Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 104 of 203
Found at i:32958878 original size:19 final size:20
Alignment explanation
Indices: 32958840--32958877 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
32958830 GAATAAAATT
32958840 TTTTAAATTTTTTCTAAAAA
1 TTTTAAATTTTTTCTAAAAA
32958860 TTTT-AATTTTTT-TAAAAA
1 TTTTAAATTTTTTCTAAAAA
32958878 AATTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAATTTTTTCTAAAAA
Found at i:32958878 original size:20 final size:20
Alignment explanation
Indices: 32958840--32958881 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32958830 GAATAAAATT
**
32958840 TTTTAAATTTTTTCTAAAAA
1 TTTTAAATTTTTTAAAAAAA
*
32958860 TTTTAATTTTTTTAAAAAAA
1 TTTTAAATTTTTTAAAAAAA
32958880 TT
1 TT
32958882 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAATTTTTTAAAAAAA
Found at i:32963376 original size:25 final size:26
Alignment explanation
Indices: 32963348--32963427 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 26
32963338 TATGCTCATA
*
32963348 CGAGCATGTAAACGGGAAGCTC-TTT
1 CGAGCATGTAAACGGGAAGCTCATGT
*
32963373 CGAGCCATAT-AACGGGAAGCTCATGT
1 CGAG-CATGTAAACGGGAAGCTCATGT
*
32963399 -GAGC-TGTATAACGGAAAGCTCATGT
1 CGAGCATGTA-AACGGGAAGCTCATGT
32963424 -GAGC
1 CGAGC
32963428 TAATTATCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 38 0.81
26 6 0.13
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (26 bp):
CGAGCATGTAAACGGGAAGCTCATGT
Found at i:32963428 original size:25 final size:25
Alignment explanation
Indices: 32963380--32963428 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
32963370 TTTCGAGCCA
*
32963380 TATAACGGGAAGCTCATGTGAGCTG
1 TATAACGGAAAGCTCATGTGAGCTG
32963405 TATAACGGAAAGCTCATGTGAGCT
1 TATAACGGAAAGCTCATGTGAGCT
32963429 AATTATCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (25 bp):
TATAACGGAAAGCTCATGTGAGCTG
Found at i:32963442 original size:25 final size:25
Alignment explanation
Indices: 32963385--32963551 Score: 133
Period size: 25 Copynumber: 6.7 Consensus size: 25
32963375 AGCCATATAA
* * *
32963385 CGGGAAGCTCATGTGAGCT-GTATAA
1 CGGGAAGCTCATGAGAGCTAAT-TAT
* *
32963410 CGGAAAGCTCATGTGAGCTAATTAT
1 CGGGAAGCTCATGAGAGCTAATTAT
** *
32963435 CGGGAAGCTCAAAAGAGC-CATTAAT
1 CGGGAAGCTCATGAGAGCTAATT-AT
* *
32963460 CGGGAAGCTCATGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCTAATTAT
* * *
32963485 CAGGAAGCTCGTGAGAGCCACA-TAT
1 CGGGAAGCTCATGAGAGCTA-ATTAT
* * *
32963510 CGGGATGCTCATAAGAGCTAAATAT
1 CGGGAAGCTCATGAGAGCTAATTAT
*
32963535 CGGGAAGCTCCTGAGAG
1 CGGGAAGCTCATGAGAG
32963552 TTACGGTGTG
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.03
25 107 0.93
26 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCTAATTAT
Found at i:32963493 original size:75 final size:75
Alignment explanation
Indices: 32963374--32963551 Score: 175
Period size: 75 Copynumber: 2.4 Consensus size: 75
32963364 AAGCTCTTTC
* *** * *
32963374 GAGCCATATAA-CGGGAAGCTCATGTGAGCTGTATAACGGAAAGCTCATGTGAGCTA-ATTATCG
1 GAGCCAT-TAATCGGGAAGCTCATGAGAGCCAAATAACGGAAAGCTCATGAGAGCCACA-TATCG
32963437 GGAAGCTCAAAA
64 GGAAGCTCAAAA
* *
32963449 GAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCAGG-AAGCTCGTGAGAGCCACATATCGG
1 GAGCCATTAATCGGGAAGCTCATGAGAGCCAAATAAC-GGAAAGCTCATGAGAGCCACATATCGG
* *
32963513 GATGCTCATAA
65 GAAGCTCAAAA
* * *
32963524 GAGCTA-AATATCGGGAAGCTCCTGAGAG
1 GAGCCATTA-ATCGGGAAGCTCATGAGAG
32963552 TTACGGTGTG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
74 4 0.05
75 79 0.92
76 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (75 bp):
GAGCCATTAATCGGGAAGCTCATGAGAGCCAAATAACGGAAAGCTCATGAGAGCCACATATCGGG
AAGCTCAAAA
Found at i:32963550 original size:50 final size:50
Alignment explanation
Indices: 32963385--32963551 Score: 158
Period size: 50 Copynumber: 3.3 Consensus size: 50
32963375 AGCCATATAA
* ** * ** *
32963385 CGGGAAGCTCATGTGAGCTGTATAA-CGGAAAGCTCATGTGAGCTAATTAT
1 CGGGAAGCTCATGAGAGC-CAATAATCGGGAAGCTCATAAGAGCTAAATAT
** * * *
32963435 CGGGAAGCTCAAAAGAGCCATTAATCGGGAAGCTCATGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAATAATCGGGAAGCTCATAAGAGCTAAATAT
* * *
32963485 CAGGAAGCTCGTGAGAGCCACAT-ATCGGGATGCTCATAAGAGCTAAATAT
1 CGGGAAGCTCATGAGAGCCA-ATAATCGGGAAGCTCATAAGAGCTAAATAT
*
32963535 CGGGAAGCTCCTGAGAG
1 CGGGAAGCTCATGAGAG
32963552 TTACGGTGTG
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.03
50 91 0.96
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (50 bp):
CGGGAAGCTCATGAGAGCCAATAATCGGGAAGCTCATAAGAGCTAAATAT
Found at i:32966295 original size:25 final size:25
Alignment explanation
Indices: 32966200--32966296 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 25
32966190 CCAAACTAAA
* *
32966200 CCTTTGTGGCGA-ATTATCTGGAGAG
1 CCTTTGTGGC-ATATTATCTAGAAAG
* *
32966225 CCTTTGTGGCAGATTAT-TTGAAGAG
1 CCTTTGTGGCATATTATCTAGAA-AG
* * *
32966250 CCTTTGTGGCGTTTTACCTAGAAAG
1 CCTTTGTGGCATATTATCTAGAAAG
*
32966275 CCTTTGCGGCATATTATCTAGA
1 CCTTTGTGGCATATTATCTAGA
32966297 GAGTTTGTAG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 4 0.07
25 50 0.86
26 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (25 bp):
CCTTTGTGGCATATTATCTAGAAAG
Found at i:32967445 original size:9 final size:9
Alignment explanation
Indices: 32967431--32967456 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32967421 TGGTAAGGAG
32967431 GGTTTTGTT
1 GGTTTTGTT
32967440 GGTTTTGTT
1 GGTTTTGTT
32967449 GGTTTTGT
1 GGTTTTGT
32967457 GCTTGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (9 bp):
GGTTTTGTT
Found at i:32970574 original size:9 final size:9
Alignment explanation
Indices: 32970562--32970587 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32970552 TAACCATGAC
32970562 TCAAAATCA
1 TCAAAATCA
32970571 TCAAAATCA
1 TCAAAATCA
32970580 TCAAAATC
1 TCAAAATC
32970588 TACCGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
TCAAAATCA
Found at i:32976827 original size:60 final size:58
Alignment explanation
Indices: 32976730--32976923 Score: 160
Period size: 58 Copynumber: 3.3 Consensus size: 58
32976720 TCAACAACTG
* * **
32976730 AAGCTATCCCTTTTCATAATTTGATGGCCGTCA-CCATCCCTTTTCATAATTTGATAGCCA
1 AAGCTATCCCTTTTCAT-ATTTGATAGTC-AAAGCCATCCCTTTTCAT-ATTTGATAGCCA
* **
32976790 AAGCTATCCCTTTTCATAGTTTGATAGTCAAAGCCATCCCTTTTCAT-TGTTGATGGTCGT
1 AAGCTATCCCTTTTCATA-TTTGATAGTCAAAGCCATCCCTTTTCATAT-TTGATAG-CCA
* * * * * * * * * *
32976850 CA-CCATCTCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCGTATTCGATAGCCG
1 AAGCTATCCCTTTTCATATTTGATAGTCAAAGCCATCCCTTTTCATATTTGATAGCCA
32976907 AAGCTATCCCTTTTCAT
1 AAGCTATCCCTTTTCAT
32976924 TTGTCGATGA
Statistics
Matches: 106, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
57 2 0.02
58 41 0.39
59 22 0.21
60 41 0.39
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (58 bp):
AAGCTATCCCTTTTCATATTTGATAGTCAAAGCCATCCCTTTTCATATTTGATAGCCA
Found at i:32976890 original size:29 final size:29
Alignment explanation
Indices: 32976673--32976923 Score: 155
Period size: 30 Copynumber: 8.5 Consensus size: 29
32976663 GATGGTTGAC
* *
32976673 CTATCCCTTTTCGTAATTCGATAACCGAAG
1 CTATCCCTTTTCATAA-TCGATAGCCGAAG
* * * * * *
32976703 TTATCCCTTTTCATAGTTCAACAACTGAAG
1 CTATCCCTTTTCATA-ATCGATAGCCGAAG
* * *
32976733 CTATCCCTTTTCATAATTTGATGGCCGTCA-
1 CTATCCCTTTTCATAA-TCGATAGCCG-AAG
* * *
32976763 CCATCCCTTTTCATAATTTGATAGCCAAAG
1 CTATCCCTTTTCATAA-TCGATAGCCGAAG
* * * *
32976793 CTATCCCTTTTCATAGTTTGATAGTCAAAG
1 CTATCCCTTTTCATA-ATCGATAGCCGAAG
* ** * * * *
32976823 CCATCCCTTTTCATTGTTGATGGTCGTCA-
1 CTATCCCTTTTCATAATCGATAGCCG-AAG
* * *
32976852 CCATCTCTTTTCATAATCGATAGTCGAAG
1 CTATCCCTTTTCATAATCGATAGCCGAAG
* *
32976881 CTATCCCTTTTCGTATTCGATAGCCGAAG
1 CTATCCCTTTTCATAATCGATAGCCGAAG
32976910 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
32976924 TTGTCGATGA
Statistics
Matches: 174, Mismatches: 40, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
28 1 0.01
29 67 0.39
30 105 0.60
31 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
CTATCCCTTTTCATAATCGATAGCCGAAG
Found at i:32982772 original size:73 final size:73
Alignment explanation
Indices: 32982692--32982841 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
32982682 TATGTTTAAT
32982692 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTTCTTATTTGAATTATTGAATACAATTAAA
1 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTTCTTATTTGAATTATTGAATACAATTAAA
32982757 ATATATTA
66 ATATATTA
32982765 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTTCTTATTTGAATTATTGAATACAATTAAA
1 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTTCTTATTTGAATTATTGAATACAATTAAA
32982830 ATATATTA
66 ATATATTA
32982838 ATTT
1 ATTT
32982842 ATCAATCCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (73 bp):
ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTTCTTATTTGAATTATTGAATACAATTAAA
ATATATTA
Found at i:32982794 original size:36 final size:37
Alignment explanation
Indices: 32982692--32982800 Score: 114
Period size: 36 Copynumber: 3.0 Consensus size: 37
32982682 TATGTTTAAT
*
32982692 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTT
1 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTA
* * * * * * * *
32982729 CTTATTTGAATTATTGA-ATACAATTAAAAT-ATATTA
1 ATTTTTTCAATTGTTTAGTTA-ACTCAAAATAATATTA
32982765 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATT
1 ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATT
32982801 TCTTATTTGA
Statistics
Matches: 52, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
36 26 0.50
37 26 0.50
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (37 bp):
ATTTTTTCAATTGTTTAGTTAACTCAAAATAATATTA
Found at i:32982831 original size:37 final size:36
Alignment explanation
Indices: 32982717--32982836 Score: 125
Period size: 36 Copynumber: 3.3 Consensus size: 36
32982707 TAGTTAACTC
32982717 AAAATAATATTTCTTATTTGAATTATTGAATACAATT
1 AAAAT-ATATTTCTTATTTGAATTATTGAATACAATT
** * * * * * * *
32982754 AAAATATATTAATTTTTTCAATTGTTTAGTTA-ACTC
1 AAAATATATTTCTTATTTGAATTATTGA-ATACAATT
32982790 AAAATAATATTTCTTATTTGAATTATTGAATACAATT
1 AAAAT-ATATTTCTTATTTGAATTATTGAATACAATT
32982827 AAAATATATT
1 AAAATATATT
32982837 AATTTATCAA
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
AAAATATATTTCTTATTTGAATTATTGAATACAATT
Found at i:32983918 original size:13 final size:13
Alignment explanation
Indices: 32983900--32983924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32983890 AGTTATACTT
32983900 TTTATTTTATTTA
1 TTTATTTTATTTA
32983913 TTTATTTTATTT
1 TTTATTTTATTT
32983925 TATATTATGA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:32984366 original size:15 final size:15
Alignment explanation
Indices: 32984336--32984364 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32984326 ACTATTAGTA
32984336 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
32984351 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
32984365 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:33004130 original size:25 final size:25
Alignment explanation
Indices: 33004096--33004145 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33004086 GCAAAGGCAC
33004096 GATCTCATAAATGTATAATTCAACT
1 GATCTCATAAATGTATAATTCAACT
33004121 GATCTCATAAATGTATAATTCAACT
1 GATCTCATAAATGTATAATTCAACT
33004146 AACTTATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (25 bp):
GATCTCATAAATGTATAATTCAACT
Found at i:33016580 original size:26 final size:27
Alignment explanation
Indices: 33016523--33016573 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
33016513 TAAATTAAAG
*
33016523 AATAT-TTAAAAAATTATAATATATAA
1 AATATATTAAAAAATTATAATAAATAA
*
33016549 AATATATTAAAAACTTAT-ATAAATA
1 AATATATTAAAAAATTATAATAAATA
33016574 TTATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AATATATTAAAAAATTATAATAAATAA
Found at i:33016604 original size:28 final size:27
Alignment explanation
Indices: 33016564--33016718 Score: 91
Period size: 28 Copynumber: 5.4 Consensus size: 27
33016554 ATTAAAAACT
33016564 TATATAAA-TATTATATAAATATAAAAAA
1 TATA-AAATTATTATATAAA-ATAAAAAA
* *
33016592 TGTAAAATTATTAAATTAAAATAAAAAAA
1 TATAAAATTATTATA-TAAAAT-AAAAAA
* * * *
33016621 TAAAAAAAATCAATTACATAAAATAAAAAT
1 T--ATAAAAT-TATTATATAAAATAAAAAA
* * *
33016651 TATAAAAATACTATATAAAATATAAAA
1 TATAAAATTATTATATAAAATAAAAAA
33016678 TATTATAAA-TA-TATATAGAAATAAAAACA
1 TA-TA-AAATTATTATATA-AAATAAAAA-A
*
33016707 TGTAAAAATTAT
1 TAT-AAAATTAT
33016719 AAAGATTTAT
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
27 25 0.26
28 32 0.33
29 19 0.19
30 6 0.06
31 11 0.11
32 5 0.05
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
TATAAAATTATTATATAAAATAAAAAA
Found at i:33016679 original size:19 final size:18
Alignment explanation
Indices: 33016651--33016692 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
33016641 AAATAAAAAT
33016651 TATA-AAAATACTATATAAA
1 TATATAAAATA-T-TATAAA
33016670 -ATATAAAATATTATAAA
1 TATATAAAATATTATAAA
33016687 TATATA
1 TATATA
33016693 TAGAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATATAAAATATTATAAA
Found at i:33018000 original size:24 final size:24
Alignment explanation
Indices: 33017973--33018029 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
33017963 GCTATTATGT
*
33017973 GAACGCTTATGCTAACTGTACTGC
1 GAACCCTTATGCTAACTGTACTGC
33017997 GAACCCTTATGCTAACTGTACTGC
1 GAACCCTTATGCTAACTGTACTGC
*
33018021 AAACCCTTA
1 GAACCCTTA
33018030 GTAAATGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (24 bp):
GAACCCTTATGCTAACTGTACTGC
Found at i:33018198 original size:36 final size:36
Alignment explanation
Indices: 33018135--33018448 Score: 376
Period size: 36 Copynumber: 8.7 Consensus size: 36
33018125 CCACTATGTT
* * *
33018135 AAACCCTCAAGTAATTTAGTATATGATTTAGGATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* * *
33018171 GAACCTTCATGTAATTTCGTATGTGATTTAGTATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* *
33018207 AAACCCTCATGTAATTTAGTATATGACTTAGTATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* *
33018243 AAACCCTCATGTAATTTAGTATATGACTTAGTATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
*
33018279 AAACCCTCATGTAATTTAATATGTGATTTAGTATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* * * * *
33018315 GAACCTTTATGTAATTCAGTATGTGTTTTAGTATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* * * * *
33018351 AAACCTTCATGTAATTTAGTATATAATTTAGCATGT
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* * * *
33018387 GAACCATCATGTAATTGAGTATGTGATTTAATATGC
1 AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
* * *
33018423 GAACCCTTATGTGATTTAGTATGTGA
1 AAACCCTCATGTAATTTAGTATGTGA
33018449 CCCCTTAGTA
Statistics
Matches: 238, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 238 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (36 bp):
AAACCCTCATGTAATTTAGTATGTGATTTAGTATGC
Found at i:33018327 original size:108 final size:108
Alignment explanation
Indices: 33018135--33018449 Score: 432
Period size: 108 Copynumber: 2.9 Consensus size: 108
33018125 CCACTATGTT
* * * *
33018135 AAACCCTCAAGTAATTTAGTATATGATTTAGGATGCGAACCTTCATGTAATTTCGTATGTGATTT
1 AAACCCTCATGTAATTTAGTATATGATTTAGCATGCGAACCATCATGTAATTTAGTATGTGATTT
* * *
33018200 AGTATGCAAACCCTCATGTAATTTAGTATATGACTTAGTATGC
66 AGTATGCGAACCCTTATGTAATTTAGTATGTGACTTAGTATGC
* * * * *
33018243 AAACCCTCATGTAATTTAGTATATGACTTAGTATGCAAACCCTCATGTAATTTAATATGTGATTT
1 AAACCCTCATGTAATTTAGTATATGATTTAGCATGCGAACCATCATGTAATTTAGTATGTGATTT
* * **
33018308 AGTATGCGAACCTTTATGTAATTCAGTATGTGTTTTAGTATGC
66 AGTATGCGAACCCTTATGTAATTTAGTATGTGACTTAGTATGC
* * * *
33018351 AAACCTTCATGTAATTTAGTATATAATTTAGCATGTGAACCATCATGTAATTGAGTATGTGATTT
1 AAACCCTCATGTAATTTAGTATATGATTTAGCATGCGAACCATCATGTAATTTAGTATGTGATTT
* *
33018416 AATATGCGAACCCTTATGTGATTTAGTATGTGAC
66 AGTATGCGAACCCTTATGTAATTTAGTATGTGAC
33018450 CCCTTAGTAA
Statistics
Matches: 178, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 178 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (108 bp):
AAACCCTCATGTAATTTAGTATATGATTTAGCATGCGAACCATCATGTAATTTAGTATGTGATTT
AGTATGCGAACCCTTATGTAATTTAGTATGTGACTTAGTATGC
Found at i:33018433 original size:24 final size:24
Alignment explanation
Indices: 33018406--33018455 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
33018396 TGTAATTGAG
33018406 TATGTGATTTAATATGCGAACCCT
1 TATGTGATTTAATATGCGAACCCT
* * *
33018430 TATGTGATTTAGTATGTGACCCCT
1 TATGTGATTTAATATGCGAACCCT
33018454 TA
1 TA
33018456 GTAAGTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
TATGTGATTTAATATGCGAACCCT
Found at i:33019826 original size:24 final size:25
Alignment explanation
Indices: 33019798--33019846 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
33019788 TCCCAAAAAT
33019798 GCCAC-AAAGGCACTTACAGAATAC
1 GCCACAAAAGGCACTTACAGAATAC
**
33019822 GCCACAAAAGGCACTTGTAGAATAC
1 GCCACAAAAGGCACTTACAGAATAC
33019847 ATTTTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (25 bp):
GCCACAAAAGGCACTTACAGAATAC
Found at i:33036719 original size:20 final size:20
Alignment explanation
Indices: 33036694--33036735 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
33036684 TGTTTTTCCA
*
33036694 TTGTTGAAATATTGTTATTT
1 TTGTTGAAATATTGTGATTT
*
33036714 TTGTTGAAATCTTGTGATTT
1 TTGTTGAAATATTGTGATTT
33036734 TT
1 TT
33036736 TTTGTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (20 bp):
TTGTTGAAATATTGTGATTT
Found at i:33038904 original size:22 final size:22
Alignment explanation
Indices: 33038878--33038922 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33038868 ATATGTTTCG
33038878 ATATATAC-TATATTAGATTGAA
1 ATATATACATA-ATTAGATTGAA
* *
33038900 ATATATGCATAATTATATTGAA
1 ATATATACATAATTAGATTGAA
33038922 A
1 A
33038923 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
ATATATACATAATTAGATTGAA
Found at i:33039819 original size:14 final size:15
Alignment explanation
Indices: 33039793--33039821 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33039783 CATCCCAACT
33039793 CTTCTCATCTCTTCA
1 CTTCTCATCTCTTCA
33039808 CTTCTC-TCTCTTCA
1 CTTCTCATCTCTTCA
33039822 TTTCCCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.41, G:0.00, T:0.48
Consensus pattern (15 bp):
CTTCTCATCTCTTCA
Found at i:33047454 original size:10 final size:11
Alignment explanation
Indices: 33047426--33047454 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33047416 CATTTATTAA
33047426 ATATAAAATTT
1 ATATAAAATTT
33047437 ATATAAAATTT
1 ATATAAAATTT
33047448 A-ATAAAA
1 ATATAAAA
33047455 AGTTATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATAAAATTT
Found at i:33049914 original size:23 final size:23
Alignment explanation
Indices: 33049899--33049946 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
33049889 TTACTCGCTG
33049899 ACATGTCAAACATTTACCAACAT
1 ACATGTCAAACATTTACCAACAT
33049922 ACATGTCAAACATTTACCAACAT
1 ACATGTCAAACATTTACCAACAT
33049945 AC
1 AC
33049947 TCAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.27, G:0.04, T:0.25
Consensus pattern (23 bp):
ACATGTCAAACATTTACCAACAT
Found at i:33052293 original size:25 final size:24
Alignment explanation
Indices: 33052255--33052311 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
33052245 AGAAAATATA
33052255 AAAAAAACTAAAAATAAATAACAAT
1 AAAAAAACTAAAAATAAATAA-AAT
* * *
33052280 AAAAAAATTTAAAATAAATAATAT
1 AAAAAAACTAAAAATAAATAAAAT
33052304 AAAAAAAC
1 AAAAAAAC
33052312 ATATCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (24 bp):
AAAAAAACTAAAAATAAATAAAAT
Found at i:33052428 original size:30 final size:26
Alignment explanation
Indices: 33052352--33052454 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 26
33052342 AATTTGAAAG
* ** *
33052352 ATATATATAATAGTTTACAATAAATA
1 ATATATATAAAAACTTAAAATAAATA
* *
33052378 ATATATA-AAAGAAATTTAAATAAATA
1 ATATATATAAA-AACTTAAAATAAATA
*
33052404 ATATGTA-AAACAACTTAAAATAAATA
1 ATATATATAAA-AACTTAAAATAAATA
33052430 ATATATATAAAAACTTAAAATAAAT
1 ATATATATAAAAACTTAAAATAAAT
33052455 TATGGTAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.03
26 60 0.92
27 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (26 bp):
ATATATATAAAAACTTAAAATAAATA
Found at i:33053930 original size:45 final size:44
Alignment explanation
Indices: 33053881--33054866 Score: 276
Period size: 44 Copynumber: 21.5 Consensus size: 44
33053871 GCTCTTCTAT
*
33053881 AACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGCTCCACTGC
* * * * * * *
33053926 AACTTCAGGGAGATAAAGGTT-ATAGCTTTAATATGTTCTACTGC
1 AACTTCAGGGAGAT-AAGATTGCTATCTTCAATCTGCTCCACTGC
* * * *
33053970 AATTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTAC
1 AACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCACTGC
* * *
33054015 AACTTCAGGGAGATAAGACTTG-TATTTTCAATCTGC-CTTATTGC
1 AACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTC-CACTGC
* * * **
33054059 AACTTTAGGGAGATCCA-ATT-CTAATTTGTAGCCTTAATCTATTCCACTGC
1 AACTTCAGGGAGAT-AAGATTGCT-ATCT-T---C--AATCTGCTCCACTGC
* * * * * *
33054109 AATTTCAAGGAAATAATATTTGCTATCTTCAGTCTGCTCTACTGC
1 AACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCACTGC
* * *** * *
33054154 AACTTTAGGGAGATAAGACT-CGTGAT-TTCGGCCTACCCCACTGC
1 AACTTCAGGGAGATAAGATTGC-T-ATCTTCAATCTGCTCCACTGC
* * * * * *
33054198 AACTTCAGGGGGATAA-TTTG-TGGT-TTTAGTCTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTGCT-ATCTTCAATCTGCTCCACTGC
* * * * *
33054240 AACTTCAGGGAGATAAAACTTGCTATGGTAGATTTAATCCGAC-CTACTGC
1 AACTTCAGGGAGATAAGA-TTGCTA---T--CTTCAATCTG-CTCCACTGC
* * * * * *
33054290 AACCTCAGAGG-TATAGGATTCGTTGTTTGAATCTGCAACCTGCTCCACTGC
1 AACTTCAG-GGAGATAAGA----TTG-CT--ATCTTCAATCTGCTCCACTGC
* * **
33054341 AACTTCAGGGAGATAAGGTTTG-TGA-CTTTAATCTGCTCCACTAT
1 AACTTCAGGGAGATAA-GATTGCT-ATCTTCAATCTGCTCCACTGC
* *
33054385 AACTTTAAGGAGATAAGATTTG-TAGCCCGTCTTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGA-TTGCTA-----TCTTCAATCTGCTCCACTGC
* * * * * ** *
33054434 AACTTCAAGGAGATAAGATTGGTTTATTTTTAACCTATTCCACTAC
1 AACTTCAGGGAGATAAGATT-G-CTATCTTCAATCTGCTCCACTGC
* * * * *
33054480 AACTTCAGGGAGATAAGGTT--TGAT-AT-GATCTACTCTACTGC
1 AACTTCAGGGAGATAAGATTGCT-ATCTTCAATCTGCTCCACTGC
* * * * **
33054521 AACTTCAGAGAGATAAGATCTGTTATTTGTAGCTTCAATTTGTTCCACTAA
1 AACTTCAGGGAGATAAGAT-TGCTA----T--CTTCAATCTGCTCCACTGC
* * * * * *
33054572 AACTTCAGAGAAATAAGATCCGCTATCTTTAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGAT-TGCTATCTTCAATCTGCTCCACTGC
* * *
33054617 AACTTTAGGGAGATAAGACTTG-TAACTTCAATAGATTTGATCTGACCTACTGC
1 AACTTCAGGGAGATAAGA-TTGCTATCTTC---A-ATCTG--CT--CC-ACTGC
* * * **
33054670 AACTTCAGAGG-TATAAGGTT-C-ATCGTTTTAATCCACTCCACTGC
1 AACTTCAG-GGAGATAAGATTGCTATC--TTCAATCTGCTCCACTGC
* * * * **
33054714 AACTTCAGGAAGATAGGATTAG-TACCTTCAATCTACTCCACTAT
1 AACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGCTCCACTGC
* *
33054758 AACTTCAGGGAGATAAGATTGGCTATCTTTAGTCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGCTCCACTGC
* *** *
33054803 AACTTCAGGGAGATAAGACTAG-TGGATTCAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCACTGC
33054847 AACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
33054867 CCCCATGATG
Statistics
Matches: 683, Mismatches: 176, Indels: 166
0.67 0.17 0.16
Matches are distributed among these distances:
41 27 0.04
42 33 0.05
43 16 0.02
44 220 0.32
45 144 0.21
46 42 0.06
47 7 0.01
48 8 0.01
49 37 0.05
50 51 0.07
51 64 0.09
52 7 0.01
53 23 0.03
54 3 0.00
56 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTGCTATCTTCAATCTGCTCCACTGC
Found at i:33054069 original size:89 final size:89
Alignment explanation
Indices: 33053881--33054072 Score: 212
Period size: 89 Copynumber: 2.2 Consensus size: 89
33053871 GCTCTTCTAT
* * * *
33053881 AACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAGGT
1 AACTTTAGGGAGATAAGATTCGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAAGCT
*
33053946 TATAGCTTTAATATGTTCTACTGC
66 TATAGCTTTAATATGCTCTACTGC
* * *
33053970 AA-TTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTACAACTTCAGGGAGAT-AAGA
1 AACTTT-AGGGAGATAAGATTCGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAAG-
* * * *
33054033 CTTGTA-TTTTCAATCTGC-CTTATTGC
64 CTTATAGCTTT-AATATGCTC-TACTGC
33054059 AACTTTAGGGAGAT
1 AACTTTAGGGAGAT
33054073 CCAATTCTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
88 9 0.10
89 74 0.86
90 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (89 bp):
AACTTTAGGGAGATAAGATTCGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAAGCT
TATAGCTTTAATATGCTCTACTGC
Found at i:33055777 original size:15 final size:14
Alignment explanation
Indices: 33055754--33055795 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
33055744 TCCTTTTTAA
33055754 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
33055768 TTTTCTTTTCTTTTC
1 TTTTC-TTTCTTTTC
*
33055783 TTTT-TTTCATTTC
1 TTTTCTTTCTTTTC
33055796 ATCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 13 0.50
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:33055807 original size:5 final size:5
Alignment explanation
Indices: 33055754--33055786 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
33055744 TCCTTTTTAA
33055754 TTTTC -TTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
33055787 TTTCATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:33058067 original size:18 final size:18
Alignment explanation
Indices: 33058028--33058071 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
33058018 ATACTTGAAC
33058028 AAATGAAGCAAATATAGCA
1 AAATGAAGCAAATATA-CA
*
33058047 AAATGACGCAAACTATA-A
1 AAATGAAGCAAA-TATACA
33058065 AAATGAA
1 AAATGAA
33058072 ATGCAACGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (18 bp):
AAATGAAGCAAATATACA
Found at i:33059163 original size:24 final size:25
Alignment explanation
Indices: 33059131--33059182 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
33059121 ATAAAAACAC
33059131 ATATCAAAACAGTTTT-AAAAAATAT
1 ATATCAAAA-AGTTTTGAAAAAATAT
* *
33059156 ATAT-AAAAATTTTTGAAAGAATAT
1 ATATCAAAAAGTTTTGAAAAAATAT
33059180 ATA
1 ATA
33059183 ATAGTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 15 0.62
25 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATATCAAAAAGTTTTGAAAAAATAT
Found at i:33059205 original size:26 final size:24
Alignment explanation
Indices: 33059187--33059264 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 24
33059177 TATATAATAG
33059187 TTTACAATAAATAATATATAAAAGAAA
1 TTTA-AATAAATAATATAT-AAA-AAA
* *
33059214 TTTAAATAAATAATATGTAAAACA
1 TTTAAATAAATAATATATAAAAAA
33059238 TCTTAAAATAAATAATATATATAAAAA
1 T-TT-AAATAAATAATATATA-AAAAA
33059265 AATTAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
24 3 0.07
25 5 0.11
26 28 0.64
27 8 0.18
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (24 bp):
TTTAAATAAATAATATATAAAAAA
Found at i:33059302 original size:56 final size:51
Alignment explanation
Indices: 33059187--33059308 Score: 129
Period size: 52 Copynumber: 2.3 Consensus size: 51
33059177 TATATAATAG
* * *
33059187 TTTACAATAAATAATATATAAAAGAAATTTAAATAAATAATATGTAAAACAT
1 TTTAAAATAAATAATATATAAAAAAAATTAAAATAAATAATA-GTAAAACAT
* *
33059239 CTTAAAATAAATAATATATATAAAAAAATTAAAATAAATGAT-GATAAAGGAGCATT
1 TTTAAAATAAATAATATATA-AAAAAAATTAAAATAAATAATAG-TAAA--A-CA-T
33059295 TTTAAAATAAATAA
1 TTTAAAATAAATAA
33059309 ATAAATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
51 1 0.02
52 22 0.38
53 18 0.31
54 1 0.02
55 2 0.03
56 14 0.24
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (51 bp):
TTTAAAATAAATAATATATAAAAAAAATTAAAATAAATAATAGTAAAACAT
Found at i:33065397 original size:23 final size:23
Alignment explanation
Indices: 33065366--33065416 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
33065356 ACATACTTTC
* *
33065366 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
33065389 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
33065412 TTACA
1 TTACA
33065417 TTTCTCCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:33067020 original size:50 final size:51
Alignment explanation
Indices: 33066958--33067228 Score: 261
Period size: 50 Copynumber: 5.3 Consensus size: 51
33066948 GAATGTCATA
* ** * *
33066958 TCCCAGATATGGTCTTACATGGGAGTTCTCATATC-GGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCAGGTGCCAACGCCATG
* * * *
33067008 TCCCAGACATGGTCTTAC-GGAGGACCTCTCAT-CCTGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATG-GGACCTCTCATATCAGGTGCCAACGCCATG
* * *
33067058 TCCCAGACATGGTCTTACATGGCACCTCTCATCTC-GGTGCCAACCCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCAGGTGCCAACGCCATG
* *
33067108 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-GGTGCCAACGCCATG
* * * *
33067164 TCCCAGACATGGTCTTACACT-GG--CTCACATATCA-ATGTCGACGCCATG
1 TCCCAGACATGGTCTTACA-TGGGACCTCTCATATCAGGTGCCAACGCCATG
33067212 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
33067229 TACGAGATCG
Statistics
Matches: 188, Mismatches: 22, Indels: 24
0.80 0.09 0.10
Matches are distributed among these distances:
48 28 0.15
49 2 0.01
50 111 0.59
51 4 0.02
53 3 0.02
54 6 0.03
56 33 0.18
57 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (51 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCAGGTGCCAACGCCATG
Found at i:33067076 original size:100 final size:103
Alignment explanation
Indices: 33066952--33067228 Score: 289
Period size: 100 Copynumber: 2.7 Consensus size: 103
33066942 TACTACGAAT
* * * ** * **
33066952 GTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACA
1 GTCATGTCCCAGACATGGTCTTACATGGCACCTCTCATATCGGTGCCAACCCCATGTCCCAGACA
*
33067017 TGGTCTTAC-GGAGGACCTCTC-ATC-C-TGGTGCCAAC
66 TGGTCTTACAGG-GGACCTCTCAATCTCATGATGCCAAC
*
33067052 GTCATGTCCCAGACATGGTCTTACATGGCACCTCTCATCTCGGTGCCAACCCCATGTCCCAGACA
1 GTCATGTCCCAGACATGGTCTTACATGGCACCTCTCATATCGGTGCCAACCCCATGTCCCAGACA
* *
33067117 TGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
66 TGGTCTTACAGGGGACCTCTC--AATCTC-ATGATGCCAAC
* * ** * * *
33067158 GCCATGTCCCAGACATGGTCTTACACTGG---CTCACATATCAATGTCGACGCCATGTCCCAGAC
1 GTCATGTCCCAGACATGGTCTTACA-TGGCACCTCTCATATCGGTGCCAACCCCATGTCCCAGAC
33067220 ATGGTCTTA
65 ATGGTCTTA
33067229 TACGAGATCG
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
100 74 0.50
101 1 0.01
103 3 0.02
104 36 0.24
106 32 0.21
107 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (103 bp):
GTCATGTCCCAGACATGGTCTTACATGGCACCTCTCATATCGGTGCCAACCCCATGTCCCAGACA
TGGTCTTACAGGGGACCTCTCAATCTCATGATGCCAAC
Found at i:33071819 original size:12 final size:12
Alignment explanation
Indices: 33071804--33071850 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
33071794 CCATTTTTTT
*
33071804 TTCAAGTCAATA
1 TTCAATTCAATA
33071816 TTCAATTTCAA-A
1 TTCAA-TTCAATA
*
33071828 TTCAAATCAATA
1 TTCAATTCAATA
*
33071840 TACAATTCAAT
1 TTCAATTCAAT
33071851 TATACATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 4 0.14
12 21 0.72
13 4 0.14
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (12 bp):
TTCAATTCAATA
Found at i:33077626 original size:10 final size:10
Alignment explanation
Indices: 33077611--33077653 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
33077601 TAACATGCTG
33077611 AATTTTAATT
1 AATTTTAATT
33077621 AATTTTATAATT
1 AA-TTT-TAATT
*
33077633 AATTTTGATT
1 AATTTTAATT
*
33077643 AATTTTGATT
1 AATTTTAATT
33077653 A
1 A
33077654 CTTTCGACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 17 0.57
11 6 0.20
12 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
AATTTTAATT
Found at i:33078223 original size:14 final size:15
Alignment explanation
Indices: 33078197--33078225 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33078187 CATCTCAACT
33078197 CTTCTCATCTCTTCA
1 CTTCTCATCTCTTCA
33078212 CTTCTC-TCTCTTCA
1 CTTCTCATCTCTTCA
33078226 TTTCCCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.41, G:0.00, T:0.48
Consensus pattern (15 bp):
CTTCTCATCTCTTCA
Found at i:33086658 original size:30 final size:30
Alignment explanation
Indices: 33086619--33086675 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33086609 TTTTGTGGCC
*
33086619 AAAGAGTAAATACT-CAAAATTTGAAGGGAT
1 AAAGAGTAAATA-TGAAAAATTTGAAGGGAT
*
33086649 AAAGTGTAAATATGAAAAATTTGAAGG
1 AAAGAGTAAATATGAAAAATTTGAAGG
33086676 ACTAATAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.25
Consensus pattern (30 bp):
AAAGAGTAAATATGAAAAATTTGAAGGGAT
Found at i:33086979 original size:11 final size:11
Alignment explanation
Indices: 33086931--33086980 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
33086921 ATTAGATAAA
33086931 TATTATTTTAT
1 TATTATTTTAT
*
33086942 TAATATTTTAAT
1 TATTATTTT-AT
* *
33086954 GAGATATTTTAT
1 TA-TTATTTTAT
33086966 TATTATTTTAT
1 TATTATTTTAT
33086977 TATT
1 TATT
33086981 TTATTTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 20 0.61
12 6 0.18
13 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:33088998 original size:33 final size:34
Alignment explanation
Indices: 33088956--33089104 Score: 83
Period size: 33 Copynumber: 4.4 Consensus size: 34
33088946 TGCTTATTTG
*
33088956 TAAGACCATAGTTGGA-CTATGGCATTCTGATGA
1 TAAGACCATAGCTGGACCTATGGCATTCTGATGA
* ** * * **
33088989 TAAGACCATAACT-GAGTTATGGCACTATGAACA
1 TAAGACCATAGCTGGACCTATGGCATTCTGATGA
* * * * *
33089022 TAAGACCATGGTTGGACCATGATAGTATT-T-ATATA
1 TAAGACCATAGCTGGACC-T-ATGGCATTCTGAT-GA
* *
33089057 TAAGACCATAGCTGG-GCTATGGCATTCTAATGA
1 TAAGACCATAGCTGGACCTATGGCATTCTGATGA
* *
33089090 TAAGAACATAACTGG
1 TAAGACCATAGCTGG
33089105 GTTATGGCAC
Statistics
Matches: 84, Mismatches: 25, Indels: 14
0.68 0.20 0.11
Matches are distributed among these distances:
32 8 0.10
33 49 0.58
34 6 0.07
35 16 0.19
36 5 0.06
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (34 bp):
TAAGACCATAGCTGGACCTATGGCATTCTGATGA
Found at i:33089061 original size:101 final size:101
Alignment explanation
Indices: 33088886--33089116 Score: 327
Period size: 101 Copynumber: 2.3 Consensus size: 101
33088876 TGAATTGACG
* * * * * *
33088886 GATAAGACCATAATTGGGTTATGGTACTATGAACGTAATACCATGGTTGGACCATGGCAGTGCTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTACTT
* * * *
33088951 ATTTGTAAGACCATAGTTGGACTATGGCATTCTGAT
66 ATATATAAGACCATAGCTGGACTATGGCATTCTAAT
* * *
33088987 GATAAGACCATAACTGAGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGATAGTATTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTACTT
*
33089052 ATATATAAGACCATAGCTGGGCTATGGCATTCTAAT
66 ATATATAAGACCATAGCTGGACTATGGCATTCTAAT
*
33089088 GATAAGAACATAACTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
33089117 CGAATGTAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 114 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTGGACCATGACAGTACTT
ATATATAAGACCATAGCTGGACTATGGCATTCTAAT
Found at i:33091204 original size:19 final size:19
Alignment explanation
Indices: 33091180--33091217 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
33091170 AAGTTAATAA
*
33091180 CAAATTTTATTACGGTGGG
1 CAAATTTGATTACGGTGGG
*
33091199 CAAATTTGATTATGGTGGG
1 CAAATTTGATTACGGTGGG
33091218 TGACAGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:33092195 original size:35 final size:34
Alignment explanation
Indices: 33092156--33092239 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
33092146 ATATAATTAT
*
33092156 TAAGACCTATATTTGATTATT-TTATATATAAAAAG
1 TAAGACATATATTTGATTATTATT-TATA-AAAAAG
* * *
33092191 TAAGATATATGTTTGTTTATTATTTATAAAAAAG
1 TAAGACATATATTTGATTATTATTTATAAAAAAG
* *
33092225 TAAGATATATGTTTG
1 TAAGACATATATTTG
33092240 CATTTTCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 21 0.48
35 21 0.48
36 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (34 bp):
TAAGACATATATTTGATTATTATTTATAAAAAAG
Found at i:33092228 original size:34 final size:35
Alignment explanation
Indices: 33092167--33092239 Score: 114
Period size: 34 Copynumber: 2.1 Consensus size: 35
33092157 AAGACCTATA
33092167 TTTGATTATTTTATATATAAAAAGTAAGATATATG
1 TTTGATTATTTTATATATAAAAAGTAAGATATATG
*
33092202 TTTGTTTATTATT-TATA-AAAAAGTAAGATATATG
1 TTTGATTATT-TTATATATAAAAAGTAAGATATATG
33092236 TTTG
1 TTTG
33092240 CATTTTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 21 0.58
35 13 0.36
36 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTGATTATTTTATATATAAAAAGTAAGATATATG
Found at i:33092599 original size:14 final size:14
Alignment explanation
Indices: 33092580--33092609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33092570 GATAAAAAGA
33092580 TTTTAAAATCATTT
1 TTTTAAAATCATTT
*
33092594 TTTTAAAATTATTT
1 TTTTAAAATCATTT
33092608 TT
1 TT
33092610 AATGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAAAATCATTT
Found at i:33096106 original size:88 final size:88
Alignment explanation
Indices: 33095986--33096650 Score: 951
Period size: 88 Copynumber: 7.6 Consensus size: 88
33095976 GGACCATTGG
* * *
33095986 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGACCTGCTATCTTCAACCTACTCCACTACA
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
33096051 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * * * *
33096074 CTTCGGTCTACTTCACCGTCGATGCAGAAAGGCTAGATCTGCTATCTTCAACCTACTCCACTACA
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
33096139 ACCGAGAGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * *
33096162 CTTCAATCTACTTCACTGTCGATACCA-GAAGTCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 CTTCGATCTACTTCACTGTCGAT-GCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
33096226 AACCGAGGGAGGTAAGGCTTGTGT
65 AACCGAGGGAGGCAAGGCTTGTGT
* * * * *
33096250 CTTCGATCTGCTTCACTGTTGATGTAGGAAGACAAGACCTGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
33096315 ACAGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * *
33096338 CTTTGTTCTACTTCACTGTCGATGCAAGAAGGCAAGA-CTTGCTATCTTCAACCTGCTCCACTAC
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATC-TGCTATCTTCAACCTGCTCCACTAC
33096402 AACCGAGGGAGGCAAGGCTTGTGT
65 AACCGAGGGAGGCAAGGCTTGTGT
* * * * ** * *
33096426 CTTCGATCTGCTTCGCCGTTGATGCAGGAAGATAAGATCTGCTATCTTAAACCTACTCCACTACA
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
33096491 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * * *
33096514 CTTCAATCTACTTCACTGTCGATGCAGGAAGGCAATATCTGCTACCTTCAACTTGCTCCACTACA
1 CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
33096579 ACCGAGGGAGG-AAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* *
33096601 CTTCGATCTGCTTCACTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTCA
1 CTTCGATCTACTTCACTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCA
33096651 CTGATCTGTT
Statistics
Matches: 510, Mismatches: 62, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.00
87 56 0.11
88 450 0.88
89 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (88 bp):
CTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
ACCGAGGGAGGCAAGGCTTGTGT
Found at i:33098877 original size:7 final size:8
Alignment explanation
Indices: 33098863--33098906 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
33098853 TTTTACTTTG
33098863 ATTTTTTT
1 ATTTTTTT
33098871 ATTTTTTT
1 ATTTTTTT
33098879 ATTTTCTTT
1 ATTTT-TTT
* *
33098888 CTTTTTCT
1 ATTTTTTT
*
33098896 CTTTTTTT
1 ATTTTTTT
33098904 ATT
1 ATT
33098907 GAATCTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (8 bp):
ATTTTTTT
Found at i:33105059 original size:9 final size:9
Alignment explanation
Indices: 33105021--33105052 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
33105011 GAAAAATAGA
33105021 TTTCTCTCTT
1 TTTCT-TCTT
33105031 TTTCTTCTT
1 TTTCTTCTT
33105040 TTTCTTCTT
1 TTTCTTCTT
33105049 TTTC
1 TTTC
33105053 CTTTTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:33107080 original size:995 final size:995
Alignment explanation
Indices: 33105150--33107139 Score: 3980
Period size: 995 Copynumber: 2.0 Consensus size: 995
33105140 AGGTAGAGGC
33105150 GCAAGCGTACGGAGGCTTGTCACGTGTGGAGGGCTTGGCTGCGGCGCTGGAGTCTGCTTCTGTTT
1 GCAAGCGTACGGAGGCTTGTCACGTGTGGAGGGCTTGGCTGCGGCGCTGGAGTCTGCTTCTGTTT
33105215 CAGAGACTGTTAGGGTTTCGGCCTTGATTTGCTCTAGGCATAAGGATGGTGTTGGGGTTCATTGG
66 CAGAGACTGTTAGGGTTTCGGCCTTGATTTGCTCTAGGCATAAGGATGGTGTTGGGGTTCATTGG
33105280 GTATTTGGATTTTGTAATCGGGTTTGGGCTTAATTTAACTTGGTCTGTAATTTGGACTTAGTGTC
131 GTATTTGGATTTTGTAATCGGGTTTGGGCTTAATTTAACTTGGTCTGTAATTTGGACTTAGTGTC
33105345 TGTAAAAAAAACTGGACTGTTCAATAATGGCATTTTAATTTTATTTGTTTTTATATTTGATTTAT
196 TGTAAAAAAAACTGGACTGTTCAATAATGGCATTTTAATTTTATTTGTTTTTATATTTGATTTAT
33105410 GTTTTTGTTTGTGCTTTTGGGCCTGGGGAAATTGGGCCTATTACAAATGTTAAAAAGTTTTAGTG
261 GTTTTTGTTTGTGCTTTTGGGCCTGGGGAAATTGGGCCTATTACAAATGTTAAAAAGTTTTAGTG
33105475 TATTTTTCAGTTTGTTTTTGTTTGCTTATGTATTTTAATGATTTTTCAATGTATCTTTATGGTTT
326 TATTTTTCAGTTTGTTTTTGTTTGCTTATGTATTTTAATGATTTTTCAATGTATCTTTATGGTTT
33105540 GAATCTTTATTTATATATTTTTATGTTTTTATTTTTCGTTATTTTGATTTTGTCTTTTTTACACT
391 GAATCTTTATTTATATATTTTTATGTTTTTATTTTTCGTTATTTTGATTTTGTCTTTTTTACACT
33105605 AGTTATTATTATGTCTTTAGTGTATTTGATATATTATATTTTTTAAAATAATTTTATATAATAAT
456 AGTTATTATTATGTCTTTAGTGTATTTGATATATTATATTTTTTAAAATAATTTTATATAATAAT
33105670 TTTTTTTAAAAATTAAAACAAGTTGGGCTGGGCTCGAGCTCGAGATCTACAATTCGGATTGGGTT
521 TTTTTTTAAAAATTAAAACAAGTTGGGCTGGGCTCGAGCTCGAGATCTACAATTCGGATTGGGTT
33105735 TAAACAAAATTTTAGGCCCAATTTTCGGGTTTGATTGAGTCTGAGCTTAACAATTAAACCTAATT
586 TAAACAAAATTTTAGGCCCAATTTTCGGGTTTGATTGAGTCTGAGCTTAACAATTAAACCTAATT
33105800 TCTATTATAGCTCAGCTCGAACCCAACCCAACTCGACTCATGATCACCTCTAATTTGATCAATGT
651 TCTATTATAGCTCAGCTCGAACCCAACCCAACTCGACTCATGATCACCTCTAATTTGATCAATGT
33105865 ACTAATCATTATGTAAACCAACTTACTTTAAATCCACGTATATTACAAGTCATGAAAATAAATTT
716 ACTAATCATTATGTAAACCAACTTACTTTAAATCCACGTATATTACAAGTCATGAAAATAAATTT
33105930 TAACAATAACTTCAATCGACTCTTAAGTTTGCATGCATATCAATCTTTTAAATATGAATTAAAAT
781 TAACAATAACTTCAATCGACTCTTAAGTTTGCATGCATATCAATCTTTTAAATATGAATTAAAAT
33105995 TAAATCTCAAAATATTTTACGGAAAATGATCTTTAAGAAAAATATTGAATTTAGAAAAATTAATA
846 TAAATCTCAAAATATTTTACGGAAAATGATCTTTAAGAAAAATATTGAATTTAGAAAAATTAATA
33106060 TTTTTTGGTGTTTCAATGATTTTATGTTAAATATTTTTTGTTGTTTGATAAATATTTTTGAAAAT
911 TTTTTTGGTGTTTCAATGATTTTATGTTAAATATTTTTTGTTGTTTGATAAATATTTTTGAAAAT
33106125 ATTTTTTGAAGTTGTTCTCA
976 ATTTTTTGAAGTTGTTCTCA
33106145 GCAAGCGTACGGAGGCTTGTCACGTGTGGAGGGCTTGGCTGCGGCGCTGGAGTCTGCTTCTGTTT
1 GCAAGCGTACGGAGGCTTGTCACGTGTGGAGGGCTTGGCTGCGGCGCTGGAGTCTGCTTCTGTTT
33106210 CAGAGACTGTTAGGGTTTCGGCCTTGATTTGCTCTAGGCATAAGGATGGTGTTGGGGTTCATTGG
66 CAGAGACTGTTAGGGTTTCGGCCTTGATTTGCTCTAGGCATAAGGATGGTGTTGGGGTTCATTGG
33106275 GTATTTGGATTTTGTAATCGGGTTTGGGCTTAATTTAACTTGGTCTGTAATTTGGACTTAGTGTC
131 GTATTTGGATTTTGTAATCGGGTTTGGGCTTAATTTAACTTGGTCTGTAATTTGGACTTAGTGTC
33106340 TGTAAAAAAAACTGGACTGTTCAATAATGGCATTTTAATTTTATTTGTTTTTATATTTGATTTAT
196 TGTAAAAAAAACTGGACTGTTCAATAATGGCATTTTAATTTTATTTGTTTTTATATTTGATTTAT
33106405 GTTTTTGTTTGTGCTTTTGGGCCTGGGGAAATTGGGCCTATTACAAATGTTAAAAAGTTTTAGTG
261 GTTTTTGTTTGTGCTTTTGGGCCTGGGGAAATTGGGCCTATTACAAATGTTAAAAAGTTTTAGTG
33106470 TATTTTTCAGTTTGTTTTTGTTTGCTTATGTATTTTAATGATTTTTCAATGTATCTTTATGGTTT
326 TATTTTTCAGTTTGTTTTTGTTTGCTTATGTATTTTAATGATTTTTCAATGTATCTTTATGGTTT
33106535 GAATCTTTATTTATATATTTTTATGTTTTTATTTTTCGTTATTTTGATTTTGTCTTTTTTACACT
391 GAATCTTTATTTATATATTTTTATGTTTTTATTTTTCGTTATTTTGATTTTGTCTTTTTTACACT
33106600 AGTTATTATTATGTCTTTAGTGTATTTGATATATTATATTTTTTAAAATAATTTTATATAATAAT
456 AGTTATTATTATGTCTTTAGTGTATTTGATATATTATATTTTTTAAAATAATTTTATATAATAAT
33106665 TTTTTTTAAAAATTAAAACAAGTTGGGCTGGGCTCGAGCTCGAGATCTACAATTCGGATTGGGTT
521 TTTTTTTAAAAATTAAAACAAGTTGGGCTGGGCTCGAGCTCGAGATCTACAATTCGGATTGGGTT
33106730 TAAACAAAATTTTAGGCCCAATTTTCGGGTTTGATTGAGTCTGAGCTTAACAATTAAACCTAATT
586 TAAACAAAATTTTAGGCCCAATTTTCGGGTTTGATTGAGTCTGAGCTTAACAATTAAACCTAATT
33106795 TCTATTATAGCTCAGCTCGAACCCAACCCAACTCGACTCATGATCACCTCTAATTTGATCAATGT
651 TCTATTATAGCTCAGCTCGAACCCAACCCAACTCGACTCATGATCACCTCTAATTTGATCAATGT
33106860 ACTAATCATTATGTAAACCAACTTACTTTAAATCCACGTATATTACAAGTCATGAAAATAAATTT
716 ACTAATCATTATGTAAACCAACTTACTTTAAATCCACGTATATTACAAGTCATGAAAATAAATTT
33106925 TAACAATAACTTCAATCGACTCTTAAGTTTGCATGCATATCAATCTTTTAAATATGAATTAAAAT
781 TAACAATAACTTCAATCGACTCTTAAGTTTGCATGCATATCAATCTTTTAAATATGAATTAAAAT
33106990 TAAATCTCAAAATATTTTACGGAAAATGATCTTTAAGAAAAATATTGAATTTAGAAAAATTAATA
846 TAAATCTCAAAATATTTTACGGAAAATGATCTTTAAGAAAAATATTGAATTTAGAAAAATTAATA
33107055 TTTTTTGGTGTTTCAATGATTTTATGTTAAATATTTTTTGTTGTTTGATAAATATTTTTGAAAAT
911 TTTTTTGGTGTTTCAATGATTTTATGTTAAATATTTTTTGTTGTTTGATAAATATTTTTGAAAAT
33107120 ATTTTTTGAAGTTGTTCTCA
976 ATTTTTTGAAGTTGTTCTCA
33107140 ATTAAACAAA
Statistics
Matches: 995, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
995 995 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (995 bp):
GCAAGCGTACGGAGGCTTGTCACGTGTGGAGGGCTTGGCTGCGGCGCTGGAGTCTGCTTCTGTTT
CAGAGACTGTTAGGGTTTCGGCCTTGATTTGCTCTAGGCATAAGGATGGTGTTGGGGTTCATTGG
GTATTTGGATTTTGTAATCGGGTTTGGGCTTAATTTAACTTGGTCTGTAATTTGGACTTAGTGTC
TGTAAAAAAAACTGGACTGTTCAATAATGGCATTTTAATTTTATTTGTTTTTATATTTGATTTAT
GTTTTTGTTTGTGCTTTTGGGCCTGGGGAAATTGGGCCTATTACAAATGTTAAAAAGTTTTAGTG
TATTTTTCAGTTTGTTTTTGTTTGCTTATGTATTTTAATGATTTTTCAATGTATCTTTATGGTTT
GAATCTTTATTTATATATTTTTATGTTTTTATTTTTCGTTATTTTGATTTTGTCTTTTTTACACT
AGTTATTATTATGTCTTTAGTGTATTTGATATATTATATTTTTTAAAATAATTTTATATAATAAT
TTTTTTTAAAAATTAAAACAAGTTGGGCTGGGCTCGAGCTCGAGATCTACAATTCGGATTGGGTT
TAAACAAAATTTTAGGCCCAATTTTCGGGTTTGATTGAGTCTGAGCTTAACAATTAAACCTAATT
TCTATTATAGCTCAGCTCGAACCCAACCCAACTCGACTCATGATCACCTCTAATTTGATCAATGT
ACTAATCATTATGTAAACCAACTTACTTTAAATCCACGTATATTACAAGTCATGAAAATAAATTT
TAACAATAACTTCAATCGACTCTTAAGTTTGCATGCATATCAATCTTTTAAATATGAATTAAAAT
TAAATCTCAAAATATTTTACGGAAAATGATCTTTAAGAAAAATATTGAATTTAGAAAAATTAATA
TTTTTTGGTGTTTCAATGATTTTATGTTAAATATTTTTTGTTGTTTGATAAATATTTTTGAAAAT
ATTTTTTGAAGTTGTTCTCA
Found at i:33108784 original size:22 final size:22
Alignment explanation
Indices: 33108758--33108801 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33108748 GTAAAAGAGA
*
33108758 CATAATTATTCAACTAATATCT
1 CATAACTATTCAACTAATATCT
33108780 CATAACTATTCAACTAATATCT
1 CATAACTATTCAACTAATATCT
33108802 ATTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (22 bp):
CATAACTATTCAACTAATATCT
Found at i:33115336 original size:17 final size:17
Alignment explanation
Indices: 33115314--33115348 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33115304 AGATTATTAT
33115314 TGATTTAATAAGGTCAA
1 TGATTTAATAAGGTCAA
*
33115331 TGATTTGATAAGGTCAA
1 TGATTTAATAAGGTCAA
33115348 T
1 T
33115349 CAACCAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (17 bp):
TGATTTAATAAGGTCAA
Found at i:33115801 original size:24 final size:24
Alignment explanation
Indices: 33115747--33115806 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
33115737 ATAATATAAA
* * *
33115747 AAATTTTAAAATCTAATAAATTAT
1 AAATTATAAAATCTAAAAAATTAG
33115771 AATATTATAAAA-CTAAAAAAATTAG
1 AA-ATTATAAAATCT-AAAAAATTAG
33115796 AAATTATAAAA
1 AAATTATAAAA
33115807 AAATCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATTATAAAATCTAAAAAATTAG
Found at i:33116506 original size:9 final size:9
Alignment explanation
Indices: 33116451--33116579 Score: 61
Period size: 9 Copynumber: 14.0 Consensus size: 9
33116441 ATATATGTTT
*
33116451 TATTTTTAT
1 TATTTTTAA
33116460 TATTTTATAA
1 TATTTT-TAA
**
33116470 TTATTTAGAA
1 -TATTTTTAA
*
33116480 TTTTTTATAA
1 TATTTT-TAA
*
33116490 GCATTTTTAA
1 -TATTTTTAA
33116500 TATTTTTAA
1 TATTTTTAA
* *
33116509 AATTTATAA
1 TATTTTTAA
*
33116518 -GTTTTT-A
1 TATTTTTAA
33116525 TAATTTTTAA
1 T-ATTTTTAA
33116535 TAATTTTATAA
1 T-ATTTT-TAA
*
33116546 T-TTTTTTA
1 TATTTTTAA
33116554 TATTTTT--
1 TATTTTTAA
*
33116561 TACTTTTAA
1 TATTTTTAA
33116570 TAATTTTTAA
1 T-ATTTTTAA
33116580 AATTATTTTG
Statistics
Matches: 91, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 40 0.44
10 24 0.26
11 13 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTTTAA
Found at i:33116514 original size:28 final size:28
Alignment explanation
Indices: 33116482--33116562 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
33116472 ATTTAGAATT
33116482 TTTTATAAGCATTTTTA-ATATTTTTAA-AA
1 TTTTATAAG--TTTTTATA-ATTTTTAATAA
33116511 -TTTATAAGTTTTTATAATTTTTAATAA
1 TTTTATAAGTTTTTATAATTTTTAATAA
* *
33116538 TTTTATAATTTTTTTATATTTTTTA
1 TTTTATAA-GTTTTTATAATTTTTA
33116563 CTTTTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 14 0.30
27 3 0.07
28 15 0.33
29 14 0.30
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTATAAGTTTTTATAATTTTTAATAA
Found at i:33116524 original size:10 final size:9
Alignment explanation
Indices: 33116511--33116583 Score: 69
Period size: 9 Copynumber: 8.0 Consensus size: 9
33116501 ATTTTTAAAA
33116511 TTTATAAGTT
1 TTTATAA-TT
33116521 TTTATAATT
1 TTTATAATT
33116530 TTTAATAA-T
1 TTT-ATAATT
33116539 TTTATAATT
1 TTTATAATT
*
33116548 TTTTTATATT
1 TTTATA-ATT
*
33116558 TTT-TACTT
1 TTTATAATT
*
33116566 TTAATAATT
1 TTTATAATT
*
33116575 TTTAAAATT
1 TTTATAATT
33116584 ATTTTGTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 8 0.15
9 28 0.53
10 17 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:33116541 original size:18 final size:18
Alignment explanation
Indices: 33116492--33116576 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
33116482 TTTTATAAGC
* *
33116492 ATTTTTAATATTTTTAAA
1 ATTTTTAATAATTTTATA
*
33116510 ATTTATAAGT--TTTTATA
1 ATTTTTAA-TAATTTTATA
33116527 ATTTTTAATAATTTTATA
1 ATTTTTAATAATTTTATA
* *
33116545 ATTTTT-TTATATTTT-TT
1 ATTTTTAATA-ATTTTATA
*
33116562 ACTTTTAATAATTTT
1 ATTTTTAATAATTTT
33116577 TAAAATTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 26 0.47
18 27 0.49
19 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (18 bp):
ATTTTTAATAATTTTATA
Found at i:33118581 original size:26 final size:26
Alignment explanation
Indices: 33118535--33118584 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33118525 ATGAGGGTAG
*
33118535 GATTCTATATGTCTTATCTGTTATCT
1 GATTCTATATCTCTTATCTGTTATCT
*
33118561 GATTCTGATATCTGTTA-CTGTTAT
1 GATTCT-ATATCTCTTATCTGTTAT
33118585 GGACTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (26 bp):
GATTCTATATCTCTTATCTGTTATCT
Found at i:33121674 original size:22 final size:22
Alignment explanation
Indices: 33121646--33121688 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
33121636 AGGCTTTTAG
33121646 GACTCGTTATGAGTACTACAAT
1 GACTCGTTATGAGTACTACAAT
33121668 GACTCGTTATGAGTACTACAA
1 GACTCGTTATGAGTACTACAA
33121689 GTTCTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
GACTCGTTATGAGTACTACAAT
Found at i:33139321 original size:30 final size:30
Alignment explanation
Indices: 33139290--33139413 Score: 178
Period size: 30 Copynumber: 4.1 Consensus size: 30
33139280 TCTATATTTA
* * *
33139290 TGGAAAATCAAAGATATGAGTATCCAAT-T
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
33139319 ATGGAAAGTCAAAGATATGGGTATCAAATAT
1 -TGGAAAGTCAAAGATATGGGTATCAAATAT
33139350 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
33139380 TAGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
33139411 TGG
1 TGG
33139414 CATAATAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:33139360 original size:15 final size:16
Alignment explanation
Indices: 33139318--33139398 Score: 71
Period size: 15 Copynumber: 5.3 Consensus size: 16
33139308 AGTATCCAAT
33139318 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
33139334 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
33139349 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
33139364 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
*
33139379 T-TAGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
33139394 TATGG
1 TATGG
33139399 GTATCGAGAT
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 7 0.15
15 28 0.60
16 12 0.26
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:33141631 original size:19 final size:19
Alignment explanation
Indices: 33141607--33141645 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33141597 ATGATGAGTT
*
33141607 AAAAAATAATATTTTTTTA
1 AAAAAATAATATTATTTTA
*
33141626 AAAAAATTATATTATTTTA
1 AAAAAATAATATTATTTTA
33141645 A
1 A
33141646 TTAAAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAAATAATATTATTTTA
Found at i:33141822 original size:31 final size:33
Alignment explanation
Indices: 33141784--33141845 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
33141774 GTCTCTAAGA
*
33141784 ATAACTTTTT-TCACCTTAGTCTC-AAATTTTG
1 ATAACTTTTTCTCAACTTAGTCTCTAAATTTTG
*
33141815 ATAACTTTTTCTCAATTTAGTCTCTAAATTT
1 ATAACTTTTTCTCAACTTAGTCTCTAAATTT
33141846 GTAATCCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 10 0.37
32 11 0.41
33 6 0.22
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (33 bp):
ATAACTTTTTCTCAACTTAGTCTCTAAATTTTG
Found at i:33147245 original size:37 final size:33
Alignment explanation
Indices: 33147195--33147284 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 33
33147185 TTATACCAAG
*
33147195 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TT-G-AAGTTGTACC-TA
*
33147232 GAAGATGTAAGCTCAAAATTGGAGTTGTACCTA
1 GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
33147265 GAGAGATGTAAGCTCAAAAT
1 GA-AGATGTAAGCTCAAAAT
33147285 CTAATGAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
33 4 0.08
34 25 0.50
35 1 0.02
36 2 0.04
37 18 0.36
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (33 bp):
GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
Found at i:33147272 original size:34 final size:36
Alignment explanation
Indices: 33147195--33147322 Score: 129
Period size: 37 Copynumber: 3.6 Consensus size: 36
33147185 TTATACCAAG
*
33147195 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TTAGTAAGTTGTACCTTA
*
33147232 GAAGATGTAAGCTCAAAATT-G-GAGTTGTACC-TA
1 GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
* * *
33147265 GAGAGATGTAAGCTCAAAATCTAATGAGTTGTACACTGA
1 GA-AGATGTAAGCTCAAAAT-TAGTAAGTTGTAC-CTTA
* *
33147304 -AAAATGTAAACTCAAAATT
1 GAAGATGTAAGCTCAAAATT
33147323 TACTGAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
33 4 0.05
34 25 0.32
35 2 0.03
36 3 0.04
37 42 0.53
38 2 0.03
39 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (36 bp):
GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
Found at i:33147311 original size:37 final size:35
Alignment explanation
Indices: 33147199--33147339 Score: 117
Period size: 37 Copynumber: 3.9 Consensus size: 35
33147189 ACCAAGGAAG
* * *
33147199 ATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTAG-AAG
1 ATGTAAGCTCAAAA-TTA-TGAGTTGTACC-TAGAAAA
* * *
33147236 ATGTAAGCTCAAAATT-GGAGTTGTACCTAGAGAG
1 ATGTAAGCTCAAAATTATGAGTTGTACCTAGAAAA
33147270 ATGTAAGCTCAAAATCTAATGAGTTGTACACT-GAAAA
1 ATGTAAGCTCAAAAT-T-ATGAGTTGTAC-CTAGAAAA
* *
33147307 ATGTAAACTCAAAATTTACTGAATTGTACCTAG
1 ATGTAAGCTCAAAA-TTA-TGAGTTGTACCTAG
33147340 GATGGTGTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
33 3 0.03
34 25 0.29
35 1 0.01
36 5 0.06
37 50 0.57
38 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (35 bp):
ATGTAAGCTCAAAATTATGAGTTGTACCTAGAAAA
Found at i:33147392 original size:23 final size:23
Alignment explanation
Indices: 33147347--33147394 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33147337 TAGGATGGTG
* *
33147347 TAAGCTTAAAATTTAAGTTGATA
1 TAAGCTTAAAACTTAAGTAGATA
33147370 TAAGCTTAAAACTTAA-TGAGATA
1 TAAGCTTAAAACTTAAGT-AGATA
33147393 TA
1 TA
33147395 CTTGAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAGCTTAAAACTTAAGTAGATA
Found at i:33150621 original size:14 final size:14
Alignment explanation
Indices: 33150602--33150643 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
33150592 TTATACTTAT
33150602 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
* *
33150616 TTTTTAATATTAAA
1 TTTTTATTTTTAAA
33150630 TTTTT-TTTTGTAAA
1 TTTTTATTTT-TAAA
33150644 CTTCTAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTATTTTTAAA
Found at i:33152712 original size:18 final size:18
Alignment explanation
Indices: 33152689--33152728 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
33152679 AATCACACGA
33152689 AAATAAATTGAAAAAAAT
1 AAATAAATTGAAAAAAAT
33152707 AAATAAATTGAAAAAAAT
1 AAATAAATTGAAAAAAAT
33152725 AAAT
1 AAAT
33152729 TTGGATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAATTGAAAAAAAT
Found at i:33152989 original size:38 final size:38
Alignment explanation
Indices: 33152947--33153026 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
33152937 CAGGGAATTT
*
33152947 GTTAGTGCAAAAAGGGGATGGGTTAGTTTAAGCTTTTG
1 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
33152985 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
1 GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
33153023 GTTA
1 GTTA
33153027 CCTTAGAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (38 bp):
GTTAGTGCAAAAAGGGGATGGATTAGTTTAAGCTTTTG
Found at i:33164030 original size:13 final size:12
Alignment explanation
Indices: 33163981--33164030 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
33163971 TCCTTCTGCT
33163981 TCATCACATTCCA
1 TCATC-CATTCCA
33163994 T-ATCCATGT-CA
1 TCATCCAT-TCCA
33164005 TCATCCATTCCA
1 TCATCCATTCCA
*
33164017 TCTTCCATTTCCA
1 TCATCCA-TTCCA
33164030 T
1 T
33164031 ACTCTCATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.22
12 18 0.56
13 7 0.22
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (12 bp):
TCATCCATTCCA
Found at i:33168305 original size:31 final size:32
Alignment explanation
Indices: 33168264--33168380 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 32
33168254 TTTTAAAGGA
*
33168264 ATATTT-TTATCATTTAACAAAATTAAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* *
33168295 ATA-TTCTTATCATTTCACAAAATTGAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* * *
33168326 -TAATTTGTTACCATTTCACAAAATGAAAGGTG
1 AT-ATTTGTTATCATTTCACAAAATTAAAGTTG
*
33168358 ATATTTGTTATCAATTCACAAAA
1 ATATTTGTTATCATTTCACAAAA
33168381 CCGCGCATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
30 3 0.04
31 27 0.37
32 42 0.58
33 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (32 bp):
ATATTTGTTATCATTTCACAAAATTAAAGTTG
Found at i:33170640 original size:18 final size:19
Alignment explanation
Indices: 33170596--33170650 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
33170586 ATATATCACC
33170596 TCAACAAATAATTTAAAAAT
1 TCAA-AAATAATTTAAAAAT
*
33170616 T-ATAAAAT-ATTTTAAAAT
1 TCA-AAAATAATTTAAAAAT
*
33170634 TCAAAAA-AATATAAAAA
1 TCAAAAATAATTTAAAAA
33170651 AAAGTTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 21 0.72
19 6 0.21
20 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TCAAAAATAATTTAAAAAT
Found at i:33170872 original size:54 final size:56
Alignment explanation
Indices: 33170813--33170919 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 56
33170803 TAGGGTCAAC
33170813 TTTTTAAC-T-CAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
1 TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
* *
33170867 TTTTTAACTTAAGAATAAGTATCAAATTGACAAAAATTATAAACATTAAGAGC
1 TTTTTAACTT-ACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGC
33170920 TTAATTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
54 8 0.17
55 1 0.02
57 39 0.81
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (56 bp):
TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
Found at i:33177285 original size:42 final size:42
Alignment explanation
Indices: 33177232--33177315 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
33177222 TATTTTTATT
33177232 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
33177274 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
33177316 AATTAGGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (42 bp):
TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
Found at i:33181138 original size:19 final size:19
Alignment explanation
Indices: 33181092--33181139 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
33181082 GTATATATTT
*
33181092 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
* * *
33181110 CAAATCTTATTTCGGAAGA
1 TAAATTTTATTTAGGAAGA
33181129 TAAATTTTATT
1 TAAATTTTATT
33181140 CATATTATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:33181200 original size:43 final size:43
Alignment explanation
Indices: 33181153--33181243 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
33181143 ATTATAGGAA
**
33181153 TATTTTTATTTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
* ** *
33181196 TA-TTTTCCCTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
33181238 TATTTT
1 TATTTT
33181244 CCCAATTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (43 bp):
TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
Found at i:33188319 original size:5 final size:6
Alignment explanation
Indices: 33188302--33188326 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33188292 GGTTATAATT
33188302 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
33188327 AGCTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:33195756 original size:20 final size:20
Alignment explanation
Indices: 33195733--33195772 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33195723 TTTAATCTCT
33195733 TTTTAAAATTTAAATTTAAA
1 TTTTAAAATTTAAATTTAAA
* * *
33195753 TTTTATATTTTCAATTTAAA
1 TTTTAAAATTTAAATTTAAA
33195773 ACCAAATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATTTAAATTTAAA
Found at i:33195843 original size:7 final size:7
Alignment explanation
Indices: 33195831--33195855 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33195821 TCTTTTGTGA
33195831 AAAAAAT
1 AAAAAAT
33195838 AAAAAAT
1 AAAAAAT
33195845 AAAAAAT
1 AAAAAAT
33195852 AAAA
1 AAAA
33195856 TAAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:33196741 original size:25 final size:25
Alignment explanation
Indices: 33196707--33196757 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
33196697 AGCATCAACA
33196707 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
33196732 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
33196757 T
1 T
33196758 TCCAAACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.33
Consensus pattern (25 bp):
TACCCAATGACTCCATCTCTAGTTC
Found at i:33201966 original size:23 final size:23
Alignment explanation
Indices: 33201917--33201966 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
33201907 TTTTTTTTTG
* * *
33201917 AGTTAACTCAAATAAGTATTTCG
1 AGTTAACTCAAATAAGTAATACA
*
33201940 AGTTAACTCAGATAAGTAATACA
1 AGTTAACTCAAATAAGTAATACA
33201963 AGTT
1 AGTT
33201967 TTGAGTTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (23 bp):
AGTTAACTCAAATAAGTAATACA
Found at i:33202143 original size:19 final size:20
Alignment explanation
Indices: 33202117--33202157 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33202107 TAAAATTTAC
*
33202117 ATTTTTTAAAAAGTATAAAA
1 ATTTTTAAAAAAGTATAAAA
*
33202137 ATTTTTAAAAAATTATAAAA
1 ATTTTTAAAAAAGTATAAAA
33202157 A
1 A
33202158 ATATATAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTTAAAAAAGTATAAAA
Found at i:33202158 original size:10 final size:10
Alignment explanation
Indices: 33202124--33202166 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
33202114 TACATTTTTT
*
33202124 AAAAAGTATA
1 AAAAATTATA
* *
33202134 AAAATTTTTA
1 AAAAATTATA
33202144 AAAAATTATA
1 AAAAATTATA
33202154 AAAAATATATA
1 AAAAAT-TATA
33202165 AA
1 AA
33202167 GAGAGTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:33202405 original size:21 final size:21
Alignment explanation
Indices: 33202381--33202420 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33202371 TTTTTAATTT
33202381 AATTTGA-TTCAATTTGACTTA
1 AATTTGATTTC-ATTTGACTTA
*
33202402 AATTTTATTTCATTTGACT
1 AATTTGATTTCATTTGACT
33202421 CAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
AATTTGATTTCATTTGACTTA
Found at i:33208969 original size:30 final size:31
Alignment explanation
Indices: 33208902--33208973 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
33208892 CAAGTTAATC
*
33208902 TTTAAACTTAACAATTGTTCCTATATTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
* * * *
33208933 TCTAAACTTGAGAATTGTTCC-ATGCTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
33208963 TTTAAACTTAA
1 TTTAAACTTAA
33208974 AGATTTTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTAAACTTAACAATTGTTCCTATACTGAGA
Found at i:33221388 original size:15 final size:16
Alignment explanation
Indices: 33221361--33221393 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
33221351 AAGAGAGAAA
33221361 AATAAAGGAAAAAAAG
1 AATAAAGGAAAAAAAG
33221377 AATAAA-GAAAAAAAG
1 AATAAAGGAAAAAAAG
33221392 AA
1 AA
33221394 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AATAAAGGAAAAAAAG
Found at i:33227150 original size:18 final size:19
Alignment explanation
Indices: 33227116--33227156 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
33227106 TTTCTTAAAT
*
33227116 ATTAATATAATTATTTTTA
1 ATTAACATAATTATTTTTA
33227135 ATTAACATAA-TATTTTTA
1 ATTAACATAATTATTTTTA
33227153 ATTA
1 ATTA
33227157 TATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAACATAATTATTTTTA
Found at i:33227166 original size:18 final size:18
Alignment explanation
Indices: 33227120--33227167 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33227110 TTAAATATTA
*
33227120 ATATAATTATTTTTAATT
1 ATATATTTATTTTTAATT
* *
33227138 A-ACATAATATTTTTAATT
1 ATATAT-TTATTTTTAATT
33227156 ATATATTTATTT
1 ATATATTTATTT
33227168 ATAAACTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATTTATTTTTAATT
Found at i:33227191 original size:19 final size:19
Alignment explanation
Indices: 33227163--33227199 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33227153 ATTATATATT
*
33227163 TATTTATAAACTTTTTATA
1 TATTTATAAAATTTTTATA
*
33227182 TATTTTTAAAATTTTTAT
1 TATTTATAAAATTTTTAT
33227200 TTCAGTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATAAAATTTTTATA
Found at i:33227640 original size:9 final size:9
Alignment explanation
Indices: 33227625--33227666 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
33227615 CCTTAATTAT
33227625 ATATAAAAA
1 ATATAAAAA
*
33227634 TTATAAAAA
1 ATATAAAAA
33227643 ATATAGAAAA
1 ATATA-AAAA
*
33227653 TTATAAAAA
1 ATATAAAAA
33227662 ATATA
1 ATATA
33227667 TATAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
ATATAAAAA
Found at i:33227654 original size:19 final size:18
Alignment explanation
Indices: 33227625--33227666 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
33227615 CCTTAATTAT
33227625 ATATAAAAATTATAAAAA
1 ATATAAAAATTATAAAAA
33227643 ATATAGAAAATTATAAAAA
1 ATATA-AAAATTATAAAAA
33227662 ATATA
1 ATATA
33227667 TATAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATAAAAATTATAAAAA
Found at i:33229877 original size:12 final size:12
Alignment explanation
Indices: 33229822--33229877 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
33229812 TTAGTATAAT
33229822 TAAATAAATG-AA
1 TAAA-AAATGAAA
33229834 TAAAAAAT-AAA
1 TAAAAAATGAAA
33229845 TAAAGAAATGAGAA
1 TAAA-AAATGA-AA
*
33229859 TAGAAAATGAAA
1 TAAAAAATGAAA
33229871 TAGAAAA
1 TA-AAAA
33229878 GACTAGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.27
12 12 0.32
13 10 0.27
14 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (12 bp):
TAAAAAATGAAA
Found at i:33229927 original size:13 final size:13
Alignment explanation
Indices: 33229901--33229938 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
33229891 AACGAATAGG
33229901 AGAGAAAA-AAAA
1 AGAGAAAAGAAAA
33229913 AGAGAAAAGAAAA
1 AGAGAAAAGAAAA
33229926 AGAG-AAAGAAAA
1 AGAGAAAAGAAAA
33229938 A
1 A
33229939 AAGGAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AGAGAAAAGAAAA
Found at i:33229939 original size:13 final size:12
Alignment explanation
Indices: 33229901--33229939 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
33229891 AACGAATAGG
33229901 AGAGAAAAAAAA
1 AGAGAAAAAAAA
33229913 AGAGAAAAGAAAA
1 AGAGAAAA-AAAA
33229926 AGAGAAAGAAAAA
1 AGAGAAA-AAAAA
33229939 A
1 A
33229940 AGGAGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.32
13 16 0.64
14 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AGAGAAAAAAAA
Found at i:33229940 original size:15 final size:14
Alignment explanation
Indices: 33229900--33229947 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
33229890 AAACGAATAG
*
33229900 GAGAGAAAAAAAAA
1 GAGAAAAAAAAAAA
*
33229914 GAG-AAAAGAAAAA
1 GAGAAAAAAAAAAA
*
33229927 GAGAAAGAAAAAAAG
1 GAGAAA-AAAAAAAA
33229942 GAGAAA
1 GAGAAA
33229948 TTTAAGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 11 0.39
14 5 0.18
15 12 0.43
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
GAGAAAAAAAAAAA
Found at i:33231715 original size:126 final size:126
Alignment explanation
Indices: 33231351--33231706 Score: 626
Period size: 126 Copynumber: 2.8 Consensus size: 126
33231341 TAGCTTTAAG
* * *
33231351 AGGATATTC-GAATATTCAAAACAAACAAAGAAAGCAAAACACAGTACGTTAGGGCACGATCCTT
1 AGGATATTCTG-ATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTT
33231415 TGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
65 TGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
33231477 AGGATATTCTGATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTTT
1 AGGATATTCTGATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTTT
33231542 GAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
66 GAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
33231603 AGGATATTCTGATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTTT
1 AGGATATTCTGATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTTT
** * *
33231668 GAATTCTTTAAATATTGAACATTGCCATTATTTT-AAAAA
66 GAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAA
33231707 CAATTGAGAA
Statistics
Matches: 222, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
125 5 0.02
126 216 0.97
127 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (126 bp):
AGGATATTCTGATATTCAAAACAAACAAAGAAAGCGAAACTCAGTACATTAGGGCACGATCCTTT
GAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACCGGTAAA
Found at i:33232356 original size:20 final size:21
Alignment explanation
Indices: 33232331--33232421 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
33232321 ACGAACTATT
*
33232331 ATAATAGTAG-AATATAATAA
1 ATAATAGTAGTAATAAAATAA
*
33232351 ATAATATTAGTAATAAAATAA
1 ATAATAGTAGTAATAAAATAA
* ** *
33232372 TATTAACTATTAACAATAAAGTATA
1 -A-TAA-TAGTAGTAATAAAATA-A
*
33232397 ATAA-AATAGTAATAAAA-AA
1 ATAATAGTAGTAATAAAATAA
33232416 ATAATA
1 ATAATA
33232422 CTAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
19 5 0.09
20 11 0.20
21 18 0.32
22 1 0.02
23 6 0.11
24 14 0.25
25 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAATAGTAGTAATAAAATAA
Found at i:33232364 original size:16 final size:17
Alignment explanation
Indices: 33232345--33232376 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33232335 TAGTAGAATA
33232345 TAAT-AAATAATATTAG
1 TAATAAAATAATATTAG
33232361 TAATAAAATAATATTA
1 TAATAAAATAATATTA
33232377 ACTATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATTAG
Found at i:33233482 original size:17 final size:15
Alignment explanation
Indices: 33233449--33233484 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
33233439 TAGGTTTAGG
33233449 TGGGTTTTGGGGTAT
1 TGGGTTTTGGGGTAT
33233464 TGGGTTATTGGGTGTAT
1 TGGGTT-TTGGG-GTAT
33233481 TGGG
1 TGGG
33233485 CTTAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
TGGGTTTTGGGGTAT
Found at i:33235368 original size:27 final size:28
Alignment explanation
Indices: 33235329--33235405 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 28
33235319 CACGGAGCCT
* *
33235329 GCCATAAATGCTTA-TCTTTCATAGTTC
1 GCCACAAAGGCTTATTCTTTCATAGTTC
* *
33235356 GCCACAAAGGCTTATTTTTTTCGTAGTTC
1 GCCACAAAGGCTTA-TTCTTTCATAGTTC
33235385 GCCACAAAGGCTTATTCTTTC
1 GCCACAAAGGCTTATTCTTTC
33235406 CTAACATGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.28
28 6 0.14
29 25 0.58
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (28 bp):
GCCACAAAGGCTTATTCTTTCATAGTTC
Found at i:33235384 original size:29 final size:29
Alignment explanation
Indices: 33235345--33235400 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
33235335 AATGCTTATC
33235345 TTTCATAGTTCGCCACAAAGGCTTATTTT
1 TTTCATAGTTCGCCACAAAGGCTTATTTT
*
33235374 TTTCGTAGTTCGCCACAAAGGCTTATT
1 TTTCATAGTTCGCCACAAAGGCTTATT
33235401 CTTTCCTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (29 bp):
TTTCATAGTTCGCCACAAAGGCTTATTTT
Found at i:33237715 original size:20 final size:20
Alignment explanation
Indices: 33237690--33237743 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
33237680 AGGGGCACAC
33237690 GCCCGTGTGGCCT-GAGACAA
1 GCCCGTGTGGCCTGGA-ACAA
* *
33237710 GCCCGTGTGACCTGGAACAT
1 GCCCGTGTGGCCTGGAACAA
33237730 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
33237744 CCTGTGGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAA
Found at i:33239691 original size:5 final size:5
Alignment explanation
Indices: 33239681--33239707 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33239671 AATTGCTCCT
33239681 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
33239708 CTTTCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:33239930 original size:3 final size:3
Alignment explanation
Indices: 33239922--33239968 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
33239912 ATAATATGAC
33239922 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33239968 A
1 A
33239969 GTAAATATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:33239947 original size:20 final size:20
Alignment explanation
Indices: 33239922--33239968 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33239912 ATAATATGAC
33239922 ATAATAATAATAATAA-AATA
1 ATAATAATAATAATAATAA-A
33239942 ATAATAATAATAATAATAAA
1 ATAATAATAATAATAATAAA
33239962 ATAATAA
1 ATAATAA
33239969 GTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAATAATAAA
Found at i:33239952 original size:23 final size:23
Alignment explanation
Indices: 33239922--33239968 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33239912 ATAATATGAC
33239922 ATAATAATAATAATAAAATAATA
1 ATAATAATAATAATAAAATAATA
33239945 ATAATAATAATAATAAAATAATA
1 ATAATAATAATAATAAAATAATA
33239968 A
1 A
33239969 GTAAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAATAATAATAATAAAATAATA
Found at i:33239975 original size:11 final size:11
Alignment explanation
Indices: 33239922--33239973 Score: 77
Period size: 11 Copynumber: 4.5 Consensus size: 11
33239912 ATAATATGAC
33239922 ATAATAATAATA
1 ATAA-AATAATA
33239934 ATAAAATAATA
1 ATAAAATAATA
33239945 ATAATAATAATA
1 ATAA-AATAATA
33239957 ATAAAATAATA
1 ATAAAATAATA
33239968 AGTAAA
1 A-TAAA
33239974 TATCTTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 19 0.50
12 19 0.50
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:33241411 original size:49 final size:49
Alignment explanation
Indices: 33241323--33241420 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
33241313 TAAAAAAAGA
* *
33241323 TTGTTTAAATAAAACTCTAATAGTATACTAGGCCTTTTCGGTAGCCAAT
1 TTGTCTAAATAAAACTCTAATAGTATACTAGGCCATTTCGGTAGCCAAT
* *
33241372 TTGTCTAAATAAAACTCTAATAGTATCCTCGGCCATTTCGGTAGCCAAT
1 TTGTCTAAATAAAACTCTAATAGTATACTAGGCCATTTCGGTAGCCAAT
33241421 GTAATCTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (49 bp):
TTGTCTAAATAAAACTCTAATAGTATACTAGGCCATTTCGGTAGCCAAT
Found at i:33242047 original size:27 final size:28
Alignment explanation
Indices: 33241996--33242048 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
33241986 TCTCTATATA
33241996 TTTAAAATTTAATGTCTCGTTTTTTATT
1 TTTAAAATTTAATGTCTCGTTTTTTATT
*
33242024 TTTAAGAATTT-A-GTCTCTTTTTTTA
1 TTTAA-AATTTAATGTCTCGTTTTTTA
33242049 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 6 0.26
29 5 0.22
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTAATGTCTCGTTTTTTATT
Found at i:33243850 original size:11 final size:11
Alignment explanation
Indices: 33243834--33243877 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
33243824 AGATTAATTT
33243834 GAATTTTTTTA
1 GAATTTTTTTA
*
33243845 GAATTTTTATA
1 GAATTTTTTTA
33243856 -AGATTTTTTTA
1 GA-ATTTTTTTA
*
33243867 AAATTTTTTTA
1 GAATTTTTTTA
33243878 TAAAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.03
11 27 0.93
12 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (11 bp):
GAATTTTTTTA
Done.