Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 46 of 153
Found at i:15338528 original size:21 final size:20
Alignment explanation
Indices: 15338502--15338540 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
15338492 ATGTATTTTG
15338502 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
15338523 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
15338541 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:15338550 original size:21 final size:21
Alignment explanation
Indices: 15338502--15338548 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15338492 ATGTATTTTG
*
15338502 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
15338523 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
15338544 A-GTTT
1 ATGTTT
15338549 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:15340932 original size:38 final size:38
Alignment explanation
Indices: 15340871--15340945 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
15340861 ATACCTAAAA
15340871 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
1 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
* *
15340909 TGACTAGTTGATAGTGTGTCGATGCTCTAATGATCTC
1 TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTC
15340946 CAACCTTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (38 bp):
TGACCAGTTGATAGTGTGACGATGCTCTAATGATCTCT
Found at i:15355393 original size:70 final size:70
Alignment explanation
Indices: 15355219--15355892 Score: 427
Period size: 70 Copynumber: 9.6 Consensus size: 70
15355209 TTAATCCTAC
* * * * ** * ** *
15355219 GAGCATTAATAATGACAGCTGAGAGCTTTCAACTCTTGCTAACTATTTTGGGGGTTGCAGTATAG
1 GAGCCTTAA-AATGACAGTTGAGAGCTTTTAACTCTCGCTAACT-TTTAAGAGGTTGTGGTATTG
*
15355284 AACATGT
64 AACCTGT
* * * * ** *
15355291 GAGCTTTAGAATAAGAACTGAGAGCTTATAACTCTCGCTAACTTTTAAGAGGTTGTGGTATTGAA
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTTTTAAGAGGTTGTGGTATTGAA
*
15355356 CTTGT
66 CCTGT
* ** * * * * * * * *
15355361 GAGCCATAAAATGACAACTAAGAGCTTTTAACTATTGGTAA-TTGTTAGGGGGGCTGCGGTATTG
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTT-TTA-AGAGGTTGTGGTATTG
15355425 AACCTGT
64 AACCTGT
* * * * * * * *
15355432 GAGCCTTAGAATGACAGTTGAGAGCTTTTAATTCTCACTAACTGTCAAGGGGCTGTGGTTTTGAA
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTTTTAAGAGGTTGTGGTATTGAA
* *
15355497 CCCGC
66 CCTGT
* ** * * * * *
15355502 GA-CCTTAGAATGACAAATG-GAAGCTTTTAATTCTCGCTAACTATTATGAGGGTTATGGTTTTG
1 GAGCCTTAAAATGACAGTTGAG-AGCTTTTAACTCTCGCTAACTTTTAAGA-GGTTGTGGTATTG
**
15355565 AACCTAC
64 AACCTGT
* *
15355572 GAGCCTTAAAATGATAGTT-AGGAG-TTTTAACTCTCGCTAACTGTTT-GGAGGTTGTGGTATTG
1 GAGCCTTAAAATGACAGTTGA-GAGCTTTTAACTCTCGCTAACT-TTTAAGAGGTTGTGGTATTG
15355634 AACCTGT
64 AACCTGT
* * * * * *
15355641 GAGCCTTAAAATGACAGTTGGGAGGTTTTAACTCTAGCTAACTGTT-AG-GTGTTGTAGTTTTGA
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTTTTAAGAG-GTTGTGGTATTGA
15355704 ACCTG-
65 ACCTGT
* * *** * * * *
15355709 GAAGCCTTATAATAACAACAGGGAGCTTTTAACTCTCACTAA-TTATTTAGAGGTTGTGATATTG
1 G-AGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTT-TTAAGAGGTTGTGGTATTG
*
15355773 AACCTGC
64 AACCTGT
* * * * * * * * *
15355780 GTGCCTTATAATAACAGTTAAGAGCTTTTAATTCTCGTTAA-TTGTT-AGAGGGTTGTGCTTTTA
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTT-TTAAGA-GGTTGTGGTATTG
15355843 AACCTGT
64 AACCTGT
* * *
15355850 GAGCCTTAAATTGATAGTTGTGAGCTTTTAACTCTCGCTAACT
1 GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACT
15355893 ATTTGGGTTT
Statistics
Matches: 472, Mismatches: 111, Indels: 39
0.76 0.18 0.06
Matches are distributed among these distances:
68 4 0.01
69 133 0.28
70 228 0.48
71 98 0.21
72 9 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
GAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCGCTAACTTTTAAGAGGTTGTGGTATTGAA
CCTGT
Found at i:15355527 original size:69 final size:70
Alignment explanation
Indices: 15355410--15355543 Score: 182
Period size: 69 Copynumber: 1.9 Consensus size: 70
15355400 AATTGTTAGG
* * * *
15355410 GGGGCTGCGGTATTGAACCTGTGAGCCTTAGAATGACAGTTGAGAGCTTTTAATTCTCACTAACT
1 GGGGCTGCGGTATTGAACCCGCGAGCCTTAGAATGACAATGGAGAGCTTTTAATTCTCACTAACT
15355475 GTCAA
66 GTCAA
* * *
15355480 GGGGCTGTGGTTTTGAACCCGCGA-CCTTAGAATGACAAATGGA-AGCTTTTAATTCTCGCTAAC
1 GGGGCTGCGGTATTGAACCCGCGAGCCTTAGAATGAC-AATGGAGAGCTTTTAATTCTCACTAAC
15355543 T
65 T
15355544 ATTATGAGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
69 32 0.57
70 24 0.43
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (70 bp):
GGGGCTGCGGTATTGAACCCGCGAGCCTTAGAATGACAATGGAGAGCTTTTAATTCTCACTAACT
GTCAA
Found at i:15355656 original size:209 final size:209
Alignment explanation
Indices: 15355296--15355892 Score: 546
Period size: 209 Copynumber: 2.9 Consensus size: 209
15355286 CATGTGAGCT
* * * * * * *
15355296 TTAGAATAAGAAC-TGAGAGCTTATAACTCTCGCTAACT-TTTAAGAGGTTGTGGTATTGAACTT
1 TTAGAATAACAACAGGA-AGCTTTTAACTCTCACTAACTATTT-AGAGGTTATGATATTGAACCT
** * * ** * * * * * * *
15355359 GTGAGCCATAAAATGACAACTAAGAGCTTTTAACTATTGGTAATTGTTAGGGGGGCTGCGGTATT
64 ACGAGCCTTAAAATAACAGTTAAGAGCTTTTAACTCTCGCTAACTGTTA-GAGGGTTGTGGTATT
* * *
15355424 GAACCTGTGAGCCTTAGAATGACAGTTGAGAGCTTTTAATTCTCACTAACTGTCAAGGGGCTGTG
128 GAACCTGTGAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCACTAACTGT-AAGGGGCTGTA
15355489 GTTTTGAACCCGCG-A-CC
192 GTTTTGAACCCG-GAAGCC
* * * * *
15355506 TTAGAATGACAA-ATGGAAGCTTTTAATTCTCGCTAACTA-TTATGAGGGTTATGGTTTTGAACC
1 TTAGAATAACAACA-GGAAGCTTTTAACTCTCACTAACTATTTA-GA-GGTTATGATATTGAACC
* * * *
15355569 TACGAGCCTTAAAATGATAGTTAGGAG-TTTTAACTCTCGCTAACTGTTTG-GAGGTTGTGGTAT
63 TACGAGCCTTAAAATAACAGTTAAGAGCTTTTAACTCTCGCTAACTGTTAGAG-GGTTGTGGTAT
* * * * *
15355632 TGAACCTGTGAGCCTTAAAATGACAGTTGGGAGGTTTTAACTCT-AGCTAACTGTTAGGTGTTGT
127 TGAACCTGTGAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCA-CTAACTGTAAGGGGCTGT
*
15355696 AGTTTTGAACCTGGAAGCC
191 AGTTTTGAACCCGGAAGCC
* * * * *
15355715 TTATAATAACAACAGGGAGCTTTTAACTCTCACTAATTATTTAGAGGTTGTGATATTGAACCTGC
1 TTAGAATAACAACAGGAAGCTTTTAACTCTCACTAACTATTTAGAGGTTATGATATTGAACCTAC
* * * * * * * *
15355780 GTGCCTTATAATAACAGTTAAGAGCTTTTAATTCTCGTTAATTGTTAGAGGGTTGTGCTTTTAAA
66 GAGCCTTAAAATAACAGTTAAGAGCTTTTAACTCTCGCTAACTGTTAGAGGGTTGTGGTATTGAA
* * * *
15355845 CCTGTGAGCCTTAAATTGATAGTTGTGAGCTTTTAACTCTCGCTAACT
131 CCTGTGAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCACTAACT
15355893 ATTTGGGTTT
Statistics
Matches: 315, Mismatches: 58, Indels: 29
0.78 0.14 0.07
Matches are distributed among these distances:
207 1 0.00
208 56 0.18
209 167 0.53
210 55 0.17
211 36 0.11
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (209 bp):
TTAGAATAACAACAGGAAGCTTTTAACTCTCACTAACTATTTAGAGGTTATGATATTGAACCTAC
GAGCCTTAAAATAACAGTTAAGAGCTTTTAACTCTCGCTAACTGTTAGAGGGTTGTGGTATTGAA
CCTGTGAGCCTTAAAATGACAGTTGAGAGCTTTTAACTCTCACTAACTGTAAGGGGCTGTAGTTT
TGAACCCGGAAGCC
Found at i:15363298 original size:29 final size:32
Alignment explanation
Indices: 15363266--15363352 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
15363256 AGAGAGTAGC
* * *
15363266 AAAATAGAGAAGAGAA-TG-AGGAGAA-GGGA
1 AAAAAAGAGAAGAGAAGAGAAGGAAAAGGGGA
*
15363295 AAAAAAGAGAAGAAAAGAGAAGGAAAAGGGGA
1 AAAAAAGAGAAGAGAAGAGAAGGAAAAGGGGA
15363327 AAAAAAGAGAAGAGAAGAGAAGGAAA
1 AAAAAAGAGAAGAGAAGAGAAGGAAA
15363353 GAAAAAAGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 14 0.28
30 1 0.02
31 6 0.12
32 29 0.58
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (32 bp):
AAAAAAGAGAAGAGAAGAGAAGGAAAAGGGGA
Found at i:15363312 original size:10 final size:10
Alignment explanation
Indices: 15363297--15363354 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
15363287 AGAAGGGAAA
15363297 AAAAGAGAAG
1 AAAAGAGAAG
15363307 AAAAGAGAAGG
1 AAAAGAGAA-G
* *
15363318 AAAAGGGGAAA
1 AAAA-GAGAAG
15363329 AAAAGAGAAG
1 AAAAGAGAAG
*
15363339 AGAAGAGAAG
1 AAAAGAGAAG
*
15363349 GAAAGA
1 AAAAGA
15363355 AAAAAGGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 26 0.67
11 9 0.23
12 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AAAAGAGAAG
Found at i:15363364 original size:37 final size:32
Alignment explanation
Indices: 15363289--15363367 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 32
15363279 GAATGAGGAG
*
15363289 AAGGGAAAAAAAGAGAAGAAAAGAGAAGGAAA
1 AAGGGAAAAAAAGAGAAGAAAAGAGAAGAAAA
*
15363321 AGGGGAAAAAAAGAGAAGAGAAGAGAAGGAAAGAAAA
1 AAGGGAAAAAAAGAGAAGA-AA-AG-A-G-AAGAAAA
15363358 AAGGGAAAAA
1 AAGGGAAAAA
15363368 CAGTTGGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 18 0.46
33 2 0.05
34 2 0.05
35 1 0.03
36 1 0.03
37 15 0.38
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (32 bp):
AAGGGAAAAAAAGAGAAGAAAAGAGAAGAAAA
Found at i:15363650 original size:16 final size:16
Alignment explanation
Indices: 15363626--15363656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15363616 TTTTAGAAAT
*
15363626 GTTTTTGATTAATTTA
1 GTTTCTGATTAATTTA
15363642 GTTTCTGATTAATTT
1 GTTTCTGATTAATTT
15363657 TTTTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (16 bp):
GTTTCTGATTAATTTA
Found at i:15365027 original size:28 final size:28
Alignment explanation
Indices: 15364994--15365144 Score: 248
Period size: 28 Copynumber: 5.4 Consensus size: 28
15364984 TAAAAACTTG
* *
15364994 GTAATATAAGTGCAAAAATACAAACTTT
1 GTAATATAAATGCAAAAATACAAGCTTT
*
15365022 GTAATATAAATGAAAAAATACAAGCTTT
1 GTAATATAAATGCAAAAATACAAGCTTT
* *
15365050 GTTATATAAATGTAAAAATACAAGCTTT
1 GTAATATAAATGCAAAAATACAAGCTTT
*
15365078 GTAATATAAATGTAAAAATACAAGCTTT
1 GTAATATAAATGCAAAAATACAAGCTTT
15365106 GTAATATAAATGCAAAAATACAAGCTTT
1 GTAATATAAATGCAAAAATACAAGCTTT
15365134 GTAATATAAAT
1 GTAATATAAAT
15365145 TAGATGCATT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 116 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (28 bp):
GTAATATAAATGCAAAAATACAAGCTTT
Found at i:15368428 original size:15 final size:16
Alignment explanation
Indices: 15368405--15368448 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
15368395 AATATGAGAT
* *
15368405 AATGAAAAATAAAAGT
1 AATGCAAAATAAAAGA
15368421 AAT-CAAAAT-AAAGA
1 AATGCAAAATAAAAGA
15368435 AATGCAAAATAAAA
1 AATGCAAAATAAAA
15368449 TAAGAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 11 0.46
16 6 0.25
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (16 bp):
AATGCAAAATAAAAGA
Found at i:15368814 original size:142 final size:141
Alignment explanation
Indices: 15368559--15368830 Score: 499
Period size: 142 Copynumber: 1.9 Consensus size: 141
15368549 TATTTTTCGG
* *
15368559 TATCTGATTTTCTTATTCCATTGTAGTACTTGAATTATTATTTTATTATATTTTTTGCCTCTAAA
1 TATCTGATTTTCTTATTCCATTGTAGCACTTGAATTATTATTTTATTATATTTTTTGCCCCTAAA
15368624 ATTAACGGTATTAAAAAAAAACCTCAAACAAACAAAATGCATGTGGCTGTTGACTTATGACATGT
66 ATTAACGGTATTAAAAAAAAACCTCAAACAAACAAAATGCATGTGGCTGTTGACTTATGACATGT
15368689 TTTCATATTGA
131 TTTCATATTGA
*
15368700 TATCTGATTTTCTTATTCCATTTTAGCACTTGAATTATTATTTTATTATACTTTTTTGCCCCTAA
1 TATCTGATTTTCTTATTCCATTGTAGCACTTGAATTATTATTTTATTATA-TTTTTTGCCCCTAA
*
15368765 AATTAACGGTATTAAAAAAAAACCTCAACCAAACAAAATGCATGTGGCTGTTGACTTATGACATG
65 AATTAACGGTATTAAAAAAAAACCTCAAACAAACAAAATGCATGTGGCTGTTGACTTATGACATG
15368830 T
130 T
15368831 ACATTGATCA
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 48 0.38
142 78 0.62
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (141 bp):
TATCTGATTTTCTTATTCCATTGTAGCACTTGAATTATTATTTTATTATATTTTTTGCCCCTAAA
ATTAACGGTATTAAAAAAAAACCTCAAACAAACAAAATGCATGTGGCTGTTGACTTATGACATGT
TTTCATATTGA
Found at i:15373394 original size:21 final size:22
Alignment explanation
Indices: 15373356--15373398 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
15373346 ATTTTCAAAT
15373356 TATTATATAAATTTATATTTTA
1 TATTATATAAATTTATATTTTA
*
15373378 TATTGTATAAA-TTATATTTTA
1 TATTATATAAATTTATATTTTA
15373399 AAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTATATAAATTTATATTTTA
Found at i:15374750 original size:20 final size:20
Alignment explanation
Indices: 15374712--15374750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15374702 AAAAAAGTGC
* **
15374712 ACCCAATTGATCTTTAAATG
1 ACCCAAGTGATCTAAAAATG
15374732 ACCCAAGTGATCTAAAAAT
1 ACCCAAGTGATCTAAAAAT
15374751 AATCAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (20 bp):
ACCCAAGTGATCTAAAAATG
Found at i:15375889 original size:13 final size:13
Alignment explanation
Indices: 15375873--15375910 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
15375863 TTAGCTTCTC
*
15375873 CTTTTCAAAAGTA
1 CTTTTCAAAAATA
15375886 CTTTTCAAAAATA
1 CTTTTCAAAAATA
*
15375899 CTTTTGAAAAAT
1 CTTTTCAAAAAT
15375911 TAAAAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (13 bp):
CTTTTCAAAAATA
Found at i:15382921 original size:31 final size:31
Alignment explanation
Indices: 15382886--15382948 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
15382876 ACCGGTCAAA
15382886 TTGAGGATAGATGA-TCTAATTGATTTGATTT
1 TTGAGGATA-ATGAGTCTAATTGATTTGATTT
* *
15382917 TTGAGGATAATTAGTCTGATTGATTTGATTT
1 TTGAGGATAATGAGTCTAATTGATTTGATTT
15382948 T
1 T
15382949 GAAATCTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (31 bp):
TTGAGGATAATGAGTCTAATTGATTTGATTT
Found at i:15383151 original size:12 final size:13
Alignment explanation
Indices: 15383106--15383159 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
15383096 TTTTAAAATT
15383106 AAATATAATTATA
1 AAATATAATTATA
15383119 AAA-AT-A-TATA
1 AAATATAATTATA
15383129 AAATATCAATTA-A
1 AAATAT-AATTATA
15383142 AAATATAATT-T-
1 AAATATAATTATA
15383153 AAATATA
1 AAATATA
15383160 TTTTAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
10 7 0.19
11 10 0.28
12 6 0.17
13 11 0.31
14 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATATAATTATA
Found at i:15383156 original size:24 final size:23
Alignment explanation
Indices: 15383103--15383159 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
15383093 ATTTTTTAAA
15383103 ATTAAATATAATTATAAAAATAT
1 ATTAAATATAATTATAAAAATAT
*
15383126 ATAAAATATCAA-T-TAAAAATAT
1 ATTAAATAT-AATTATAAAAATAT
15383148 AATTTAAATATA
1 -A-TTAAATATA
15383160 TTTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 9 0.31
23 11 0.38
24 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAAATATAATTATAAAAATAT
Found at i:15383165 original size:24 final size:23
Alignment explanation
Indices: 15383103--15383170 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
15383093 ATTTTTTAAA
*
15383103 ATTAAATATAATTATAAAAATAT
1 ATTAAATATAATTTTAAAAATAT
*
15383126 ATAAAATATCAA--TTAAAAATAT
1 ATTAAATAT-AATTTTAAAAATAT
*
15383148 AATTTAAATAT-ATTTTAATAATA
1 -A-TTAAATATAATTTTAAAAATA
15383171 AAACCAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
22 10 0.28
23 9 0.25
24 17 0.47
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTAAATATAATTTTAAAAATAT
Found at i:15387639 original size:21 final size:21
Alignment explanation
Indices: 15387613--15387653 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15387603 AAACGAGAAA
* *
15387613 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15387634 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15387654 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15389592 original size:16 final size:16
Alignment explanation
Indices: 15389559--15389592 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15389549 GGAGATTGTT
* *
15389559 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
15389575 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
15389591 AA
1 AA
15389593 TACAAATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:15391472 original size:10 final size:9
Alignment explanation
Indices: 15391453--15391525 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
15391443 GTTGGATTCT
15391453 AAAAATTAA
1 AAAAATTAA
15391462 AAAAATATAA
1 AAAAAT-TAA
*
15391472 AAAAATT-C
1 AAAAATTAA
*
15391480 AAAACTTAA
1 AAAAATTAA
*
15391489 TAAAATCTATA
1 AAAAAT-TA-A
*
15391500 AAGAA-TAA
1 AAAAATTAA
15391508 AAAATATTAA
1 AAAA-ATTAA
15391518 AAAAATTA
1 AAAAATTA
15391526 CTTAAAATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
8 10 0.20
9 18 0.36
10 18 0.36
11 4 0.08
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (9 bp):
AAAAATTAA
Found at i:15395098 original size:28 final size:26
Alignment explanation
Indices: 15395073--15395150 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 26
15395063 CATATTTTAA
15395073 ATAATACATAAAATATGTGAGATTTTTT
1 ATAATACATAAAATATGTGAGA--TTTT
15395101 ATAATACATAAAATATGTGAGATTTT
1 ATAATACATAAAATATGTGAGATTTT
*
15395127 -T-ATACATAAAATATGTGGGATTTT
1 ATAATACATAAAATATGTGAGATTTT
15395151 TTCTTTAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
24 22 0.45
25 1 0.02
26 4 0.08
28 22 0.45
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (26 bp):
ATAATACATAAAATATGTGAGATTTT
Found at i:15399624 original size:15 final size:15
Alignment explanation
Indices: 15399601--15399631 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15399591 AAGGTTATAA
*
15399601 AAATCATATAAATAT
1 AAATAATATAAATAT
15399616 AAATAATATAAATAT
1 AAATAATATAAATAT
15399631 A
1 A
15399632 CTATAACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAATATAAATAT
Found at i:15400322 original size:24 final size:23
Alignment explanation
Indices: 15400286--15400330 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
15400276 TAAAAGACAA
*
15400286 AAATATATAAATTTCAGTTAATTG
1 AAATATATAAATTCCA-TTAATTG
* *
15400310 AAATATTTCAATTCCATTAAT
1 AAATATATAAATTCCATTAAT
15400331 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATATATAAATTCCATTAATTG
Found at i:15404079 original size:15 final size:15
Alignment explanation
Indices: 15404055--15404084 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15404045 AAAAATTAGA
15404055 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
15404070 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
15404085 ATTTAAGAAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:15404098 original size:105 final size:96
Alignment explanation
Indices: 15403875--15404121 Score: 279
Period size: 96 Copynumber: 2.5 Consensus size: 96
15403865 GATTTTTAAA
** *
15403875 TTTTAGGGTTTTAAGGAAAAAAAT-AAATAAATTAGGGTTT-AGTGTTTGTTAATTAAATTAATT
1 TTTTAGGGTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAAG-GTTACTTAAGTAAATTAATT
*
15403938 ACTAATTTTAAAAAATTAGATTATAGTTTAGTG
64 ACTAATTTTAAAAAATTAGATTATAGTTTAGGG
* *
15403971 -TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
1 TTTTA-GGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTA
15404035 -TAAATTTTAAAAAAATTAGATTAGGATTTTAGGGTTTAGGG
65 CT-AATTTT-AAAAAATTAGATT---A---TA--GTTTAGGG
15404076 TTTTAGGGTATTTAA-GAAAAAATCAAATAAATTAGGGTTTAAGGTT
1 TTTTAGGGT-TTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTT
15404122 TAGGGTAACT
Statistics
Matches: 129, Mismatches: 7, Indels: 21
0.82 0.04 0.13
Matches are distributed among these distances:
95 12 0.09
96 49 0.38
97 15 0.12
100 1 0.01
103 2 0.02
105 41 0.32
106 9 0.07
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (96 bp):
TTTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTAC
TAATTTTAAAAAATTAGATTATAGTTTAGGG
Found at i:15404641 original size:125 final size:126
Alignment explanation
Indices: 15404166--15404689 Score: 788
Period size: 126 Copynumber: 4.2 Consensus size: 126
15404156 AAAAGCTTCT
*
15404166 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
*
15404231 ATAGTGTCAAAAACGCTTCAAGCATGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
15404292 ACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGACATGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
*
15404357 ATAGTG-CAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTC-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
15404418 ACGTGGACGCTCTTTTGCTACAGTAGTCTTTGAAAAAATAATTTTGAGAAGACGAGTCTGTACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
* * * *
15404483 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAGGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
15404544 ACGTGGATGCTCTTTTGTTACAGTGGTCTCTG-AAAAATAATTTTAAGAAGACGTGT-T-TGCAT
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGC--
*
15404606 AAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
64 AAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
15404669 ACGTGGACGCTATTTTGCTAC
1 ACGTGGACGCTCTTTTGCTAC
15404690 CATGGTTTTT
Statistics
Matches: 361, Mismatches: 31, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
123 2 0.01
124 3 0.01
125 98 0.27
126 257 0.71
127 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:15407782 original size:55 final size:55
Alignment explanation
Indices: 15407723--15408018 Score: 203
Period size: 55 Copynumber: 5.2 Consensus size: 55
15407713 TACATGAAAT
15407723 AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
1 AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
* * * * *
15407778 AATATAAAAGTA---AATTATAATTACTTTATTTAAAACAACCTTTT-ATATTATCACATGAAA
1 AATATAAAAATATTCAA-AAT-ATTGCTTTATTTAAAATAA--TTTTCAT-TT-T---ATTAAA
** * *
15407838 TAATATAAATGTATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAAA
1 -AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
* * * * *
15407894 AATATAAAAGTAAATT--ACA-ATTACTTTATTTAAAACAACCTTTT-ATCTAATTACATGAAA
1 AATATAAAA--ATATTCAAAATATTGCTTTATTTAAAATAA--TTTTCAT-T--TT--ATTAAA
* * *
15407954 TAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAA
1 -AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
15408010 AATATAAAA
1 AATATAAAA
15408019 GTAAATTACA
Statistics
Matches: 184, Mismatches: 29, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
52 2 0.01
53 2 0.01
54 32 0.17
55 34 0.18
56 21 0.11
57 4 0.02
58 4 0.02
59 5 0.03
60 20 0.11
61 26 0.14
62 30 0.16
63 2 0.01
64 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (55 bp):
AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
Found at i:15407872 original size:62 final size:60
Alignment explanation
Indices: 15407708--15408093 Score: 207
Period size: 54 Copynumber: 6.6 Consensus size: 60
15407698 TTATTTATAT
* * * *
15407708 TTTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAA--TTTTCA
1 TTTA-TACATGAAATAATATAAAAGTATTCAAAATGTTGCCTTATTTAAAACAACCTTTT-A
* * * *
15407768 TTT-T--ATTAAA-AATATAAAAGTAAATT-ATAA--TTACTTTATTTAAAACAACCTTTTA
1 TTTATACATGAAATAATATAAAAGT--ATTCAAAATGTTGCCTTATTTAAAACAACCTTTTA
* *
15407823 TATTATCACATGAAATAATATAAATGTATTCAAAATGTTGCCTTATTTAAAATAA--TTTTCA
1 T-TTAT-ACATGAAATAATATAAAAGTATTCAAAATGTTGCCTTATTTAAAACAACCTTTT-A
* * * *
15407884 TTT-T--ATTAAA-AATATAAAAGTAAATT-ACAA--TTACTTTATTTAAAACAACCTTTTA
1 TTTATACATGAAATAATATAAAAGT--ATTCAAAATGTTGCCTTATTTAAAACAACCTTTTA
* * * *
15407939 TCTAATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAA--TTTCCA
1 T-TTA-TACATGAAATAATATAAAAGTATTCAAAATGTTGCCTTATTTAAAACAACCTTT-TA
* * * * *
15408000 TTT-T--ATTAAA-AATATAAAAGTAAATT-ACAA--TTACTTTATTTAAAACAATCTTTTA
1 TTTATACATGAAATAATATAAAAGT--ATTCAAAATGTTGCCTTATTTAAAACAACCTTTTA
*
15408055 TCTAATTACATGAAATAATATAAAAAG-ATTCAAAATGTT
1 T-TTA-TACATGAAATAATAT-AAAAGTATTCAAAATGTT
15408094 TGTACAAATA
Statistics
Matches: 248, Mismatches: 36, Indels: 82
0.68 0.10 0.22
Matches are distributed among these distances:
54 46 0.19
55 36 0.15
56 39 0.16
57 10 0.04
58 4 0.02
59 10 0.04
60 37 0.15
61 29 0.12
62 37 0.15
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (60 bp):
TTTATACATGAAATAATATAAAAGTATTCAAAATGTTGCCTTATTTAAAACAACCTTTTA
Found at i:15407883 original size:116 final size:116
Alignment explanation
Indices: 15407711--15408093 Score: 667
Period size: 116 Copynumber: 3.3 Consensus size: 116
15407701 TTTATATTTT
* *
15407711 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
* * *
15407776 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* **
15407827 ATCACATGAAATAATATAAATGTATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
15407892 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
15407943 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
*
15408008 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAATCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
15408059 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
15408094 TGTACAAATA
Statistics
Matches: 253, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 253 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:15410271 original size:15 final size:15
Alignment explanation
Indices: 15410251--15410281 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15410241 TTTTTATTTT
*
15410251 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
15410266 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
15410281 A
1 A
15410282 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:15410324 original size:11 final size:11
Alignment explanation
Indices: 15410308--15410359 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
15410298 TAACAAGAGT
*
15410308 TTTGAGAGGAA
1 TTTGAGAGAAA
15410319 TTTGAGAGAAA
1 TTTGAGAGAAA
15410330 TTT--GAGAAA
1 TTTGAGAGAAA
15410339 TTTGAGAGAAA
1 TTTGAGAGAAA
15410350 TTTGAGAGAA
1 TTTGAGAGAA
15410360 TATTGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
9 9 0.24
11 29 0.76
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:15410338 original size:9 final size:9
Alignment explanation
Indices: 15410324--15410371 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
15410314 AGGAATTTGA
15410324 GAGAAATTT
1 GAGAAATTT
15410333 GAGAAATTT
1 GAGAAATTT
15410342 GAGAGAAATTT
1 --GAGAAATTT
15410353 GAGAGAATATT
1 GAGA-AAT-TT
*
15410364 GAAAAATT
1 GAGAAATT
15410372 GAAGATTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 14 0.41
10 6 0.18
11 14 0.41
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (9 bp):
GAGAAATTT
Found at i:15410365 original size:11 final size:11
Alignment explanation
Indices: 15410309--15410365 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
15410299 AACAAGAGTT
15410309 TTGAGAGGAAT-
1 TTGAGA-GAATA
15410320 TTGAGAGAA-A
1 TTGAGAGAATA
15410330 TTTGAGA-AAT-
1 -TTGAGAGAATA
15410340 TTGAGAGAA-A
1 TTGAGAGAATA
15410350 TTTGAGAGAATA
1 -TTGAGAGAATA
15410362 TTGA
1 TTGA
15410366 AAAATTGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 6 0.15
10 7 0.18
11 25 0.64
12 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (11 bp):
TTGAGAGAATA
Found at i:15410371 original size:20 final size:21
Alignment explanation
Indices: 15410308--15410365 Score: 91
Period size: 20 Copynumber: 2.7 Consensus size: 21
15410298 TAACAAGAGT
15410308 TTTGAGAGGAATTTGAGAGAAA
1 TTTGAGA-GAATTTGAGAGAAA
15410330 TTTGAGA-AATTTGAGAGAAA
1 TTTGAGAGAATTTGAGAGAAA
15410350 TTTGAGAGAATATTGA
1 TTTGAGAGAAT-TTGA
15410366 AAAATTGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 20 0.59
21 3 0.09
22 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (21 bp):
TTTGAGAGAATTTGAGAGAAA
Found at i:15410371 original size:31 final size:31
Alignment explanation
Indices: 15410308--15410371 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
15410298 TAACAAGAGT
* *
15410308 TTTGAGAGGAATTTGAGAGAAATTTGAGAAA
1 TTTGAGAGAAATTTGAGAGAAATTTGAAAAA
15410339 TTTGAGAGAAATTTGAGAG-AATATTGAAAAA
1 TTTGAGAGAAATTTGAGAGAAAT-TTGAAAAA
15410370 TT
1 TT
15410372 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTGAGAGAAATTTGAAAAA
Found at i:15412105 original size:40 final size:40
Alignment explanation
Indices: 15412050--15412130 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
15412040 GAAGCCAGAG
15412050 AAAACCTCCCATGTTTCATCCT-TCGAGAAAGAATTAGCCC
1 AAAACCTCCCATGTTTCATCCTCT-GAGAAAGAATTAGCCC
15412090 AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCC
1 AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCC
15412130 A
1 A
15412131 CTCTACGCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (40 bp):
AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCC
Found at i:15412258 original size:96 final size:95
Alignment explanation
Indices: 15412090--15412284 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 95
15412080 GAATTAGCCC
* * * *
15412090 AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCCACTCTACGCGAACCTCAGTGACTTC
1 AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCCACTCCACGCAAACCTCAGTCACTAC
* * *
15412155 ATTATGACATCTCTTATAAATATGTTTATCT
66 ATGATGACATCTCTT-TAAATACGCTTATCT
* *
15412186 AAAACCTCCCATGTTTCATCCTCTGGGAAAGAATTAGCCCACTCCACGTAAACCTCAGTCACTAC
1 AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCCACTCCACGCAAACCTCAGTCACTAC
*
15412251 ATGATGACCTCTCTTTAAATACGCTTATCT
66 ATGATGACATCTCTTTAAATACGCTTATCT
15412281 AAAA
1 AAAA
15412285 TTCGAGCTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 17 0.19
96 72 0.81
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (95 bp):
AAAACCTCCCATGTTTCATCCTCTGAGAAAGAATTAGCCCACTCCACGCAAACCTCAGTCACTAC
ATGATGACATCTCTTTAAATACGCTTATCT
Found at i:15436173 original size:43 final size:43
Alignment explanation
Indices: 15436122--15436207 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
15436112 TATGGTAAGG
** * *
15436122 GAGGCTTTTTGTAAGGAATAGTGGAAAAAACGTCAATAATATC
1 GAGGCTTTTCATAAGAAATAGTGGAAAAAACATCAATAATATC
*
15436165 GAGGCTTTTCATAAGAAATAGTGGAAAAAGCATCAATAATATC
1 GAGGCTTTTCATAAGAAATAGTGGAAAAAACATCAATAATATC
15436208 TCTGATTGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (43 bp):
GAGGCTTTTCATAAGAAATAGTGGAAAAAACATCAATAATATC
Found at i:15437945 original size:31 final size:32
Alignment explanation
Indices: 15437899--15437962 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
15437889 AGAAATATTC
*
15437899 CTCTCTAAAAAAAATGAAAAGCAAAGTTGGAG
1 CTCTCTAAAAAAAATGAAAAGCAAAGTTAGAG
* *
15437931 CTCTC-AAAATAAATGAAAAGCAATGTTAGAG
1 CTCTCTAAAAAAAATGAAAAGCAAAGTTAGAG
15437962 C
1 C
15437963 GATGATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (32 bp):
CTCTCTAAAAAAAATGAAAAGCAAAGTTAGAG
Found at i:15443220 original size:25 final size:25
Alignment explanation
Indices: 15443191--15443242 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
15443181 AAGAATAATT
15443191 TGAATATT-TGATATTGCCTAATAAA
1 TGAAT-TTCTGATATTGCCTAATAAA
* *
15443216 TGAATTTCTGATATTGCTTAGTAAA
1 TGAATTTCTGATATTGCCTAATAAA
15443241 TG
1 TG
15443243 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (25 bp):
TGAATTTCTGATATTGCCTAATAAA
Found at i:15444759 original size:17 final size:17
Alignment explanation
Indices: 15444736--15444799 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 17
15444726 AGCCAAGGAA
*
15444736 AAAGAAAAAGAAAAAGG
1 AAAGAAAAAGAAAAAAG
*
15444753 GAAG-AAAAGAAAAAAG
1 AAAGAAAAAGAAAAAAG
* ***
15444769 AAAGAAAATGAGGGAA-
1 AAAGAAAAAGAAAAAAG
15444785 AAAGAAAAAGAAAAA
1 AAAGAAAAAGAAAAA
15444800 GAGGTACAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
16 25 0.71
17 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAAG
Found at i:15444798 original size:5 final size:6
Alignment explanation
Indices: 15444733--15444801 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
15444723 GGCAGCCAAG
** *
15444733 GAAAAA GAAAAA GAAAAA G-GGAA G-AAAA GAAAAA -AGAAA GAAAATGA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA--A
15444780 GGGAAAAA GAAAAA GAAAAA GA
1 --GAAAAA GAAAAA GAAAAA GA
15444802 GGTACAAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 10 0.20
6 34 0.67
8 2 0.04
10 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (6 bp):
GAAAAA
Found at i:15444811 original size:22 final size:22
Alignment explanation
Indices: 15444732--15444803 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 22
15444722 TGGCAGCCAA
15444732 GGAAAAAGAAAAAGAAAAAG-G
1 GGAAAAAGAAAAAGAAAAAGAG
*
15444753 GAAGAAAAGAAAAAAGAAAGAAAATGAG
1 GGA-AAAAG-AAAAAG--A-AAAA-GAG
15444781 GGAAAAAGAAAAAGAAAAAGAG
1 GGAAAAAGAAAAAGAAAAAGAG
15444803 G
1 G
15444804 TACAAAGAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 10 0.24
24 1 0.02
25 1 0.02
26 10 0.24
27 6 0.14
28 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (22 bp):
GGAAAAAGAAAAAGAAAAAGAG
Found at i:15452300 original size:11 final size:11
Alignment explanation
Indices: 15452284--15452310 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15452274 TAGAAATTAG
15452284 TTTGTGAAACT
1 TTTGTGAAACT
15452295 TTTGTGAAACT
1 TTTGTGAAACT
15452306 TTTGT
1 TTTGT
15452311 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:15453843 original size:93 final size:92
Alignment explanation
Indices: 15453711--15453905 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
15453701 TTGATTTTAG
* *
15453711 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
15453775 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
15453803 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
15453868 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
15453896 CAAATTCATA
1 TAAATTCATA
15453906 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:15453953 original size:48 final size:52
Alignment explanation
Indices: 15453883--15453981 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
15453873 AATAATTATT
15453883 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
15453931 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
15453982 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:15453963 original size:17 final size:17
Alignment explanation
Indices: 15453938--15453971 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15453928 ATAATTTTAA
*
15453938 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
15453955 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
15453972 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:15453988 original size:17 final size:16
Alignment explanation
Indices: 15453943--15453990 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
15453933 TTTAAATTTT
15453943 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
15453960 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
15453974 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
15453991 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:15454059 original size:18 final size:17
Alignment explanation
Indices: 15454031--15454065 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15454021 ATTATTAAGA
*
15454031 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15454048 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15454066 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15454065 original size:16 final size:17
Alignment explanation
Indices: 15454031--15454072 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15454021 ATTATTAAGA
15454031 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
15454048 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
15454064 ATTTATAAT
1 ATTT-TAAT
15454073 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:15454101 original size:143 final size:143
Alignment explanation
Indices: 15454011--15454289 Score: 380
Period size: 143 Copynumber: 1.9 Consensus size: 143
15454001 AAATTCATAT
* *
15454011 AAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAA
* * *
15454075 TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAAAATA
66 TTATGTTTAAATATGATTAAATTATTTA-TATTGATAATAATATTATTAAAATTCAAATAAAATA
15454140 ATTTACCAAAACAA
130 ATTTACCAAAACAA
**** *
15454154 ATTTCTGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAA
* *
15454219 TTATGTTTAAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAA
66 TTATGTTTAAATATGATTAAATTATTTA-TATTGATAAT-AAT-A--TTATTAAAATTCAAATAA
15454284 CAATAA
126 -AATAA
15454290 CAATAATCAT
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
143 50 0.42
144 44 0.37
145 3 0.03
148 18 0.15
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (143 bp):
AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAA
TTATGTTTAAATATGATTAAATTATTTATATTGATAATAATATTATTAAAATTCAAATAAAATAA
TTTACCAAAACAA
Found at i:15454131 original size:77 final size:77
Alignment explanation
Indices: 15454050--15454288 Score: 178
Period size: 77 Copynumber: 3.2 Consensus size: 77
15454040 AATTATATAT
*
15454050 TTTAATTAAAATATATTTATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTA
1 TTTAAATAAAATATATTTATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTA
15454115 ATCTTATTAAAA
66 ATCTTATTAAAA
* * ** * * * ** *
15454127 TTTAAATAAAATA-ATTTACCAA-AA-CA-AATT---TCTG-CT-AATTATTAAGAATT-TTATT
1 TTTAAATAAAATATATTTA-TAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATT
* * *
15454182 AA-ATTA-TATAT
65 AATCTTATTAAAA
* * *
15454193 TTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTATTTTTGATAAT
1 TTTAAATAAAATATATT-TATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGAT-AT
15454258 AAATAATCTTATTAAAA
64 ---TAATCTTATTAAAA
15454275 TTTAAATAACAATA
1 TTTAAATAA-AATA
15454289 ACAATAATCA
Statistics
Matches: 112, Mismatches: 31, Indels: 32
0.64 0.18 0.18
Matches are distributed among these distances:
66 15 0.13
67 8 0.07
68 9 0.08
69 12 0.11
70 3 0.03
71 3 0.03
73 3 0.03
74 3 0.03
75 11 0.10
76 8 0.07
77 16 0.14
80 3 0.03
81 3 0.03
82 11 0.10
83 4 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (77 bp):
TTTAAATAAAATATATTTATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTA
ATCTTATTAAAA
Found at i:15454202 original size:18 final size:17
Alignment explanation
Indices: 15454174--15454208 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15454164 ATTATTAAGA
*
15454174 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15454191 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15454209 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15454419 original size:44 final size:45
Alignment explanation
Indices: 15454370--15454464 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
15454360 TTACACCTCT
* *
15454370 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
15454414 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
15454459 ATTACA
1 ATTACA
15454465 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:15454464 original size:16 final size:16
Alignment explanation
Indices: 15454443--15454475 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15454433 TTGATTTGCT
*
15454443 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
15454459 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
15454475 A
1 A
15454476 ACCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15459623 original size:19 final size:17
Alignment explanation
Indices: 15459599--15459636 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
15459589 AATTAATTAT
15459599 GAAATTAAACATAATATAA
1 GAAATTAAA-ATAATA-AA
15459618 GAAATTAAAATAATAAA
1 GAAATTAAAATAATAAA
15459635 GA
1 GA
15459637 TAATATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (17 bp):
GAAATTAAAATAATAAA
Found at i:15462981 original size:2 final size:2
Alignment explanation
Indices: 15462974--15463003 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15462964 ATCGTAAAAC
15462974 TA TA TA 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
15463004 GGATTGCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15463472 original size:19 final size:20
Alignment explanation
Indices: 15463450--15463496 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
15463440 AATATTATAT
15463450 TATATTTTAAATATT-TGTA
1 TATATTTTAAATATTCTGTA
* *
15463469 TATATTAT-AATATTCTTTA
1 TATATTTTAAATATTCTGTA
*
15463488 AATATTTTA
1 TATATTTTA
15463497 CCTTTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TATATTTTAAATATTCTGTA
Found at i:15467497 original size:24 final size:24
Alignment explanation
Indices: 15467452--15467498 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15467442 ATATTAAAAG
*
15467452 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
15467476 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
15467499 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:15468064 original size:39 final size:39
Alignment explanation
Indices: 15468001--15468079 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
15467991 AAAAAAGCTG
* * *
15468001 ATCCCACTCCCCTATGCTATTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
15468040 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
15468079 A
1 A
15468080 AACCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:15468123 original size:24 final size:22
Alignment explanation
Indices: 15468096--15468139 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
15468086 ATTTTATTTC
15468096 TCTTTTATAATATAAAAAAAACCT
1 TCTTTTATAA-A-AAAAAAAACCT
*
15468120 TCTTTTTTAAAAAAAAAAAC
1 TCTTTTATAAAAAAAAAAAC
15468140 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 1 0.05
24 9 0.47
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTTTTATAAAAAAAAAAACCT
Found at i:15468598 original size:13 final size:13
Alignment explanation
Indices: 15468580--15468604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15468570 CTTTGAAGCT
15468580 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
15468593 TTTTTTTTCTTT
1 TTTTTTTTCTTT
15468605 TTTCAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:15469579 original size:44 final size:44
Alignment explanation
Indices: 15469513--15470151 Score: 745
Period size: 44 Copynumber: 14.5 Consensus size: 44
15469503 AGGAACACCG
* * * **
15469513 ATCTGTTATTTTCAATCTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
15469557 ATCTGTCATCTTCGATTTGCTCTCCACCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
15469601 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
15469645 ATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
15469689 ATCTGCTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * * ** *
15469733 ATATATTATTTTTGACCTGCTCTCTACAGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * **
15469777 ATCTGTTATCTTCGA-CATGCTCTTCACCGCTGTAGAGACGCCAA
1 ATCTGTTATCTTCGATC-TGCTCTCCGCCGCTACAGAGACGCCAA
* *
15469821 ATCTGCTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** *
15469865 ATCTGTTATCTTCGACCTGCTCTCTACTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
**
15469909 ATCTGTTATCTTCGATCTGCTCTCCATCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
15469953 ATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
15469997 ATCTGTTATCTTCGATCTGCTCACCGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
15470041 ATC----ATCTTGGATTTGCT-T-CACCG-TAAACACGTGAAAGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCT--ACA-GAG-ACGCCAA
** * *
15470082 ATCAACTATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATC-TGT-TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
15470128 ATCTGTTATCTTCGATTTGCTCTC
1 ATCTGTTATCTTCGATCTGCTCTC
15470152 NNNNNNNNNN
Statistics
Matches: 507, Mismatches: 73, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 3 0.01
40 14 0.03
41 9 0.02
43 1 0.00
44 443 0.87
45 2 0.00
46 9 0.02
47 13 0.03
48 4 0.01
49 4 0.01
50 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:15480473 original size:24 final size:24
Alignment explanation
Indices: 15480428--15480474 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15480418 ATATTAAAAG
*
15480428 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
15480452 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
15480475 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:15481020 original size:39 final size:39
Alignment explanation
Indices: 15480977--15481055 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
15480967 AAAAAAGCTG
* *
15480977 ATCCCACTCCCCCATGCTATTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
15481016 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
15481055 A
1 A
15481056 AACAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.43
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:15482663 original size:22 final size:23
Alignment explanation
Indices: 15482628--15482673 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
15482618 CCCGAGCCCA
15482628 AATAAAAAAATCCAA-AAATAAT
1 AATAAAAAAATCCAATAAATAAT
* * *
15482650 AATAAAACAGTCCAATTAATAAT
1 AATAAAAAAATCCAATAAATAAT
15482673 A
1 A
15482674 CATGGCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (23 bp):
AATAAAAAAATCCAATAAATAAT
Found at i:15483957 original size:26 final size:26
Alignment explanation
Indices: 15483927--15483978 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15483917 ATTATGTATA
*
15483927 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
15483953 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
15483979 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:15484845 original size:206 final size:206
Alignment explanation
Indices: 15484491--15484931 Score: 873
Period size: 206 Copynumber: 2.1 Consensus size: 206
15484481 TCGAGACAAT
15484491 CGTGCCCTAACTTACTGGGTTTCAATTTTTCTCGTTTAACCTAAATAACGGGATACTCTTTTAAA
1 CGTGCCCTAACTTACTGGGTTTCAATTTTTCTCGTTTAACCTAAATAACGGGATACTCTTTTAAA
15484556 ACACAATACGAGTTTTGAAGAATACTTATTCTCGGAGATACGAGGTGTTGTGCCCTAACTTACCG
66 ACACAATACGAGTTTTGAAGAATACTTATTCTCGGAGATACGAGGTGTTGTGCCCTAACTTACCG
15484621 GGTATGGCATTTTGTTACCTCGAAATAGGATTTTTGAAAGTAAAGGCAATATTCGGTGTTCGGGA
131 GGTATGGCATTTTGTTACCTCGAAATAGGATTTTTGAAAGTAAAGGCAATATTCGGTGTTCGGGA
15484686 ATTTGGGGAAA
196 ATTTGGGGAAA
15484697 CGTGCCCTAACTTACTGGGTTTCAATTTTTCTCGTTTAACCTAAATAACGGGATACTCTTTTAAA
1 CGTGCCCTAACTTACTGGGTTTCAATTTTTCTCGTTTAACCTAAATAACGGGATACTCTTTTAAA
15484762 ACACAATACGAGTTTTGAAGAATACTTATTCTCGGAGATACGAGGTGTTGTGCCCTAACTTACCG
66 ACACAATACGAGTTTTGAAGAATACTTATTCTCGGAGATACGAGGTGTTGTGCCCTAACTTACCG
15484827 GGTATGGCATTTTGTTACCTCGAAATAGGATTTTTGAAAGTAAAGGCAATATTCGGTGTTCGGGA
131 GGTATGGCATTTTGTTACCTCGAAATAGGATTTTTGAAAGTAAAGGCAATATTCGGTGTTCGGGA
15484892 ATTTGGGGAAA
196 ATTTGGGGAAA
*
15484903 CGTGCCCTAACTTACTGGGTTTCGATTTT
1 CGTGCCCTAACTTACTGGGTTTCAATTTT
15484932 CCTCATTCAC
Statistics
Matches: 234, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 234 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (206 bp):
CGTGCCCTAACTTACTGGGTTTCAATTTTTCTCGTTTAACCTAAATAACGGGATACTCTTTTAAA
ACACAATACGAGTTTTGAAGAATACTTATTCTCGGAGATACGAGGTGTTGTGCCCTAACTTACCG
GGTATGGCATTTTGTTACCTCGAAATAGGATTTTTGAAAGTAAAGGCAATATTCGGTGTTCGGGA
ATTTGGGGAAA
Found at i:15496164 original size:45 final size:45
Alignment explanation
Indices: 15496115--15496437 Score: 137
Period size: 45 Copynumber: 7.2 Consensus size: 45
15496105 TTCGCTGAGA
15496115 TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
* * * * *
15496160 TTGCAGTGGAACAGATTAAAGCTAAATTA-CAGATCTTATATCTCTGAAG
1 TTGCAGTGGAGCAGATCAAA--T--A-TAGCAAATCTTATTTCCCTGAAG
* * * * *
15496209 TTGCAGTAGAGTAGATC-AA-A-A-CAGATCTTGTCTCCCTGAAG
1 TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
* ** * * ** * **
15496250 TTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTT-CCTGAAG
1 TTGCAGTGGAGCAGATCAAATATAGCAAATCTT-ATTTCCCTGAAG
* * ** ** * * ** *
15496295 TTGTAGTGAAGCAGATTTAAGCTA-C-CATCCTAACTCCCTAAAG
1 TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
* * * * * * *
15496338 TTGTAGTGGAGTAGGCTGAAGAT-T-GTAGATCTTGTTTCCCTG-AG
1 TTGCAGTGGAGCA-GATCAA-ATATAGCAAATCTTATTTCCCTGAAG
*
15496382 ATTGCAGTGGAGCAGATCAAATATAGCAACTCTTATTTCCCTGAAG
1 -TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
15496428 TTGCAGTGGA
1 TTGCAGTGGA
15496438 ATAGATTGAA
Statistics
Matches: 202, Mismatches: 57, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
41 32 0.16
42 3 0.01
43 25 0.12
44 11 0.05
45 92 0.46
46 3 0.01
47 1 0.00
48 2 0.01
49 31 0.15
50 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAG
Found at i:15496237 original size:90 final size:89
Alignment explanation
Indices: 15496115--15496538 Score: 303
Period size: 90 Copynumber: 4.7 Consensus size: 89
15496105 TTCGCTGAGA
* * * * * *
15496115 TTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
1 TTGCAGTAGAGCAGATC-AA-A-A-CAGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGAA
15496180 GCTAAATTACAGATCTTATATCTCTGAAG
62 GCTAAATTACAGATCTTAT-TCTCTGAAG
* * *
15496209 TTGCAGTAGAGTAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAG--A
1 TTGCAGTAGAGCAGATCAAAACAGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGAAGCTA
*** *
15496272 CGGTA-A-ATCTTGCCTTC-CTGAAG
66 AATTACAGATCTT--ATTCTCTGAAG
* ** * * * * * * **
15496295 TTGTAGT-GAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
1 TTGCAGTAG-AGCAGATCAAAAC-A-GATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGAAG
** * *
15496359 ----ATTGTAGATCTTGTTTCCCTG-AG
63 CTAAATTACAGATCTT-ATTCTCTGAAG
* * * *
15496382 ATTGCAGTGGAGCAGATCAAATATAGCAACTCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGA
1 -TTGCAGTAGAGCAGATCAAA-ACAG--A-TCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGA
15496447 AGCTAAATTACAGATCTTATCTCTCTGAAG
61 AGCTAAATTACAGATCTTAT-TCTCTGAAG
* * *
15496477 TTACAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAG
1 TTGCAGTAGAGCAGATCAAAACAGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGAAG
15496539 ACGATAAATC
Statistics
Matches: 253, Mismatches: 57, Indels: 44
0.71 0.16 0.12
Matches are distributed among these distances:
85 1 0.00
86 27 0.11
87 10 0.04
88 58 0.23
89 2 0.01
90 96 0.38
91 2 0.01
92 1 0.00
93 6 0.02
94 48 0.19
95 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (89 bp):
TTGCAGTAGAGCAGATCAAAACAGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGAAGCTA
AATTACAGATCTTATTCTCTGAAG
Found at i:15496248 original size:41 final size:41
Alignment explanation
Indices: 15496188--15496266 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
15496178 AAGCTAAATT
* *
15496188 ACAGATCTTATATCTCTGAAGTTGCAGTAGAGTAGATCAAA
1 ACAGATCTTATATCCCTGAAGTTGCAGTAGAATAGATCAAA
* * * *
15496229 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATC
1 ACAGATCTTATATCCCTGAAGTTGCAGTAGAATAGATC
15496267 GAAGACGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
ACAGATCTTATATCCCTGAAGTTGCAGTAGAATAGATCAAA
Found at i:15496280 original size:135 final size:135
Alignment explanation
Indices: 15496153--15496584 Score: 416
Period size: 135 Copynumber: 3.2 Consensus size: 135
15496143 ATCTTATTTC
15496153 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTGCAGTAG
1 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTGCAGTAG
15496218 AGTAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTT
66 AGTAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTT
*
15496283 GCCTT
131 GACTT
* * * * * * *
15496288 CCTGAAGTTGTAGT-GAAGCAGATTTAAGC-----TAC-CATCCTA-ACTCCCTAAAGTTGTAGT
1 CCTGAAGTTGCAGTGGAA-CAGATTAAAGCTAAATTACAGATCTTATA-TCTCTGAAGTTGCAGT
* * * ** * * ** * * ** *
15496345 GGAGTAGGCTGAAGATTGTAGATCTTGTTTCCCTG-AGATTGCAGTGGAGCAGATCAAATATAGC
64 AGAGTA-GATCAA-A--ACAGATCTTGTCTCCCTGAAG-TTGTAGTGGAATAGATCGAAGACGGT
* *
15496409 AACTCTT-ATTT
124 AAATCTTGACTT
* * * *
15496420 CCCTGAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTACAGTA
1 -CCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTGCAGTA
* *
15496485 GAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGATAAATCT
65 GAGTAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCT
*
15496550 TGCCTT
130 TGACTT
* * *
15496556 CCTAAAGTTGCAGTGAAACAGATTCAAGC
1 CCTGAAGTTGCAGTGGAACAGATTAAAGC
15496585 CACCAAGCCT
Statistics
Matches: 222, Mismatches: 57, Indels: 36
0.70 0.18 0.11
Matches are distributed among these distances:
128 1 0.00
129 23 0.10
130 7 0.03
131 1 0.00
132 4 0.02
133 61 0.27
134 6 0.03
135 86 0.39
136 4 0.02
137 1 0.00
138 7 0.03
139 21 0.09
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (135 bp):
CCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTGCAGTAG
AGTAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTT
GACTT
Found at i:15496396 original size:88 final size:88
Alignment explanation
Indices: 15496020--15496402 Score: 242
Period size: 88 Copynumber: 4.3 Consensus size: 88
15496010 ATCTAGGCTT
* * ** * *
15496020 CCTGATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGCTACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGG
* *
15496085 CTGAAGAGTGTAGAGCTTGTTTC
66 CTGAAGATTGTAGATCTTGTTTC
* ** * * * * *
15496108 GCTG-AGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAAC
1 CCTGAAG-TTGCAGTGGAGCAGATCAAAGCTA-C-CATCCTATCTCCCTAAAGTTGTAGTGG---
* ** * *
15496172 AGATTAAAGCT-AA-ATTACAGATCTTATATC
60 AG--T-AGGCTGAAGATTGTAGATCTTGTTTC
* * * * * * * * *
15496202 TCTGAAGTTGCAGTAGAGTAGATCAAAAC-A-GATCTTGTCTCCCTGAAGTTGTAGTGGAATA-G
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGCTACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGG
* ** * *
15496264 ATCGAAGACGGTAAATCTTGCCTT-
66 CT-GAAGATTGTAGATCTTG-TTTC
* * ** *
15496288 CCTGAAGTTGTAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGCTACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGG
15496353 CTGAAGATTGTAGATCTTGTTTC
66 CTGAAGATTGTAGATCTTGTTTC
15496376 CCTG-AGATTGCAGTGGAGCAGATCAAA
1 CCTGAAG-TTGCAGTGGAGCAGATCAAA
15496403 TATAGCAACT
Statistics
Matches: 213, Mismatches: 63, Indels: 38
0.68 0.20 0.12
Matches are distributed among these distances:
83 2 0.01
84 1 0.00
85 3 0.01
86 28 0.13
87 8 0.04
88 80 0.38
89 3 0.01
90 44 0.21
93 3 0.01
94 32 0.15
95 5 0.02
96 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (88 bp):
CCTGAAGTTGCAGTGGAGCAGATCAAAGCTACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGG
CTGAAGATTGTAGATCTTGTTTC
Found at i:15496425 original size:133 final size:131
Alignment explanation
Indices: 15495963--15496435 Score: 438
Period size: 133 Copynumber: 3.5 Consensus size: 131
15495953 TCAATTCTAC
* * * * *
15495963 AGATCTTGTTTCCCTGAGATTGTAGTGGAGCAGATCGAAGATGGCGAATC-TAGGCTTCCTGATG
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAAGATAGCAAATCTTA--CTTCCTGAAG
* *
15496027 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
64 TTGCAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
15496092 GTGT
129 -TGT
* * * *
15496096 AGAGCTTGTTTCGCTGAGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCTGAAGT
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAAGATAGCAAATCTTACTT-CCTGAAGT
* * * * * * *
15496161 TGCAGTGGAA-CAGATTAAAGCTAAATTACAGATCTTATA-TCTCTGAAGTTGCAGTAGAGTA-G
65 TGCAGT-GAAGCAGATTTAAGC-----TAC-CATCCTA-ACTCCCTAAAGTTGTAGTGGAGTAGG
* * **
15496223 ATCAA-A-AC
122 CTGAAGATGT
* * ** * ** * *
15496231 AGATCTTGTCTCCCTGA-AGTTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGAAG
1 AGATCTTGTTTCCCTGAGA-TTGCAGTGGAGCAGATCAAAGATAGCAAATCTT-ACTTCCTGAAG
*
15496295 TTGTAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
64 TTGCAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
15496360 TTGT
129 -TGT
* * *
15496364 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGCAACTCTTATTTCCCTGAAGT
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAAGATAGCAAATCTTACTT-CCTGAAGT
15496429 TGCAGTG
65 TGCAGTG
15496436 GAATAGATTG
Statistics
Matches: 260, Mismatches: 60, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
128 1 0.00
129 23 0.09
130 7 0.03
131 1 0.00
132 4 0.02
133 120 0.46
134 10 0.04
135 62 0.24
136 2 0.01
137 1 0.00
138 6 0.02
139 23 0.09
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (131 bp):
AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAAGATAGCAAATCTTACTTCCTGAAGTT
GCAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATG
T
Found at i:15496438 original size:268 final size:268
Alignment explanation
Indices: 15495961--15496589 Score: 1017
Period size: 268 Copynumber: 2.3 Consensus size: 268
15495951 GATCAATTCT
* ** * ** * *
15495961 ACAGATCTTGTTTCCCTG-AGATTGTAGTGGAGCAGATCGAAGATGGCGAATCTAGGCTTCCTGA
1 ACAGATCTTGTCTCCCTGAAG-TTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGA
* *
15496025 TGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
65 AGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
*
15496090 GAGTGTAGAGCTTGTTTCGCTGAGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCC
130 GAGTGTAGAGCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCC
*
15496155 TGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAG
195 TGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTACAGTAGAG
*
15496220 TAGATCAAA
260 CAGATCAAA
15496229 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
1 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
* *
15496294 GTTGTAGTGAAGCAGATTTAAGCTACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
66 GTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
* * *
15496359 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGCAACTCTTATTTCCCT
131 AGTGTAGAGCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCT
* * *
15496424 GAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGC
196 GAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTACAGTAGAGC
15496489 AGATCAAA
261 AGATCAAA
* *
15496497 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGATAAATCTTGCCTTCCTAAA
1 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
* *
15496562 GTTGCAGTGAAACAGATTCAAGCCACCA
66 GTTGCAGTGAAGCAGATTTAAGCCACCA
15496590 AGCCTTAATC
Statistics
Matches: 333, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
268 331 0.99
269 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (268 bp):
ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAATAGATCGAAGACGGTAAATCTTGCCTTCCTGAA
GTTGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
AGTGTAGAGCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCAAATATAGCAAATCTTATTTCCCT
GAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATATCTCTGAAGTTACAGTAGAGC
AGATCAAA
Found at i:15496678 original size:89 final size:89
Alignment explanation
Indices: 15496544--15496718 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
15496534 CGAAGACGAT
*
15496544 AAATCTTGCCTTCCTAAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAATCC-CCTAAGC
1 AAATCTTACCTTCCTAAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAA-CCTCCTAAGC
*
15496608 AGTAGGGTAATAGGCTGAAAATTAC
65 AATAGGGTAATAGGCTGAAAATTAC
* * *
15496633 AAATCTTACCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCTCCTAAGTA
1 AAATCTTACCTTCCTAAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAACCTCCTAAGCA
15496698 ATAGGGTAATAGGCTGAAAAT
66 ATAGGGTAATAGGCTGAAAAT
15496719 CACTAGTCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 2 0.03
89 78 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (89 bp):
AAATCTTACCTTCCTAAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAACCTCCTAAGCA
ATAGGGTAATAGGCTGAAAATTAC
Found at i:15496754 original size:89 final size:89
Alignment explanation
Indices: 15496544--15496755 Score: 259
Period size: 89 Copynumber: 2.4 Consensus size: 89
15496534 CGAAGACGAT
* * *
15496544 AAATCTTGCCTTCCT-AAAGTTGCAGTGAAACAGATTCAAGCCACCAAGCCTTAATCCCCTAAGC
1 AAATCTTACCTTCCTGAAA-TTACAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCCCCTAAGC
* *
15496608 AGTAGGGTAATAGGCTGAAAATTAC
65 AATAGGGTAATAGGCTGAAAATCAC
* * *
15496633 AAATCTTACCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAA-CCTCCTAAGT
1 AAATCTTACCTTCCTGAAATTACAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCC-CCTAAGC
15496697 AATAGGGTAATAGGCTGAAAATCAC
65 AATAGGGTAATAGGCTGAAAATCAC
* * * * *
15496722 TAGTCTTATC-TCTCTGAAATTATAGTGGAGCAGA
1 AAATCTTACCTTC-CTGAAATTACAGTGAAGCAGA
15496756 CTGAAGACAA
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
88 4 0.04
89 101 0.94
90 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (89 bp):
AAATCTTACCTTCCTGAAATTACAGTGAAGCAGATTCAAGCCACCAAGCCTTAATCCCCTAAGCA
ATAGGGTAATAGGCTGAAAATCAC
Found at i:15498685 original size:11 final size:11
Alignment explanation
Indices: 15498669--15498717 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
15498659 TTTTTAAAAC
15498669 TATATTATGTA
1 TATATTATGTA
*
15498680 TATATTATATA
1 TATATTATGTA
15498691 TAT-TTAT-TA
1 TATATTATGTA
*
15498700 TATTTTTATGTA
1 TA-TATTATGTA
15498712 TATATT
1 TATATT
15498718 TTTAATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 4 0.12
10 5 0.15
11 20 0.61
12 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (11 bp):
TATATTATGTA
Found at i:15498730 original size:14 final size:14
Alignment explanation
Indices: 15498651--15498750 Score: 59
Period size: 14 Copynumber: 7.2 Consensus size: 14
15498641 GTGTATGTAT
15498651 TATATATATTTTTA
1 TATATATATTTTTA
* *
15498665 -AAACTATATTATGTA
1 TATA-TATATT-TTTA
*
15498680 TATATTATATATATT-
1 TATA-TATAT-TTTTA
15498695 TAT-TATATTTTTA
1 TATATATATTTTTA
*
15498708 TGTATATATTTTTA
1 TATATATATTTTTA
*
15498722 -ATATCATATTATT-
1 TATAT-ATATTTTTA
*
15498735 CATATAT-TTTTTA
1 TATATATATTTTTA
15498748 TAT
1 TAT
15498751 TATGTAAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
12 7 0.11
13 16 0.25
14 27 0.42
15 6 0.09
16 8 0.12
17 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (14 bp):
TATATATATTTTTA
Found at i:15498733 original size:25 final size:25
Alignment explanation
Indices: 15498705--15498785 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
15498695 TATTATATTT
15498705 TTATGTATATATTTTTAATATCATA
1 TTATGTATATATTTTTAATATCATA
15498730 TTAT-TCATATA-TTTT--T-T-ATA
1 TTATGT-ATATATTTTTAATATCATA
* * *
15498750 TTATGTAAATATTTTCAATA-CTACA
1 TTATGTATATATTTTTAATATC-ATA
15498775 TTATGTATATA
1 TTATGTATATA
15498786 GTGTGTGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 11 0.25
21 5 0.11
22 1 0.02
23 1 0.02
24 5 0.11
25 21 0.48
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
TTATGTATATATTTTTAATATCATA
Found at i:15498785 original size:45 final size:47
Alignment explanation
Indices: 15498683--15498785 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 47
15498673 TTATGTATAT
* * * *
15498683 ATTA-TATATATTTATTATATTTTTATGTATATATTTTTAATATCAT
1 ATTATTATATATTTATTATATTATTATGTAAATATTTTCAATATCAC
15498729 ATTATTCATATATTT-TT-TA-TATTATGTAAATATTTTCAATA-CTAC
1 ATTATT-ATATATTTATTATATTATTATGTAAATATTTTCAATATC-AC
15498774 ATTATGTATATA
1 ATTAT-TATATA
15498786 GTGTGTGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
44 1 0.02
45 30 0.61
46 7 0.14
47 3 0.06
48 8 0.16
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (47 bp):
ATTATTATATATTTATTATATTATTATGTAAATATTTTCAATATCAC
Found at i:15498885 original size:26 final size:26
Alignment explanation
Indices: 15498855--15498906 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15498845 ATTATGTATA
*
15498855 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
15498881 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
15498907 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:15504636 original size:17 final size:16
Alignment explanation
Indices: 15504610--15504645 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15504600 TAATCTAATT
15504610 TATTTGATATATTCAAA
1 TATTTGATATATT-AAA
*
15504627 TATTTTATATATTAAA
1 TATTTGATATATTAAA
15504643 TAT
1 TAT
15504646 ATTCAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTTGATATATTAAA
Found at i:15505078 original size:17 final size:17
Alignment explanation
Indices: 15505041--15505079 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15505031 GTGTAGCGTT
15505041 TAAAA-TAAAAATAAAA
1 TAAAACTAAAAATAAAA
* *
15505057 AAAAACTAAAAATAAAG
1 TAAAACTAAAAATAAAA
15505074 TAAAAC
1 TAAAAC
15505080 CGAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (17 bp):
TAAAACTAAAAATAAAA
Found at i:15508249 original size:37 final size:36
Alignment explanation
Indices: 15508203--15508272 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
15508193 ATTCCAAAAA
15508203 TAATATTATTTTAATAGT-TTATTATTAAATTAAATT
1 TAATATTATTTTAATAGTATT-TTATTAAATTAAATT
*
15508239 TAATAATTATTTTAATAGTATTTTATTAATTTAA
1 TAAT-ATTATTTTAATAGTATTTTATTAAATTAA
15508273 TATTAAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 4 0.13
37 25 0.81
38 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTTTATTAAATTAAATT
Found at i:15508382 original size:23 final size:24
Alignment explanation
Indices: 15508349--15508398 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
15508339 TTTTAATAAG
*
15508349 ATTTAATATTAAATTTAATCTAAT
1 ATTTAATATTAAATTAAATCTAAT
* *
15508373 ATTT-ATATTAGATTAAATTTAAT
1 ATTTAATATTAAATTAAATCTAAT
15508396 ATT
1 ATT
15508399 AAAGTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTAATATTAAATTAAATCTAAT
Found at i:15510960 original size:33 final size:33
Alignment explanation
Indices: 15510869--15511078 Score: 199
Period size: 33 Copynumber: 6.4 Consensus size: 33
15510859 TTTTTGATGG
* * * * * *
15510869 ACCTTTCCTTTTCCAGTTGTACACTCGAGGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* * * *
15510902 ACGTTT-ATTTTCGAGTGGTACACACAAAGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* * *
15510934 GCCTTTCCTTTTCAAATGATATACACAAAGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
** * * *
15510967 ACCTAACCTTTCCAAGT-GTACACACAAAGTGT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* * *
15510999 ACATATCCTTTTCAATTGGTATACACAAAGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* *
15511032 ACCTTTCATTTTCTAGTGGTATACACAAAGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
15511065 ACCTTTCCTTTTCA
1 ACCTTTCCTTTTCA
15511079 CATTCGATAG
Statistics
Matches: 140, Mismatches: 35, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
32 49 0.35
33 91 0.65
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (33 bp):
ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
Found at i:15510967 original size:65 final size:64
Alignment explanation
Indices: 15510898--15511078 Score: 202
Period size: 65 Copynumber: 2.8 Consensus size: 64
15510888 TACACTCGAG
* *
15510898 GTATACGTTTATTTTCGAGTGGTACACACAAAGTATGCCTTTCCTTTTCAAATGATATACACAAA
1 GTATAC-TTTATTTTCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGATATACACAAA
* * * * * * * *
15510963 GTATACCTAACCTTTCCAAGT-GTACACACAAAGTGTACATATCCTTTTCAATTGGTATACACAA
1 GTATACTTTA--TTTTCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGATATACACAA
15511027 A
64 A
* *
15511028 GTATACCTTTCATTTTCTAGTGGTATACACAAAGTATACCTTTCCTTTTCA
1 GTATA-CTTT-ATTTTCAAGTGGTACACACAAAGTATACCTTTCCTTTTCA
15511079 CATTCGATAG
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
64 2 0.02
65 56 0.60
66 34 0.37
67 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (64 bp):
GTATACTTTATTTTCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGATATACACAAA
Found at i:15511116 original size:29 final size:29
Alignment explanation
Indices: 15511071--15511191 Score: 148
Period size: 29 Copynumber: 4.4 Consensus size: 29
15511061 GTATACCTTT
15511071 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
15511100 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
15511129 CC---T----TTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * **
15511151 CTTTTTCACATTCAATAGTAGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
15511180 CCTTTTCACATT
1 CCTTTTCACATT
15511192 GTACACACAA
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
22 19 0.24
25 1 0.01
26 1 0.01
29 57 0.73
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:15511157 original size:51 final size:51
Alignment explanation
Indices: 15511081--15511184 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
15511071 CCTTTTCACA
** *
15511081 TTCGATAGCCGAAGCTATCCCTTTTCACATTTGATAGCCGAAGCTATCCCT
1 TTCGATAGCCGAAGCTATCCCTTTTCACATTCAATAGCAGAAGCTATCCCT
* *
15511132 TTCGATAGCCGAAGCTATCCTTTTTCACATTCAATAGTAGAAGCTATCCCT
1 TTCGATAGCCGAAGCTATCCCTTTTCACATTCAATAGCAGAAGCTATCCCT
15511183 TT
1 TT
15511185 TCACATTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (51 bp):
TTCGATAGCCGAAGCTATCCCTTTTCACATTCAATAGCAGAAGCTATCCCT
Found at i:15512663 original size:21 final size:21
Alignment explanation
Indices: 15512637--15512706 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
15512627 TAAGTTCATG
15512637 AATAAACCACCAGTATTTGCA
1 AATAAACCACCAGTATTTGCA
* *
15512658 AATAAACCACCAATCTTTGCA
1 AATAAACCACCAGTATTTGCA
* * * *
15512679 GATAAACCACTAGTGTTTGTA
1 AATAAACCACCAGTATTTGCA
*
15512700 GATAAAC
1 AATAAAC
15512707 TGCTTGTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (21 bp):
AATAAACCACCAGTATTTGCA
Found at i:15522757 original size:17 final size:17
Alignment explanation
Indices: 15522737--15522835 Score: 144
Period size: 17 Copynumber: 5.6 Consensus size: 17
15522727 CAATGATATG
15522737 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
15522754 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
15522772 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
15522789 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
15522807 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
15522826 CAATCTTAGA
1 CAATCTTAGA
15522836 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 31 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:15522775 original size:35 final size:35
Alignment explanation
Indices: 15522729--15522835 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
15522719 ATAATCTTCA
15522729 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
15522765 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
15522800 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
15522836 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 51 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:15522777 original size:18 final size:18
Alignment explanation
Indices: 15522737--15522835 Score: 157
Period size: 18 Copynumber: 5.6 Consensus size: 18
15522727 CAATGATATG
15522737 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
15522754 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
15522772 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
15522789 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
15522807 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
15522826 CAATCTTAGA
1 CAATCTTAGA
15522836 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 31 0.41
18 33 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:15523344 original size:18 final size:17
Alignment explanation
Indices: 15523320--15523379 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
15523310 CCAATATATT
15523320 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
15523337 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
15523353 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
15523371 TTATATTTT
1 TTATATTTT
15523380 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:15523364 original size:15 final size:16
Alignment explanation
Indices: 15523321--15523379 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
15523311 CAATATATTT
15523321 TATATTTTTTATATAA
1 TATATTTTTTATATAA
15523337 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
15523353 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
15523371 TTATATTTT
1 -TATATTTT
15523380 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:15523404 original size:26 final size:26
Alignment explanation
Indices: 15523356--15523405 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
15523346 TTATAAATAT
* * * *
15523356 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
15523382 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
15523406 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:15526434 original size:26 final size:25
Alignment explanation
Indices: 15526405--15526463 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
15526395 AGAAGATAAG
*
15526405 GAAAAGGAAAGGAAAAAGAATGGAAA
1 GAAAAGAAAAGGAAAAAGAAT-GAAA
* * *
15526431 GAAAAAAAAAATGAAAAGGAATGAAA
1 G-AAAAGAAAAGGAAAAAGAATGAAA
15526457 GAAAAGA
1 GAAAAGA
15526464 GAATAAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 16 0.59
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (25 bp):
GAAAAGAAAAGGAAAAAGAATGAAA
Found at i:15526714 original size:40 final size:40
Alignment explanation
Indices: 15526670--15526755 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
15526660 TCAAATACAT
15526670 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * * **
15526710 TTAAAATAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
15526750 ATAAAA
1 TTAAAA
15526756 AGTGATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:15526780 original size:28 final size:29
Alignment explanation
Indices: 15526749--15526807 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
15526739 TTGAAAATAT
* *
15526749 AATAAAAAGTGATTAT-ATTAAAATTAAA
1 AATAAAAAGTAATTATGATTAAAAATAAA
*
15526777 AATAAAATGTAATTATGATTAAAAATAAA
1 AATAAAAAGTAATTATGATTAAAAATAAA
15526806 AA
1 AA
15526808 AAATATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (29 bp):
AATAAAAAGTAATTATGATTAAAAATAAA
Found at i:15540486 original size:32 final size:30
Alignment explanation
Indices: 15540421--15540491 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
15540411 TAGATAAAAC
* * *
15540421 AATTCATTATAATTTTTTTATTATCATATA
1 AATTCATTATAAATTTTTTAATATAATATA
15540451 AATTCATTTAATAAATTTTTTAATATAATCA-A
1 AATTCA-TT-ATAAATTTTTTAATATAAT-ATA
15540483 AATTC-TTAT
1 AATTCATTAT
15540492 TTGTAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 2 0.06
30 8 0.23
31 2 0.06
32 22 0.63
33 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTCATTATAAATTTTTTAATATAATATA
Found at i:15544326 original size:46 final size:47
Alignment explanation
Indices: 15544241--15544335 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 47
15544231 ATTAGCCACT
* *
15544241 TATAAATAATTAATAATAAATAATATATATTTTATTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
* * *
15544286 TATAAATAATTTCATAATAAATATTATGTAATTTAATTAAATATTTAG
1 TATAAATAA-TTAATAATAAATAATATATAATTTAATTAAATATTTAG
15544334 TA
1 TA
15544336 AGCCAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 9 0.21
46 26 0.62
47 1 0.02
48 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
Found at i:15546708 original size:38 final size:37
Alignment explanation
Indices: 15546617--15546708 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 37
15546607 CCCTACTAAG
* * *
15546617 TACATGTTAAGCATGACTATTGCTAGTGTTAAATTGAA
1 TACATGTTAAGCATG-TTATTGCTAATGTTAAATTAAA
* *
15546655 TACATGATAAGCATGTTGATTGCTAATGTTGAATTAAA
1 TACATGTTAAGCATGTT-ATTGCTAATGTTAAATTAAA
15546693 TACATGTTAAGCATGT
1 TACATGTTAAGCATGT
15546709 CATACTGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.02
38 46 0.98
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (37 bp):
TACATGTTAAGCATGTTATTGCTAATGTTAAATTAAA
Found at i:15549937 original size:103 final size:103
Alignment explanation
Indices: 15549758--15549964 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
15549748 TAAAAGGGTG
* *
15549758 AGCAAGAAAGGGTTACTAAAGGGGGAAAATAGGGGATTATACGATGTGCCAAACTAATTTCGTGC
1 AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGGATAATACGATGTGCCAAACTAATTTCGTGC
15549823 TTGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
66 TTGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
*
15549861 AGCAAGAAAGGGTTACTAAAAGGGGCAAATAGGGGATAATACGATGTGCCAAACTAATTTCGTGC
1 AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGGATAATACGATGTGCCAAACTAATTTCGTGC
15549926 TTGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
66 TTGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
15549964 A
1 A
15549965 CTAACCTTAA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (103 bp):
AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGGATAATACGATGTGCCAAACTAATTTCGTGC
TTGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
Found at i:15551406 original size:85 final size:86
Alignment explanation
Indices: 15551295--15551463 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 86
15551285 CAAATAAGTG
* * * * *
15551295 GTGGCTCGTCCACAAAACCCAGTGGCAGTTTGTGTAATCTGCAAA-TATGTTGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCT-AAAACCATATTGTGCACTCACAAC
*
15551359 AAGTGGCAGTAACTGCAAATAT
65 AAGTGGCAATAACTGCAAATAT
* * * *
15551381 GTGGCTTGTCCA-TAAACCCAATGGCAGTTTGTTTAACCTAAAACCATATTGTGCACTCACAATA
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCTAAAACCATATTGTGCACTCACAACA
15551445 AGTGGCAATAACTGCAAAT
66 AGTGGCAATAACTGCAAAT
15551464 GATTTTATCT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 3 0.04
85 58 0.81
86 11 0.15
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCTAAAACCATATTGTGCACTCACAACA
AGTGGCAATAACTGCAAATAT
Found at i:15553526 original size:38 final size:38
Alignment explanation
Indices: 15553453--15553564 Score: 134
Period size: 38 Copynumber: 2.9 Consensus size: 38
15553443 ACCTACTAAG
* * * * * *
15553453 TACATGTTAAGCGTGTCTACTGCTAGTGTTAAATTGAA
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
*
15553491 TACATGATAAGCATGTTTATTGCCAATGTTGAATTGAA
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
* * *
15553529 TACATGTTAAGCATGTTTACTGCTAGTGTTGAATTG
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTG
15553565 TTCATAGCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (38 bp):
TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
Found at i:15575019 original size:46 final size:47
Alignment explanation
Indices: 15574966--15575096 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 47
15574956 ATATTTGGGC
15574966 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACAG
* * *
15575013 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC-A-G
*
15575058 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15575097 GTGGGTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 4 0.06
45 3 0.04
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACAG
Found at i:15606182 original size:23 final size:23
Alignment explanation
Indices: 15606139--15606182 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15606129 GGGTAGAAAA
*
15606139 TTTCTAAAAAAACCTATATTATG
1 TTTCTAAAAAAACCTACATTATG
15606162 TTTCTAAAAAATA-CTACATTA
1 TTTCTAAAAAA-ACCTACATTA
15606183 ACATAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTCTAAAAAAACCTACATTATG
Found at i:15609737 original size:23 final size:22
Alignment explanation
Indices: 15609702--15609753 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
15609692 ACGTTAGTAA
* *
15609702 TACAAA-TTTATTTTCAGCAGT
1 TACAAACTTTATTTCCAACAGT
15609723 TACAAACTATTATTTCCAACAGT
1 TACAAACT-TTATTTCCAACAGT
15609746 TACAAACT
1 TACAAACT
15609754 GTTTCTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
23 20 0.74
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAACTTTATTTCCAACAGT
Found at i:15612011 original size:28 final size:30
Alignment explanation
Indices: 15611971--15612035 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 30
15611961 ATTTACTTAC
15611971 TAAATTAAGA-TTTTTTTCTTTTTCCAA-G
1 TAAATTAAGATTTTTTTTCTTTTTCCAACG
15611999 TAAATTAAGATTTTTTTTCTTTTTCCAACG
1 TAAATTAAGATTTTTTTTCTTTTTCCAACG
15612029 -AAATTAA
1 TAAATTAA
15612036 TACTCGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 10 0.29
29 24 0.69
30 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (30 bp):
TAAATTAAGATTTTTTTTCTTTTTCCAACG
Found at i:15621757 original size:21 final size:20
Alignment explanation
Indices: 15621733--15621773 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15621723 TAAAATCAAG
* *
15621733 GTTTGGTTTGAGAAGCTGCTT
1 GTTTGGGTTGAAAAG-TGCTT
15621754 GTTTGGGTTGAAAAGTGCTT
1 GTTTGGGTTGAAAAGTGCTT
15621774 TTGAACCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.41
Consensus pattern (20 bp):
GTTTGGGTTGAAAAGTGCTT
Found at i:15622296 original size:29 final size:26
Alignment explanation
Indices: 15622263--15622335 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 26
15622253 AAAAATATTA
*
15622263 TTTTAGAATTTTTTTTATTTTTATATAT
1 TTTTAG-ATTTTTTTTATTTTTA-AAAT
15622291 TCTTTAGATTTTTTTAATATTTTTAAAAT
1 T-TTTAGATTTTTTT--TATTTTTAAAAT
*
15622320 TTTTATATTTTTTTTA
1 TTTTAGATTTTTTTTA
15622336 AAAATGGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.05
28 21 0.52
29 9 0.22
30 8 0.20
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTAGATTTTTTTTATTTTTAAAAT
Found at i:15622321 original size:20 final size:20
Alignment explanation
Indices: 15622280--15622338 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
15622270 ATTTTTTTTA
*
15622280 TTTTTATATATTCTTT-AGATT
1 TTTTTA-ATATT-TTTAAAATT
15622301 TTTTTAATATTTTTAAAATT
1 TTTTTAATATTTTTAAAATT
* * *
15622321 TTTATATTTTTTTTAAAA
1 TTTTTAATATTTTTAAAA
15622339 ATGGACCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.09
20 24 0.73
21 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTTTTAAAATT
Found at i:15626995 original size:3 final size:3
Alignment explanation
Indices: 15626987--15627021 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15626977 TTTAGTTTCC
15626987 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15627022 ACCCCTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15632450 original size:23 final size:23
Alignment explanation
Indices: 15632423--15632467 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15632413 CTTTGGGGTA
*
15632423 CTTGGTGCTTGTTCAAGACATTG
1 CTTGGTGCTTGTTCAAAACATTG
15632446 CTTGGTGCTTGTTCAAAACATT
1 CTTGGTGCTTGTTCAAAACATT
15632468 TTCTTACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
CTTGGTGCTTGTTCAAAACATTG
Found at i:15633317 original size:66 final size:65
Alignment explanation
Indices: 15633178--15633315 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 65
15633168 CTATACGTGT
* *
15633178 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATGTATCAATTATATGTG
1 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATAT-AATTATATGTC
*
15633243 T
65 C
* * * * *
15633244 TAATTTTGATGTCTCAAGTTTTTGATATAACAATATTTAAGAT-AAATTATATATATTATATTTC
1 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATATA-ATTATATGTC
15633308 C
65 C
15633309 TAATTTT
1 TAATTTT
15633316 TGTGAAAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 1 0.02
65 22 0.35
66 40 0.63
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (65 bp):
TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATATAATTATATGTCC
Found at i:15642294 original size:12 final size:12
Alignment explanation
Indices: 15642277--15642311 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
15642267 CGATATCTCA
15642277 ATTTCAATTCAC
1 ATTTCAATTCAC
15642289 ATTTCAATTCAC
1 ATTTCAATTCAC
15642301 ATTTCAATTCA
1 ATTTCAATTCA
15642312 TAATTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTCAATTCAC
Done.