Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 129 of 167
Found at i:43320863 original size:48 final size:46
Alignment explanation
Indices: 43320743--43320913 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
43320733 TGATATGTGT
43320743 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
* * * *
43320789 GCCAGTGTAAGACATGTCGGGGACATGCATCAGCCTCGAGATATTTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AG-TA-TGAGA
* * * * *
43320837 GCTAGTGTAAGACATGTCTAGCACATGCATC-GGCATTGAG-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGTATGAGA
* *
43320883 GCTAGTGTAAGACATGTTTGGTACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
43320914 GGCCTTTCGA
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 64 0.62
47 4 0.04
48 32 0.31
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
Found at i:43320895 original size:94 final size:94
Alignment explanation
Indices: 43320743--43320942 Score: 233
Period size: 94 Copynumber: 2.1 Consensus size: 94
43320733 TGATATGTGT
* * *
43320743 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCG
1 GCTAGTGTAAGACATGTCTAGCACATGCATCAGCCACAGTACGAGAGCCAGTGTAAGACATGTCG
**
43320808 GGGACATGCATCAGCCTCGAGATATTTAA
66 GGGACATGCATCAGCCTCGAGATATACAA
* * *
43320837 GCTAGTGTAAGACATGTCTAGCACATGCATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTAGCACATGCATCAGCCA--CAGTACGAGAGCCAGTGTAAGACATGT
** * * ***
43320900 TTGGTACATGCATCGGCCTTTCGATATACAA
64 CGGGGACATGCATCAGCCTCGAGATATACAA
43320931 GCTAGTGTAAGA
1 GCTAGTGTAAGA
43320943 TCTGTCTGGG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 3 0.03
94 84 0.94
95 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGCACATGCATCAGCCACAGTACGAGAGCCAGTGTAAGACATGTCG
GGGACATGCATCAGCCTCGAGATATACAA
Found at i:43321036 original size:49 final size:49
Alignment explanation
Indices: 43320977--43321100 Score: 137
Period size: 49 Copynumber: 2.5 Consensus size: 49
43320967 TGTTGTGTGT
43320977 CAGTGTAAGACCTGTCTGGGACATGACATCGA-CAC-CGATAGAT-GAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCACAC--TAGATGGA-AGC
* * * * *
43321026 TAGTGTAAGACTTGCCTGGGACATGGCATCGACCACACTATATGGAAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCACACTAGATGGAAGC
*
43321075 CAGTGTAATACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTCTGGGACATG
43321101 GCGTCGGCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 44 0.71
50 17 0.27
51 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCGACCACACTAGATGGAAGC
Found at i:43322328 original size:21 final size:20
Alignment explanation
Indices: 43322295--43322334 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43322285 GTTATAACAA
*
43322295 CCACACGGGCGTGTTGCCCTT
1 CCACACGGACGTG-TGCCCTT
*
43322316 CCACATGGACGTGTGCCCT
1 CCACACGGACGTGTGCCCT
43322335 GTTCCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCTT
Found at i:43323403 original size:11 final size:13
Alignment explanation
Indices: 43323377--43323471 Score: 52
Period size: 11 Copynumber: 8.1 Consensus size: 13
43323367 ATAAGGTCTC
43323377 CAAATTCACATTT
1 CAAATTCACATTT
43323390 CAAA-TCAC-TTT
1 CAAATTCACATTT
43323401 C-AATGTCA-ATTT
1 CAAAT-TCACATTT
**
43323413 CACTTTCA-A-TT
1 CAAATTCACATTT
*
43323424 CAAATTCACAATT
1 CAAATTCACATTT
43323437 C-AATTCA-ATTCT
1 CAAATTCACATT-T
43323449 C--ATTCA-A-TT
1 CAAATTCACATTT
*
43323458 CAAATTCACTTTT
1 CAAATTCACATTT
43323471 C
1 C
43323472 CACTTTCTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
9 2 0.03
10 3 0.05
11 25 0.38
12 24 0.37
13 11 0.17
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.40
Consensus pattern (13 bp):
CAAATTCACATTT
Found at i:43323415 original size:18 final size:17
Alignment explanation
Indices: 43323388--43323469 Score: 96
Period size: 17 Copynumber: 4.8 Consensus size: 17
43323378 AAATTCACAT
43323388 TTCAAA-TCACTTTCAA
1 TTCAAATTCACTTTCAA
*
43323404 TGTCAATTTCACTTTCAA
1 T-TCAAATTCACTTTCAA
*
43323422 TTCAAATTCACAATTCAA
1 TTCAAATTCAC-TTTCAA
* *
43323440 TTC-AATTCTCATTCAA
1 TTCAAATTCACTTTCAA
43323456 TTCAAATTCACTTT
1 TTCAAATTCACTTT
43323470 TCCACTTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 10 0.18
17 27 0.48
18 19 0.34
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
TTCAAATTCACTTTCAA
Found at i:43323700 original size:75 final size:75
Alignment explanation
Indices: 43323621--43323793 Score: 172
Period size: 77 Copynumber: 2.3 Consensus size: 75
43323611 TTATTTAATT
*
43323621 CATA-TTCTTAATTC-ATT-TTCCAATCAAATTCAAATCACTAATTACTTTTCAATCAATATACA
1 CATATTTCTTAATTCAATTATTCCAATC-AATTCAAATCACT-ATTACTTTCCAATCAATATAC-
43323683 TTTCAAATACTCA
63 TTTCAAATACTCA
* ** * * *
43323696 CATATTTTCTTCATTCAATTCAATTTGATTCAATTCAAATCACTCTTAGTTTCCAATCAATATAC
1 CATA-TTTCTTAATTCAATT--ATTCCAATCAATTCAAATCACTATTACTTTCCAATCAATATAC
*
43323761 TTTCAAATATTCA
63 TTTCAAATACTCA
* **
43323774 CATAATTCACAATTCAATTA
1 CATATTTCTTAATTCAATTA
43323794 CTTAATTCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
75 5 0.06
77 20 0.25
78 19 0.24
79 18 0.22
80 13 0.16
81 5 0.06
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (75 bp):
CATATTTCTTAATTCAATTATTCCAATCAATTCAAATCACTATTACTTTCCAATCAATATACTTT
CAAATACTCA
Found at i:43323702 original size:86 final size:78
Alignment explanation
Indices: 43323612--43323777 Score: 179
Period size: 79 Copynumber: 2.0 Consensus size: 78
43323602 AATTCATTTT
* *
43323612 TATTTAATTCATATTCTTAATTCATTTTCCAATCAAATTCAAATCACTAATTACTTTTCAATCAA
1 TATTTAATTC--ATTC--AATTCAATTT-CAATC-AATTCAAATCACT-ATTACTTTCCAATCAA
43323677 TATACATTTCAAATACTCACA
59 TATAC-TTTCAAATACTCACA
** * * * *
43323698 TATTTTCTTCATTCAATTCAATTTGATTCAATTCAAATCACTCTTAGTTTCCAATCAATATACTT
1 TATTTAATTCATTCAATTCAATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATACTT
*
43323763 TCAAATATTCACA
66 TCAAATACTCACA
43323776 TA
1 TA
43323778 ATTCACAATT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 16 0.23
79 18 0.25
80 13 0.18
81 3 0.04
82 9 0.13
84 4 0.06
86 8 0.11
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (78 bp):
TATTTAATTCATTCAATTCAATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATACTT
TCAAATACTCACA
Found at i:43324669 original size:3 final size:3
Alignment explanation
Indices: 43324654--43324703 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
43324644 ATGTGTTAGT
* * *
43324654 TAA TAA TAT TAA TAA TAA TAA TACA TTA TAG TAA TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
43324698 TAA TAA
1 TAA TAA
43324704 AATTTAATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:43324875 original size:3 final size:3
Alignment explanation
Indices: 43324831--43324867 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
43324821 TACTTTATTT
*
43324831 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
43324868 TTAATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:43337064 original size:19 final size:19
Alignment explanation
Indices: 43337037--43337080 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
43337027 ATAAGCTTAG
*
43337037 TGTACCTACTTGTACAACT
1 TGTAACTACTTGTACAACT
43337056 TGTAACTACTTGTACAACT
1 TGTAACTACTTGTACAACT
43337075 TGTAAC
1 TGTAAC
43337081 ATAACTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (19 bp):
TGTAACTACTTGTACAACT
Found at i:43337066 original size:10 final size:10
Alignment explanation
Indices: 43337044--43337081 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
43337034 TAGTGTACCT
43337044 ACTTGT-ACA
1 ACTTGTAACA
*
43337053 ACTTGTAACT
1 ACTTGTAACA
43337063 ACTTGT-ACA
1 ACTTGTAACA
43337072 ACTTGTAACA
1 ACTTGTAACA
43337082 TAACTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 14 0.56
10 11 0.44
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (10 bp):
ACTTGTAACA
Found at i:43339794 original size:42 final size:43
Alignment explanation
Indices: 43339694--43339845 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
43339684 CAATTTCAAC
* * * *
43339694 GTCCCAAATGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAAACGTGGTCTTACACGAAATCAAATATCGATGCCAAT
* * *
43339737 GTCCCAGACGGGGTCTTACACGAAATCATATA-CGATGCCAAT
1 GTCCCAAACGTGGTCTTACACGAAATCAAATATCGATGCCAAT
* * *
43339779 GTCCCAAACATGGTCTTACACGTAAATCACAA-ATCGCTGCCAAC
1 GTCCCAAACGTGGTCTTACACG-AAATCA-AATATCGATGCCAAT
*
43339823 GTCCCAGACGTGGTCTTACACGA
1 GTCCCAAACGTGGTCTTACACGA
43339846 TAACACATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
42 28 0.31
43 34 0.37
44 29 0.32
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCCCAAACGTGGTCTTACACGAAATCAAATATCGATGCCAAT
Found at i:43352750 original size:42 final size:43
Alignment explanation
Indices: 43352704--43352816 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 43
43352694 TGTCCCTAAT
* * * * *
43352704 ATGGTTTTACACGAAATCATATAT-GATGTCAATGT-CCTAGAC
1 ATGGTCTTACACGAAATCACAAATCGATGCCAAAGTGCC-AGAC
43352746 ATGGTCTTACACGTAAATCACAAATCGATGCCAAAGTGCCAGAC
1 ATGGTCTTACACG-AAATCACAAATCGATGCCAAAGTGCCAGAC
*
43352790 ATGGTCTTACACGATAA-CACATATCGA
1 ATGGTCTTACACGA-AATCACAAATCGA
43352817 AATCCTATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
42 12 0.20
43 19 0.31
44 28 0.46
45 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAAATCGATGCCAAAGTGCCAGAC
Found at i:43352792 original size:44 final size:42
Alignment explanation
Indices: 43352652--43352803 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 42
43352642 CAATGCTAAC
* * * * **
43352652 GTCCTAGACGTAGTCTTACATGTAATCA-AATATCGATGCCACT
1 GTCCTAGACATGGTCTTACACGAAATCACAA-AT-GATGCCAAA
* * * * * *
43352695 GTCCCTA-ATATGGTTTTACACGAAATCATATATGATGTCAAT
1 GT-CCTAGACATGGTCTTACACGAAATCACAAATGATGCCAAA
43352737 GTCCTAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAA
1 GTCCTAGACATGGTCTTACACG-AAATCACAAAT-GATGCCAAA
43352781 GTGCC-AGACATGGTCTTACACGA
1 GT-CCTAGACATGGTCTTACACGA
43352804 TAACACATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.05
42 22 0.25
43 29 0.33
44 31 0.35
45 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
GTCCTAGACATGGTCTTACACGAAATCACAAATGATGCCAAA
Found at i:43354093 original size:45 final size:45
Alignment explanation
Indices: 43354029--43354118 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
43354019 TAAATTGACA
43354029 ATGGCATGAGGTTGATATTAGCTTCTAGGTCACATAAGGCATTCC
1 ATGGCATGAGGTTGATATTAGCTTCTAGGTCACATAAGGCATTCC
43354074 ATGGCATGAGGTTGATATTAGCTTCTAGGTCACATAAGGCATTCC
1 ATGGCATGAGGTTGATATTAGCTTCTAGGTCACATAAGGCATTCC
43354119 TGAAACTTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (45 bp):
ATGGCATGAGGTTGATATTAGCTTCTAGGTCACATAAGGCATTCC
Found at i:43357839 original size:17 final size:15
Alignment explanation
Indices: 43357817--43357850 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
43357807 TTTAAATAAG
43357817 AATTTTATATATTTATT
1 AATTTTAT-TATTT-TT
43357834 AATTTTATTATTTTT
1 AATTTTATTATTTTT
43357849 AA
1 AA
43357851 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
AATTTTATTATTTTT
Found at i:43373953 original size:30 final size:29
Alignment explanation
Indices: 43373860--43374004 Score: 173
Period size: 30 Copynumber: 4.8 Consensus size: 29
43373850 TAGGTACAAG
*
43373860 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
* ** *
43373890 AGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
43373920 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
* *
43373950 TGGTGGTGGAAAATGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
*
43373980 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGT
43374005 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.28
Consensus pattern (29 bp):
TGGTGGTGGAGAAGTGTGGCTAGTGGAGT
Found at i:43380859 original size:36 final size:36
Alignment explanation
Indices: 43380819--43380891 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
43380809 TTGGGAAATT
*
43380819 ATATTTCAAAAAATTAAAAGAAGTAGGAATGGAAAA
1 ATATTTCAAAAAATTAAAAGAAGCAGGAATGGAAAA
43380855 ATATTTCAAAAAATTAAAAGAAGCAGGAATGGAAAA
1 ATATTTCAAAAAATTAAAAGAAGCAGGAATGGAAAA
43380891 A
1 A
43380892 GGCCGGAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.21
Consensus pattern (36 bp):
ATATTTCAAAAAATTAAAAGAAGCAGGAATGGAAAA
Found at i:43383551 original size:31 final size:29
Alignment explanation
Indices: 43383516--43383609 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 29
43383506 TCATATAAGA
43383516 ATATTGATTATTAATAATATTATTAAATTAT
1 ATATT-ATTATT-ATAATATTATTAAATTAT
* *
43383547 ATATT-TTAATTATAATA-TATTTAATAAT
1 ATATTATT-ATTATAATATTATTAAATTAT
*
43383575 A-ATTATGT-TTA-AATATGATTAAATTAT
1 ATATTAT-TATTATAATATTATTAAATTAT
*
43383602 TTATTATT
1 ATATTATT
43383610 GATATTAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
26 4 0.08
27 15 0.29
28 16 0.31
29 9 0.17
30 3 0.06
31 5 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
ATATTATTATTATAATATTATTAAATTAT
Found at i:43383566 original size:16 final size:16
Alignment explanation
Indices: 43383545--43383586 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43383535 TTATTAAATT
*
43383545 ATATATTTTAATTATA
1 ATATATTTTAATAATA
43383561 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43383576 AT-TATGTTTAA
1 ATATAT-TTTAA
43383587 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:43383576 original size:15 final size:15
Alignment explanation
Indices: 43383527--43383577 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
43383517 TATTGATTAT
*
43383527 TAATAATATTATTAAA
1 TAATAATA-TATTTAA
*
43383543 TTAT-ATAT-TTTAA
1 TAATAATATATTTAA
*
43383556 TTATAATATATTTAA
1 TAATAATATATTTAA
43383571 TAATAAT
1 TAATAAT
43383578 TATGTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 8 0.27
14 5 0.17
15 14 0.47
16 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:43383822 original size:16 final size:16
Alignment explanation
Indices: 43383801--43383869 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
43383791 TGATTTGCTC
*
43383801 TTACACCTCTATTCCA
1 TTACACCTCTAATCCA
43383817 TTACACCTCTAATCCA
1 TTACACCTCTAATCCA
43383833 TTACACCTCTAATCCA
1 TTACACCTCTAATCCA
* * *
43383849 ATACAGCTTTAATCCA
1 TTACACCTCTAATCCA
*
43383865 ATACA
1 TTACA
43383870 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.01, T:0.32
Consensus pattern (16 bp):
TTACACCTCTAATCCA
Found at i:43389160 original size:58 final size:57
Alignment explanation
Indices: 43389097--43389261 Score: 181
Period size: 58 Copynumber: 2.9 Consensus size: 57
43389087 TTTTTATACT
* * * *
43389097 ATTATATATTATGATTT-TTTAATT-TATTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATTATATTTAATAATAATCATATTAA-AATATGATTAA
* *
43389155 ATTATATATTATTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAA
* * * * *
43389212 ATTATTTATTATTTTTATTAAAATATTTTTAATATTAATCTTATTAAAAT
1 ATTATATATTA-TTTTATTAAATTATATTTAATAATAATCATATTAAAAT
43389262 TTAATAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 3 0.03
57 25 0.27
58 63 0.69
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAA
Found at i:43389400 original size:12 final size:13
Alignment explanation
Indices: 43389383--43389453 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
43389373 TGAAATGTTC
43389383 TTAATAATAATT-
1 TTAATAATAATTA
*
43389395 TTAATATAAAATTA
1 TTAATA-ATAATTA
*
43389409 TTATTAA-ATATTA
1 TTAATAATA-ATTA
*
43389422 TTAATAATTA-TA
1 TTAATAATAATTA
*
43389434 TTAATAAT-GTTA
1 TTAATAATAATTA
43389446 TTAA-AATA
1 TTAATAATA
43389454 TATATTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.06
12 23 0.48
13 17 0.35
14 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
TTAATAATAATTA
Found at i:43389714 original size:44 final size:46
Alignment explanation
Indices: 43389644--43389733 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
43389634 ATTACAACAT
43389644 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
43389688 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
43389734 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.59
45 2 0.05
46 15 0.37
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:43390952 original size:58 final size:57
Alignment explanation
Indices: 43390889--43391053 Score: 181
Period size: 58 Copynumber: 2.9 Consensus size: 57
43390879 TTTTTATACT
* * * *
43390889 ATTATATATTATGATTT-TTTAATT-TATTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATTATATTTAATAATAATCATATTAA-AATATGATTAA
* *
43390947 ATTATATATTATTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAA
* * * * *
43391004 ATTATTTATTATTTTTATTAAAATATTTTTAATATTAATCTTATTAAAAT
1 ATTATATATTA-TTTTATTAAATTATATTTAATAATAATCATATTAAAAT
43391054 TTAATAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 3 0.03
57 25 0.27
58 63 0.69
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAA
Found at i:43391192 original size:12 final size:13
Alignment explanation
Indices: 43391175--43391245 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
43391165 TGAAATGTTC
43391175 TTAATAATAATT-
1 TTAATAATAATTA
*
43391187 TTAATATAAAATTA
1 TTAATA-ATAATTA
*
43391201 TTATTAA-ATATTA
1 TTAATAATA-ATTA
*
43391214 TTAATAATTA-TA
1 TTAATAATAATTA
*
43391226 TTAATAAT-GTTA
1 TTAATAATAATTA
43391238 TTAA-AATA
1 TTAATAATA
43391246 TATATTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.06
12 23 0.48
13 17 0.35
14 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
TTAATAATAATTA
Found at i:43391481 original size:39 final size:40
Alignment explanation
Indices: 43391425--43391530 Score: 99
Period size: 44 Copynumber: 2.5 Consensus size: 40
43391415 TTTGCTTATG
*
43391425 CTATTACAACATC-ATTCCATTCAACCAAACACAAGAATT-
1 CTATTACAGC-TCTATTCCATTCAACCAAACACAAGAATTA
***
43391464 CTATTACAGCTCTATTCCATTCCATTCAACCAAACAGTTGAATTA
1 CTATTACAGCTC---T--ATTCCATTCAACCAAACACAAGAATTA
43391509 CTGATTACAGCTCTATTCCATT
1 CT-ATTACAGCTCTATTCCATT
43391531 ACACGTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
38 2 0.04
39 9 0.16
41 8 0.15
43 1 0.02
44 23 0.42
45 2 0.04
46 10 0.18
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (40 bp):
CTATTACAGCTCTATTCCATTCAACCAAACACAAGAATTA
Found at i:43391507 original size:44 final size:46
Alignment explanation
Indices: 43391437--43391530 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 46
43391427 ATTACAACAT
43391437 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
43391481 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
43391527 CATT
1 CATT
43391531 ACACGTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 24 0.53
45 2 0.04
46 19 0.42
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:43391533 original size:16 final size:16
Alignment explanation
Indices: 43391512--43391566 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
43391502 TGAATTACTG
43391512 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
43391528 ATTACA-CGTCTATTCA
1 ATTACAGC-TCTATTCC
* *
43391544 ATTACAGCCCTATTTC
1 ATTACAGCTCTATTCC
43391560 ATTACAG
1 ATTACAG
43391567 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:43397128 original size:25 final size:23
Alignment explanation
Indices: 43397076--43397130 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
43397066 TATATATAGT
43397076 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
43397099 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
43397124 AATAGTG
1 AATAGTG
43397131 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:43397212 original size:22 final size:22
Alignment explanation
Indices: 43397186--43397260 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
43397176 TATAAAATAG
*
43397186 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
43397208 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
43397233 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
43397255 AGATAA
1 ATATAA
43397261 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:43397230 original size:25 final size:25
Alignment explanation
Indices: 43397192--43397338 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
43397182 ATAGATATAA
*
43397192 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAGTGT
* *
43397217 AAAAAATACATACATAATATAAT-T
1 AAAAAATATATACATAATATAGTGT
* *
43397241 --AAAATATATACATAAGATAACATGTAGA
1 AAAAAATATATACAT-A-AT-ATA-GT-GT
* * *
43397269 AAAAAAAATATAAATAATATAGTAT
1 AAAAAATATATACATAATATAGTGT
* * *
43397294 TAAAGATATATACATAAAATA--GT
1 AAAAAATATATACATAATATAGTGT
* * *
43397317 ATAATATATATACGTAATATAG
1 AAAAAATATATACATAATATAG
43397339 AATTTAGAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
22 12 0.13
23 18 0.20
24 3 0.03
25 38 0.42
26 3 0.03
27 2 0.02
28 2 0.02
29 1 0.01
30 11 0.12
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTGT
Found at i:43397290 original size:77 final size:82
Alignment explanation
Indices: 43397156--43397337 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 82
43397146 ATGTTAAGAT
* * * * * *
43397156 ATATATAATATATACATATGTATAAAATAGATATAAAAAAAATATGTACATAATATAGTGTAAAA
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
*
43397221 AATACATACATAATATA
66 AATACATACATAAAATA
* *
43397238 AT-TAAAATATATACATAAG-ATAACAT-G-TAGAAAAAAAA-ATATAAATAATATAGTATTAAA
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
* *
43397298 GATATATACATAAAATA
66 AATACATACATAAAATA
* * *
43397315 GTATAATATATATACGTAA-TATA
1 ATATAAAATATATACATAAGTATA
43397338 GAATTTAGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
77 33 0.39
78 27 0.32
79 1 0.01
80 6 0.07
81 15 0.18
82 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (82 bp):
ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
AATACATACATAAAATA
Found at i:43397302 original size:23 final size:23
Alignment explanation
Indices: 43397276--43397403 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
43397266 AGAAAAAAAA
43397276 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
43397299 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
43397324 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
43397346 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* *
43397368 AATATATATAATATAATATTAAA-
1 -ATATAAATAATATAGTATTAAAG
*
43397391 AAATATAATAATA
1 ATATA-AATAATA
43397404 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 33 0.42
24 9 0.11
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:43397903 original size:30 final size:30
Alignment explanation
Indices: 43397867--43397964 Score: 178
Period size: 30 Copynumber: 3.3 Consensus size: 30
43397857 AGGTACAAGT
*
43397867 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
43397897 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
43397927 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
43397957 GGTGGTGG
1 GGTGGTGG
43397965 CAAAGGCTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:43397924 original size:18 final size:18
Alignment explanation
Indices: 43397901--43397954 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
43397891 GGAGTAGGTG
43397901 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
43397919 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
43397931 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
43397949 GTGGAG
1 GTGGAG
43397955 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:43398752 original size:87 final size:87
Alignment explanation
Indices: 43398601--43398806 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 87
43398591 TCCTGAGCTT
* * *
43398601 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
43398666 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
* **
43398689 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
43398752 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* *
43398776 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
43398807 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 72 0.71
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:43399082 original size:88 final size:88
Alignment explanation
Indices: 43398933--43399179 Score: 485
Period size: 88 Copynumber: 2.8 Consensus size: 88
43398923 AATTGAAATT
43398933 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
43398998 ATTGAAGAACAGAAATGGAAAAC
66 ATTGAAGAACAGAAATGGAAAAC
43399021 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
43399086 ATTGAAGAACAGAAATGGAAAAC
66 ATTGAAGAACAGAAATGGAAAAC
*
43399109 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
43399174 ATTGAA
66 ATTGAA
43399180 AATACCTCAA
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 158 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGAAACACAGAA
ATTGAAGAACAGAAATGGAAAAC
Found at i:43399277 original size:73 final size:73
Alignment explanation
Indices: 43399109--43399673 Score: 735
Period size: 73 Copynumber: 7.7 Consensus size: 73
43399099 AATGGAAAAC
* * * *
43399109 ACCTCAGC--GTCTTGAGGTTCAACTCACCCCTCGCAATATGAGCTGATTTTTTTTGA-AAGACA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAA-ACA
* *
43399171 GAAATTGAAAAT
62 AAAATTGAAATT
** **
43399183 ACCTCAATGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
43399248 TTGAAATT
66 TTGAAATT
43399256 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
43399321 TTGAAATT
66 TTGAAATT
43399329 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
43399394 TTGAAATT
66 TTGAAATT
* * * * * *
43399402 ACCTCAACGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAA
*
43399467 AATTGAAAAT
64 AATTGAAATT
* * * * * * * *
43399477 ACTTCAACGTGTCTTGAGGCTTAACTCATCTCTTGCAATCTGAGTTGAGTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
43399542 TTGAAATT
66 TTGAAATT
** *
43399550 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAAAA
*
43399613 ATTGAAAAT
65 ATTGAAATT
* * * *
43399622 ACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
43399674 GAAAAAGTAG
Statistics
Matches: 435, Mismatches: 49, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
71 3 0.01
72 60 0.14
73 269 0.62
74 8 0.02
75 61 0.14
76 34 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (73 bp):
ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
TTGAAATT
Found at i:43399798 original size:127 final size:126
Alignment explanation
Indices: 43399570--43399820 Score: 353
Period size: 127 Copynumber: 2.0 Consensus size: 126
43399560 GTCCTGAGGC
*
43399570 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
* *
43399635 CCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAAAGTAGAAATTAAAAGGT
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA-CAGAAATTAAAAGGT
** * * * *
43399696 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA-ACAGAAATTGAAATTACCTCATCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTG
* * *
43399760 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
64 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAG
43399821 CAGAAATTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
126 27 0.25
127 70 0.64
128 13 0.12
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (126 bp):
TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:43399824 original size:13 final size:13
Alignment explanation
Indices: 43399803--43399847 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
43399793 TTGATTTTTG
43399803 AAAAACAGAAATT
1 AAAAACAGAAATT
*
43399816 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
43399829 AAAAAACAAAAATT
1 -AAAAACAGAAATT
43399843 AAAAA
1 AAAAA
43399848 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:43399841 original size:14 final size:14
Alignment explanation
Indices: 43399803--43399847 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
43399793 TTGATTTTTG
43399803 AAAAACAGAAATT-
1 AAAAACAGAAATTA
*
43399816 AAAAGCAGAAATTA
1 AAAAACAGAAATTA
*
43399830 AAAAACAAAAATTA
1 AAAAACAGAAATTA
43399844 AAAA
1 AAAA
43399848 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAAACAGAAATTA
Found at i:43399905 original size:100 final size:101
Alignment explanation
Indices: 43399732--43399935 Score: 286
Period size: 100 Copynumber: 2.0 Consensus size: 101
43399722 GATTCTTGAC
* * * *
43399732 AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
43399797 TTTTTGAAAAACAGAAATT-AAAAGCAGAAATTAAA
66 TTTTTGAAAAACAGAAATTAAAAAACAGAAATTAAA
* *
43399832 AAACAAAAATTAAAAATACCTCGGCGTG-CCTCGAGGCTCAGCTCACCTCTCGCAATATGAGTTG
1 AAACAAAAATTAAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
43399896 ATTTTTGAAAAGCATAAATTGAAAAAACAGAAATTGAA
65 ATTTTTGAAAAACAGAAATT-AAAAAACAGAAATTAAA
43399934 AA
1 AA
43399936 TACCTCAGCA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
99 3 0.03
100 72 0.79
102 16 0.18
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (101 bp):
AAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGAAATTAAAAAACAGAAATTAAA
Found at i:43399976 original size:90 final size:87
Alignment explanation
Indices: 43399816--43399991 Score: 246
Period size: 90 Copynumber: 2.0 Consensus size: 87
43399806 AACAGAAATT
* * *
43399816 AAAAGCAGAAATTAAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTAAAAAACAAAAATTAAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTC
*
43399881 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATAAGTTGATTTTTG
* * *
43399903 AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCA
1 AAAAGCAGAAATT-AAAAAACAAAAATTAAAAATACCTCAGC--GTG-ACTCGAGGCTCAACTCA
43399967 CCTCTCGCAATATAAGTTGATTTTT
62 CCTCTCGCAATATAAGTTGATTTTT
43399992 TTTTTGAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
87 12 0.15
88 25 0.32
90 40 0.51
91 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTAAAAAACAAAAATTAAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTC
TCGCAATATAAGTTGATTTTTG
Found at i:43400099 original size:72 final size:72
Alignment explanation
Indices: 43399919--43400211 Score: 367
Period size: 72 Copynumber: 4.0 Consensus size: 72
43399909 ATAAATTGAA
* *
43399919 AAAACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATAAG
43399983 TTGATTTTTTTTTTG
63 TTGA-----TTTTTG
* **
43399998 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
*
43400063 AATTTTG
66 ATTTTTG
* * *
43400070 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
43400135 ATTTTTG
66 ATTTTTG
* * * *
43400142 ACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTT
43400205 GATTTTT
65 GATTTTT
43400212 TTTGAAACAT
Statistics
Matches: 196, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
71 41 0.21
72 71 0.36
73 24 0.12
76 1 0.01
77 34 0.17
79 25 0.13
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
ATTTTTG
Found at i:43400292 original size:698 final size:680
Alignment explanation
Indices: 43399239--43400494 Score: 1968
Period size: 698 Copynumber: 1.8 Consensus size: 680
43399229 GATTTTTGAC
* * *
43399239 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
* *
43399304 TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
43399369 TGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTA
131 TAAGTTGAATTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTA
* * * * *
43399434 TCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTT
196 TCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTC
* * *
43399499 AACTCATCTCTTGCAATCTGAGTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCC
260 AACTCATCTCTCGCAATATGAGTTGAGTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCC
43399564 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAG
325 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAG
43399629 CGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
390 CGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
43399694 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGT
455 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGT
*
43399759 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGCAG
520 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAAAGCAG
43399824 AAATTAAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATA
585 AAATTAAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATA
43399889 TGAGTTGATTTTTGAAAAGCATAAATTGAAA
650 TGAGTTGATTTTTGAAAAGCATAAATTGAAA
*
43399920 AAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAACAAAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATATAAGT
* * **
43399984 TGATTTTTTTTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
63 TGA-----TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
* *
43400048 TCGCAATATAAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
123 TCGCAATATAAGTTGAATTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAA
* * *
43400112 CTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTT
188 CTCACCTATCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTT
* *
43400174 GAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAACGAA
253 GAGGCTCAACTCATC-TCTCGCAATATGAGTTGA---GTTTTG--AC-----------AAACAAA
43400238 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
301 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
43400303 ACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA
366 ACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA
43400368 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAA
431 TTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAA
43400433 CAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGA
496 CAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGA
43400495 AAAAAATACC
Statistics
Matches: 521, Mismatches: 29, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
681 24 0.05
682 34 0.07
683 36 0.07
684 28 0.05
685 5 0.01
686 60 0.12
687 66 0.13
688 7 0.01
698 261 0.50
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (680 bp):
AAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
TAAGTTGAATTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTA
TCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAACGCGTCTTGAGGCTCA
ACTCATCTCTCGCAATATGAGTTGAGTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG
TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAAAGCAGA
AATTAAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAGCATAAATTGAAA
Found at i:43400296 original size:232 final size:222
Alignment explanation
Indices: 43399919--43401051 Score: 840
Period size: 232 Copynumber: 5.3 Consensus size: 222
43399909 ATAAATTGAA
* * * *
43399919 AAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAAAAATTGAAATTACCTCAGC-TGT---CTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
43399984 TGATTTTTTTT---TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
62 TGATTTTTTTTGACTTTAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACC
43400046 TCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
127 TCTCGCAATATAAGTTGAA-TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
43400111 ACTCACCTCTCGCAATATGAGTTGA-TTTTTG
191 ACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
43400142 ACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 A-AAACAAAAATTGAAATTACCTCAGCTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
43400206 ATTTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
64 ATTTTTTTTG--AC-T---TT-AAAACA-G-AAATTGAAAATACCTCAACGTGTCCTGAGGCTCA
* * * * * * *
43400271 ACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCG
120 ACTCACCTCTCGCAATATAAGTTGAATTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTG
* *
43400336 AGGCTCAACTCACCTCTTGCAATATGAGCTGA--TTTTG
184 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * * * *
43400373 ---A-AAAAGTAGAAATTA----A-------AAGGTTCAACCCACCTCTCGCAATATGAGTTGA-
1 AAAACAAAAATTGAAATTACCTCAGCTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
43400422 --TTCTTGAC----AAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTC
66 TTTTTTTGACTTTAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
* * * *
43400481 GC-A-AT-A--TGAA-TTG-----A-AAA---AAA-TACCACAGTGTGTAATCTGAAGCTCAACT
131 GCAATATAAGTTGAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACT
*
43400530 CACCTCTCGCAATATGAGTTGATTTTTTTTA
194 CACCTCTCGCAATATGAGTTGA--TTTTTTG
* * * * *
43400561 AAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGG
1 AAAACAAAAATTGAAATTACCTCAGC-TGT---CTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
43400626 TGGTTTTTTTT---TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
62 TGATTTTTTTTGACTTT-AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCAC
*
43400688 TTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
126 CTCTCGCAATATAAGTTGAA-TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
** *
43400753 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
190 AACTCACCTCTCGCAATATGAGTTGA--TTTTTTG
* *
43400788 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AA-AACAAAAATTGAAATTACCTCAGC-TGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
43400853 GA----TTTTGA----AAAACAAAAATT----A-A----AA-G-G--CT-----T-AACTCACCT
63 GATTTTTTTTGACTTTAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCT
* * * * * * * * *
43400891 CTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
128 CTCGCAATATAAGTTGAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
*
43400954 TCACTTCTCGCAATATGAGTTGA-TTTTT-
193 TCACCTCTCGCAATATGAGTTGATTTTTTG
* * * * *
43400982 AAAAAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAAACAAAAATTGAAATTACCTCAGC-TGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTG
43401047 ATTTT
64 ATTTT
43401052 CCTTGGAAAG
Statistics
Matches: 745, Mismatches: 92, Indels: 172
0.74 0.09 0.17
Matches are distributed among these distances:
182 10 0.01
183 3 0.00
184 31 0.04
186 3 0.00
187 1 0.00
188 4 0.01
191 1 0.00
192 11 0.01
193 57 0.08
194 6 0.01
195 5 0.01
196 2 0.00
197 2 0.00
198 59 0.08
199 48 0.06
200 4 0.01
201 23 0.03
202 1 0.00
207 28 0.04
209 1 0.00
210 7 0.01
211 2 0.00
212 53 0.07
213 1 0.00
214 2 0.00
215 31 0.04
216 1 0.00
217 4 0.01
219 4 0.01
220 50 0.07
222 7 0.01
223 1 0.00
224 24 0.03
225 3 0.00
226 43 0.06
227 43 0.06
228 29 0.04
229 12 0.02
230 5 0.01
231 11 0.01
232 112 0.15
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (222 bp):
AAAACAAAAATTGAAATTACCTCAGCTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTGACTTTAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATAAGTTGAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTTG
Found at i:43400340 original size:72 final size:73
Alignment explanation
Indices: 43400222--43400363 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
43400212 TTTGAAACAT
* * *
43400222 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
43400287 ATGAGTTG
66 ATGAGTTG
* *
43400295 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
43400359 ATGAG
66 ATGAG
43400364 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:43400390 original size:160 final size:157
Alignment explanation
Indices: 43400077--43400377 Score: 428
Period size: 160 Copynumber: 1.9 Consensus size: 157
43400067 TTGAAAACAG
* **
43400077 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTG
* * ** * *
43400142 ACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
66 AAAAACAAAAATTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
43400207 TTTTTTTTGAAACATAAATTAAAAAAACGA
131 ---TTTTTGAAAAATAAATTAAAAAAACGA
43400237 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTG
*
43400300 AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGC
66 AAAA-ACAAAAATTGAAAATACCTCAGCGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGC
43400365 TGA-TTTTGAAAAA
128 TGATTTTTGAAAAA
43400378 GTAGAAATTA
Statistics
Matches: 127, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
157 9 0.07
158 3 0.02
159 26 0.20
160 58 0.46
161 31 0.24
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (157 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTG
AAAAACAAAAATTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTTGAAAAATAAATTAAAAAAACGA
Found at i:43400742 original size:72 final size:72
Alignment explanation
Indices: 43400517--43400872 Score: 338
Period size: 72 Copynumber: 4.7 Consensus size: 72
43400507 AGTGTGTAAT
* ** * * *
43400517 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
*
43400582 TCAGCATGTGAAC
63 TCAGC--GTG-TC
** * *** *
43400595 C-GAGGCTCAACTCACCTCTCGCAATATAAGGTGGTTTTTTTTTTTGAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCATTTCTCGCAATAT---G-AG--TTGAATTTTGAAAACAGAAATTGAAATT
*
43400659 ACCTCAACGTGTC
60 ACCTCAGCGTGTC
* *
43400672 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
43400737 GCGTGTC
66 GCGTGTC
* *
43400744 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAA-AACAGAAATTGAAATTAC
43400809 CTCAGCGTGTC
62 CTCAGCGTGTC
** * *
43400820 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
43400873 AAAAGGCTTA
Statistics
Matches: 239, Mismatches: 27, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
72 82 0.34
73 2 0.01
74 1 0.00
75 6 0.03
76 60 0.25
77 26 0.11
78 28 0.12
80 31 0.13
81 1 0.00
83 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTC
Found at i:43400818 original size:148 final size:151
Alignment explanation
Indices: 43400517--43400876 Score: 446
Period size: 148 Copynumber: 2.4 Consensus size: 151
43400507 AGTGTGTAAT
* * *
43400517 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAAATACC
*
43400582 TCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGGTGGTTTTTTTTTTTGAAAACA
63 TCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGGTGGTATTTTTTTTTGAAAACA
43400647 GAAATTGAAAATACCTCAACGTGTC
127 GAAATTGAAAATACCTCAACGTGTC
* ** * *
43400672 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
43400737 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGA-GTTG-ATTTTTTTTT-AACAACAGA
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGGTGGTATTTTTTTTTGAA-AACAGA
* *
43400797 AATTGAAATTACCTCAGCGTGTC
129 AATTGAAAATACCTCAACGTGTC
* *
43400820 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
43400877 GGCTTAACTC
Statistics
Matches: 179, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
147 11 0.06
148 76 0.42
149 5 0.03
150 28 0.16
152 29 0.16
155 30 0.17
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (151 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGGTGGTATTTTTTTTTGAAAACAGAAA
TTGAAAATACCTCAACGTGTC
Found at i:43400823 original size:76 final size:75
Alignment explanation
Indices: 43400517--43400858 Score: 431
Period size: 76 Copynumber: 4.5 Consensus size: 75
43400507 AGTGTGTAAT
* *
43400517 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
*
43400582 TCAGCATGTGAAC
66 TCAGC--GTG-TC
* * *
43400595 C-GAGGCTCAACTCACCTCTCGCAATATAAGGTGGTTTTTTTTTTTGAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGA-GTTG-ATTTTTTTTT-AAAACAGAAATTGAAAAT
*
43400659 ACCTCAACGTGTC
63 ACCTCAGCGTGTC
* ** * * * *
43400672 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
43400734 TCAGCGTGTC
66 TCAGCGTGTC
** *
43400744 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAAATAC
43400809 CTCAGCGTGTC
65 CTCAGCGTGTC
*
43400820 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
43400859 GAAAAACAAA
Statistics
Matches: 233, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
72 62 0.27
73 4 0.02
75 6 0.03
76 65 0.28
77 30 0.13
78 33 0.14
79 8 0.03
80 25 0.11
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:43401019 original size:71 final size:71
Alignment explanation
Indices: 43400876--43401051 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 71
43400866 AAAAATTAAA
* * * * * * **
43400876 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
43400939 GCCCCG
66 GCCCCG
*
43400945 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
* **
43401010 GTCTTG
66 GCCCCG
43401016 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
43401052 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 3 0.03
71 63 0.68
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:43412859 original size:30 final size:30
Alignment explanation
Indices: 43412825--43412890 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
43412815 GTACAAGTGA
43412825 TGGTGGAGCAAGTGTGGCTAATGGAGTAGG
1 TGGTGGAGCAAGTGTGGCTAATGGAGTAGG
* *
43412855 TGGTGGAGCAAGTGTGGCTAGTGGAGTTGG
1 TGGTGGAGCAAGTGTGGCTAATGGAGTAGG
43412885 TGGTGG
1 TGGTGG
43412891 CAAAGGCTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.06, G:0.50, T:0.26
Consensus pattern (30 bp):
TGGTGGAGCAAGTGTGGCTAATGGAGTAGG
Found at i:43420025 original size:58 final size:55
Alignment explanation
Indices: 43419962--43420128 Score: 167
Period size: 58 Copynumber: 2.9 Consensus size: 55
43419952 TTTTTATACT
*
43419962 ATTATATATTATGATTTTTTAATTTATTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTTTTAATTTATTTAATAATAATTATATTAA-AATTTGATTAA
* * * * *
43420020 ATTATATATTATTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTT-TTTAATT-TATTTAATAATAATTATATTAAAATTTGATTAA
*
43420077 ATTATTTATTATTTTTATTAAAATATT-TTTAATAATAATCT-TATTAAAATTT
1 ATTATATATTATTTTT-TT--AAT-TTATTTAATAATAAT-TATATTAAAATTT
43420129 AATAATAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
56 4 0.04
57 30 0.33
58 51 0.57
59 4 0.04
60 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (55 bp):
ATTATATATTATTTTTTTAATTTATTTAATAATAATTATATTAAAATTTGATTAA
Found at i:43420265 original size:12 final size:13
Alignment explanation
Indices: 43420248--43420318 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
43420238 TGAAATGTTC
43420248 TTAATAATAATT-
1 TTAATAATAATTA
*
43420260 TTAATATAAAATTA
1 TTAATA-ATAATTA
*
43420274 TTATTAA-ATATTA
1 TTAATAATA-ATTA
*
43420287 TTAATAATTA-TA
1 TTAATAATAATTA
*
43420299 TTAATAAT-GTTA
1 TTAATAATAATTA
43420311 TTAA-AATA
1 TTAATAATA
43420319 TATATTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.06
12 23 0.48
13 17 0.35
14 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
TTAATAATAATTA
Found at i:43420579 original size:44 final size:46
Alignment explanation
Indices: 43420509--43420598 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
43420499 ATTACAACAT
43420509 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
43420553 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
43420599 TATCACAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.59
45 2 0.05
46 15 0.37
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:43420635 original size:16 final size:16
Alignment explanation
Indices: 43420584--43420638 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
43420574 TGAATTACTG
*
43420584 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCA
*
43420600 ATCACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
43420616 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCA
43420632 ATTACAG
1 ATTACAG
43420639 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:43420972 original size:15 final size:15
Alignment explanation
Indices: 43420952--43421003 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
43420942 ACTACAAAAC
43420952 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
43420967 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
43420986 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
43421001 ATT
1 ATT
43421004 AATGTTGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:43420989 original size:19 final size:19
Alignment explanation
Indices: 43420965--43421001 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43420955 TATTATTAAT
*
43420965 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
43420984 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
43421002 TTAATGTTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:43421485 original size:53 final size:53
Alignment explanation
Indices: 43421420--43421530 Score: 177
Period size: 53 Copynumber: 2.1 Consensus size: 53
43421410 ATAAACACAG
* * *
43421420 AAAAATGTAGAAAATATTTTATGTGAAACAAATAGAACTTAATGATTGAATGT
1 AAAAATGCAGAAAATATTTTATATGAAACAAATAGAACCTAATGATTGAATGT
* *
43421473 AAAAATGCAGAAAATATTTTCTATGAAACAAATATAACCTAATGATTGAATGT
1 AAAAATGCAGAAAATATTTTATATGAAACAAATAGAACCTAATGATTGAATGT
43421526 AAAAA
1 AAAAA
43421531 CAATGTAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (53 bp):
AAAAATGCAGAAAATATTTTATATGAAACAAATAGAACCTAATGATTGAATGT
Found at i:43429398 original size:20 final size:22
Alignment explanation
Indices: 43429359--43429399 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43429349 TAATATTACA
*
43429359 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
43429381 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
43429400 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:43440327 original size:76 final size:76
Alignment explanation
Indices: 43440201--43440354 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
43440191 TGCTAATGTA
43440201 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
1 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
43440266 AATCATATCTG
66 AATCATATCTG
43440277 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
1 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
43440342 AATCATATCTG
66 AATCATATCTG
43440353 AC
1 AC
43440355 AACGCATTGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (76 bp):
ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
AATCATATCTG
Found at i:43441900 original size:45 final size:44
Alignment explanation
Indices: 43441850--43441999 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 44
43441840 AACTTTAAAT
* * * *
43441850 CCCTAAGCAGTAGGGTAACACGCTGAAGATTTACGGATCTTATCA
1 CCCTAAGCAGTAGGGTAACA-GCTGAAGATTTACAGACCTTAACC
* * * * * *
43441895 CCCTAAGTAGTAGGGAAACAGATCGAAGA-TGA-TGAGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAGCT-GAAGATTTACAGA-CCTTAACC
* *
43441939 CCCTAAGCAGTAAGGTAACAAGC-CAA-ATTTACAGACCTTAACC
1 CCCTAAGCAGTAGGGTAAC-AGCTGAAGATTTACAGACCTTAACC
43441982 CCCTAAGCAGTAGGGTAA
1 CCCTAAGCAGTAGGGTAA
43442000 TAGGTTGAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 30 0.37
44 26 0.32
45 25 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGCTGAAGATTTACAGACCTTAACC
Found at i:43442338 original size:129 final size:128
Alignment explanation
Indices: 43442090--43442437 Score: 455
Period size: 129 Copynumber: 2.7 Consensus size: 128
43442080 TGCAATGAAG
* * *
43442090 CAGGCTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACGAGCTTT
1 CAGGCTGAATTTACAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC-TT
* * * *
43442155 AACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTACATACCTTAACCCCCTAAGCAGTAGGGTAA
64 AACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
* * * *
43442220 TAGGCTGAATTTACAAATATTAACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTA
1 CAGGCTGAATTTACAGATCTTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGATGAAGGGCTTA
*
43442285 ACCCCCTAAGCAGTAGAGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
65 ACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
* * * * * *
43442349 CAGGTTGAATTCACAGATCTAAACCCCTAAGC-GATAGGGAAACAGATCGATGATGACAAGCCTT
1 CAGGCTGAATTTACAGATCTTAACCCCTAAGCAG-TAGGGAAACAGATCGAAGATGA-AGGGCTT
* *
43442413 AAACCCCTAAGCAGTAAGGGTAACA
64 AACCCCCTAAGCAGT-AGAGTAACA
43442438 GGTTGAAAAT
Statistics
Matches: 190, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
127 1 0.01
128 26 0.14
129 105 0.55
130 58 0.31
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (128 bp):
CAGGCTGAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGCTTAA
CCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
Found at i:43442365 original size:43 final size:43
Alignment explanation
Indices: 43442103--43442440 Score: 197
Period size: 43 Copynumber: 7.8 Consensus size: 43
43442093 GCTGAATTTG
* * * * *
43442103 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAA-TTGA
* * * * * * *
43442147 C-GAGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTA
1 CAGA-CCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* * * *
43442190 CATACCTTAACCCCCTAAGCAGTAGGGTAATAGG-CTGAATTTA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTC-GAATTGA
* ** * * *
43442233 CAAATATT-AACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGA
1 CAGACCTTAAACCCC-TAAGCAGTAGGGTAACAGGTCGAA-TTGA
* ** * * * * * * *
43442277 -TGGGCTTAACCCCCTAAGCAGTAGAGTAGCAAGCCAAATTTA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* *
43442319 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* * *
43442362 CAGATC-TAAACCCCTAAGC-GATAGGGAAACAGATCG-ATGATGA
1 CAGACCTTAAACCCCTAAGCAG-TAGGGTAACAGGTCGAAT--TGA
43442405 CA-AGCCTTAAACCCCTAAGCAGTAAGGGTAACAGGT
1 CAGA-CCTTAAACCCCTAAGCAGT-AGGGTAACAGGT
43442441 TGAAAATCAA
Statistics
Matches: 220, Mismatches: 59, Indels: 29
0.71 0.19 0.09
Matches are distributed among these distances:
41 3 0.01
42 34 0.15
43 121 0.55
44 51 0.23
45 11 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (43 bp):
CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
Found at i:43442841 original size:24 final size:23
Alignment explanation
Indices: 43442803--43442858 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
43442793 AATTTTGGGC
*
43442803 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
* *
43442826 CCAATAACCCCAAAACCTACTAAAC
1 CCAA-AACCCCAAAACCCACT-AAG
43442851 CCAAAACC
1 CCAAAACC
43442859 TAACAGCAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
25 6 0.21
ACGTcount: A:0.46, C:0.43, G:0.02, T:0.09
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:43447456 original size:46 final size:46
Alignment explanation
Indices: 43447396--43447669 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
43447386 TTTGACATGA
* * * * *
43447396 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *
43447442 TGCCATGGTATCTTTCAACCATGGTCTTACATATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *
43447488 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43447534 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
43447580 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43447626 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
43447670 AGAGCACACT
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 3 0.01
46 206 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:43447769 original size:54 final size:54
Alignment explanation
Indices: 43447703--43447839 Score: 274
Period size: 54 Copynumber: 2.5 Consensus size: 54
43447693 TCCTTACAGT
43447703 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
43447757 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
43447811 GGGATTACCAGTCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
43447840 AAAATTACTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:43452054 original size:65 final size:65
Alignment explanation
Indices: 43451936--43452065 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
43451926 TCATTCATGA
* * *
43451936 TACATCTAGTTAGGAGCATTTGATTCATTTTTTATCATAGCATCCTAGTTATTTGTCATAAGCAT
1 TACATCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
* *
43452001 TACATTCTAGTTAGGAACATTTGATTCA-TTTTGATTATAGCATTCTAAG-TATTTGGCATAAGC
1 TACA-TCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCT-AGTTATTTGGCATAAGC
43452064 AT
64 AT
43452066 AGGAAATCGA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 34 0.59
66 24 0.41
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (65 bp):
TACATCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
Found at i:43452266 original size:84 final size:86
Alignment explanation
Indices: 43452120--43452490 Score: 472
Period size: 86 Copynumber: 4.4 Consensus size: 86
43452110 TCGGTCAAGA
* * * * ** *
43452120 CAGCGAGCCTTAACCCCCTAAGCAGTGGGGTAATAGGC--AGGAAAATACAGACCTCCCCTAAAC
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
43452183 AGTAGTAGAGAA-A-ATCGAAGAT
66 AGTAGT-G-GAACAGATCGAAG-T
* * * *
43452205 -AGCAAGCCTTAACTCTCTAAGCAGTAGGGTAACCGG-T-TAGAAAATACAGATCTCCCCTAAAC
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
*
43452267 AGTAGTGGAGCAGATCGAAGT
66 AGTAGTGGAACAGATCGAAGT
* * *
43452288 CAGCAAGCCTTAA-CTTCTTAAGCGGTACGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
1 CAGCAAGCCTTAACCCTC-TAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
43452352 CAGTAGTGGAACAGATCGAAGT
65 CAGTAGTGGAACAGATCGAAGT
43452374 CAGCAAGCCTTAACCC-CTTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
1 CAGCAAGCCTTAACCCTC-TAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
*
43452438 CAGTAATGGAACAGATCGAAGT
65 CAGTAGTGGAACAGATCGAAGT
* *
43452460 CAGCAAGCCTTAACCCTTTAAGCAATAGGGT
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGT
43452491 TGTAACGACC
Statistics
Matches: 253, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
82 2 0.01
83 5 0.02
84 93 0.37
85 1 0.00
86 151 0.60
87 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (86 bp):
CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
AGTAGTGGAACAGATCGAAGT
Found at i:43452372 original size:170 final size:172
Alignment explanation
Indices: 43452161--43452473 Score: 485
Period size: 170 Copynumber: 1.8 Consensus size: 172
43452151 AATAGGCAGG
*
43452161 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAGAT-AGCAAGCCTTAA-CTCTCTA
1 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAG-TCAGCAAGCCTTAACCCCT-TA
* * * * *
43452224 AGCAGTAGGGTAACCGG-T-TAGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAG
64 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
43452287 TCAGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
129 TCAGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
*
43452331 AAAATACAGATCTCCCCTAAACAGTAGT-G-GAACAGATCGAAGTCAGCAAGCCTTAACCCCTTA
1 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAA-A-ATCGAAGTCAGCAAGCCTTAACCCCTTA
43452394 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
64 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
43452459 TCAGCAAGCCTTAAC
129 TCAGCAAGCCTTAAC
43452474 CCTTTAAGCA
Statistics
Matches: 130, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
168 3 0.02
169 3 0.02
170 64 0.49
171 4 0.03
172 56 0.43
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (172 bp):
AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAGTCAGCAAGCCTTAACCCCTTAAG
CAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAGTC
AGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
Found at i:43454141 original size:15 final size:15
Alignment explanation
Indices: 43454121--43454177 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
43454111 CGATGAATTT
43454121 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
43454136 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
43454151 ATTGAATTTATATTG
1 ATTGAATTTATATTG
43454166 ATTGAA-TTATAT
1 ATTGAATTTATAT
43454178 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:43454579 original size:23 final size:23
Alignment explanation
Indices: 43454549--43454635 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
43454539 GCTTTATCGA
* *
43454549 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
43454572 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
43454593 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
43454615 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
43454636 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:43455884 original size:84 final size:84
Alignment explanation
Indices: 43455734--43456128 Score: 592
Period size: 84 Copynumber: 4.7 Consensus size: 84
43455724 GGACGTTACA
* * * * *
43455734 AGGGTAACAGGCTAAAAAATATAGATCTCCCCTAAACAGTAACGGAGCAGATCGAAAACAGCAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
* *
43455799 CCTTAACTCTCTAAGTAGT
66 CCTTAACTCCCTAAGCAGT
*
43455818 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAACAGATCGAAGACAGTAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
43455883 CCTTAACTCCCTAAGCAGT
66 CCTTAACTCCCTAAGCAGT
* * *
43455902 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAATAGTAGCGGAGCAGATCAAAGACAATAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
43455967 CCTTAACTCCCTAAGCAGT
66 CCTTAACTCCCTAAGCAGT
* ** *
43455986 AGGGTAACAGGTTAGAAAATACAGATCTTTCCTAAACAGTAGCGGAGCAGATCGAAGATAGTAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
*
43456051 CCTTAACTCCCTAAGTAGT
66 CCTTAACTCCCTAAGCAGT
* * * * * *
43456070 AGGGTAACCGGCTAGAAGATACAAATCTCCCCTAAAAAGTAGTGGAGCAGATTGAAGAC
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGAC
43456129 GAGTTCCTAT
Statistics
Matches: 281, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 281 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (84 bp):
AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
CCTTAACTCCCTAAGCAGT
Found at i:43455902 original size:44 final size:42
Alignment explanation
Indices: 43455847--43456064 Score: 118
Period size: 44 Copynumber: 5.1 Consensus size: 42
43455837 TACAGATCTC
43455847 CCCTAAACAGTAGCGGAACAGATCGAAGACAGTAAGCCTTAACT
1 CCCTAAACAGTAGCGGAACAGATCGAAGA-A-TAAGCCTTAACT
* * * *
43455891 CCCTAAGCAGTAG-GGTAACAGGCTAGAA-AATACAG----ATCT
1 CCCTAAACAGTAGCGG-AACA-GATCGAAGAATA-AGCCTTAACT
* * *
43455930 CCCCTAAATAGTAGCGGAGCAGATCAAAGACAATAAGCCTTAACT
1 -CCCTAAACAGTAGCGGAACAGATCGAAG--AATAAGCCTTAACT
* * * *
43455975 CCCTAAGCAGTAG-GGTAACAGGTTAGAA-AATACAGATCTT---T
1 CCCTAAACAGTAGCGG-AACA-GATCGAAGAATA-AG-CCTTAACT
*
43456016 -CCTAAACAGTAGCGGAGCAGATCGAAGATAGTAAGCCTTAACT
1 CCCTAAACAGTAGCGGAACAGATCGAAGA-A-TAAGCCTTAACT
43456059 CCCTAA
1 CCCTAA
43456065 GTAGTAGGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 48
0.64 0.12 0.24
Matches are distributed among these distances:
39 12 0.09
40 32 0.25
41 10 0.08
42 12 0.09
43 10 0.08
44 39 0.31
45 12 0.09
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (42 bp):
CCCTAAACAGTAGCGGAACAGATCGAAGAATAAGCCTTAACT
Found at i:43455943 original size:40 final size:40
Alignment explanation
Indices: 43455815--43456027 Score: 116
Period size: 40 Copynumber: 5.1 Consensus size: 40
43455805 CTCTCTAAGT
43455815 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
* * * *
43455855 AGTAGCGG-AACA-GATCGAAGACAGTA-AG-CCTTAACTCCCTAAGC
1 AGTAG-GGTAACAGGCTAGAA-A-A-TACAGATC-T--C-CCCTAAAC
*
43455899 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAT
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
* * * * * *
43455939 AGTAGCGG-AGCAGATCAAAGACAATA-AG-CCTTAACTCCCTAAGC
1 AGTAG-GGTAACAG-GC-TAGAAAATACAGATC-T--C-CCCTAAAC
* **
43455983 AGTAGGGTAACAGGTTAGAAAATACAGATCTTTCCTAAAC
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
43456023 AGTAG
1 AGTAG
43456028 CGGAGCAGAT
Statistics
Matches: 126, Mismatches: 25, Indels: 44
0.65 0.13 0.23
Matches are distributed among these distances:
39 5 0.04
40 38 0.30
41 13 0.10
42 18 0.14
43 13 0.10
44 34 0.27
45 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (40 bp):
AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
Found at i:43458710 original size:125 final size:125
Alignment explanation
Indices: 43458294--43458703 Score: 464
Period size: 125 Copynumber: 3.2 Consensus size: 125
43458284 TTGAAGGTCC
* * * * *
43458294 GAGAAATCGTGCCTAATCGTGTTGGGTTTCGATTTTTTCGTTCAGCTAAAATGCGGAATATCCTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
** * *
43458359 TGGAAATTTTGTCCAT-TTTTTTTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTT
66 T-GAAATTTCATCCATGTTTTCTT-AAATTAAAATGAGGCAATATTTCGTATTT-GGAAGTTT
* * * *
43458421 GAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTTTCATTCGACTAAAATATGGAATATCC
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTTCATTCAACTAAAATACGGAATATCC
* * * * *
43458486 TTTTTTGAAATTTCATTCAAGTTTTCTTAAACTAAAACGAGGCAATATTTTGTATTTGGAAGTTT
64 ---TTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
* * * *
43458551 GAGAGATCGTGCCCAATCGTGCTGAGTTTCGA-TTTTTCATTCAACTAAGATACGAAATATCCTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
* * * *
43458615 TCAACATTTCATCCATGTTTTCTTAAATTAAAATGAGGTAATATTTCGTATTTGGAAATTC
66 TGAA-ATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
* * *
43458676 GATAAATCATGCCCAATCGTGTTGGGTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTT
43458704 GTGATTTACT
Statistics
Matches: 238, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
124 5 0.02
125 71 0.30
127 54 0.23
129 26 0.11
130 37 0.16
131 36 0.15
132 9 0.04
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (125 bp):
GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
TGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
Found at i:43458749 original size:125 final size:125
Alignment explanation
Indices: 43458350--43458750 Score: 290
Period size: 125 Copynumber: 3.2 Consensus size: 125
43458340 TAAAATGCGG
* ** * * * *
43458350 AATATCCTTTGGAAATTTTGTCC-ATTTTTTTTAAAATTAAAATGAGGCAATATTTCGTATTTGG
1 AATATCCTTTTGAAATTTCATCCAAGTTTTCTT-AAACTAAAACGAGGCAATATTTCGTATTT-G
* * * * * * * * * * * ***
43458414 GGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTTTCATTCGACTAAAATATGG
64 GAAATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGA---TTTCTCATTCAACCAAGATACCA
* *
43458479 AATATCCTTTTTTGAAATTTCATTCAAGTTTTCTTAAACTAAAACGAGGCAATATTTTGTATTTG
1 AATATCC--TTTTGAAATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTG
* * * * * * *
43458544 GAAGTTTGAGAGATCGTGCCCAATCGTGCTGAGTTTCGATTTTTCATTCAACTAAGATACGA
64 GAAATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGATTTCTCATTCAACCAAGATACCA
* * * * *
43458606 AATATCC-TTTCAACATTTCATCCATGTTTTCTTAAATTAAAATGAGGTAATATTTCGTATTTGG
1 AATATCCTTTTGAA-ATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTGG
* * * * ***
43458670 AAATTCGATAAATCATGCCCAATCGTGTTGGGTTGT-GATTTACT-GTTTGGCCAA-ATAACCA
65 AAATTCGAGAAATCATGCCCAATCGTGCTGAGTT-TCGATTT-CTCATTCAACCAAGAT-ACCA
43458731 AATATCCTTTTGAAATTTCA
1 AATATCCTTTTGAAATTTCA
43458751 AATGCACGAG
Statistics
Matches: 226, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
124 7 0.03
125 97 0.43
126 7 0.03
127 26 0.12
129 7 0.03
130 37 0.16
131 38 0.17
132 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (125 bp):
AATATCCTTTTGAAATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTGGA
AATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGATTTCTCATTCAACCAAGATACCA
Found at i:43462117 original size:18 final size:19
Alignment explanation
Indices: 43462094--43462133 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
43462084 CAAGTGTATG
43462094 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATGT
*
43462112 GTAAAAATAATATACATTT
1 GTAAAAATAATATACATGT
43462131 GTA
1 GTA
43462134 TATAATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATGT
Found at i:43462180 original size:5 final size:5
Alignment explanation
Indices: 43462166--43462195 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
43462156 AATATTTAAG
43462166 TATA- TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
43462196 GTTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:43462316 original size:24 final size:24
Alignment explanation
Indices: 43462247--43462316 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
43462237 ATGAAATAGA
* *
43462247 AAAAG-GAATAGAAACAT-AGAAGT
1 AAAAGAGAA-AGAAAAATGAGAAGG
43462270 AAAA-ACGAAAGAAAAA-GAAAGAAGG
1 AAAAGA-GAAAGAAAAATG--AGAAGG
43462295 AAAAGAGAAAGAAAAATGAGAA
1 AAAAGAGAAAGAAAAATGAGAA
43462317 AAAAGCTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
25 19 0.50
26 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.06
Consensus pattern (24 bp):
AAAAGAGAAAGAAAAATGAGAAGG
Found at i:43462558 original size:24 final size:24
Alignment explanation
Indices: 43462530--43462576 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43462520 TTGAAATGGA
43462530 ATTG-ATTTAGTATTTGAT-GAATTT
1 ATTGAATTTA-TA-TTGATCGAATTT
43462554 ATTGAATTTATATTGATCGAATT
1 ATTGAATTTATATTGATCGAATT
43462577 GATATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATCGAATTT
Found at i:43475022 original size:16 final size:16
Alignment explanation
Indices: 43474991--43475021 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43474981 AATTGTTCTC
43474991 CTTTTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
43475007 CTTTTTTTT-TTTTTT
1 CTTTTTTTTCTTTTTT
43475022 TGGGGGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:43476692 original size:41 final size:41
Alignment explanation
Indices: 43476601--43476701 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 41
43476591 TTTTCAGTTA
* * *
43476601 AGGTGAAATGTAGAAAAATACTTCTAACTTGAAGCGCTTTC
1 AGGTGAAATATAGAAAAACACTTCTAACTTGAAGCACTTTC
* * * *
43476642 AGGTAAAATATAGAAAAACACTTCTTA-TTGGAAGTACTTTT
1 AGGTGAAATATAGAAAAACACTTCTAACTT-GAAGCACTTTC
*
43476683 AGGTGAAATATAGGAAAAC
1 AGGTGAAATATAGAAAAAC
43476702 GCTTTCAGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.04
41 48 0.96
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (41 bp):
AGGTGAAATATAGAAAAACACTTCTAACTTGAAGCACTTTC
Found at i:43476714 original size:41 final size:41
Alignment explanation
Indices: 43476601--43476715 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
43476591 TTTTCAGTTA
* * * * **
43476601 AGGTGAAATGTAGAAAAATACTTCTAACTT-GAAGCGCTTTC
1 AGGTAAAATATAGAAAAACACTTCTCA-TTGGAAGTACTTTC
* *
43476642 AGGTAAAATATAGAAAAACACTTCTTATTGGAAGTACTTTT
1 AGGTAAAATATAGAAAAACACTTCTCATTGGAAGTACTTTC
* * *
43476683 AGGTGAAATATAGGAAAACGCTT-TCAGTTGGAA
1 AGGTAAAATATAGAAAAACACTTCTCA-TTGGAA
43476716 ATAGTTTCCG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
40 4 0.07
41 57 0.93
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (41 bp):
AGGTAAAATATAGAAAAACACTTCTCATTGGAAGTACTTTC
Found at i:43479940 original size:46 final size:44
Alignment explanation
Indices: 43479881--43479995 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
43479871 ACAGGACAGA
* *
43479881 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
43479927 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
43479971 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
43479996 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:43479976 original size:44 final size:45
Alignment explanation
Indices: 43479881--43480014 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
43479871 ACAGGACAGA
* *
43479881 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
43479927 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
43479971 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
43480015 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:43483649 original size:48 final size:48
Alignment explanation
Indices: 43483576--43484231 Score: 916
Period size: 48 Copynumber: 13.1 Consensus size: 48
43483566 GGTCATTCGG
* *
43483576 CCACAATATACACTTATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACA--TATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
43483627 CCACATATACATATCTTATACATATTTCACACTAGCCATTCGGGTGGTGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTC-----G-GCTTTA
*
43483681 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
**
43483731 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTA
1 CCAC----ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43483783 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43483831 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
**
43483881 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTA
1 CCAC----ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43483933 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43483981 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
**
43484031 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTA
1 CCAC----ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43484083 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
43484131 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
43484179 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
43484227 CCACA
1 CCACA
43484232 CACATATATA
Statistics
Matches: 552, Mismatches: 29, Indels: 51
0.87 0.05 0.08
Matches are distributed among these distances:
48 284 0.51
50 83 0.15
51 5 0.01
52 96 0.17
53 1 0.00
54 61 0.11
56 22 0.04
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:43483874 original size:150 final size:150
Alignment explanation
Indices: 43483576--43484231 Score: 1110
Period size: 150 Copynumber: 4.4 Consensus size: 150
43483566 GGTCATTCGG
* * * * **
43483576 CCACA-ATATACACTTATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
*
43483640 TCTTATACATATTTCACACTAGCCATTCGGGTGGTGCTTTACCACATATACATATCTCATATATA
66 TCTCATACATATTTCACACTAGCCATTC-----G-GCTTTACCACATATACATATCTCATATATA
43483705 TATTTCACATTAGCCATTCGGCTTTA
125 TATTTCACATTAGCCATTCGGCTTTA
43483731 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
1 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
43483796 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
66 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
43483861 ACATTAGCCATTCGGCTTTA
131 ACATTAGCCATTCGGCTTTA
43483881 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
1 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
43483946 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
66 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
43484011 ACATTAGCCATTCGGCTTTA
131 ACATTAGCCATTCGGCTTTA
43484031 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
1 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
*
43484096 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTC
66 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
43484159 ACATTAGCCATTCGGCTTTA
131 ACATTAGCCATTCGGCTTTA
* **
43484179 CCAC----ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACA
43484232 CACATATATA
Statistics
Matches: 489, Mismatches: 11, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
144 46 0.09
148 34 0.07
150 323 0.66
151 1 0.00
155 5 0.01
156 80 0.16
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (150 bp):
CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
ACATTAGCCATTCGGCTTTA
Found at i:43488011 original size:13 final size:13
Alignment explanation
Indices: 43487993--43488032 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
43487983 GAATTAATTT
43487993 TTAATAAAAAATA
1 TTAATAAAAAATA
43488006 TTAATAAAAAAT-
1 TTAATAAAAAATA
*
43488018 CTAATAAAAAATA
1 TTAATAAAAAATA
43488031 TT
1 TT
43488033 TTTAAGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAATAAAAAATA
Found at i:43488022 original size:12 final size:13
Alignment explanation
Indices: 43487994--43488030 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
43487984 AATTAATTTT
*
43487994 TAATAAAAAATAT
1 TAATAAAAAATAC
43488007 TAATAAAAAAT-C
1 TAATAAAAAATAC
43488019 TAATAAAAAATA
1 TAATAAAAAATA
43488031 TTTTTAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAATAAAAAATAC
Found at i:43492340 original size:3 final size:3
Alignment explanation
Indices: 43492332--43492359 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43492322 TCAGAAGCAC
43492332 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
43492360 AGTATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:43501574 original size:19 final size:20
Alignment explanation
Indices: 43501540--43501582 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
43501530 CCTCTTTTTT
*
43501540 CATT-CATTTCATTCATCTG
1 CATTACATTTCATTCATATG
43501559 CATTACATTTCA-TCATATG
1 CATTACATTTCATTCATATG
43501578 CATTA
1 CATTA
43501583 AGTTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTACATTTCATTCATATG
Found at i:43509718 original size:44 final size:45
Alignment explanation
Indices: 43509655--43509765 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 45
43509645 CACAAACCTT
* ** * *
43509655 ATCTCCCTAAAGTCACAGTGGAGCAAGTTGAAGTTA-C-AATTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAA-TCTC
*
43509699 ATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAGCGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTC
* *
43509744 ATTTCCCTGAAATTGCAGTGGA
1 ATCTCCCTGAAGTTGCAGTGGA
43509766 ACGGATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 30 0.54
45 24 0.43
46 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTC
Found at i:43509760 original size:45 final size:44
Alignment explanation
Indices: 43509670--43509763 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
43509660 CCTAAAGTCA
* * * *
43509670 CAGTGGAGCAAGTTGAAGTTACAATTCTCATCTCCCTGAAGTTG
1 CAGTGAAGCAAATTGAAGATACAATTCTCATCTCCCTGAAATTG
*
43509714 CAGTGAAGCAAATTGAAGATAGCGAA-TCTCATTTCCCTGAAATTG
1 CAGTGAAGCAAATTGAAGATA-C-AATTCTCATCTCCCTGAAATTG
43509759 CAGTG
1 CAGTG
43509764 GAACGGATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.42
45 23 0.53
46 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGTGAAGCAAATTGAAGATACAATTCTCATCTCCCTGAAATTG
Found at i:43509905 original size:44 final size:44
Alignment explanation
Indices: 43509837--43510009 Score: 186
Period size: 44 Copynumber: 3.9 Consensus size: 44
43509827 TCTACCATGG
43509837 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * * * **
43509881 CAAACCTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * * ***
43509925 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * **
43509969 CGAATCTTATCTCCCTGAAATTGT-AGTGGAACAGATTAAAG
1 CAAATCTTATCTCCCTGAAGTT-TCAGTGGAGTAGATTAAAG
43510010 CTACGAGTTA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 108 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
Found at i:43509986 original size:88 final size:91
Alignment explanation
Indices: 43509837--43510100 Score: 275
Period size: 95 Copynumber: 2.9 Consensus size: 91
43509827 TCTACCATGG
* * *** * *
43509837 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCACAAACCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
* *
43509902 TTCAGTGGAGCAGGTT-G-A-AGTTA
66 TTCAGTGGAACAGATTAGCACAGTTA
* *
43509925 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
43509990 TGT-AGTGGAACAGATTAAAGCTACGAGTTA
66 T-TCAGTGGAACAGATT--AGC-AC-AGTTA
* * * * * * * *
43510020 CAAATCTTATCTCCCTAAAGTTGCAGAGGAGCAGAGTGTAGATGCGAGTCTAATCTCCTTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
*
43510085 TACAGTGGAACAGATT
66 TTCAGTGGAACAGATT
43510101 GTAAATGCGA
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
88 68 0.47
89 1 0.01
91 1 0.01
93 1 0.01
95 74 0.51
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (91 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
TTCAGTGGAACAGATTAGCACAGTTA
Found at i:43510025 original size:233 final size:233
Alignment explanation
Indices: 43509606--43510042 Score: 662
Period size: 233 Copynumber: 1.9 Consensus size: 233
43509596 TATCGTGATG
*
43509606 AATCTTATCTCCCTGAAGTTGCAGTTGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
*
43509671 AGTGGAGCAAGTTGAAGTTACAATTCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
66 AGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
* * *
43509736 CGAATCTCATTTCCCTGAAATTGCAGTGGAACGGATTAAAGCTATAAGTCACAAATCCTATAC-C
131 CGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTAT-CTC
*
43509800 TCTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
195 CCTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
* * * **
43509839 AATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCACAAACCTTATCTCCCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TAAAGCCACAAACCTTATCTCCCTAAAGTCA
* * * *
43509904 CAGTGGAGCAGGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-
65 CAGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATA
* * * * *
43509968 GCGAATCTTATCTCCCTGAAATTGTAGTGGAACAGATTAAAGCTACGAGTTACAAATCTTATCTC
130 GCGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTATCTC
43510033 CCTAAAGTTG
195 CCTAAAGTTG
43510043 CAGAGGAGCA
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
232 1 0.01
233 95 0.52
234 86 0.47
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (233 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
AGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
CGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTATCTCC
CTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
Found at i:43510109 original size:44 final size:44
Alignment explanation
Indices: 43510028--43510130 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
43510018 TACAAATCTT
* * * *
43510028 ATCTCCCTAAAGTTGCAGAGGAGCAGAGTGTAGATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
* * *
43510072 ATCTCCTTGAAGTTACAGTGGAACAGATTGTAAATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
*
43510116 GTCTCCCTGAAGTTA
1 ATCTCCCTGAAGTTA
43510131 TAGTAAAGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
Found at i:43511626 original size:12 final size:12
Alignment explanation
Indices: 43511611--43511645 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
43511601 TTTTAAAAAC
*
43511611 TATTTTATTTAA
1 TATTTCATTTAA
43511623 TATTTCATTTAA
1 TATTTCATTTAA
43511635 TATTTCATTTA
1 TATTTCATTTA
43511646 TTTATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTCATTTAA
Found at i:43513408 original size:53 final size:53
Alignment explanation
Indices: 43513339--43513500 Score: 173
Period size: 53 Copynumber: 3.0 Consensus size: 53
43513329 CATGAAAAAT
*
43513339 AATTTTTTTGGGTGCTAGGACACTGAT-GATCGACACCCTTGTACCAAATTTAA
1 AATTTTTTTGGGTGCTAAGACACTGATAG-TCGACACCCTTGTACCAAATTTAA
** * * ** * *
43513392 AATTTTTTTTTGTGCTAATACATTGATAGTCGACACCCCAGTACTAGATTTAA
1 AATTTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
** * * *
43513445 AATAAATTTTGGGTGCTAAGACACTGATAGTTGGCACCCTTGTACCAAATTAAA
1 AAT-TTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
43513499 AA
1 AA
43513501 AATTTGGGAT
Statistics
Matches: 85, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.53
54 40 0.47
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (53 bp):
AATTTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
Found at i:43513483 original size:54 final size:51
Alignment explanation
Indices: 43513345--43513556 Score: 138
Period size: 53 Copynumber: 4.0 Consensus size: 51
43513335 AAATAATTTT
* * ** ***
43513345 TTTGGGTGCTAGGACACTGAT-GATCGACACCCTTGTACCAAATTTAAAATTTT
1 TTTGGGTGCTAAGACACTGATAG-TCGGCACCCCAGTACCAAA-TTAAAA-AAA
** * * * * *
43513398 TTTTTGTGCTAATACATTGATAGTCGACACCCCAGTACTAGATTTAAAATAAA
1 TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAA-AAA
* **
43513451 TTTTGGGTGCTAAGACACTGATAGTTGGCACCCTTGTACCAAATTAAAAAAA
1 -TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAA
* * * * * *
43513503 TTTGGGATGTTGAGACACTGATGGTCGGCACCTCAATACCATACTTAAAAAAA
1 TTTGGG-TGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAAAAA
43513556 T
1 T
43513557 ATTTTTTTGG
Statistics
Matches: 123, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
51 6 0.05
52 29 0.24
53 55 0.45
54 33 0.27
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAA
Found at i:43520530 original size:15 final size:15
Alignment explanation
Indices: 43520510--43520554 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
43520500 TTATTAAATT
*
43520510 ATAATGATAGTAATA
1 ATAATGATAATAATA
43520525 ATAATGATAATAATA
1 ATAATGATAATAATA
* *
43520540 ATAACGAGAATAATA
1 ATAATGATAATAATA
43520555 CATGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (15 bp):
ATAATGATAATAATA
Found at i:43527706 original size:43 final size:43
Alignment explanation
Indices: 43527617--43527732 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
43527607 TGTGATTACA
* * * *
43527617 TGTAAGACCATGTGTGGGACGTTGGCATTGTATTCAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAATCAGATTATG
43527660 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATC-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TAATCAGATTAT-G
* *
43527703 TGTAAGACCCTGTAC-GGGACAATGGCATCG
1 TGTAAGACCATGT-CTGGGACATTGGCATCG
43527733 ATAAATAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 58 0.91
44 5 0.08
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTAATCAGATTATG
Found at i:43529522 original size:40 final size:40
Alignment explanation
Indices: 43529463--43529603 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
43529453 ACCCAAGTAT
* *
43529463 CTTCGGGATTTA-TCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * **
43529502 CATCGGGTCTTAGCCTGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
*
43529542 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
43529582 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
43529604 CATCCGAATA
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 9 0.11
40 74 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:43532772 original size:26 final size:26
Alignment explanation
Indices: 43532743--43532800 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
43532733 CCCGATATAT
43532743 GGCTCTTCGTGAGCTT-CTCGATTAAA
1 GGCTCTTCGTGAGCTTCCT-GATTAAA
* *
43532769 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTGATTAAA
43532795 GGCTCT
1 GGCTCT
43532801 CCAGAGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTGATTAAA
Found at i:43532905 original size:48 final size:49
Alignment explanation
Indices: 43532853--43532961 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 49
43532843 GGCTATCTAG
* ** *
43532853 AGCTTCCCATTAATGGCTCTTCTGAGCAACCCGTTAT-TGGCTCGCATA
1 AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
** ** *
43532901 AGCTTCTTGATT-ATGGCTCTTATGAGCTTCCCGTTATACAGCCCGGATA
1 AGCTTC-CCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
43532950 AGCTTCCCATTA
1 AGCTTCCCATTA
43532962 TATAGCTCAC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
48 31 0.66
49 16 0.34
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
Found at i:43536121 original size:25 final size:25
Alignment explanation
Indices: 43536087--43536138 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
43536077 AAGAAAATAC
43536087 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
43536112 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
43536137 CT
1 CT
43536139 CTCGAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
CTTACCGGTAATAATCTCGAGTAAA
Found at i:43541888 original size:20 final size:20
Alignment explanation
Indices: 43541872--43541919 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
43541862 TGATTGTTTG
43541872 AAAAATAATTTGCTTG-TAC
1 AAAAATAATTTGCTTGTTAC
*
43541891 ATAAATAATTTGCTTGTGTAC
1 AAAAATAATTTGCTTGT-TAC
*
43541912 ATAAATAA
1 AAAAATAA
43541920 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATAATTTGCTTGTTAC
Found at i:43541896 original size:19 final size:21
Alignment explanation
Indices: 43541874--43541919 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
43541864 ATTGTTTGAA
43541874 AAATAATTTGC-T-TGTACAT
1 AAATAATTTGCTTGTGTACAT
43541893 AAATAATTTGCTTGTGTACAT
1 AAATAATTTGCTTGTGTACAT
43541914 AAATAA
1 AAATAA
43541920 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.44
20 1 0.04
21 13 0.52
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATAATTTGCTTGTGTACAT
Found at i:43541921 original size:4 final size:4
Alignment explanation
Indices: 43541912--43541949 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
43541902 GCTTGTGTAC
*
43541912 ATAA ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
43541950 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:43541934 original size:17 final size:17
Alignment explanation
Indices: 43541914--43541949 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
43541904 TTGTGTACAT
43541914 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
43541931 AAATGAATAAATAAATA
1 AAATAAATAAATAAATA
43541948 AA
1 AA
43541950 GGCTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:43542684 original size:5 final size:5
Alignment explanation
Indices: 43542674--43542711 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
43542664 TAGGAAAATC
43542674 TTATT TTATT TT-TT TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
43542712 TGATTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 16 0.52
6 11 0.35
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTATT
Found at i:43542694 original size:6 final size:6
Alignment explanation
Indices: 43542685--43542723 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
43542675 TATTTTATTT
43542685 TTTTTA TTTTTA TTTTTA -TTTTA TTTTTGA TTTTATA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTT-TA TT
43542724 AAATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 16 0.53
7 8 0.27
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:43542702 original size:12 final size:12
Alignment explanation
Indices: 43542685--43542723 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
43542675 TATTTTATTT
43542685 TTTTTATTTTTA
1 TTTTTATTTTTA
43542697 TTTTTA-TTTTA
1 TTTTTATTTTTA
43542708 TTTTTGATTTTATA
1 TTTTT-ATTTT-TA
43542722 TT
1 TT
43542724 AAATTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 7 0.29
13 3 0.12
14 4 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:43542708 original size:17 final size:17
Alignment explanation
Indices: 43542677--43542723 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
43542667 GAAAATCTTA
43542677 TTTTA-TTTT-TTTTAT
1 TTTTATTTTTATTTTAT
43542692 TTTTATTTTTATTTTAT
1 TTTTATTTTTATTTTAT
43542709 TTTTGATTTTATATT
1 TTTT-ATTTT-TATT
43542724 AAATTAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.18
16 4 0.14
17 10 0.36
18 5 0.18
19 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTTAT
Found at i:43544122 original size:21 final size:21
Alignment explanation
Indices: 43544096--43544147 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
43544086 GATTACATTG
43544096 TGAAAAGTGTAAAATGTGGGC
1 TGAAAAGTGTAAAATGTGGGC
* *
43544117 TGAAAAGTGTAAAATTTGGGG
1 TGAAAAGTGTAAAATGTGGGC
*
43544138 TTAAAAGTGT
1 TGAAAAGTGT
43544148 GAATAAATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (21 bp):
TGAAAAGTGTAAAATGTGGGC
Done.