanation
Indices: 17124372--17124450 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
17124362 GTGTCCCAAT
** *
17124372 TATGGCTCTTATGAGCTTCCTATTA
1 TATGGCTCACATGAGCTTCCTGTTA
* * * *
17124397 TATAGCCCAGATAAGCTTCCTGTTA
1 TATGGCTCACATGAGCTTCCTGTTA
17124422 TATGGCTCACATGAGCTTCCTGTTA
1 TATGGCTCACATGAGCTTCCTGTTA
17124447 TATG
1 TATG
17124451 CTCTAGAGAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCTGTTA
Found at i:17127385 original size:18 final size:17
Alignment explanation
Indices: 17127338--17127389 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
17127328 AAATCAAAGA
*
17127338 AAAATGTAAAAATAAAT
1 AAAATGTAGAAATAAAT
17127355 -AAATG-AGATAAATCAAAT
1 AAAATGTAG--AAAT-AAAT
17127373 AAAATGTAGAAATAAAT
1 AAAATGTAGAAATAAAT
17127390 GAACTAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
15 1 0.03
16 5 0.17
17 8 0.28
18 8 0.28
19 5 0.17
20 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAATGTAGAAATAAAT
Found at i:17132010 original size:134 final size:134
Alignment explanation
Indices: 17131761--17132220 Score: 487
Period size: 134 Copynumber: 3.4 Consensus size: 134
17131751 TAACAGATCA
* ** ** * * *
17131761 ATCATAAATTGACAAACTCTAATTGAATTGCGCATAATCGTAAATCAATAAACTTAAGCTATGAT
1 ATCATAAATCGAGGAACTCTAATTGAATTGTTCATGATCATAAATCAATGAACTTAAGCTATGAT
* * * * * *
17131826 TATAAACCAATGAGCTTTAATGATA-CAAGTTGTGATCATAAATCAACAAACAATTTGAATGAAG
66 CATAAACTAGTGAGATTTAATAATATCAA-TTGTGATCATAAATCAACAAACTATTTGAATGAAG
17131890 TTGTG
130 TTGTG
* * * *
17131895 ATCATAAATCGAGGAACTCTAATTGAATTGTTCATGATCGTAAATCAATGAACTTATGTTGTGAT
1 ATCATAAATCGAGGAACTCTAATTGAATTGTTCATGATCATAAATCAATGAACTTAAGCTATGAT
* * * *
17131960 CATAAACTAGTGAGATTTAATAATATCAATTTTGATCATACATCAGCAAACTATTTGAATGGAGT
66 CATAAACTAGTGAGATTTAATAATATCAATTGTGATCATAAATCAACAAACTATTTGAATGAAGT
17132025 TGTG
131 TGTG
* * * ** * *
17132029 ATCGTAAATC-AGGGAACTCTAAGTGGATCATTCATGATCATAAATTAATGAACTTAAGCTATAA
1 ATCATAAATCGA-GGAACTCTAATTGAATTGTTCATGATCATAAATCAATGAACTTAAGCTATGA
* * * * * *
17132093 TCATAAA-TCAGTGA-ACTTTAATAATATCGATTGTGATCGTAAATCAAAAAATTGTTTGAATGT
65 TCATAAACT-AGTGAGA-TTTAATAATATCAATTGTGATCATAAATCAACAAACTATTTGAATGA
*
17132156 AGTTGCG
128 AGTTGTG
* * ** *
17132163 TTCATAAATTGAATAACTCTAATTGAATTGTTCATTATCATAAATCAATGAACTTAAG
1 ATCATAAATCGAGGAACTCTAATTGAATTGTTCATGATCATAAATCAATGAACTTAAG
17132221 GTGTGATTGT
Statistics
Matches: 269, Mismatches: 52, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
133 3 0.01
134 262 0.97
135 4 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (134 bp):
ATCATAAATCGAGGAACTCTAATTGAATTGTTCATGATCATAAATCAATGAACTTAAGCTATGAT
CATAAACTAGTGAGATTTAATAATATCAATTGTGATCATAAATCAACAAACTATTTGAATGAAGT
TGTG
Found at i:17132233 original size:98 final size:98
Alignment explanation
Indices: 17132124--17132334 Score: 255
Period size: 98 Copynumber: 2.2 Consensus size: 98
17132114 TAATATCGAT
* * ** * * *
17132124 TGTGATCGTAAATCAAAAAATTGTTTGAA-TGTAGTTGCGTTCATAAATTGAA-TAACTCTAATT
1 TGTGATCGTAAATCAAAAAACTGTTT-AACTGGAGTTGCAATCATAAA-TCAACGAACTCTAAGT
* * *
17132187 GAATTGTTCATTATCATAAATCAATGAACTTAAGG
64 GAATCGTTCATGATCATAAATCAATGAACATAAGG
* * *
17132222 TGTGATTGTAAATCAACAAACTGTTTAACTGGAGTTGCAATCGTAAATCAACGAACTCTAAGTGA
1 TGTGATCGTAAATCAAAAAACTGTTTAACTGGAGTTGCAATCATAAATCAACGAACTCTAAGTGA
* *
17132287 ATCGTTCATGATCGTAAATCAATGAACATAAGT
66 ATCGTTCATGATCATAAATCAATGAACATAAGG
17132320 TGTGATCGTAAATCA
1 TGTGATCGTAAATCA
17132335 GCAAGCTTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
97 5 0.05
98 90 0.95
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (98 bp):
TGTGATCGTAAATCAAAAAACTGTTTAACTGGAGTTGCAATCATAAATCAACGAACTCTAAGTGA
ATCGTTCATGATCATAAATCAATGAACATAAGG
Found at i:17142629 original size:49 final size:49
Alignment explanation
Indices: 17142576--17142748 Score: 247
Period size: 49 Copynumber: 3.5 Consensus size: 49
17142566 CTAGTACGCA
*
17142576 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATG
* * * ** *
17142625 TAGTAGCCTGCACCTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACATG
* * *
17142675 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACGTG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATG
17142724 TAGTAGCCTGCACTTAGTACTACAC
1 TAGTAGCCTGCACTTAGTACTACAC
17142749 GCATGACCTC
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 66 0.62
50 41 0.38
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATG
Found at i:17142747 original size:99 final size:99
Alignment explanation
Indices: 17142576--17142757 Score: 301
Period size: 99 Copynumber: 1.8 Consensus size: 99
17142566 CTAGTACGCA
* *
17142576 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACCTA
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACGTAGTAGCCTGCACCTA
*
17142641 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACATGACCTAACCATCTGATACATG
** *
17142675 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACGTGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACGTAGTAGCCTGCACCTA
*
17142740 GTACTACACGCATGACCT
66 GTACTACACACATGACCT
17142758 CACAATAGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACGTAGTAGCCTGCACCTA
GTACTACACACATGACCTAACCATCTGATACATG
Found at i:17143033 original size:27 final size:27
Alignment explanation
Indices: 17143003--17143056 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
17142993 TCATACAACC
* *
17143003 CATGTAATAGTAATTTAG-CATTCAATT
1 CATGTAACAATAATTT-GCCATTCAATT
*
17143030 CATGTGACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTGCCATTCAATT
17143057 TCACATGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTGCCATTCAATT
Found at i:17145347 original size:23 final size:23
Alignment explanation
Indices: 17145275--17145359 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 23
17145265 CCTGATCAGT
*
17145275 ATACGACACAT-AAGTGCCT-GA
1 ATACGACACATAAAGTGCCTAAA
** *
17145296 A-ACGACACACGAGGTG-CTAAA
1 ATACGACACATAAAGTGCCTAAA
*
17145317 ATACGACACATAAAGTGCCTAAT
1 ATACGACACATAAAGTGCCTAAA
*
17145340 ATATGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
17145360 GTTCGATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.19
21 7 0.13
22 12 0.23
23 23 0.44
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTAAA
Found at i:17152239 original size:131 final size:131
Alignment explanation
Indices: 17152005--17152809 Score: 1198
Period size: 131 Copynumber: 6.2 Consensus size: 131
17151995 GTGAATTCAC
* * *
17152005 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTCGAAGACGGCGAATCTTGTCTCCCTAAGCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
* * *
17152070 GTAATGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAATGGAGTAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152135 T
131 T
* * * * *
17152136 AGATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATCGAAGACTATGAATTTTGTCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
17152201 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152266 T
131 T
* * *
17152267 AGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATTGAAGACGACGAATCTTGTCTCCCTAAGCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
* * *
17152332 GTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAATAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152397 T
131 T
** ** *
17152398 AGATCTTGTCTCCCTGAAGTTGCAGTAAAACAGATCGAAGACGAAAAATTTTGTCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
* * * * * * *
17152463 GTAGTGGAGCAGATTTAAGCCACTATCCTATCTTCCTAAGCACTAATAGAGTAGGCTAAAAATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152528 T
131 T
* * * *
17152529 AGATCTTGTCTTCCTGAAGTTGCAGTGGAACAGATTGAAGACGGCGAATCTTGTCTCCCTAAGCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
* * ** * *
17152594 GTAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGCAGTGGAGTAAACTGAAAATTA
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152659 T
131 T
* * * * *
17152660 AGATCTTGTCCCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATTTTGTCTTCCTAACTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
*
17152725 GTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
17152790 T
131 T
17152791 AGATCTTGTCTCCCT-AAGT
1 AGATCTTGTCTCCCTGAAGT
17152810 AATAGTGGAG
Statistics
Matches: 601, Mismatches: 73, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
130 4 0.01
131 597 0.99
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCA
GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
T
Found at i:17152245 original size:42 final size:43
Alignment explanation
Indices: 17152189--17152381 Score: 149
Period size: 42 Copynumber: 4.5 Consensus size: 43
17152179 ATGAATTTTG
* *
17152189 TCTCCCTAACCAGTAGTGGAGCAGATTTAAG-CCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACCATCCTA
* ** ** * * *
17152231 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTA-GATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA--CCACCATCCTA
** * * * * *
17152275 TCTCCCTGAAGTTGTAGTGGAACAGATTGAAGACGACGAATCTTG
1 TCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACCAC-CATCCTA
* *
17152320 TCTCCCTAAGCAGTAGTGGAGTAGATTTAAG-CCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACCATCCTA
*
17152362 TCTCCCTAAGTAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGA
17152382 ATAGGCTGAA
Statistics
Matches: 116, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
42 49 0.42
43 4 0.03
44 30 0.26
45 33 0.28
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACCATCCTA
Found at i:17152294 original size:45 final size:44
Alignment explanation
Indices: 17152100--17152417 Score: 152
Period size: 44 Copynumber: 7.2 Consensus size: 44
17152090 CACCATCCTA
* * *
17152100 TCTCCCTAAGTAGTAATGGAGTAGGCTGAAGATTGTA-GATCTTG
1 TCTCCCTAAGTAGTAGTGGAATAGACTGAAGA-TGTACGATCTTG
* * * * * *
17152144 TCTCCCTGAAGTTGTAGTGAAACAGA-TCGAAGA-CTATGAATTTTG
1 TCTCCCT-AAGTAGTAGTGGAATAGACT-GAAGATGTACG-ATCTTG
** ** * * ** * * *
17152189 TCTCCCTAACCAGTAGTGGAGCAGATTTAAG--CCACCATCCTA
1 TCTCCCTAAGTAGTAGTGGAATAGACTGAAGATGTACGATCTTG
* * *
17152231 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTA-GATCTTG
1 TCTCCCTAAGTAGTAGTGGAATAGACTGAAGA-TGTACGATCTTG
* * * *
17152275 TCTCCCTGAAGTTGTAGTGGAACAGATTGAAGACG-ACGAATCTTG
1 TCTCCCT-AAGTAGTAGTGGAATAGACTGAAGATGTACG-ATCTTG
* * * * ** * * *
17152320 TCTCCCTAAGCAGTAGTGGAGTAGATTTAAG--CCACCATCCTA
1 TCTCCCTAAGTAGTAGTGGAATAGACTGAAGATGTACGATCTTG
*
17152362 TCTCCCTAAGTAGTAGTGGAATAGGCTGAAGATTGTA-GATCTTG
1 TCTCCCTAAGTAGTAGTGGAATAGACTGAAGA-TGTACGATCTTG
17152406 TCTCCCTGAAGT
1 TCTCCCT-AAGT
17152418 TGCAGTAAAA
Statistics
Matches: 202, Mismatches: 56, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
42 59 0.29
43 7 0.03
44 68 0.34
45 68 0.34
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTCCCTAAGTAGTAGTGGAATAGACTGAAGATGTACGATCTTG
Found at i:17152992 original size:44 final size:45
Alignment explanation
Indices: 17152888--17152997 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 45
17152878 GAGGGCGAAT
* * * * *
17152888 CTTATCTCCCTGAAGTTGCAGTGGAGCATATTTTAAGCCGCAAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTGAAGCCACAAAC
* * **
17152933 CTTGTCTCTCTGAAGTTGCAGCGGAGCAGA-TTGAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTGAAGCCACAAAC
17152977 CTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
17152998 TAATCTCATC
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 28 0.52
45 26 0.48
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTGAAGCCACAAAC
Found at i:17153021 original size:69 final size:69
Alignment explanation
Indices: 17152937--17153065 Score: 161
Period size: 69 Copynumber: 1.9 Consensus size: 69
17152927 GCAAATCTTG
* * * * * *
17152937 TCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGCCATTAA-CCTTATCTCCCTGAAGTTGCAGTAA
1 TCTCTCTAAAATTGCAGCAGAGCAGATTAAAACCA-TAAGCCTTATCTCCCTAAAGTTGCAGTAA
17153001 TCTCA
65 TCTCA
* * *
17153006 TCTCTCTAAAATTGCAGTAGAGCAGATTAAAACTATAAGTCTTATCTCCCTAAAGTTGCA
1 TCTCTCTAAAATTGCAGCAGAGCAGATTAAAACCATAAGCCTTATCTCCCTAAAGTTGCA
17153066 TGGAGCAGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 3 0.06
69 47 0.94
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (69 bp):
TCTCTCTAAAATTGCAGCAGAGCAGATTAAAACCATAAGCCTTATCTCCCTAAAGTTGCAGTAAT
CTCA
Found at i:17153284 original size:42 final size:42
Alignment explanation
Indices: 17153225--17153369 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
17153215 TACCAGTACC
*
17153225 AAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCT
1 AAATCCTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCT
*
17153267 AAATCCTATAC-CTCTGAAGTTGTAGTAGATTGAAGA-T--AGC-
1 AAATCCTAT-CTCTCTGAAGTTGTAGTAGA--GCAGATTAAAGCT
* * *
17153307 AAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT
1 AAATCCTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCT
17153349 ACAAGT-CTAATCTCTCTGAAG
1 A-AA-TCCT-ATCTCTCTGAAG
17153370 CTACAGTGGA
Statistics
Matches: 85, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
38 4 0.05
39 2 0.02
40 24 0.28
41 6 0.07
42 27 0.32
43 6 0.07
44 16 0.19
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (42 bp):
AAATCCTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCT
Found at i:17154924 original size:22 final size:21
Alignment explanation
Indices: 17154887--17154928 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17154877 TACATACATT
17154887 ATTATATTGTCATCTTATTTTC
1 ATTATATTGTCATCTT-TTTTC
17154909 ATTATATTGT-ATTCTTTTTT
1 ATTATATTGTCA-TCTTTTTT
17154929 GTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTATATTGTCATCTTTTTTC
Found at i:17155127 original size:28 final size:27
Alignment explanation
Indices: 17154984--17155131 Score: 121
Period size: 27 Copynumber: 5.6 Consensus size: 27
17154974 TTTTGAACAG
*
17154984 TTTTAT-TATTATTTATTTTAAGTT-T
1 TTTTATATATTATTTATTTTAAATTAT
*
17155009 TTTTCATATGA-TATTTGTTTTAAATTAT
1 TTTT-ATAT-ATTATTTATTTTAAATTAT
* *
17155037 TTTT-TA-ATATATGTCATTTTGAATTAT
1 TTTTATATAT-TAT-TTATTTTAAATTAT
* * * * *
17155064 TTTATATATATTAATTACTTCACATTGT
1 TTT-TATATATTATTTATTTTAAATTAT
17155092 TTTT-TAT-TTATTTATTTTAAATTAT
1 TTTTATATATTATTTATTTTAAATTAT
17155117 TTTTATATATTATTT
1 TTTTATATATTATTT
17155132 TTGAACTATT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
24 1 0.01
25 21 0.22
26 13 0.14
27 35 0.37
28 18 0.19
29 4 0.04
30 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTATATATTATTTATTTTAAATTAT
Found at i:17155133 original size:24 final size:25
Alignment explanation
Indices: 17155026--17155147 Score: 70
Period size: 24 Copynumber: 4.7 Consensus size: 25
17155016 ATGATATTTG
*
17155026 TTTTAAATTATTTTTTAATATATGTCA-
1 TTTTAAATTA-TTTTT-ATATAT-TAAT
*
17155053 TTTTGAATTATTTTATATATATTAAT
1 TTTTAAATTATTTT-TATATATTAAT
* * * * *
17155079 TACTTCACATTGTTTTTTATTTATTTA-
1 T--TTTAAATT-ATTTTTATATATTAAT
17155106 TTTTAAATTATTTTTATATATT-AT
1 TTTTAAATTATTTTTATATATTAAT
* *
17155130 TTTTGAACTATTTATTAT
1 TTTTAAATTATTT-TTAT
17155148 TAATTCATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
23 1 0.01
24 22 0.30
25 12 0.16
26 11 0.15
27 11 0.15
28 13 0.18
29 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTAAATTATTTTTATATATTAAT
Found at i:17155290 original size:35 final size:33
Alignment explanation
Indices: 17155237--17155308 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
17155227 TTATACATTA
17155237 TTTT-TTTTATATACATTATTTATGTTAAATTGTT
1 TTTTATTTTATATACATTATTTAT-TTAAATT-TT
* * *
17155271 TTTTATTTTATGTATATTATTTATTTTAATTTT
1 TTTTATTTTATATACATTATTTATTTAAATTTT
17155304 TTTTA
1 TTTTA
17155309 CATATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 10 0.29
35 17 0.50
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (33 bp):
TTTTATTTTATATACATTATTTATTTAAATTTT
Found at i:17155305 original size:26 final size:27
Alignment explanation
Indices: 17155284--17155334 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
17155274 TATTTTATGT
* *
17155284 ATATTATTTATTTTA-ATTTTTTTTAC
1 ATATTATTTATTTTAGACTTTTTATAC
17155310 ATATTATTTATTTTAGACTTTTTAT
1 ATATTATTTATTTTAGACTTTTTAT
17155335 TAATGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (27 bp):
ATATTATTTATTTTAGACTTTTTATAC
Found at i:17155369 original size:24 final size:25
Alignment explanation
Indices: 17155342--17155396 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
17155332 TATTAATGAT
* * *
17155342 TTTAAA-TTGTTTTGTATTATTTAC
1 TTTAAATTTCTTTTATAGTATTTAC
*
17155366 TTTAAATTTCTTTTATAGTATTTAT
1 TTTAAATTTCTTTTATAGTATTTAC
17155391 TTTAAA
1 TTTAAA
17155397 CCTTTTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTAAATTTCTTTTATAGTATTTAC
Found at i:17155387 original size:25 final size:24
Alignment explanation
Indices: 17155342--17155408 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
17155332 TATTAATGAT
* * *
17155342 TTTAAATTGTTTTGTATTATTTAC
1 TTTAAATTCTTTTATAGTATTTAC
*
17155366 TTTAAATTTCTTTTATAGTATTTAT
1 TTTAAA-TTCTTTTATAGTATTTAC
*
17155391 TTTAAA-CCTTTTAT-GTAT
1 TTTAAATTCTTTTATAGTAT
17155409 ATATTATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 6 0.16
25 20 0.54
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTAAATTCTTTTATAGTATTTAC
Found at i:17158627 original size:47 final size:47
Alignment explanation
Indices: 17158590--17158950 Score: 589
Period size: 47 Copynumber: 7.7 Consensus size: 47
17158580 GTGAATGTAT
17158590 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
17158637 ATTTATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
17158684 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
17158731 ATATGTGTGATAAGGCCGAAT-GCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
17158777 ATATCTGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
17158824 ATATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
17158871 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* ** **
17158918 ATATGTGTGATAAGGTAGAATGGCTGATGTGAT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGAT
17158951 AAACGTGGAA
Statistics
Matches: 294, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.15
47 250 0.85
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:17158759 original size:23 final size:23
Alignment explanation
Indices: 17158686--17158760 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
17158676 GAACATGCAT
17158686 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAAT-GCCA
* *
17158710 ATGTGATGA-ATGTG--AACATG-CA
1 ATGTG-TGATAAG-GCCGA-ATGCCA
17158732 TATGTGTGATAAGGCCGAATGCCA
1 -ATGTGTGATAAGGCCGAATGCCA
17158756 ATGTG
1 ATGTG
17158761 ATGAATGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 17
0.65 0.07 0.28
Matches are distributed among these distances:
22 6 0.15
23 17 0.44
24 12 0.31
25 4 0.10
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (23 bp):
ATGTGTGATAAGGCCGAATGCCA
Found at i:17158785 original size:25 final size:24
Alignment explanation
Indices: 17158664--17158785 Score: 66
Period size: 25 Copynumber: 5.2 Consensus size: 24
17158654 GAATGGCCAA
17158664 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
* *
17158688 GTGTGAT-AAGGCCG-A-ATGGCCA-A-
1 -TGTGATGAATG-TGAACAT-G-CATAT
17158711 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
* *
17158735 GTGTGAT-AAGGCCG-A-ATGCCA-A-
1 -TGTGATGAATG-TGAACATG-CATAT
17158757 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
17158781 CTGTG
1 -TGTG
17158786 CTAAGGCCGA
Statistics
Matches: 72, Mismatches: 8, Indels: 34
0.63 0.07 0.30
Matches are distributed among these distances:
21 7 0.10
22 15 0.21
23 16 0.22
24 14 0.19
25 20 0.28
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (24 bp):
TGTGATGAATGTGAACATGCATAT
Found at i:17158812 original size:187 final size:187
Alignment explanation
Indices: 17158590--17158932 Score: 614
Period size: 187 Copynumber: 1.8 Consensus size: 187
17158580 GTGAATGTAT
* *
17158590 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATTTATGTGCTAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
* *
17158655 AATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
66 AATGGCCAATGCGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
17158720 TGTGAACATGCATATGTGTGATAAGGCCGAATGCCAATGTGATGAATGTGAACATGC
131 TGTGAACATGCATATGTGTGATAAGGCCGAATGCCAATGTGATGAATGTGAACATGC
* * * *
17158777 ATATCTGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
17158842 AATGGCCAATGCGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
66 AATGGCCAATGCGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
17158907 TGTGAACATGCATATGTGTGATAAGG
131 TGTGAACATGCATATGTGTGATAAGG
17158933 TAGAATGGCT
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
187 148 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (187 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
AATGGCCAATGCGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
TGTGAACATGCATATGTGTGATAAGGCCGAATGCCAATGTGATGAATGTGAACATGC
Found at i:17161689 original size:19 final size:18
Alignment explanation
Indices: 17161656--17161691 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17161646 TTATTATTTT
*
17161656 TAAAATTTATAATTAAAA
1 TAAAATTTAAAATTAAAA
17161674 TAAAATTTAAATATTAAA
1 TAAAATTTAAA-ATTAAA
17161692 TAGTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAAAATTAAAA
Found at i:17162484 original size:6 final size:6
Alignment explanation
Indices: 17162473--17162506 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
17162463 AAATAATAAT
17162473 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
17162507 AAATCACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:17162650 original size:39 final size:40
Alignment explanation
Indices: 17162605--17162691 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 40
17162595 AAAATTTATA
*
17162605 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATACAATAAAATATTTATTATATTTATGTAGTGTTT
*
17162644 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATACAATAAAATATTTATTATATTTAT-GTAGTGTTT
17162685 TTTAATA
1 TTTAATA
17162692 TAAATACTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 30 0.68
41 14 0.32
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (40 bp):
TTTAATACAATAAAATATTTATTATATTTATGTAGTGTTT
Found at i:17164736 original size:2 final size:2
Alignment explanation
Indices: 17164729--17164764 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17164719 ATTAAATTGA
17164729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17164765 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17165461 original size:18 final size:19
Alignment explanation
Indices: 17165438--17165476 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17165428 CAAAGGTAGC
*
17165438 TTTTTATTTTT-TTTTTAT
1 TTTTTATTTTTGTTTTCAT
17165456 TTTTTATTTTTGTTTTCAT
1 TTTTTATTTTTGTTTTCAT
17165475 TT
1 TT
17165477 CAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (19 bp):
TTTTTATTTTTGTTTTCAT
Found at i:17165574 original size:11 final size:10
Alignment explanation
Indices: 17165549--17165573 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17165539 GTTCCCTTTC
17165549 TTTTTGGCCA
1 TTTTTGGCCA
17165559 TTTTTGGCCA
1 TTTTTGGCCA
17165569 TTTTT
1 TTTTT
17165574 TCTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (10 bp):
TTTTTGGCCA
Found at i:17166997 original size:40 final size:40
Alignment explanation
Indices: 17166953--17167029 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
17166943 ACGGTACCAA
* *
17166953 TTGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATAC
1 TTGGTGTGTAGGGTTAGATGGGTCGATTCTATCCCCATAC
* *
17166993 TTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTAGATGGGTCGATTCTATCCCCA
17167030 CATGGTGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTAGATGGGTCGATTCTATCCCCATAC
Found at i:17167045 original size:38 final size:39
Alignment explanation
Indices: 17166954--17167048 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
17166944 CGGTACCAAT
* * * *
17166954 TGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCA-ACA
*
17166994 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCAACA
17167032 TGGTGTGCT-GGGTTGGA
1 TGGTGTG-TAGGGTTGGA
17167049 CGGAGATGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 16 0.33
39 1 0.02
40 31 0.65
ACGTcount: A:0.14, C:0.14, G:0.37, T:0.36
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCAACA
Found at i:17171250 original size:27 final size:29
Alignment explanation
Indices: 17171211--17171267 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
17171201 AATCGAATCC
17171211 AAAATTCATAAATA-TAAAAAAAAAACAT
1 AAAATTCATAAATATTAAAAAAAAAACAT
*
17171239 AAAA-TCATAAATATTAAAAAAAAAGCAT
1 AAAATTCATAAATATTAAAAAAAAAACAT
17171267 A
1 A
17171268 TATTCATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (29 bp):
AAAATTCATAAATATTAAAAAAAAAACAT
Found at i:17171274 original size:28 final size:27
Alignment explanation
Indices: 17171212--17171274 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
17171202 ATCGAATCCA
17171212 AAATTCATAAATATAAAAAAAAAACAT
1 AAATTCATAAATATAAAAAAAAAACAT
* *
17171239 AAAATCATAAATATTAAAAAAAAAGCAT
1 AAATTCATAAATA-TAAAAAAAAAACAT
*
17171267 ATATTCAT
1 AAATTCAT
17171275 TGATTAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (27 bp):
AAATTCATAAATATAAAAAAAAAACAT
Found at i:17171395 original size:2 final size:2
Alignment explanation
Indices: 17171388--17171421 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
17171378 AGACCATTTC
17171388 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
17171422 AGGTTCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17171933 original size:7 final size:7
Alignment explanation
Indices: 17171923--17171956 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
17171913 TATAATAATT
17171923 AATTAAA
1 AATTAAA
17171930 AATTAAA
1 AATTAAA
17171937 AATTAAA
1 AATTAAA
17171944 AATTAAA
1 AATTAAA
17171951 AATTAA
1 AATTAA
17171957 TTTATTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:17179946 original size:17 final size:17
Alignment explanation
Indices: 17179924--17179958 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17179914 GTACATGTCA
17179924 AAACTACCTTACTTAAG
1 AAACTACCTTACTTAAG
17179941 AAACTACCTTACTTAAG
1 AAACTACCTTACTTAAG
17179958 A
1 A
17179959 GTAGTTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (17 bp):
AAACTACCTTACTTAAG
Found at i:17192287 original size:48 final size:48
Alignment explanation
Indices: 17192235--17192455 Score: 264
Period size: 48 Copynumber: 4.6 Consensus size: 48
17192225 GTCGGTGCCG
* * * *
17192235 ATGCCATGTCCCAGACATGATCTTATAC-GGGACGTCATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCAC-ACATATCAACGCCA
*
17192283 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCA
* * *
17192331 ATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCA
* * * * * * * *
17192379 ATGCCATGTCCCAGACATGGTCTTATAGTGGCTCTCATCTCGGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AACGCCA
*
17192428 ATGCCATGTCCTAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
17192456 GGGATCTCAT
Statistics
Matches: 152, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
48 118 0.78
49 34 0.22
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCA
Found at i:17192306 original size:96 final size:95
Alignment explanation
Indices: 17192187--17192459 Score: 307
Period size: 96 Copynumber: 2.8 Consensus size: 95
17192177 TTACATACCG
* * * *
17192187 ATGCCATATCCCAGATATGGTCTTATA-TGAAG-TCTCATGTCGGTGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTATACTG--GCTCTCATATCGGTGCCGATGCCATGTCCTAGA
* * *
17192250 CATGATCTTATACGGGACGTCATATCAACGCCA
64 CATGGTCTTACACGGGAC-ACATATCAACGCCA
* * * * *** *
17192283 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCCAATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATCGGTGCCGATGCCATGTCCTAGACA
* * *
17192348 TGGTCTTACACTAGCACACATATCAACGCCG
66 TGGTCTTACAC-GGGACACATATCAACGCCA
* *
17192379 ATGCCATGTCCCAGACATGGTCTTATAGTGGCTCTCATCTCGGATGCCGATGCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATCGG-TGCCGATGCCATGTCCTAGAC
17192444 ATGGTCTTACACGGGA
65 ATGGTCTTACACGGGA
17192460 TCTCATTAAT
Statistics
Matches: 143, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
95 1 0.01
96 106 0.74
97 36 0.25
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATCGGTGCCGATGCCATGTCCTAGACA
TGGTCTTACACGGGACACATATCAACGCCA
Found at i:17195750 original size:33 final size:33
Alignment explanation
Indices: 17195698--17195763 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
17195688 GGATACTATT
*
17195698 ATGAGGTATTATCTCTTAGCAATTTGATTCCTA
1 ATGAGATATTATCTCTTAGCAATTTGATTCCTA
* *
17195731 ATGAGATATTGTCTTTTAGCAATTTGATTCCTA
1 ATGAGATATTATCTCTTAGCAATTTGATTCCTA
17195764 CATAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (33 bp):
ATGAGATATTATCTCTTAGCAATTTGATTCCTA
Found at i:17198288 original size:30 final size:30
Alignment explanation
Indices: 17198252--17198312 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
17198242 GGCAAAAAAA
17198252 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
*
17198282 TCTCAAATTTCTCCTTAAATTTCTCAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
17198312 T
1 T
17198313 TTCTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (30 bp):
TCTCAAATTTCTCCCTAAATTTCTCAAAGC
Found at i:17200059 original size:18 final size:18
Alignment explanation
Indices: 17200033--17200067 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17200023 ATGTGCGTAT
*
17200033 CCTAGCCCTTATATGTTC
1 CCTAACCCTTATATGTTC
17200051 CCTAACCCTTATATGTT
1 CCTAACCCTTATATGTT
17200068 TCATTTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (18 bp):
CCTAACCCTTATATGTTC
Found at i:17200354 original size:20 final size:21
Alignment explanation
Indices: 17200317--17200355 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17200307 ACCCACAATT
17200317 GGAGCAACCACAAACCCCTCC
1 GGAGCAACCACAAACCCCTCC
*
17200338 GGAGCAACTAC-AACCCCT
1 GGAGCAACCACAAACCCCT
17200356 ACTAGAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.44, G:0.15, T:0.08
Consensus pattern (21 bp):
GGAGCAACCACAAACCCCTCC
Found at i:17200578 original size:58 final size:59
Alignment explanation
Indices: 17200468--17200582 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 59
17200458 GTACAGACTT
* * ****
17200468 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATATTTTAATAGTAAATTA
1 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGAAATAG-AAATTA
*
17200528 TTTTTATATT-TTT-ATTTAATAAAATAGAAGTTCTTTTGAATAAGGAAATAGAAAT
1 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGAAATAGAAAT
17200583 AATGCAACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 4 0.08
58 31 0.65
59 3 0.06
60 10 0.21
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (59 bp):
TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGAAATAGAAATTA
Found at i:17205235 original size:33 final size:33
Alignment explanation
Indices: 17205198--17205296 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
17205188 GGATATTATT
*
17205198 ATGGGATATTATCTCTTAGCAATTAT-ATTCCTA
1 ATGGGATATTATCTTTTAGCAATT-TGATTCCTA
*
17205231 ATGGGATATTATTTTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
17205264 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
17205297 CGTAACTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
32 1 0.02
33 61 0.98
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (33 bp):
ATGGGATATTATCTTTTAGCAATTTGATTCCTA
Found at i:17205488 original size:25 final size:25
Alignment explanation
Indices: 17205460--17205513 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
17205450 TAAACTCTCC
17205460 CTTATTAATACAATTACTAAAGCAA
1 CTTATTAATACAATTACTAAAGCAA
17205485 CTTATTAATACAATTACTAAAGCAA
1 CTTATTAATACAATTACTAAAGCAA
17205510 CTTA
1 CTTA
17205514 ATAAGTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (25 bp):
CTTATTAATACAATTACTAAAGCAA
Found at i:17214802 original size:39 final size:39
Alignment explanation
Indices: 17214748--17214910 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
17214738 TGTGAATGAA
17214748 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
17214787 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
17214826 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17214865 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
17214905 TGTGCG
1 TGTGCG
17214911 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17214926 original size:40 final size:39
Alignment explanation
Indices: 17214748--17214940 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
17214738 TGTGAATGAA
* *
17214748 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
17214787 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
17214826 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17214865 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
17214905 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
17214941 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17218291 original size:23 final size:23
Alignment explanation
Indices: 17218265--17218310 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17218255 ATGATGTACG
17218265 AATGAATTGAAATTCTTGATTTT
1 AATGAATTGAAATTCTTGATTTT
17218288 AATGAATTGAAATTCTTGATTTT
1 AATGAATTGAAATTCTTGATTTT
17218311 TTATAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
AATGAATTGAAATTCTTGATTTT
Found at i:17219425 original size:13 final size:13
Alignment explanation
Indices: 17219407--17219434 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17219397 CTTGTTACGG
17219407 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
17219420 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
17219433 TT
1 TT
17219435 GTGTGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTCTTCTTTTTTT
Found at i:17227338 original size:26 final size:26
Alignment explanation
Indices: 17227309--17227376 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
17227299 TGGTACAAAT
* *
17227309 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATATTCAA
*
17227335 TGATAATGGATTAGGTAAATATTCAA
1 TGATAATGGGTTAGGTAAATATTCAA
17227361 TGATAATGGGTTAGGT
1 TGATAATGGGTTAGGT
17227377 GGATTAGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCAA
Found at i:17227387 original size:35 final size:35
Alignment explanation
Indices: 17227341--17227411 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
17227331 TCTATGATAA
17227341 TGGATTAGGTAAATATTCAATGATAATGGGTTAGG
1 TGGATTAGGTAAATATTCAATGATAATGGGTTAGG
*
17227376 TGGATTAGGTAAATATTCCATGATAATGGGTTAGG
1 TGGATTAGGTAAATATTCAATGATAATGGGTTAGG
17227411 T
1 T
17227412 AAATGTTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.35
Consensus pattern (35 bp):
TGGATTAGGTAAATATTCAATGATAATGGGTTAGG
Found at i:17227389 original size:61 final size:61
Alignment explanation
Indices: 17227319--17227437 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 61
17227309 TGATAATGGG
* *
17227319 TTAGGTAAATGTTCTATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTGGA
1 TTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTGGA
* * * *
17227380 TTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGT
1 TTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGT
17227438 AAATGTTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (61 bp):
TTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTGGA
Found at i:17227420 original size:26 final size:26
Alignment explanation
Indices: 17227380--17227451 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
17227370 GTTAGGTGGA
*
17227380 TTAGGTAAATATTCCATGATAATGGG
1 TTAGGTAAATGTTCCATGATAATGGG
*
17227406 TTAGGTAAATGTTCCATGATAATGGT
1 TTAGGTAAATGTTCCATGATAATGGG
17227432 TTAGGTAAATGTTCCATGAT
1 TTAGGTAAATGTTCCATGAT
17227452 GGGCATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (26 bp):
TTAGGTAAATGTTCCATGATAATGGG
Found at i:17228968 original size:26 final size:26
Alignment explanation
Indices: 17228939--17228991 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17228929 TTTACAGTTT
17228939 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
17228965 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
17228991 T
1 T
17228992 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:17231507 original size:20 final size:21
Alignment explanation
Indices: 17231475--17231518 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
17231465 TTTAATTCAT
17231475 ACTATTAATTAA-TTATGCAAA
1 ACTATTAATTAATTTAT-CAAA
17231496 ACTATT-ATTAATTTATCAAA
1 ACTATTAATTAATTTATCAAA
17231516 ACT
1 ACT
17231519 CATAGTGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (21 bp):
ACTATTAATTAATTTATCAAA
Found at i:17232783 original size:19 final size:20
Alignment explanation
Indices: 17232761--17232798 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
17232751 ATTTTAAAAA
17232761 TTTTAAAAA-TAAAAATTAT
1 TTTTAAAAATTAAAAATTAT
17232780 TTTTAAAAATTAAAAATTA
1 TTTTAAAAATTAAAAATTA
17232799 AAATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAAAATTAAAAATTAT
Found at i:17232783 original size:28 final size:26
Alignment explanation
Indices: 17232746--17232807 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
17232736 GTCAATATTT
17232746 AATTAATTTTAAAAATTTTAAAAATAAA
1 AATTAATTTTAAAAA--TTAAAAATAAA
* *
17232774 AATTATTTTTAAAAATTAAAAATTAA
1 AATTAATTTTAAAAATTAAAAATAAA
17232800 AATTAATT
1 AATTAATT
17232808 AAAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 17 0.55
28 14 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAATTTTAAAAATTAAAAATAAA
Found at i:17232846 original size:8 final size:9
Alignment explanation
Indices: 17232820--17232863 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
17232810 AATTATTTGA
17232820 AATACTTTTT
1 AATA-TTTTT
17232830 AATATTTTT
1 AATATTTTT
17232839 AATATTTTT
1 AATATTTTT
*
17232848 AAAATTTTT
1 AATATTTTT
*
17232857 AAAATTT
1 AATATTT
17232864 AATTAAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 29 0.88
10 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
AATATTTTT
Found at i:17232848 original size:18 final size:18
Alignment explanation
Indices: 17232806--17232863 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
17232796 TTAAAATTAA
17232806 TTAAAATTATTTGAAATACTTT
1 TTAAAATT-TTT--AATA-TTT
*
17232828 TTAATATTTTTAATATTT
1 TTAAAATTTTTAATATTT
*
17232846 TTAAAATTTTTAAAATTT
1 TTAAAATTTTTAATATTT
17232864 AATTAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 19 0.58
19 4 0.12
21 3 0.09
22 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTAAAATTTTTAATATTT
Done.