Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 266 of 311
Found at i:88067810 original size:70 final size:71
Alignment explanation
Indices: 88067704--88067855 Score: 227
Period size: 70 Copynumber: 2.2 Consensus size: 71
88067694 TTAATTTTTG
** * *
88067704 GTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG-TGAGGTATTTTCA
1 GTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
88067768 ATTT-T
66 ATTTCT
* *
88067773 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
1 GT-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
88067838 AATTTCT
65 AATTTCT
88067845 GTTTTCAATTT
1 GTTTTCAATTT
88067856 ACGTTGTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 2 0.03
70 43 0.59
71 25 0.34
72 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (71 bp):
GTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCT
Found at i:88068040 original size:140 final size:140
Alignment explanation
Indices: 88067788--88068415 Score: 1132
Period size: 140 Copynumber: 4.5 Consensus size: 140
88067778 TTAATTTCAA
88067788 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
88067853 TTTACGTTGTTCAAGAATCAACTTATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88067918 TCAAAATCAG
131 TCAAAATCAG
88067928 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
88067993 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88068058 TCAAAATCAG
131 TCAAAATCAG
*
88068068 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
88068133 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAATCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88068198 TCAAAATCAG
131 TCAAAATCAG
*
88068208 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
88068273 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTTTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
*
88068338 TCAAAATTAG
131 TCAAAATCAG
88068348 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
88068412 TCAA
62 TCAA
88068416 AAAAAAAATT
Statistics
Matches: 472, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 1 0.00
140 442 0.94
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:88068271 original size:13 final size:13
Alignment explanation
Indices: 88068253--88068286 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
88068243 CGCTGAGGTA
*
88068253 TTTTCAATTTCTG
1 TTTTCAATTTATG
88068266 TTTTCAATTTATG
1 TTTTCAATTTATG
88068279 TTGTTCAA
1 TT-TTCAA
88068287 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:88068542 original size:72 final size:72
Alignment explanation
Indices: 88068335--88068561 Score: 278
Period size: 72 Copynumber: 3.0 Consensus size: 72
88068325 AATTTTTACT
* ** * * * *
88068335 TTTTCAAAATT-AGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
88068398 TCAATTTCTG
63 TCAATTTCTG
88068408 TCTTTCAAAAAAAAAATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 T-TTTC------AAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88068473 TAATTTCAATTTCTG
58 TAATTTCAATTTCTG
88068488 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
88068553 ATTTCTG
66 ATTTCTG
88068560 TT
1 TT
88068562 CAAAATAAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
72 65 0.47
73 5 0.04
74 4 0.03
79 4 0.03
80 28 0.20
81 2 0.01
82 28 0.20
83 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:88068577 original size:49 final size:49
Alignment explanation
Indices: 88068515--88068610 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
88068505 ATATTGCGAG
* *
88068515 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
88068564 AAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
88068611 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (49 bp):
AAATAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:88068746 original size:30 final size:30
Alignment explanation
Indices: 88068710--88068771 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
88068700 TTCAACTCAT
88068710 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
88068740 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
88068770 TG
1 TG
88068772 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:88069636 original size:25 final size:24
Alignment explanation
Indices: 88069598--88069644 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
88069588 GCCCCCCCAA
88069598 AAAAACCTAACCCCAAAAAAAAAT
1 AAAAACCTAACCCCAAAAAAAAAT
*
88069622 AAAAACCTAACCCCCAAAAAAAA
1 AAAAACCTAACCCCAAAAAAAAA
88069645 CCAAGAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.66, C:0.28, G:0.00, T:0.06
Consensus pattern (24 bp):
AAAAACCTAACCCCAAAAAAAAAT
Found at i:88071663 original size:20 final size:19
Alignment explanation
Indices: 88071616--88071664 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
88071606 TAAAAATTTA
*
88071616 ATAAAAAATTAATATAATG
1 ATAAAAAAATAATATAATG
* *
88071635 ATAATAAAATATATATAATT
1 ATAAAAAAATA-ATATAATG
*
88071655 TTAAAAAAAT
1 ATAAAAAAAT
88071665 TAAAGTAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAAAATAATATAATG
Found at i:88075353 original size:13 final size:12
Alignment explanation
Indices: 88075325--88075359 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
88075315 CAATATTAGC
88075325 AAATAAA-AATA
1 AAATAAATAATA
88075336 AAATAAATAATAA
1 AAATAAATAAT-A
88075349 AAATAAATAAT
1 AAATAAATAAT
88075360 GACAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:88075380 original size:21 final size:20
Alignment explanation
Indices: 88075348--88075395 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
88075338 ATAAATAATA
88075348 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
88075369 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
88075390 AAAATA
1 AAAATA
88075396 TGCACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:88077325 original size:44 final size:44
Alignment explanation
Indices: 88077277--88077858 Score: 138
Period size: 45 Copynumber: 12.9 Consensus size: 44
88077267 CTCGCATCTA
* *
88077277 CAACCTGCTCCACTACAACTTCAGGAAGAT-GGGATTTGTAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGG-TTTGTAACTT
* * ***
88077321 CAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTAACTT
* * * * *
88077365 TAATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGCAACCTT-TAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAG----G----TTTGTAACTT
* * * * * * *
88077416 CAATCTAC-CCTACTACAACTTTAAGGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCC-ACTGCAAC-TTCAGGAAGATAAGGTTTG-TAACTT
* * * **
88077461 CAGCCTGTTCCATTGCAACTTCA-GAGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAGGTTTGTAACTT
* * *
88077504 TAACCTGCTCCATTGCTACTTCA-GAGAGATAAGATCTGTAATT-TATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAG----GT--TTGTA-A-CTT
* * * * * *
88077555 CAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTG-TAACTT
*** * * * **
88077600 CAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTAACTT
* * * *
88077643 CAACCTGCT-CACTGCTACTTAAGGGAGATAAGGATTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTAACT-T
* * * * * *
88077684 -GATCTGCTCAACTGTAACTTCAGAGAA-ATAAGATCTGTAACTTAT
1 CAACCTGCTCCACTGCAACTTCAG-GAAGATAAGGTTTGTAAC-T-T
* * * * * *
88077729 AGCTTTAATCTGTTCCACTGCAACTTTAGAGAA-ATAAGATTCGCTATCTT
1 --C---AACCTGCTCCACTGCAACTTCAG-GAAGATAAGGTTTG-TAACTT
* * * * **
88077779 CAGCCTACTCCACTGCAACTTTAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTAACTT
* * *
88077822 CAACCTGCT-CACTACTACTTCAGGGAGATAAGGTTTG
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTG
88077859 CTATGATTTG
Statistics
Matches: 395, Mismatches: 99, Indels: 89
0.68 0.17 0.15
Matches are distributed among these distances:
40 8 0.02
41 18 0.05
42 46 0.12
43 60 0.15
44 69 0.17
45 85 0.22
46 2 0.01
47 3 0.01
48 2 0.01
49 4 0.01
50 4 0.01
51 80 0.20
52 14 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
CAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTAACTT
Found at i:88077515 original size:139 final size:138
Alignment explanation
Indices: 88077286--88077674 Score: 385
Period size: 139 Copynumber: 2.8 Consensus size: 138
88077276 ACAACCTGCT
* * * *
88077286 CCACTACAACTTCAGGAAGATGGGATTTG-TAACTTCAACCTGCTCCACTGCAACTTTAGGGAGA
1 CCACTACAACTTCAGGAA-ATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
** *** * * *
88077350 TAAGGTTTGTGGTTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGA-CTCGCAACCTT-TAG
65 TAAGACTT-TAACTTTAACCTGCTCCACTGCTACTTCAGGAAGATAAGATCT-GCAA-CTTATAG
88077413 CTTCAATCT-AC
127 CTTCAATCTGAC
* * * *
88077424 CCTACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGTTCCATTGCAACTTCAGAGAG
1 CC-ACTACAAC-TTCAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
* * *
88077489 ATAAGACTTTAACTTTAACCTGCTCCATTGCTACTTCA-GAGAGATAAGATCTGTAATTTATAGC
64 ATAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAGGA-AGATAAGATCTGCAACTTATAGC
**
88077553 TTCAATCTGTT
128 TTCAATCTGAC
* * * ** * *
88077564 CCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGA
1 CCACTACAACTTCAGG-AAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
* * *
88077629 TAAGACTTTAACTTCAACCTGCT-CACTGCTACTTAAGGGAGATAAG
65 TAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAGGAAGATAAG
88077675 GATTGCTATG
Statistics
Matches: 206, Mismatches: 36, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
138 29 0.14
139 131 0.64
140 46 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (138 bp):
CCACTACAACTTCAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAGGAAGATAAGATCTGCAACTTATAGCTTC
AATCTGAC
Found at i:88077821 original size:179 final size:179
Alignment explanation
Indices: 88077521--88077938 Score: 667
Period size: 179 Copynumber: 2.3 Consensus size: 179
88077511 CTCCATTGCT
88077521 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATA
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATA
** *
88077586 AGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
66 AGATTCGCTATCTTCAGCCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* *
88077651 TCACTGCTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCAACTGTA
131 TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCAACTGCA
* * * *
88077700 ACTTCAGAGAAATAAGATCTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTTA-GAGAAAT
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGA-AAAT
*
88077764 AAGATTCGCTATCTTCAGCCTACTCCACTGCAACTTTAGGGAGATAAGACTTTAACTTCAACCTG
65 AAGATTCGCTATCTTCAGCCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTG
* * * *
88077829 CTCACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCA
130 CTCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCAACTGCA
* *
88077879 ACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCTACTTCAGG
1 ACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGG
88077939 GAGATAAAGT
Statistics
Matches: 216, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
178 2 0.01
179 182 0.84
180 31 0.14
181 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (179 bp):
ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATA
AGATTCGCTATCTTCAGCCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCAACTGCA
Found at i:88077995 original size:93 final size:93
Alignment explanation
Indices: 88077831--88078033 Score: 343
Period size: 93 Copynumber: 2.2 Consensus size: 93
88077821 TCAACCTGCT
* * * *
88077831 CACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
*
88077896 TCTGTTTATTTATAGCTTCAATCTGTTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
88077924 CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
1 CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
*
88077989 TTTGTTTATTTATAGCTTCAATCTATTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
*
88078017 CACTGCAACTTCAGGGA
1 CACTGCTACTTCAGGGA
88078034 AATGAGATTT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (93 bp):
CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
TCTGTTTATTTATAGCTTCAATCTATTC
Found at i:88078072 original size:45 final size:45
Alignment explanation
Indices: 88078015--88078117 Score: 188
Period size: 45 Copynumber: 2.3 Consensus size: 45
88078005 TTCAATCTAT
*
88078015 TCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAAATGAGATTTGCTATCTTCAGTCTGC
*
88078060 TCCACTGTAACTTCAGAGAAATGAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAAATGAGATTTGCTATCTTCAGTCTGC
88078105 TCCACTGCAACTT
1 TCCACTGCAACTT
88078118 TAAGGAGATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (45 bp):
TCCACTGCAACTTCAGAGAAATGAGATTTGCTATCTTCAGTCTGC
Found at i:88079022 original size:8 final size:8
Alignment explanation
Indices: 88079009--88079065 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
88078999 CTGGCCTCTC
88079009 TTTTTTCT
1 TTTTTTCT
*
88079017 TTTTTTTT
1 TTTTTTCT
88079025 TATTTTTCT
1 T-TTTTTCT
*
88079034 TTTTTGCT
1 TTTTTTCT
88079042 TTTCTTTCT
1 TTT-TTTCT
*
88079051 TTCTTTCT
1 TTTTTTCT
88079059 TTCTTTT
1 TT-TTTT
88079066 TTAGTGAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 24 0.60
9 16 0.40
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:88082295 original size:35 final size:35
Alignment explanation
Indices: 88082272--88082464 Score: 275
Period size: 35 Copynumber: 5.5 Consensus size: 35
88082262 GGCAAAGTGC
*
88082272 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
88082307 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
88082342 GAAATATAGGTATGGTATTATCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
88082377 GAAATGTAGGTATGGCATT-TCCTATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCC-ATACCGAGTTGA
* *
88082412 GAAACGTAGGTATGGTATTTTCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
88082447 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
88082465 TCAATGAGGA
Statistics
Matches: 142, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
34 20 0.14
35 118 0.83
36 4 0.03
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:88083567 original size:19 final size:17
Alignment explanation
Indices: 88083543--88083587 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
88083533 TTTTCTTTGA
*
88083543 AATGTAATGCATATGATGC
1 AATGTAATG-ACA-GATGC
88083562 AATGTAAT-ACAGATGC
1 AATGTAATGACAGATGC
88083578 AATGTAATGA
1 AATGTAATGA
88083588 ATGCAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.54
17 3 0.12
19 8 0.33
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (17 bp):
AATGTAATGACAGATGC
Found at i:88086041 original size:13 final size:12
Alignment explanation
Indices: 88086013--88086047 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
88086003 CAATATTAGC
88086013 AAATAAA-AATA
1 AAATAAATAATA
88086024 AAATAAATAATAA
1 AAATAAATAAT-A
88086037 AAATAAATAAT
1 AAATAAATAAT
88086048 GACAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:88086068 original size:21 final size:20
Alignment explanation
Indices: 88086036--88086083 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
88086026 ATAAATAATA
88086036 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
88086057 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
88086078 AAAATA
1 AAAATA
88086084 TGCACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:88086234 original size:18 final size:18
Alignment explanation
Indices: 88086213--88086259 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
88086203 GGTACAATTT
*
88086213 ATAATAA-AACATATATAA
1 ATAATAATAACAGATA-AA
88086231 ATAAATAATAACAGATAAA
1 AT-AATAATAACAGATAAA
88086250 ATAATAATAA
1 ATAATAATAA
88086260 TAATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 9 0.35
20 7 0.27
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAATAATAACAGATAAA
Found at i:88086362 original size:14 final size:15
Alignment explanation
Indices: 88086337--88086365 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88086327 CAAATAAATG
88086337 AATAGATAATAATAA
1 AATAGATAATAATAA
88086352 AATAG-TAATAATAA
1 AATAGATAATAATAA
88086366 TGAAGGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AATAGATAATAATAA
Found at i:88092434 original size:7 final size:7
Alignment explanation
Indices: 88092422--88092455 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
88092412 CTTCGGGTTG
88092422 ATTTTAT
1 ATTTTAT
88092429 ATTTTAT
1 ATTTTAT
88092436 ATTTTAT
1 ATTTTAT
88092443 A-TTTA-
1 ATTTTAT
88092448 ATTTTAT
1 ATTTTAT
88092455 A
1 A
88092456 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 8 0.32
7 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTAT
Found at i:88092453 original size:12 final size:14
Alignment explanation
Indices: 88092422--88092455 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
88092412 CTTCGGGTTG
88092422 ATTTTATATTTTAT
1 ATTTTATATTTTAT
88092436 ATTTTATA-TTTA-
1 ATTTTATATTTTAT
88092448 ATTTTATA
1 ATTTTATA
88092456 AAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 4 0.20
14 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATATTTTAT
Found at i:88095679 original size:6 final size:6
Alignment explanation
Indices: 88095664--88095712 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
88095654 ATATATTTTC
* *
88095664 TTTTAGT TTTTATT TTATTAT TTTTAG TTTTAG TTTTAT TTTTAT TTTT
1 TTTTA-T TTTTA-T TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
88095713 TTCCCTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 24 0.63
7 11 0.29
8 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:88095700 original size:21 final size:21
Alignment explanation
Indices: 88095664--88095703 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
88095654 ATATATTTTC
88095664 TTTTAGTTTTTATTTTATTAT
1 TTTTAGTTTTTATTTTATTAT
88095685 TTTTAG-TTTTAGTTTTATT
1 TTTTAGTTTTTA-TTTTATT
88095704 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTAGTTTTTATTTTATTAT
Found at i:88095706 original size:27 final size:26
Alignment explanation
Indices: 88095664--88095714 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
88095654 ATATATTTTC
88095664 TTTTAGTTTTTATTTTATTATTTTTAG
1 TTTTAGTTTTTATTTTATT-TTTTTAG
88095691 TTTTAG-TTTTATTTTTATTTTTTT
1 TTTTAGTTTTTA-TTTTATTTTTTT
88095715 CCCTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTAGTTTTTATTTTATTTTTTTAG
Found at i:88095721 original size:27 final size:27
Alignment explanation
Indices: 88095659--88095714 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
88095649 TGATTATATA
88095659 TTTT-CTTTTAGTTTTTATTTTATTAT
1 TTTTACTTTTAGTTTTTATTTTATTAT
*
88095685 TTTTAGTTTTAG-TTTTATTTTTATT-T
1 TTTTACTTTTAGTTTTTA-TTTTATTAT
88095711 TTTT
1 TTTT
88095715 CCCTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (27 bp):
TTTTACTTTTAGTTTTTATTTTATTAT
Found at i:88099048 original size:5 final size:5
Alignment explanation
Indices: 88099016--88099047 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
88099006 AAAATAATAG
*
88099016 ATTTA ATTTA ATTTA ATTTA ATTTA ATCTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT
88099048 CACTTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:88102284 original size:43 final size:43
Alignment explanation
Indices: 88102236--88102326 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
88102226 AGATCAAAAG
* * *
88102236 CCCGTGTG-AGAAGGGGCACATGACTGTGTGAC-AGAGGCACACA
1 CCCGTGTGAAGAAAGAG-ACATGACCGTGTGACTA-AGGCACACA
88102279 CCCGTGTGAAGAAAGAGACATGACCGTGTGACTAAGGCACACA
1 CCCGTGTGAAGAAAGAGACATGACCGTGTGACTAAGGCACACA
88102322 CCCGT
1 CCCGT
88102327 ATGGACCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.30, C:0.25, G:0.31, T:0.14
Consensus pattern (43 bp):
CCCGTGTGAAGAAAGAGACATGACCGTGTGACTAAGGCACACA
Found at i:88111940 original size:23 final size:24
Alignment explanation
Indices: 88111892--88111938 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
88111882 TTTAAAATAT
88111892 ATATTCTATTTAAATTATTATAAA
1 ATATTCTATTTAAATTATTATAAA
*
88111916 ATATT-TATTTATA-TATTATAAA
1 ATATTCTATTTAAATTATTATAAA
88111938 A
1 A
88111939 ATTAAACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 7 0.32
24 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTCTATTTAAATTATTATAAA
Found at i:88113501 original size:21 final size:21
Alignment explanation
Indices: 88113475--88113528 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
88113465 ACAGCGGTGA
*
88113475 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
88113496 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
88113517 CGGTGAGATTAG
1 CGGTGAGATTAG
88113529 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:88117295 original size:20 final size:20
Alignment explanation
Indices: 88117270--88117319 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
88117260 TGGCTTAAAA
88117270 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
88117290 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
88117307 GTGGTAGTGGATT
1 TTGGTAGTGGATT
88117320 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:88121924 original size:20 final size:20
Alignment explanation
Indices: 88121899--88121948 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
88121889 TGGCTTAAAA
88121899 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
88121919 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
88121936 GTGGTAGTGGATT
1 TTGGTAGTGGATT
88121949 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:88125237 original size:22 final size:22
Alignment explanation
Indices: 88125187--88125229 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88125177 TTTTAATATT
*
88125187 TCATCTAATTTTATCTTTTTTAA
1 TCAT-TAAATTTATCTTTTTTAA
88125210 TCATTAAATTTAT-TTTTTTA
1 TCATTAAATTTATCTTTTTTA
88125230 TCAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (22 bp):
TCATTAAATTTATCTTTTTTAA
Found at i:88129570 original size:5 final size:5
Alignment explanation
Indices: 88129560--88129584 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88129550 AAATTGGTTT
88129560 CAATC CAATC CAATC CAATC CAATC
1 CAATC CAATC CAATC CAATC CAATC
88129585 AGAGTAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CAATC
Found at i:88135174 original size:30 final size:30
Alignment explanation
Indices: 88135138--88135197 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
88135128 CAAAGTATGA
88135138 AAAACCAGCAGCTTTCAGACCTCCCATGGC
1 AAAACCAGCAGCTTTCAGACCTCCCATGGC
*
88135168 AAAACCAGTAGCTTTCAGACCTCCCATGGC
1 AAAACCAGCAGCTTTCAGACCTCCCATGGC
88135198 GTTTTTGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (30 bp):
AAAACCAGCAGCTTTCAGACCTCCCATGGC
Found at i:88136364 original size:42 final size:42
Alignment explanation
Indices: 88136305--88136388 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
88136295 TTTAAAGCGT
*
88136305 AAGCAACTAGATCAGCCTTGGCATACTTCTTTGAAGGTTTAA
1 AAGCAACTAGATCAGCCTCGGCATACTTCTTTGAAGGTTTAA
*
88136347 AAGCAACTAGATCAGCCTCGGCATACTTCTTTGGAGGTTTAA
1 AAGCAACTAGATCAGCCTCGGCATACTTCTTTGAAGGTTTAA
88136389 TTTCTCTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCAACTAGATCAGCCTCGGCATACTTCTTTGAAGGTTTAA
Found at i:88138756 original size:5 final size:5
Alignment explanation
Indices: 88138746--88138782 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
88138736 CAATTTGTGA
88138746 AAAAT AAAAT AAAAT AAAA- ATAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
88138783 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.17
5 24 0.83
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:88140316 original size:49 final size:48
Alignment explanation
Indices: 88140260--88140356 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
88140250 CATTGCTTAG
* * * * *
88140260 TGTTAAAAGGTGGCAACAAACAACATATGTACGTTATCCGGATGAAATA
1 TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTA-CCAGATGAAATA
*
88140309 TGTTAAAAAGTAGCAACAAACAGCACATGTAAGTTACCAGATGAAATA
1 TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTACCAGATGAAATA
88140357 CAGCAACATG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 11 0.26
49 31 0.74
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (48 bp):
TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTACCAGATGAAATA
Found at i:88141489 original size:6 final size:6
Alignment explanation
Indices: 88141478--88141504 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
88141468 GGAATAGAGA
88141478 AAGCTC AAGCTC AAGCTC AAGCTC AAG
1 AAGCTC AAGCTC AAGCTC AAGCTC AAG
88141505 TTACAAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (6 bp):
AAGCTC
Found at i:88144827 original size:49 final size:49
Alignment explanation
Indices: 88144755--88144852 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
88144745 CAATGAGGAG
* * * *
88144755 TGTTAAAAGGTGGCAACAAACAGCATATGTACGTTATCCAGATGAAATA
1 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCAGATGAAATA
*
88144804 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
1 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCAGATGAAATA
88144853 CAACAACATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.22
Consensus pattern (49 bp):
TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCAGATGAAATA
Found at i:88153910 original size:21 final size:21
Alignment explanation
Indices: 88153870--88153950 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
88153860 CAAATAAGCC
88153870 AACAGAAGCTC--AAAAGCTT
1 AACAGAAGCTCATAAAAGCTT
* *
88153889 AACAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCATAAAAGCTT
* *
88153910 AACAGAATCTCATAAGAGCTT
1 AACAGAAGCTCATAAAAGCTT
*
88153931 AATAGAAGCTCATAAAAGCT
1 AACAGAAGCTCATAAAAGCT
88153951 GATCCACCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.20
21 43 0.80
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTT
Found at i:88156877 original size:22 final size:22
Alignment explanation
Indices: 88156850--88156896 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
88156840 CAACATGCCA
*
88156850 GTGTGGCTGGTGTGACACGCCT
1 GTGTGGCTGATGTGACACGCCT
*
88156872 GTGTGGCTGATGTGACACGTCT
1 GTGTGGCTGATGTGACACGCCT
88156894 GTG
1 GTG
88156897 GTAAGCTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.19, G:0.40, T:0.30
Consensus pattern (22 bp):
GTGTGGCTGATGTGACACGCCT
Found at i:88158014 original size:20 final size:20
Alignment explanation
Indices: 88157969--88158016 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
88157959 GTAACAGTAG
* *
88157969 TCGACACATATAGTGTATCG
1 TCGACACATATAATGTATCA
* *
88157989 TTGACACATATAATGTCTCA
1 TCGACACATATAATGTATCA
88158009 TCGACACA
1 TCGACACA
88158017 CAATCGGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
TCGACACATATAATGTATCA
Found at i:88158790 original size:6 final size:6
Alignment explanation
Indices: 88158779--88158824 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
88158769 AAACCCTAAA
**
88158779 TTTTCT TTTTCT TTTTCT TTTTCT TTCCCT TTTTCCT TCTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT T-TTTCT TT
88158825 CCCTGCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 25 0.74
7 6 0.18
8 3 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:88158802 original size:18 final size:19
Alignment explanation
Indices: 88158779--88158828 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
88158769 AAACCCTAAA
**
88158779 TTTTCTTTTTCTTTTT-CT
1 TTTTCTTTCCCTTTTTCCT
88158797 TTTTCTTTCCCTTTTTCCT
1 TTTTCTTTCCCTTTTTCCT
88158816 TCTTTCTTTCCCT
1 T-TTTCTTTCCCT
88158829 GCTATTCGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.50
19 3 0.11
20 11 0.39
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCTTTCCCTTTTTCCT
Found at i:88158869 original size:24 final size:25
Alignment explanation
Indices: 88158841--88158887 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
88158831 TATTCGTGCC
88158841 TTTATTTCTCTT-TTTTCTTTATGT
1 TTTATTTCTCTTATTTTCTTTATGT
*
88158865 TTTATTTCTTTTATTTTCTTTAT
1 TTTATTTCTCTTATTTTCTTTAT
88158888 TCATTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTATTTCTCTTATTTTCTTTATGT
Found at i:88162549 original size:3 final size:3
Alignment explanation
Indices: 88162541--88162567 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
88162531 AATGTGAAGC
88162541 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
88162568 TGTTCCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88163108 original size:23 final size:24
Alignment explanation
Indices: 88163076--88163126 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
88163066 TTTAGTAATA
*
88163076 AATAGTATTTT-TAATACTTTATTT
1 AATAGTATTTTATAATACTAT-TTT
*
88163100 AATA-TATTTTATATTACTATTTT
1 AATAGTATTTTATAATACTATTTT
88163123 AATA
1 AATA
88163127 ATAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
AATAGTATTTTATAATACTATTTT
Found at i:88165943 original size:53 final size:53
Alignment explanation
Indices: 88165862--88166012 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
88165852 CTTACACGGT
* *
88165862 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
88165917 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
88165970 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88166013 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:88172202 original size:53 final size:53
Alignment explanation
Indices: 88172137--88172277 Score: 176
Period size: 53 Copynumber: 2.7 Consensus size: 53
88172127 ATAAGTGTGC
* * * * * *
88172137 CCGTTTAAGACCATAGCTGGGCTATGGCATTGGTGCAATGTGATACTGTGACT
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTACAATGTGATAATGTAACT
* * *
88172190 CCGTATAAGACCATAGCTGGGTTATGGCATCGGTATAATGTGATAATGTAATT
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTACAATGTGATAATGTAACT
*
88172243 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 CCGTATAAGACCATAG-CTGGGATATGGCATCGGTA
88172278 TGATATGTGA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 76 0.99
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCGGTACAATGTGATAATGTAACT
Found at i:88175292 original size:23 final size:22
Alignment explanation
Indices: 88175254--88175337 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 22
88175244 TATGACTAAA
** *
88175254 TTATATTAAAAGATTTTTTATTT
1 TTATATTAAATTATTTATTA-TT
88175277 TTATATTAAATTATTTAAATTATT
1 TTATATTAAATTATTT--ATTATT
* *
88175301 TTATATTAAATTAAATTAGTATT
1 TTATATTAAATT-ATTTATTATT
88175324 TTATATTAAATTAT
1 TTATATTAAATTAT
88175338 ATTAAGAGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 14 0.27
25 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTAAATTATTTATTATT
Found at i:88175303 original size:10 final size:10
Alignment explanation
Indices: 88175277--88175342 Score: 68
Period size: 10 Copynumber: 6.9 Consensus size: 10
88175267 TTTTTTATTT
88175277 TTATATTAAA
1 TTATATTAAA
88175287 TTAT-TTAAA
1 TTATATTAAA
* *
88175296 TTATTTTATA
1 TTATATTAAA
*
88175306 TTAAATTAAA
1 TTATATTAAA
88175316 TTAGTATT---
1 TTA-TATTAAA
88175324 TTATATTAAA
1 TTATATTAAA
88175334 TTATATTAA
1 TTATATTAA
88175343 GAGATTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 9 0.20
10 27 0.59
11 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTATATTAAA
Found at i:88175341 original size:23 final size:23
Alignment explanation
Indices: 88175275--88175341 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
88175265 GATTTTTTAT
*
88175275 TTTTATATTAAATTAT-TTAAATTA
1 TTTTATATTAAATTATATT--AGTA
*
88175299 TTTTATATTAAATTAAATTAGTA
1 TTTTATATTAAATTATATTAGTA
88175322 TTTTATATTAAATTATATTA
1 TTTTATATTAAATTATATTA
88175342 AGAGATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 22 0.56
24 15 0.38
25 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
TTTTATATTAAATTATATTAGTA
Found at i:88192921 original size:43 final size:42
Alignment explanation
Indices: 88192766--88192922 Score: 113
Period size: 41 Copynumber: 3.7 Consensus size: 42
88192756 TGTATTCTCG
* * * *
88192766 TGTAAGACCACATCTGGGACGTTGGCATTGATATATGTGGTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCG--ATATG-AGATACA
* * * * ** *
88192811 TGTAAGACCATATTTGGGACATCGGCATCG-TATTTGATTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATGAGATACA
* *
88192852 TGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGAGATAGCA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATGAGATA-CA
*
88192895 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
88192923 TATATGATAT
Statistics
Matches: 86, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
41 25 0.29
42 10 0.12
43 25 0.29
44 1 0.01
45 25 0.29
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATGAGATACA
Found at i:88193384 original size:38 final size:36
Alignment explanation
Indices: 88193341--88193419 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 36
88193331 AGATTTAATG
88193341 TGATTATGATGGTATAGTTTGGTTTGGTTTAAATAAGT
1 TGATTATGAT-GT-TAGTTTGGTTTGGTTTAAATAAGT
88193379 TGA-T-T-ATGTTAGTTTGGTTTGGTTTAAATAAGT
1 TGATTATGATGTTAGTTTGGTTTGGTTTAAATAAGT
88193412 TGATTATG
1 TGATTATG
88193420 TTATTGAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
33 27 0.71
34 3 0.08
35 3 0.08
36 1 0.03
37 1 0.03
38 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (36 bp):
TGATTATGATGTTAGTTTGGTTTGGTTTAAATAAGT
Found at i:88193392 original size:33 final size:33
Alignment explanation
Indices: 88193355--88193422 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
88193345 TATGATGGTA
88193355 TAGTTTGGTTTGGTTTAAATAAGTTGATTATGT
1 TAGTTTGGTTTGGTTTAAATAAGTTGATTATGT
88193388 TAGTTTGGTTTGGTTTAAATAAGTTGATTATGT
1 TAGTTTGGTTTGGTTTAAATAAGTTGATTATGT
88193421 TA
1 TA
88193423 TTGAGTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (33 bp):
TAGTTTGGTTTGGTTTAAATAAGTTGATTATGT
Found at i:88213316 original size:91 final size:93
Alignment explanation
Indices: 88213204--88213372 Score: 297
Period size: 91 Copynumber: 1.8 Consensus size: 93
88213194 CCGCCCATAA
* *
88213204 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG-GAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88213268 CGAGTT-GGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88213295 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88213360 CGAGTTCGGATGC
66 CGAGTTCGGATGC
88213373 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 42 0.58
92 25 0.34
93 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88213345 original size:46 final size:45
Alignment explanation
Indices: 88213198--88213369 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
88213188 TGTAACCCGC
* * *
88213198 CCATAA-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88213242 CCATAAGGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTT-ACAT
1 CCATAAGGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
88213290 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
88213333 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAG-GAACTCGGACTCAACTCAACGAGTTCGGA
88213370 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 10 0.09
45 26 0.24
46 56 0.52
47 5 0.05
48 3 0.03
49 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88222219 original size:24 final size:24
Alignment explanation
Indices: 88222164--88222210 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
88222154 GTTTCAAAGA
*
88222164 ATACTAACTATAGTGTTTTAGAAC
1 ATACTAACTACAGTGTTTTAGAAC
88222188 ATACTAACTACAGTGTTTTAGAA
1 ATACTAACTACAGTGTTTTAGAA
88222211 TAGTTTAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (24 bp):
ATACTAACTACAGTGTTTTAGAAC
Found at i:88226269 original size:30 final size:29
Alignment explanation
Indices: 88226197--88226287 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
88226187 AAACATAAGA
88226197 TTGTGTTGTTGTAAAATATGTAAATTTGT
1 TTGTGTTGTTGTAAAATATGTAAATTTGT
88226226 TTGTGTTGTTGTAAAATATGTAAATTTGT
1 TTGTGTTGTTGTAAAATATGTAAATTTGT
88226255 TTGTGTTGGTTGTAAAATATGTAAATTTGT
1 TTGTGTT-GTTGTAAAATATGTAAATTTGT
88226285 TTG
1 TTG
88226288 CCCAACAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 36 0.59
30 25 0.41
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (29 bp):
TTGTGTTGTTGTAAAATATGTAAATTTGT
Found at i:88227465 original size:45 final size:45
Alignment explanation
Indices: 88227414--88227502 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
88227404 ATTAAACTAA
88227414 GTGCAAAATTGTGAGATGTGATTAAATAGCTCTAGTAATAATTAT
1 GTGCAAAATTGTGAGATGTGATTAAATAGCTCTAGTAATAATTAT
88227459 GTGCAAAATTGTGAGATGTGATTAAATAGCTCTAGTAATAATTA
1 GTGCAAAATTGTGAGATGTGATTAAATAGCTCTAGTAATAATTA
88227503 AAGGAGGACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (45 bp):
GTGCAAAATTGTGAGATGTGATTAAATAGCTCTAGTAATAATTAT
Found at i:88228633 original size:53 final size:52
Alignment explanation
Indices: 88228485--88228644 Score: 178
Period size: 52 Copynumber: 3.1 Consensus size: 52
88228475 TGACGGAAAA
* * * *
88228485 GATGTGATACATGATTCCGTATAAGACCATAGCCGGGTTATGGCATCGGTAC
1 GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGATATGGCATCGGTAT
* * * * *
88228537 CATGTGATTCGT-ATCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATTCGTGAT-TCCGTATAAGACCATAGCCGGGATATGGCATCGGTAT
* * * *
88228589 GATGTGATTATGTGATTCCGTATAATACCATATCCGGGATATGGCATTGGTAT
1 GATGTGATT-CGTGATTCCGTATAAGACCATAGCCGGGATATGGCATCGGTAT
88228642 GAT
1 GAT
88228645 ATGTGGTCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 2 0.02
52 49 0.56
53 35 0.40
54 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGATATGGCATCGGTAT
Found at i:88234315 original size:20 final size:21
Alignment explanation
Indices: 88234272--88234317 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
88234262 ACTGTTTTGT
88234272 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
88234292 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
88234311 TATGGGC
1 TATGGGC
88234318 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:88235773 original size:15 final size:15
Alignment explanation
Indices: 88235736--88235764 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88235726 TTTTCCTATC
88235736 TAATAATAATAATTA
1 TAATAATAATAATTA
88235751 TAATAATAATAATT
1 TAATAATAATAATT
88235765 TTATAAATAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:88238639 original size:27 final size:28
Alignment explanation
Indices: 88238601--88238653 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
88238591 CTATTCAGAA
* *
88238601 ATCAGTATTAAT-TGGGCCTTAGCCCAT
1 ATCAATATTAATCTGGGCCATAGCCCAT
88238628 ATCAATATTAATCTGGGCCATAGCCC
1 ATCAATATTAATCTGGGCCATAGCCC
88238654 CTTACAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (28 bp):
ATCAATATTAATCTGGGCCATAGCCCAT
Found at i:88238720 original size:61 final size:61
Alignment explanation
Indices: 88238578--88238749 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 61
88238568 TCAAGCTTTA
* *
88238578 CTGGGCC-TAAGCCCTATT-CAGAAATCAGTATTA-ATTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAG-AATCAG-AGTATATTGGGCC-TAGCCCATATCAATATCAAT
* *
88238640 CTGGGCCATAGCCC-CTTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAATATCAAT
* * * * * *
88238700 CTGGGTCGTATCCCTATTACA-AGTC-GAGATATATTGGGCCTTGGCCATAT
1 CTGGGCCATAGCCCTATTACAGAATCAGAG-TATATTGGGCCTAGCCCATAT
88238750 TAACACAATT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
59 3 0.03
60 54 0.57
61 21 0.22
62 15 0.16
63 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAATATCAAT
Found at i:88239417 original size:16 final size:15
Alignment explanation
Indices: 88239396--88239429 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
88239386 TCACAAAATG
88239396 TTGGCTTTCCGGCATT
1 TTGGCTTTCCGGC-TT
*
88239412 TTGGCTTTTCGGCTT
1 TTGGCTTTCCGGCTT
88239427 TTG
1 TTG
88239430 CCGATCTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.03, C:0.21, G:0.26, T:0.50
Consensus pattern (15 bp):
TTGGCTTTCCGGCTT
Found at i:88240515 original size:317 final size:317
Alignment explanation
Indices: 88239952--88240591 Score: 1262
Period size: 317 Copynumber: 2.0 Consensus size: 317
88239942 AAATATGAGG
88239952 CTTTTCGGCTTTTGGATCTATCCTAGAATATGGCTATTGCGATCTATAGGTGACGATAAGTTCAC
1 CTTTTCGGCTTTTGGATCTATCCTAGAATATGGCTATTGCGATCTATAGGTGACGATAAGTTCAC
88240017 CGTCGAAGAGACAATCAGTAGAGGAAGAGATGTAAAATTAGAGGTTCGGTCTTTTGAAATATTAA
66 CGTCGAAGAGACAATCAGTAGAGGAAGAGATGTAAAATTAGAGGTTCGGTCTTTTGAAATATTAA
*
88240082 AAGGAAAGGAGATATGGTTTCAACCAAATGAGTAATCGGCAACCAATATTTGGGAAGAAAAAGTT
131 AAGGAAAGGAGATATGGTTTCAACCAAATGAGTAATCGACAACCAATATTTGGGAAGAAAAAGTT
*
88240147 GTTTTAAAAGAATTTGGCTTCGAGGAAAGAAAATAGAAAAGGAGAGAATTGTTCAGCTTTTGGGA
196 GTTTTAAAAGAATTTGGCTTCGAGGAAAGAAAATAGAAAAGGAGAGAATTGTTCAGCTTTTGGAA
88240212 AAAATAAAAAAGAATATGAGCAAAAGAAATAAGATAAGATTAGAATAAAATAAAGTC
261 AAAATAAAAAAGAATATGAGCAAAAGAAATAAGATAAGATTAGAATAAAATAAAGTC
88240269 CTTTTCGGCTTTTGGATCTATCCTAGAATATGGCTATTGCGATCTATAGGTGACGATAAGTTCAC
1 CTTTTCGGCTTTTGGATCTATCCTAGAATATGGCTATTGCGATCTATAGGTGACGATAAGTTCAC
88240334 CGTCGAAGAGACAATCAGTAGAGGAAGAGATGTAAAATTAGAGGTTCGGTCTTTTGAAATATTAA
66 CGTCGAAGAGACAATCAGTAGAGGAAGAGATGTAAAATTAGAGGTTCGGTCTTTTGAAATATTAA
88240399 AAGGAAAGGAGATATGGTTTCAACCAAATGAGTAATCGACAACCAATATTTGGGAAGAAAAAGTT
131 AAGGAAAGGAGATATGGTTTCAACCAAATGAGTAATCGACAACCAATATTTGGGAAGAAAAAGTT
88240464 GTTTTAAAAGAATTTGGCTTCGAGGAAAGAAAATAGAAAAGGAGAGAATTGTTCAGCTTTTGGAA
196 GTTTTAAAAGAATTTGGCTTCGAGGAAAGAAAATAGAAAAGGAGAGAATTGTTCAGCTTTTGGAA
88240529 AAAATAAAAAAGAATATGAGCAAAAGAAATAAGATAAGATTAGAATAAAATAAAGTC
261 AAAATAAAAAAGAATATGAGCAAAAGAAATAAGATAAGATTAGAATAAAATAAAGTC
88240586 CTTTTC
1 CTTTTC
88240592 AAATTTTAAT
Statistics
Matches: 321, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
317 321 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (317 bp):
CTTTTCGGCTTTTGGATCTATCCTAGAATATGGCTATTGCGATCTATAGGTGACGATAAGTTCAC
CGTCGAAGAGACAATCAGTAGAGGAAGAGATGTAAAATTAGAGGTTCGGTCTTTTGAAATATTAA
AAGGAAAGGAGATATGGTTTCAACCAAATGAGTAATCGACAACCAATATTTGGGAAGAAAAAGTT
GTTTTAAAAGAATTTGGCTTCGAGGAAAGAAAATAGAAAAGGAGAGAATTGTTCAGCTTTTGGAA
AAAATAAAAAAGAATATGAGCAAAAGAAATAAGATAAGATTAGAATAAAATAAAGTC
Found at i:88241415 original size:17 final size:19
Alignment explanation
Indices: 88241393--88241438 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
88241383 ACATACATGC
88241393 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
88241410 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
88241429 AATACTAATT
1 AATAATAATT
88241439 AAAATTTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:88246267 original size:25 final size:25
Alignment explanation
Indices: 88246222--88246272 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
88246212 TGTACAGAAG
88246222 TTTTTTCTACAGATAACATAATTAAA
1 TTTTTTCTACAGATAACATAA-TAAA
*
88246248 TTTTTATCTATAGA-AA-ATAATAAA
1 TTTTT-TCTACAGATAACATAATAAA
88246272 T
1 T
88246273 GTTGGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 4 0.17
26 7 0.30
27 7 0.30
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (25 bp):
TTTTTTCTACAGATAACATAATAAA
Found at i:88247225 original size:9 final size:10
Alignment explanation
Indices: 88247209--88247234 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
88247199 GGATAATTTT
88247209 ATTTTTTTCA
1 ATTTTTTTCA
88247219 ATTTTTTTCA
1 ATTTTTTTCA
88247229 ATTTTT
1 ATTTTT
88247235 CGGTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTTCA
Found at i:88250481 original size:12 final size:12
Alignment explanation
Indices: 88250464--88250492 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
88250454 ATTCATGAAG
88250464 AAATTTTTTAGA
1 AAATTTTTTAGA
88250476 AAATTTTTTAGA
1 AAATTTTTTAGA
88250488 AAATT
1 AAATT
88250493 CTTCTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AAATTTTTTAGA
Found at i:88260438 original size:4 final size:4
Alignment explanation
Indices: 88260431--88260469 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
88260421 TTTCTTTTCC
* *
88260431 TCTT TCTT TCTT TCTT TCTT TCCT TCCT TCTTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT TCTT TC
88260470 CTTTTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TCTT
Found at i:88260476 original size:12 final size:13
Alignment explanation
Indices: 88260432--88260478 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
88260422 TTCTTTTCCT
88260432 CTTTCTTTCTTT-
1 CTTTCTTTCTTTC
*
88260444 CTTTCTTTCCTTC
1 CTTTCTTTCTTTC
88260457 C-TTCTTTTCTTTC
1 CTTTC-TTTCTTTC
*
88260470 CTTTTTTTC
1 CTTTCTTTC
88260479 CCTTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 14 0.48
13 13 0.45
14 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTCTTTCTTTC
Found at i:88262662 original size:43 final size:42
Alignment explanation
Indices: 88262549--88262662 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
88262539 AATTGCCGAG
* * *
88262549 ATGAGATTACATGTAAGACCATGCCTGGGACATTTGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
88262591 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
88262635 ATGAGATAACATGTAAGACCATATCTGG
1 ATGAGATTACATGTAAGACCATGTCTGG
88262663 TATATGGCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 58 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:88264904 original size:46 final size:46
Alignment explanation
Indices: 88264844--88265208 Score: 527
Period size: 46 Copynumber: 8.0 Consensus size: 46
88264834 TTTGACATGA
* * * * * *
88264844 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
88264890 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
88264936 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
88264982 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
88265027 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
88265073 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
88265119 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
88265165 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
88265209 AGAGCACACT
Statistics
Matches: 296, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 48 0.16
46 248 0.84
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:88265129 original size:183 final size:183
Alignment explanation
Indices: 88264844--88265208 Score: 534
Period size: 183 Copynumber: 2.0 Consensus size: 183
88264834 TTTGACATGA
* * * * * *
88264844 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGCTGCCATGGTATCTTTCAAC
** * *** *
88264909 CATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCC
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* * *
88264974 CGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG
131 CATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
*
88265027 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGCTGCCATGGTATCTTTCAA
* *
88265091 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
88265156 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
130 ACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
88265209 AGAGCACACT
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
182 4 0.02
183 157 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (183 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
CATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
Found at i:88267385 original size:18 final size:20
Alignment explanation
Indices: 88267370--88267406 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88267360 TAATAATAAA
*
88267370 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
88267390 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
88267407 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:88271448 original size:2 final size:2
Alignment explanation
Indices: 88271441--88271466 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88271431 GAATCAGATC
88271441 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
88271467 CTGCAACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88290610 original size:8 final size:8
Alignment explanation
Indices: 88290568--88290592 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
88290558 TATACGACTA
88290568 AATAAAAT
1 AATAAAAT
88290576 AATAAAAT
1 AATAAAAT
88290584 AATAAAAT
1 AATAAAAT
88290592 A
1 A
88290593 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:88290632 original size:31 final size:31
Alignment explanation
Indices: 88290580--88290638 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
88290570 TAAAATAATA
*
88290580 AAATAATAAAATATCTTATTAAAATATTAAAT
1 AAATAATAAAATATCTAATT-AAATATTAAAT
*
88290612 AAATAAT-AATTATCTAATTAAATATTA
1 AAATAATAAAATATCTAATTAAATATTA
88290639 TAAAATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 7 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (31 bp):
AAATAATAAAATATCTAATTAAATATTAAAT
Found at i:88293582 original size:21 final size:21
Alignment explanation
Indices: 88293558--88293599 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
88293548 CATGGCAGAG
88293558 TTAGTTTGTCTCAGAAGCAAT
1 TTAGTTTGTCTCAGAAGCAAT
88293579 TTAGTTTGTCTCAGAAGCAAT
1 TTAGTTTGTCTCAGAAGCAAT
88293600 ATTTGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
TTAGTTTGTCTCAGAAGCAAT
Found at i:88299180 original size:43 final size:43
Alignment explanation
Indices: 88299091--88299184 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
88299081 ACACTTGAAA
* * *
88299091 TTAAAACTTAGAAAAGAGGCCCAATAGAGCCGCAGTATTGCTGT
1 TTAAAACTAAGAAAAGAAGCCCAATA-AGCCGCAGTATTGATGT
*
88299135 TTAAAACTAAGAAAAAGAAGCCCAAT-AGCCG-AGCTGTTGATGT
1 TTAAAACTAAG-AAAAGAAGCCCAATAAGCCGCAG-TATTGATGT
88299178 TTAAAAC
1 TTAAAAC
88299185 CCATTTTGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 2 0.05
43 19 0.43
44 10 0.23
45 13 0.30
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (43 bp):
TTAAAACTAAGAAAAGAAGCCCAATAAGCCGCAGTATTGATGT
Found at i:88301250 original size:14 final size:14
Alignment explanation
Indices: 88301231--88301258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88301221 ATGCTCACGG
88301231 TATAACTAATTAAT
1 TATAACTAATTAAT
88301245 TATAACTAATTAAT
1 TATAACTAATTAAT
88301259 CGTCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAACTAATTAAT
Found at i:88305891 original size:49 final size:49
Alignment explanation
Indices: 88305819--88305916 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
88305809 TTTACAATAC
*
88305819 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAATTAGT
1 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
88305868 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
1 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
88305917 CAATTTATCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (49 bp):
ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
Found at i:88309435 original size:28 final size:27
Alignment explanation
Indices: 88309404--88309459 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
88309394 TTAATAATTT
*
88309404 TAAATTTTTAAAAATATTAAAATAAATA
1 TAAATTATTAAAAATATTAAAA-AAATA
88309432 TAAATTATTAAAAATATTAAAAAAATA
1 TAAATTATTAAAAATATTAAAAAAATA
88309459 T
1 T
88309460 GTTAAAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTATTAAAAATATTAAAAAAATA
Found at i:88309976 original size:23 final size:23
Alignment explanation
Indices: 88309924--88309976 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
88309914 GTTTGATACT
** * *
88309924 TTAAAAAAAATTAACCATAATTC
1 TTAAAAAAAATTAAAAAAAAATC
88309947 -TATAAAAAAATTAAAAAAAAATC
1 TTA-AAAAAAATTAAAAAAAAATC
88309970 TTAAAAA
1 TTAAAAA
88309977 TTATAGTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 20 0.83
24 2 0.08
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAAAAAAATTAAAAAAAAATC
Found at i:88311850 original size:2 final size:2
Alignment explanation
Indices: 88311843--88311873 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88311833 GGCCGAATGT
88311843 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
88311874 TATATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:88313695 original size:26 final size:26
Alignment explanation
Indices: 88313657--88313788 Score: 248
Period size: 26 Copynumber: 5.1 Consensus size: 26
88313647 GGTACAAATC
88313657 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
88313683 GATAATGGATTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88313709 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88313735 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88313761 GATAATGGGTTA-GTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88313786 GAT
1 GAT
88313789 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 16 0.15
26 88 0.85
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:88327400 original size:14 final size:14
Alignment explanation
Indices: 88327376--88327408 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
88327366 TCCCTGCTTC
88327376 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
88327391 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
88327404 GTTTC
1 GTTTC
88327409 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:88327736 original size:15 final size:14
Alignment explanation
Indices: 88327718--88327748 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88327708 TTAATTTATT
88327718 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
88327733 TAATAATAATCTAA
1 TAATAATAATCTAA
88327747 TA
1 TA
88327749 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:88327759 original size:21 final size:20
Alignment explanation
Indices: 88327735--88327803 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
88327725 AATGCTAATA
88327735 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
88327756 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
88327775 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
88327796 ATAATAAT
1 ATAATAAT
88327804 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:88327799 original size:27 final size:28
Alignment explanation
Indices: 88327769--88327821 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
88327759 ATGTTAATTA
*
88327769 ATAATTATAATAATT-TAATATAAAACC
1 ATAATAATAATAATTATAATATAAAACC
*
88327796 ATAATAATAATCATTATAATATAAAA
1 ATAATAATAATAATTATAATATAAAA
88327822 ACCTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATAATAATAATTATAATATAAAACC
Found at i:88331871 original size:37 final size:37
Alignment explanation
Indices: 88331830--88331940 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
88331820 TAGCTAGGCT
****
88331830 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88331867 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88331904 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88331941 GCTAAAACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:88339488 original size:37 final size:37
Alignment explanation
Indices: 88339447--88339557 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
88339437 TAGCTAGGCT
****
88339447 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88339484 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88339521 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
88339558 GCTAAAACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:88342431 original size:27 final size:27
Alignment explanation
Indices: 88342400--88342462 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
88342390 AATCCTCTAT
88342400 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* * *
88342427 AACACTCCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
88342454 AACACACCA
1 AACACACCA
88342463 ATAAGGTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.38, C:0.37, G:0.06, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:88345527 original size:21 final size:22
Alignment explanation
Indices: 88345491--88345534 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
88345481 CATAACGACC
88345491 TTCAACTGGCCCCCCCCAATTA
1 TTCAACTGGCCCCCCCCAATTA
88345513 TTCAACTGG-CCCCCCCAATTA
1 TTCAACTGGCCCCCCCCAATTA
88345534 T
1 T
88345535 ACTCCAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.23, C:0.43, G:0.09, T:0.25
Consensus pattern (22 bp):
TTCAACTGGCCCCCCCCAATTA
Found at i:88356361 original size:22 final size:23
Alignment explanation
Indices: 88356336--88356395 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
88356326 TGGACTGAAT
88356336 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
88356358 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
88356380 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
88356396 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:88356363 original size:4 final size:4
Alignment explanation
Indices: 88356345--88356378 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
88356335 TATAAAAATT
88356345 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
88356379 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:88362792 original size:22 final size:23
Alignment explanation
Indices: 88362767--88362826 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
88362757 TGGACTGAAT
88362767 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
88362789 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
88362811 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
88362827 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:88362794 original size:4 final size:4
Alignment explanation
Indices: 88362776--88362809 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
88362766 TATAAAAATT
88362776 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
88362810 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:88367310 original size:30 final size:30
Alignment explanation
Indices: 88367276--88367335 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88367266 ACTTAACAAG
**
88367276 CAAATACCTCTAAAATAATAATGAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
88367306 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
88367336 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:88369975 original size:48 final size:48
Alignment explanation
Indices: 88369923--88370080 Score: 174
Period size: 48 Copynumber: 3.3 Consensus size: 48
88369913 TACTCGTTTG
* * * *
88369923 GGTTAAATCTACATGAACAATAAATAATAGTTCTTGGTTGCCCGTTAA
1 GGTTAAACCTACACGAATAATAAATAATAGTTCTTGGTTACCCGTTAA
* * * ** *
88369971 GGTTAAACCTATACGAATAATGAATAATAGTGT-TTAGTTACCTATTAG
1 GGTTAAACCTACACGAATAATAAATAATAGT-TCTTGGTTACCCGTTAA
* * * *
88370019 GGTTAAACCTACACGAATAATTAATATTAGTGCCTGGTTACCCGTTAA
1 GGTTAAACCTACACGAATAATAAATAATAGTTCTTGGTTACCCGTTAA
88370067 GGTTAAACCTACAC
1 GGTTAAACCTACAC
88370081 TATAAATATC
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
48 88 0.99
49 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (48 bp):
GGTTAAACCTACACGAATAATAAATAATAGTTCTTGGTTACCCGTTAA
Found at i:88371040 original size:16 final size:16
Alignment explanation
Indices: 88371005--88371061 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
88370995 TTAACTTATT
*
88371005 ATTTAATT-ATAATTA
1 ATTTAATTAATCATTA
*
88371020 GTTTAATTAATCATTA
1 ATTTAATTAATCATTA
88371036 ATTTAA-TAA-CATTA
1 ATTTAATTAATCATTA
*
88371050 ACCTTAATTAAT
1 A-TTTAATTAAT
88371062 AGTTTTGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.18
15 14 0.41
16 14 0.41
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTTAATTAATCATTA
Found at i:88373139 original size:15 final size:15
Alignment explanation
Indices: 88373119--88373148 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88373109 CATTTTATTT
*
88373119 ATATTAGGATAATTA
1 ATATTAAGATAATTA
88373134 ATATTAAGATAATTA
1 ATATTAAGATAATTA
88373149 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:88379351 original size:33 final size:33
Alignment explanation
Indices: 88379309--88379375 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
88379299 TATTTCCAGG
*
88379309 TAAGCTTCGATCTCGGTGGCAAGGACCTTTTAT
1 TAAGCTTCGATCTCGGTGGCAAAGACCTTTTAT
88379342 TAAGCTTCGATCTCGGTGGCAAAGACCTTTTAT
1 TAAGCTTCGATCTCGGTGGCAAAGACCTTTTAT
88379375 T
1 T
88379376 GTGACTGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (33 bp):
TAAGCTTCGATCTCGGTGGCAAAGACCTTTTAT
Found at i:88379594 original size:14 final size:13
Alignment explanation
Indices: 88379575--88379620 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
88379565 GCAACCCAAT
88379575 TTTTATTTTATTTA
1 TTTTATTTTA-TTA
*
88379589 TTTTATCTTATTA
1 TTTTATTTTATTA
88379602 TTTTATTATTTATTA
1 TTTTA-T-TTTATTA
88379617 TTTT
1 TTTT
88379621 CAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
14 10 0.36
15 10 0.36
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:88379616 original size:15 final size:16
Alignment explanation
Indices: 88379591--88379620 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88379581 TTTATTTATT
88379591 TTATCTTATTATTTTA
1 TTATCTTATTATTTTA
88379607 TTAT-TTATTATTTT
1 TTATCTTATTATTTT
88379621 CAGATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATCTTATTATTTTA
Found at i:88380572 original size:16 final size:15
Alignment explanation
Indices: 88380547--88380597 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
88380537 ACACATATAC
* *
88380547 AAAAATAAAATAAAAT
1 AAAAAGAAAA-AAAAG
88380563 AAAAAGAAAAAAAAAG
1 AAAAAG-AAAAAAAAG
88380579 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
88380594 AAAA
1 AAAA
88380598 TATATGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 13 0.41
16 15 0.47
17 4 0.12
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:88380576 original size:10 final size:10
Alignment explanation
Indices: 88380547--88380597 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
88380537 ACACATATAC
*
88380547 AAAAATAAAAT
1 AAAAA-AAAAG
88380558 AAAATAAAAAG
1 AAAA-AAAAAG
88380569 AAAAAAAAAG
1 AAAAAAAAAG
88380579 AAAAAGAAAA-
1 AAAAA-AAAAG
*
88380589 AAAAGAAAA
1 AAAAAAAAA
88380598 TATATGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 4 0.11
10 15 0.42
11 16 0.44
12 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:88381188 original size:15 final size:15
Alignment explanation
Indices: 88381168--88381197 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88381158 CATTTTATTT
88381168 ATATTAAGATAATTA
1 ATATTAAGATAATTA
88381183 ATATTAAGATAATTA
1 ATATTAAGATAATTA
88381198 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:88386715 original size:2 final size:2
Alignment explanation
Indices: 88386708--88386753 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
88386698 TTTTCACACG
88386708 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
88386750 CT CT
1 CT CT
88386754 TTGCGGAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:88392959 original size:12 final size:12
Alignment explanation
Indices: 88392942--88392976 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
88392932 AAAATAATAC
88392942 TATATGTATAAA
1 TATATGTATAAA
*
88392954 TATATGTATATA
1 TATATGTATAAA
*
88392966 TACATGTATAA
1 TATATGTATAA
88392977 TGGAAACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (12 bp):
TATATGTATAAA
Found at i:88392998 original size:3 final size:3
Alignment explanation
Indices: 88392990--88393152 Score: 66
Period size: 3 Copynumber: 55.0 Consensus size: 3
88392980 AAACATACAC
* * ** *
88392990 TAA TAA TAA TAA TAA TAA TAA TAA TACG TAT TAAA TGG TAA -AA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA
* * * ** * * *
88393036 TAA TAG TAA CAA T-G TTT TAA -AA TGA TAA TAG TAA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
88393081 AAA TAA GAG TGA TAA TAA TAG TAA TAA TAA TAA TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
88393129 -AA GTAA AAA TAA TAG TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA TAA
88393153 CGGTAAATAC
Statistics
Matches: 113, Mismatches: 39, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
2 9 0.08
3 98 0.87
4 6 0.05
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:88393106 original size:21 final size:21
Alignment explanation
Indices: 88393082--88393149 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
88393072 AAAAAATAAA
* *
88393082 AATAAGAGTGATAATAATAGT
1 AATAAAAGTAATAATAATAGT
*
88393103 AATAATAA-TAATAGTAATAGT
1 AATAA-AAGTAATAATAATAGT
*
88393124 AATAAAAGTAAAAATAATAGT
1 AATAAAAGTAATAATAATAGT
88393145 AATAA
1 AATAA
88393150 TAACGGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.93
22 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
AATAAAAGTAATAATAATAGT
Found at i:88393389 original size:23 final size:23
Alignment explanation
Indices: 88393348--88393393 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
88393338 AAAGGAAAAT
*
88393348 ATAATAATAATAGCTATAATACA
1 ATAATAATAATAGATATAATACA
88393371 ATAATAATAATA-ATAATAATACA
1 ATAATAATAATAGAT-ATAATACA
88393394 TTGGATAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
ATAATAATAATAGATATAATACA
Found at i:88393563 original size:3 final size:3
Alignment explanation
Indices: 88393557--88393777 Score: 74
Period size: 3 Copynumber: 72.3 Consensus size: 3
88393547 CAATATGCAC
* * *
88393557 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAT TGA -AA TACA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
88393601 -AA GTAA -ATA TAA -CA TAA TAA TAA TAT TAA -AA TAA -AG TAA TTAA
1 TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * *
88393644 AAA TAA TAC T-A TATA TACA TATA TATA TAAA TAA -ACA TACA CTAC TATA
1 TAA TAA TAA TAA TA-A TA-A TA-A TA-A T-AA TAA TA-A TA-A -TAA TA-A
* *
88393693 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAGA -AA TTA TAA TTAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA -TAA TAA
*
88393738 TAA TAA TAA -ACA -ACA TAA -AA TAA TAA TAA AAA TAA GTAA T
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA -TAA T
88393778 TTGAAAATAA
Statistics
Matches: 167, Mismatches: 26, Indels: 50
0.69 0.11 0.21
Matches are distributed among these distances:
2 17 0.10
3 113 0.68
4 34 0.20
5 3 0.02
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:88395422 original size:45 final size:44
Alignment explanation
Indices: 88395342--88395439 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
88395332 TGATTTATAG
* * *
88395342 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCT-A
1 CTTCAATCTCTTCCACTGCAACTTTAGAGAAATAAGACTTG-TGA
* *
88395386 TCTTCAATCTCTTCCGCTGCAA-TTTCAGAGAGATAAGACTTGTGA
1 -CTTCAATCTCTTCCACTGCAACTTT-AGAGAAATAAGACTTGTGA
88395431 CTTCAATCT
1 CTTCAATCT
88395440 ACTTTGCTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 13 0.28
45 33 0.72
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (44 bp):
CTTCAATCTCTTCCACTGCAACTTTAGAGAAATAAGACTTGTGA
Done.