Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 156 of 240
Found at i:49293176 original size:16 final size:16
Alignment explanation
Indices: 49293155--49293191 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
49293145 GTCACCTTAA
49293155 AAAAATAT-TAATTTGT
1 AAAAATATATAATTT-T
49293171 AAAAATATATAATTTT
1 AAAAATATATAATTTT
49293187 AAAAA
1 AAAAA
49293192 AGTATTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATATATAATTTT
Found at i:49293192 original size:17 final size:17
Alignment explanation
Indices: 49293154--49293197 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
49293144 GGTCACCTTA
49293154 AAAAAATATTAATTTGT
1 AAAAAATATTAATTTGT
49293171 -AAAAATATATAATTT-T
1 AAAAAATAT-TAATTTGT
49293187 AAAAAAGTATT
1 AAAAAA-TATT
49293198 TTGTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
AAAAAATATTAATTTGT
Found at i:49293923 original size:10 final size:10
Alignment explanation
Indices: 49293904--49293975 Score: 58
Period size: 10 Copynumber: 7.2 Consensus size: 10
49293894 TTTCTAAAAG
*
49293904 TTTTTATGAA
1 TTTTTTTGAA
49293914 TTTTTTTGAA
1 TTTTTTTGAA
49293924 TTTTTTTG-A
1 TTTTTTTGAA
* **
49293933 GTTTTTAAATA
1 TTTTTTTGA-A
*
49293944 TTTTTATTTAA
1 TTTTT-TTGAA
49293955 -TTTTTTGAA
1 TTTTTTTGAA
*
49293964 TTTTTCTGAA
1 TTTTTTTGAA
49293974 TT
1 TT
49293976 ATACGTGGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 10 0.20
10 31 0.63
11 6 0.12
12 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.67
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:49293937 original size:30 final size:30
Alignment explanation
Indices: 49293902--49293975 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
49293892 ATTTTCTAAA
49293902 AGTTTTTATGAATTTTT-TTGAATTTTTTTG
1 AGTTTTTATGAATTTTTATTGAA-TTTTTTG
* *
49293932 AGTTTTTA-AATATTTTTATTTAATTTTTTG
1 AGTTTTTATGA-ATTTTTATTGAATTTTTTG
* *
49293962 AATTTTTCTGAATT
1 AGTTTTTATGAATT
49293976 ATACGTGGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 1 0.03
30 30 0.83
31 5 0.14
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.65
Consensus pattern (30 bp):
AGTTTTTATGAATTTTTATTGAATTTTTTG
Found at i:49296498 original size:27 final size:26
Alignment explanation
Indices: 49296459--49296629 Score: 144
Period size: 27 Copynumber: 6.3 Consensus size: 26
49296449 CATAACAGTC
*
49296459 AATTTTACCCATCGGGGATATTTCGAA
1 AATTTTACCCATCGGGG-TATTTCGAT
* *
49296486 AATTTTACACATCGAGGGTATTCCGAT
1 AATTTTACCCATCG-GGGTATTTCGAT
* *
49296513 AATTTTACCCATTAGGGGTATTTCGGT
1 AATTTTACCCA-TCGGGGTATTTCGAT
* * * *
49296540 AATTTTACCCATCAAGGGTCTTTTGGT
1 AATTTTACCCATC-GGGGTATTTCGAT
* * *
49296567 AATTTTACCTATCGGTGGTATTTTGGT
1 AATTTTACCCATCGG-GGTATTTCGAT
** * *
49296594 AATTTTACTTATTGTGGGTATTTTGAT
1 AATTTTACCCATCG-GGGTATTTCGAT
49296621 AATTTTACC
1 AATTTTACC
49296630 GTCGTTAACA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 113 0.93
28 6 0.05
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (26 bp):
AATTTTACCCATCGGGGTATTTCGAT
Found at i:49296595 original size:54 final size:53
Alignment explanation
Indices: 49296459--49296601 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 53
49296449 CATAACAGTC
** *
49296459 AATTTTACCCATCGGGGATATTTCGAAAATTTTACACATCGAGGGTATTCCGAT
1 AATTTTACCCATCGGGG-TATTTCGGTAATTTTACACATCAAGGGTATTCCGAT
* * * ** *
49296513 AATTTTACCCATTAGGGGTATTTCGGTAATTTTACCCATCAAGGGTCTTTTGGT
1 AATTTTACCCA-TCGGGGTATTTCGGTAATTTTACACATCAAGGGTATTCCGAT
* *
49296567 AATTTTACCTATCGGTGGTATTTTGGTAATTTTAC
1 AATTTTACCCATCGG-GGTATTTCGGTAATTTTAC
49296602 TTATTGTGGG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 3 0.04
54 67 0.89
55 5 0.07
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (53 bp):
AATTTTACCCATCGGGGTATTTCGGTAATTTTACACATCAAGGGTATTCCGAT
Found at i:49301543 original size:3 final size:3
Alignment explanation
Indices: 49301535--49301610 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
49301525 ATTGGCTTTT
49301535 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
49301583 AAA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
49301611 AATCAAATTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49307491 original size:16 final size:15
Alignment explanation
Indices: 49307462--49307498 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
49307452 CAATATAAAG
49307462 ATAAC-AATAATATA
1 ATAACAAATAATATA
49307476 ATAACAAATAAATATA
1 ATAACAAAT-AATATA
49307492 AT-ACAAA
1 ATAACAAA
49307499 GGAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAACAAATAATATA
Found at i:49307725 original size:25 final size:22
Alignment explanation
Indices: 49307697--49307750 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
49307687 TGATTTTTGT
*
49307697 TAAAAAGAACATAAAATATAAAATA
1 TAAAAA-AACA-AAAA-ATAAAAAA
49307722 TAAAATAAACAAAAAATAAAAAA
1 TAAAA-AAACAAAAAATAAAAAA
49307745 TAAAAA
1 TAAAAA
49307751 TTCGGTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 4 0.15
25 9 0.33
26 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
TAAAAAAACAAAAAATAAAAAA
Found at i:49308066 original size:42 final size:42
Alignment explanation
Indices: 49308019--49308103 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
49308009 TGCTGCGAAG
49308019 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
1 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
* *
49308061 CTGGAAGGACTGCATTCGCAAATATCCCCTCACATCAGAAAA
1 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
49308103 C
1 C
49308104 ACACAGATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.18
Consensus pattern (42 bp):
CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
Found at i:49309530 original size:88 final size:87
Alignment explanation
Indices: 49309407--49309825 Score: 412
Period size: 88 Copynumber: 4.8 Consensus size: 87
49309397 TCCACTTTCT
* * *
49309407 ACCAAAATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAATACAAGAT
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
49309472 CTGTTTTCTTCGATCTACTTCGCC
65 CTGTTATCTTCGATCTACTTC-CC
* * * * *
49309496 ACCAGTATGGGAAGACACGATCTGCATCTTCGATCGACTTCACGCCAATACATGAATACAAGATC
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
49309561 TGCTT-TCTTCGATCTACTTCGCC
66 TG-TTATCTTCGATCTACTTC-CC
* * * * * * *
49309584 ACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGAC
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGAT
* * *
49309648 CTATTATCCTCGATCTACTTCAC
65 CTGTTATCTTCGATCTACTTCCC
* * * * * * * ***
49309671 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGA
** * * *
49309736 TCT-ACACCTTCGATCCACTTCCT
64 TCTGTTATCTTCGATCTACTTCCC
* * *
49309759 ACCAATATAGGAAAACAGGATCTGCATTCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCA-TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
49309824 CT
65 CT
49309826 ACATCTTTTA
Statistics
Matches: 277, Mismatches: 46, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
87 43 0.16
88 191 0.69
89 42 0.15
90 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (87 bp):
ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TGTTATCTTCGATCTACTTCCC
Found at i:49309661 original size:132 final size:131
Alignment explanation
Indices: 49309525--49309825 Score: 487
Period size: 132 Copynumber: 2.3 Consensus size: 131
49309515 ATCTGCATCT
* *
49309525 TCGATCGACTTCACGCCAATACATGAATACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
1 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
49309590 ATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCT-ATTA
66 ATGGGAAGACAAGATCTACACCTTCGATCCACTTCCTACCAATATAGGAAAACAAGACCTCA-T-
49309654 TCC
129 TCC
49309657 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
1 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
49309722 ATGGGAAGACAAGATCTACACCTTCGATCCACTTCCTACCAATATAGGAAAACAGGATCTGCATT
66 ATGGGAAGACAAGATCTACACCTTCGATCCACTTCCTACCAATATAGGAAAACAAGACCT-CATT
*
49309787 CT
130 CC
*
49309789 TTGATCTACTTCACGCCAATACATGAAGACAAGATCT
1 TCGATCTACTTCACGCCAATACATGAAGACAAGATCT
49309826 ACATCTTTTA
Statistics
Matches: 158, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
132 156 0.99
133 1 0.01
134 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (131 bp):
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTACACCTTCGATCCACTTCCTACCAATATAGGAAAACAAGACCTCATTC
C
Found at i:49309783 original size:220 final size:220
Alignment explanation
Indices: 49309396--49309800 Score: 632
Period size: 220 Copynumber: 1.8 Consensus size: 220
49309386 CTATTTTTCA
* * *
49309396 ATCCACTTTCTACCAAAATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAAAATAGGAAGACAAGACCTACTATCCTCGATCTACTTCACGCCAATACAT
* * * * *
49309461 GAATACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACACGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACACCTT
* * * * *
49309526 CGATCGACTTCACGCCAATACATGAATACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
131 CGATCCACTTCACACCAATACAGGAAAACAAGATCTGCATTCTTCGATCTACTTCGCCACCAGTA
49309591 TGGGAAGACAAGATCTGCATCTTCG
196 TGGGAAGACAAGATCTGCATCTTCG
* *
49309616 ATCCACTTCCTACCAATATAGGAAGACAAGACCTATTATCCTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAAAATAGGAAGACAAGACCTACTATCCTCGATCTACTTCACGCCAATACAT
49309681 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACACCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACACCTT
* * *
49309746 CGATCCACTTC-CTACCAATATAGGAAAACAGGATCTGCATTCTTTGATCTACTTC
131 CGATCCACTTCAC-ACCAATACAGGAAAACAAGATCTGCATTCTTCGATCTACTTC
49309801 ACGCCAATAC
Statistics
Matches: 166, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
219 1 0.01
220 165 0.99
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (220 bp):
ATCCACTTCCTACCAAAATAGGAAGACAAGACCTACTATCCTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACACCTT
CGATCCACTTCACACCAATACAGGAAAACAAGATCTGCATTCTTCGATCTACTTCGCCACCAGTA
TGGGAAGACAAGATCTGCATCTTCG
Found at i:49310561 original size:45 final size:45
Alignment explanation
Indices: 49310463--49310563 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
49310453 GCAAAGCTCT
* *
49310463 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACAAA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAAATACAAA
* * * **
49310508 ATGA-GAATAGATTAATCAAGATGGCGTATTTTG-TCAAAATACAAA
1 A-AATGAATAAATTAATCAAGATAGCAAATTTTGCT-AAAATACAAA
49310553 AAATGAATAAA
1 AAATGAATAAA
49310564 ATGGAAATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
44 2 0.05
45 41 0.93
46 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (45 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAAATACAAA
Found at i:49322046 original size:7 final size:7
Alignment explanation
Indices: 49322034--49322080 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
49322024 TAAAAAGAAC
49322034 ATAAAAT
1 ATAAAAT
49322041 ATAAAAT
1 ATAAAAT
*
49322048 A-AAAAA
1 ATAAAAT
*
49322054 ATAAAAA
1 ATAAAAT
49322061 ATAAAAT
1 ATAAAAT
*
49322068 A-AAAAA
1 ATAAAAT
49322074 ATAAAAT
1 ATAAAAT
49322081 TTCGATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
ATAAAAT
Found at i:49322057 original size:13 final size:13
Alignment explanation
Indices: 49322034--49322080 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
49322024 TAAAAAGAAC
49322034 ATAAAATATAAAATA
1 ATAAAATA-AAAA-A
*
49322049 AAAAAAT-AAAAA
1 ATAAAATAAAAAA
49322061 ATAAAATAAAAAA
1 ATAAAATAAAAAA
49322074 ATAAAAT
1 ATAAAAT
49322081 TTCGATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 16 0.55
15 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:49322059 original size:20 final size:20
Alignment explanation
Indices: 49322034--49322080 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
49322024 TAAAAAGAAC
49322034 ATAAAATATAAAATAAAAAA
1 ATAAAATATAAAATAAAAAA
*
49322054 ATAAAAAATAAAATAAAAAA
1 ATAAAATATAAAATAAAAAA
49322074 ATAAAAT
1 ATAAAAT
49322081 TTCGATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (20 bp):
ATAAAATATAAAATAAAAAA
Found at i:49322482 original size:36 final size:36
Alignment explanation
Indices: 49322435--49322526 Score: 175
Period size: 36 Copynumber: 2.6 Consensus size: 36
49322425 GGTCCAAAAG
49322435 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
1 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
49322471 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
1 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
*
49322507 CTAAACGACGCCGTTTTAGG
1 CTAAACGACGTCGTTTTAGG
49322527 AGGGGTATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (36 bp):
CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
Found at i:49330253 original size:165 final size:165
Alignment explanation
Indices: 49329975--49330466 Score: 867
Period size: 165 Copynumber: 3.0 Consensus size: 165
49329965 GGTTTGTGAT
* *
49329975 TATATCTTGAATTATGATTGGAGCAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCAATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
49330040 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
49330105 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
131 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
49330140 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
* *
49330205 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGACATTCCAATGGGTTTGATTGCGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
* * **
49330270 GTTTGTACGGGATATGTGTAAAATATTATATGGAG
131 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
* *
49330305 TATATCTTGAATTATGATTGGAATAGTACAAAACGTTATTAATGGTTGTATTAAATGTTTCGATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
* *
49330370 TGTTAAAAGAGGTTGAATAAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGTGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
*
49330435 GTTTGTACAGGATATGTGTAAAAGATGATACA
131 GTTTGTACGGGATATGTGTAAAAGATGATACA
49330467 AACTAAAATA
Statistics
Matches: 308, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 308 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (165 bp):
TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
Found at i:49333017 original size:105 final size:104
Alignment explanation
Indices: 49332827--49333026 Score: 260
Period size: 105 Copynumber: 1.9 Consensus size: 104
49332817 CTAGGCTATG
* *
49332827 TAACTCACTGTTTATGATTTAAGACCACACAGTCAGGGACATAGACGTGTGCCCAGGCTATGTGA
1 TAACTCACTATTTATGATTTAAGACCACACAGTCAGGGACATAGACGTATGCCCAGGCTATGTGA
*
49332892 ACCGCACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTA
66 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTA
* ** * * *
49332931 TAACTCACTATTTGTGATTT-AGAATTACACGGTCAGAGGACATATACGTATGTCCAGGC-AGTG
1 TAACTCACTATTTATGATTTAAG-ACCACACAGTCAG-GGACATAGACGTATGCCCAGGCTA-TG
* *
49332994 TGAGCCACACGGGCAAGGGCATGGGCGTGTGTC
63 TGAACCACACGGGCAAGGACATGGGCGTGTGTC
49333027 TAGGCCATGT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
103 2 0.02
104 29 0.35
105 51 0.62
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
TAACTCACTATTTATGATTTAAGACCACACAGTCAGGGACATAGACGTATGCCCAGGCTATGTGA
ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTA
Found at i:49338757 original size:18 final size:18
Alignment explanation
Indices: 49338732--49338769 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
49338722 TAAGTCCTTT
49338732 TTTATTTTTC-TTATTTA
1 TTTATTTTTCGTTATTTA
49338749 TTTATTTTTCGTTATTTA
1 TTTATTTTTCGTTATTTA
49338767 TTT
1 TTT
49338770 TTATCTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATTTTTCGTTATTTA
Found at i:49340914 original size:21 final size:20
Alignment explanation
Indices: 49340880--49340964 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
49340870 TTTATATATT
49340880 TTTTAAAGTT-TTTTTTTCTAA
1 TTTTAAA-TTATTTTTTT-TAA
*
49340901 TTTTAAATTATTTTCTATTAA
1 TTTTAAATTATTTT-TTTTAA
* **
49340922 TTCT--ATTATTTTTAATAA
1 TTTTAAATTATTTTTTTTAA
*
49340940 TTTTAAATCTAGTTTTTTTAA
1 TTTTAAAT-TATTTTTTTTAA
49340961 TTTT
1 TTTT
49340965 CAAAAATCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
18 8 0.15
19 8 0.15
20 4 0.08
21 30 0.58
22 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTAAATTATTTTTTTTAA
Found at i:49348021 original size:16 final size:16
Alignment explanation
Indices: 49348000--49348032 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49347990 TTATGTCTCC
*
49348000 AATGGGTTGACCTGTG
1 AATGGGTTGACATGTG
49348016 AATGGGTTGACATGTG
1 AATGGGTTGACATGTG
49348032 A
1 A
49348033 CTCTCCATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.36, T:0.30
Consensus pattern (16 bp):
AATGGGTTGACATGTG
Found at i:49348695 original size:40 final size:40
Alignment explanation
Indices: 49348651--49348735 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
49348641 ACCAGGCAAG
**
49348651 GGTATTAATAAAATAGGGAAGGTATCAATACTCTGTTAAA
1 GGTATTAATAAAATAGGGAAAATATCAATACTCTGTTAAA
* * * *
49348691 GGTATTGATACAATAGGGAAAATATCTATACTTTGTTAAA
1 GGTATTAATAAAATAGGGAAAATATCAATACTCTGTTAAA
*
49348731 TGTAT
1 GGTAT
49348736 CGATACTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (40 bp):
GGTATTAATAAAATAGGGAAAATATCAATACTCTGTTAAA
Found at i:49349792 original size:38 final size:38
Alignment explanation
Indices: 49349749--49349827 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
49349739 AAAATCCTCA
49349749 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
1 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
49349787 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
1 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
49349825 ATA
1 ATA
49349828 TGGGGACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.22
Consensus pattern (38 bp):
ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
Found at i:49350898 original size:43 final size:42
Alignment explanation
Indices: 49350823--49350910 Score: 122
Period size: 43 Copynumber: 2.1 Consensus size: 42
49350813 TTTTAAGTCA
* * *
49350823 TTCATTTTCATTTTGGAGAAAATCACATTCATTTTCAAATGAT
1 TTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATG-T
* *
49350866 TTCATTTTCATTTTGGAGAATACCATAATCATTTCCAAATGT
1 TTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGT
49350908 TTC
1 TTC
49350911 CCATTTCTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (42 bp):
TTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGT
Found at i:49357676 original size:30 final size:29
Alignment explanation
Indices: 49357623--49357679 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
49357613 ATTTAATGTA
* * *
49357623 CAATTGTATACATAAACTTTAATTTTGTG
1 CAATTATACACATAAACTCTAATTTTGTG
49357652 CAATTATACACATGAAACTCTAATTTTG
1 CAATTATACACAT-AAACTCTAATTTTG
49357680 GTTCAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (29 bp):
CAATTATACACATAAACTCTAATTTTGTG
Found at i:49366235 original size:104 final size:105
Alignment explanation
Indices: 49365989--49366256 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
49365979 TTGTATATAA
** *
49365989 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
49366053 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
49366094 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
49366159 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
49366198 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
49366257 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:49368414 original size:21 final size:21
Alignment explanation
Indices: 49368388--49368436 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
49368378 AATCATGGCT
*
49368388 CTGAGGAGGCTATGTGGGAGC
1 CTGAGGAGGCTACGTGGGAGC
49368409 CTGAGGAGGCTACGTGGGAGC
1 CTGAGGAGGCTACGTGGGAGC
49368430 CTGAGGA
1 CTGAGGA
49368437 TGCGATGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.47, T:0.16
Consensus pattern (21 bp):
CTGAGGAGGCTACGTGGGAGC
Found at i:49374193 original size:3 final size:3
Alignment explanation
Indices: 49374185--49374273 Score: 58
Period size: 3 Copynumber: 28.7 Consensus size: 3
49374175 AAGCTATTAT
* *
49374185 ATA ATA ATA ATA CGATA AGTA ACA ATA AT- ATAA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA --ATA A-TA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
49374233 ATA ATA ACA ATA ATGA A-A GATA ATA AT- ATA TTA AAA ATA AT
1 ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA AT
49374274 GAGGAAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
2 5 0.07
3 51 0.76
4 8 0.12
5 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49374912 original size:7 final size:6
Alignment explanation
Indices: 49374891--49374933 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
49374881 TATATTTTTT
*
49374891 AAATATA AAATAA AAATAA AAATAA AAATAA AGAATAC AAATA
1 AAATA-A AAATAA AAATAA AAATAA AAATAA A-AATAA AAATA
49374934 GTTTCGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:49374927 original size:19 final size:19
Alignment explanation
Indices: 49374891--49374933 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
49374881 TATATTTTTT
49374891 AAATATAAAATAAAAATAA
1 AAATATAAAATAAAAATAA
*
49374910 AAATA-AAAATAAAGAATAC
1 AAATATAAAATAAA-AATAA
49374929 AAATA
1 AAATA
49374934 GTTTCGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATATAAAATAAAAATAA
Found at i:49388123 original size:25 final size:25
Alignment explanation
Indices: 49388095--49388314 Score: 214
Period size: 25 Copynumber: 9.3 Consensus size: 25
49388085 GGAGTTTAGC
49388095 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATTA
*
49388120 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATTA
* *
49388145 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATTA
* * *
49388170 GTGCTCTCTAATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATTA
* *
49388195 GTGCTCTCTAATTACTAGCAC----
1 GTGCTCTCTGATTATTAGCACATTA
*
49388216 --GCTCTCTGATT-TCTAGCACGTTA
1 GTGCTCTCTGATTAT-TAGCACATTA
*
49388239 GTGCTCTCCGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATTA
* *
49388264 GTGCTCTCTG--T-GTAGCACATTC
1 GTGCTCTCTGATTATTAGCACATTA
* *
49388286 GTGCTCCCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACATTA
49388308 GTGCTCT
1 GTGCTCT
49388315 TTGTTTAATA
Statistics
Matches: 171, Mismatches: 15, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
19 16 0.09
22 33 0.19
23 1 0.01
25 120 0.70
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATTA
Found at i:49388221 original size:19 final size:19
Alignment explanation
Indices: 49388197--49388235 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
49388187 GCACGTCAGT
49388197 GCTCTCTAATTACTAGCAC
1 GCTCTCTAATTACTAGCAC
* *
49388216 GCTCTCTGATTTCTAGCAC
1 GCTCTCTAATTACTAGCAC
49388235 G
1 G
49388236 TTAGTGCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (19 bp):
GCTCTCTAATTACTAGCAC
Found at i:49388282 original size:22 final size:22
Alignment explanation
Indices: 49388229--49388314 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
49388219 CTCTGATTTC
* *
49388229 TAGCACGTTAGTGCTCTCCGATTA
1 TAGCACATTAGTGCTCTCTG--TA
*
49388253 TTAGCACATTAGTGCTCTCTGTG
1 -TAGCACATTAGTGCTCTCTGTA
* *
49388276 TAGCACATTCGTGCTCCCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
49388298 TAGCACTTTAGTGCTCT
1 TAGCACATTAGTGCTCT
49388315 TTGTTTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 33 0.63
23 1 0.02
25 18 0.35
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:49388302 original size:69 final size:69
Alignment explanation
Indices: 49388095--49388314 Score: 187
Period size: 69 Copynumber: 3.1 Consensus size: 69
49388085 GGAGTTTAGC
* *
49388095 GTGCTCTCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACATCAGTGCTCTCTGATTAT
1 GTGCTCTCTGATTATTAGCACATTAGTGCTCTCTG--TACTAGCACATC-GTGCTCCCTG--TA-
*
49388160 TAGCACGTCA
60 TAGCACGTTA
* * * * * ** * *
49388170 GTGCTCTCTAATTATTAGCACGTCAGTGCTCTCTAATTACTAGCAC-GC-T-CTCTGATTTCTAG
1 GTGCTCTCTGATTATTAGCACATTAGTGCTCTCT--GTACTAGCACATCGTGCTC-CCTGTATAG
49388232 CACGTTA
63 CACGTTA
* *
49388239 GTGCTCTCCGATTATTAGCACATTAGTGCTCTCTGT-GTAGCACATTCGTGCTCCCTGTATAGCA
1 GTGCTCTCTGATTATTAGCACATTAGTGCTCTCTGTACTAGCACA-TCGTGCTCCCTGTATAGCA
*
49388303 CTTTA
65 CGTTA
49388308 GTGCTCT
1 GTGCTCT
49388315 TTGTTTAATA
Statistics
Matches: 115, Mismatches: 23, Indels: 20
0.73 0.15 0.13
Matches are distributed among these distances:
66 6 0.05
67 1 0.01
68 1 0.01
69 58 0.50
70 4 0.03
71 3 0.03
72 2 0.02
74 1 0.01
75 39 0.34
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (69 bp):
GTGCTCTCTGATTATTAGCACATTAGTGCTCTCTGTACTAGCACATCGTGCTCCCTGTATAGCAC
GTTA
Found at i:49389212 original size:22 final size:22
Alignment explanation
Indices: 49389193--49389244 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
49389183 AATGGCTAAG
* *
49389193 AGCCATAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
49389215 AGCTATAAACAGAATAACTACA
1 AGCCATAAACAGAATAGCTACA
49389237 AGCCATAA
1 AGCCATAA
49389245 GTACAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:49389304 original size:32 final size:32
Alignment explanation
Indices: 49389236--49389406 Score: 186
Period size: 32 Copynumber: 5.4 Consensus size: 32
49389226 GAATAACTAC
* * * *
49389236 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* *
49389267 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * *
49389299 CAGCCATCAGTAACAGTGAAATGATCGGTACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
49389331 CAGCCATC-GATAACGGTAATATGATCGACACA
1 AAGCCATCAG-TAACAGTGATATGATCGGCACA
49389363 AAGCCATCAGTAACAGT-ACTATGATCGGCACA
1 AAGCCATCAGTAACAGTGA-TATGATCGGCACA
49389395 AAGCCATCAGTA
1 AAGCCATCAGTA
49389407 GCATCGCAGC
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
31 12 0.10
32 104 0.89
33 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTGATATGATCGGCACA
Found at i:49389579 original size:24 final size:23
Alignment explanation
Indices: 49389552--49389624 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
49389542 CCATGCTCAG
49389552 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* * *
49389576 AATCAGTCATACCAAACATAGATA
1 AATCAGTCAT-TCAAACACAGACA
* *
49389600 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
49389623 AA
1 AA
49389625 ATAATCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 10 0.25
24 26 0.65
25 4 0.10
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:49389711 original size:27 final size:27
Alignment explanation
Indices: 49389655--49390040 Score: 499
Period size: 27 Copynumber: 14.4 Consensus size: 27
49389645 GGCAAAAATA
49389655 GTCA-TTTACCC-ACCA-GGGCATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACG
* *
49389680 GTCATTTTACCCTACAGGGACATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49389707 GTCATTCTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49389734 GTCATTCTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49389761 GTCATTCTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * **
49389788 GTTATTCTACCTTACAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
49389815 ATTATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49389842 GTCATTTTTCCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49389869 GTCATTCTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
49389896 GTCATTCTACCCTACATGAGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
49389923 GTCATTCTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
49389950 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * *
49389977 GTCATTTTTTCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49390004 GTCATTTTATCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49390031 ATCATTTTAC
1 GTCATTTTAC
49390041 AACCTTTTCG
Statistics
Matches: 321, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
25 4 0.01
26 9 0.03
27 308 0.96
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:49396593 original size:16 final size:16
Alignment explanation
Indices: 49396572--49396602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49396562 AATTCATTTA
*
49396572 AATTAATTAATTTTTC
1 AATTAAATAATTTTTC
49396588 AATTAAATAATTTTT
1 AATTAAATAATTTTT
49396603 TTCAACCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAAATAATTTTTC
Found at i:49400787 original size:36 final size:36
Alignment explanation
Indices: 49400735--49400807 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
49400725 CCAAAACACA
49400735 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
1 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
* *
49400771 TAACTACTAAAGCTGACAGATATTTGTGTCATATTT
1 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
49400807 T
1 T
49400808 CATAATAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (36 bp):
TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
Found at i:49412780 original size:26 final size:26
Alignment explanation
Indices: 49412721--49412784 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
49412711 CAATTGTACA
*
49412721 CCAGTAAACTTTTGATGATTTTACCT
1 CCAGTAAAATTTTGATGATTTTACCT
* *
49412747 CCAATAAAATTTTGATGATTTTTCC-
1 CCAGTAAAATTTTGATGATTTTACCT
49412772 CTCAGTAAAATTT
1 C-CAGTAAAATTT
49412785 CTAGAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.42
Consensus pattern (26 bp):
CCAGTAAAATTTTGATGATTTTACCT
Found at i:49419670 original size:27 final size:30
Alignment explanation
Indices: 49419610--49419671 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
49419600 TTAATTAATA
*
49419610 TTTTTAATTAATAAACTTGCTATTTTCAAG
1 TTTTTAATTAATAAACATGCTATTTTCAAG
*
49419640 TTTTTAGTTAATAAACATG-T-TTTT-AAG
1 TTTTTAATTAATAAACATGCTATTTTCAAG
49419667 TTTTT
1 TTTTT
49419672 TATTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 8 0.27
28 4 0.13
29 1 0.03
30 17 0.57
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (30 bp):
TTTTTAATTAATAAACATGCTATTTTCAAG
Found at i:49420152 original size:24 final size:24
Alignment explanation
Indices: 49420087--49420152 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
49420077 TCTAATATAA
49420087 AAAAAATTTACAAAAAATTTAACACC
1 AAAAAATTT--AAAAAATTTAACACC
* *
49420113 AAAAAACTCT-ATAAATTTAACACC
1 AAAAAA-TTTAAAAAATTTAACACC
*
49420137 AAAAAATTTAAGAAAT
1 AAAAAATTTAAAAAAT
49420153 CATCAATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.06
24 24 0.71
26 6 0.18
27 2 0.06
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAATTTAAAAAATTTAACACC
Found at i:49424189 original size:25 final size:26
Alignment explanation
Indices: 49424139--49424195 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
49424129 TATTTTTAAT
*
49424139 TTTTTTAAAAATAAAATAGAAAAAATA
1 TTTTCTAAAAATAAAATAG-AAAAATA
49424166 TTTTCTAAAAATAAAATAG-AAAATA
1 TTTTCTAAAAATAAAATAGAAAAATA
49424191 TTTTC
1 TTTTC
49424196 AGAAATCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.38
27 18 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTTCTAAAAATAAAATAGAAAAATA
Found at i:49428486 original size:10 final size:9
Alignment explanation
Indices: 49428471--49428513 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
49428461 ATTTTTCCTA
49428471 TAAAAATATT
1 TAAAAATA-T
*
49428481 TAAAAAAAT
1 TAAAAATAT
*
49428490 TATTAAATAT
1 TA-AAAATAT
49428500 TAAAAATAT
1 TAAAAATAT
49428509 TAAAA
1 TAAAA
49428514 TTTATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATAT
Found at i:49428530 original size:10 final size:9
Alignment explanation
Indices: 49428500--49428579 Score: 65
Period size: 9 Copynumber: 8.7 Consensus size: 9
49428490 TATTAAATAT
49428500 TAAAAA-TA
1 TAAAAATTA
*
49428508 TTAAAATTTA
1 -TAAAAATTA
*
49428518 TAATAACTTA
1 TAA-AAATTA
49428528 TAAAAATTA
1 TAAAAATTA
*
49428537 TAAAAA-AA
1 TAAAAATTA
*
49428545 TAAAAGCTTA
1 TAAAA-ATTA
*
49428555 TAAATATTA
1 TAAAAATTA
49428564 TAATAAATTA
1 TAA-AAATTA
49428574 TAAAAA
1 TAAAAA
49428580 AATCTAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.11
9 28 0.49
10 23 0.40
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:49428533 original size:46 final size:47
Alignment explanation
Indices: 49428483--49428590 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 47
49428473 AAAATATTTA
* * * * *
49428483 AAAAAATTATTAAATATTAAAAATATTA-AAAT-TTATAATAACTTAT
1 AAAAAATTATAAAAAAAT-AAAAGATTATAAATATTATAATAAATTAT
*
49428529 -AAAAATTATAAAAAAATAAAAGCTTATAAATATTATAATAAATTAT
1 AAAAAATTATAAAAAAATAAAAGATTATAAATATTATAATAAATTAT
* *
49428575 AAAAAAATCTAAAAAA
1 AAAAAATTATAAAAAA
49428591 TTGATATCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
44 7 0.14
45 18 0.35
46 13 0.25
47 13 0.25
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (47 bp):
AAAAAATTATAAAAAAATAAAAGATTATAAATATTATAATAAATTAT
Found at i:49428541 original size:37 final size:37
Alignment explanation
Indices: 49428500--49428580 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
49428490 TATTAAATAT
*
49428500 TAAAAATATTAAAA-TTTAT-AATAACTTATAA-AAATTA
1 TAAAAA-ATTAAAAGCTTATAAAT-A-TTATAATAAATTA
*
49428537 TAAAAAAATAAAAGCTTATAAATATTATAATAAATTA
1 TAAAAAATTAAAAGCTTATAAATATTATAATAAATTA
49428574 TAAAAAA
1 TAAAAAA
49428581 ATCTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 12 0.31
37 24 0.62
38 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (37 bp):
TAAAAAATTAAAAGCTTATAAATATTATAATAAATTA
Found at i:49429064 original size:23 final size:23
Alignment explanation
Indices: 49429015--49429064 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
49429005 TTGTTATATT
* **
49429015 TTTATAAGTTTTTTCTATGAATT
1 TTTATAAGTTTTTTCTATAAAAA
*
49429038 TTTATAAGTTTTTTTTATAAAAA
1 TTTATAAGTTTTTTCTATAAAAA
49429061 TTTA
1 TTTA
49429065 AATATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTATAAGTTTTTTCTATAAAAA
Found at i:49429150 original size:19 final size:17
Alignment explanation
Indices: 49429119--49429171 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
49429109 TTTATTAGAT
*
49429119 TTTTATAATATTTATAGG
1 TTTTAT-ATATTTATAAG
49429137 TTTCTATTATATTTTATAAG
1 TTT-TA-TATA-TTTATAAG
*
49429157 TTTTATACATTTATA
1 TTTTATATATTTATA
49429172 TCAATTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 6 0.20
18 6 0.20
19 7 0.23
20 11 0.37
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTATATATTTATAAG
Found at i:49429207 original size:17 final size:18
Alignment explanation
Indices: 49429185--49429226 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
49429175 ATTTTGAGAT
49429185 TTTTTAAATA-TTTATAA
1 TTTTTAAATATTTTATAA
49429202 TTTTT-AATATTTTATAA
1 TTTTTAAATATTTTATAA
*
49429219 GTTTTAAA
1 TTTTTAAA
49429227 GAATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTAAATATTTTATAA
Found at i:49429327 original size:28 final size:27
Alignment explanation
Indices: 49429296--49429407 Score: 74
Period size: 28 Copynumber: 4.2 Consensus size: 27
49429286 AAAAAATTAG
49429296 AATTTATTAGAATTTTTATAATATTTAT
1 AATTTATTA-AATTTTTATAATATTTAT
* ** *
49429324 AATTTTTTTATTTTTTTATAATTTTTAT
1 AA-TTTATTAAATTTTTATAATATTTAT
* *
49429352 AATTTTATATAAA--TTT-TAATTTTTTT
1 AA-TTTAT-TAAATTTTTATAATATTTAT
*
49429378 AA--T-TTAAATTTTTAATAATTTTTAT
1 AATTTATTAAATTTTT-ATAATATTTAT
49429403 AATTT
1 AATTT
49429408 TATAATTGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
21 4 0.06
22 1 0.01
23 4 0.06
25 11 0.16
26 11 0.16
27 4 0.06
28 24 0.36
29 8 0.12
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (27 bp):
AATTTATTAAATTTTTATAATATTTAT
Found at i:49429348 original size:10 final size:10
Alignment explanation
Indices: 49429308--49429446 Score: 92
Period size: 9 Copynumber: 15.4 Consensus size: 10
49429298 TTTATTAGAA
49429308 TTTTTATAA-
1 TTTTTATAAT
*
49429317 TATTTATAAT
1 TTTTTATAAT
*
49429327 TTTTT-TATT
1 TTTTTATAAT
49429336 TTTTTATAA-
1 TTTTTATAAT
49429345 TTTTTATAAT
1 TTTTTATAAT
*
49429355 TTTATATAA-
1 TTTTTATAAT
*
49429364 -ATTT-TAAT
1 TTTTTATAAT
49429372 TTTTT-TAA-
1 TTTTTATAAT
49429380 --TTTA-AAT
1 TTTTTATAAT
*
49429387 TTTTAATAA-
1 TTTTTATAAT
49429396 TTTTTATAA-
1 TTTTTATAAT
49429405 -TTTTATAAT
1 TTTTTATAAT
* *
49429414 TGTTTCTAAT
1 TTTTTATAAT
*
49429424 TTTTTATTAT
1 TTTTTATAAT
*
49429434 TTTTAAT-AT
1 TTTTTATAAT
49429443 TTTT
1 TTTT
49429447 ATTGAAAAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
6 5 0.05
7 3 0.03
8 10 0.10
9 48 0.47
10 36 0.35
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:49429348 original size:17 final size:17
Alignment explanation
Indices: 49429328--49429448 Score: 75
Period size: 17 Copynumber: 6.9 Consensus size: 17
49429318 ATTTATAATT
49429328 TTTTTATTTTTTTATAA
1 TTTTTATTTTTTTATAA
*
49429345 TTTTTATAATTTTATATAA
1 TTTTTAT--TTTTTTATAA
* *
49429364 ATTTTAATTTTTT-TAA
1 TTTTTATTTTTTTATAA
* * *
49429380 -TTTAAATTTTTAATAA
1 TTTTTATTTTTTTATAA
**
49429396 TTTTTATAATTTTATAA
1 TTTTTATTTTTTTATAA
* *
49429413 TTGTTTCTAATTTTTTATTA
1 -T-TTT-TATTTTTTTATAA
*
49429433 TTTTTAATATTTTTAT
1 TTTTT-ATTTTTTTAT
49429449 TGAAAAATAT
Statistics
Matches: 79, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
15 10 0.13
16 6 0.08
17 24 0.30
18 12 0.15
19 18 0.23
20 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTTTATTTTTTTATAA
Found at i:49429396 original size:16 final size:15
Alignment explanation
Indices: 49429336--49429398 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 15
49429326 TTTTTTTATT
49429336 TTTTTATAATTTTTATAA
1 TTTTTATAA--TTTA-AA
*
49429354 TTTTATATAAATTTTAA
1 TTTT-TAT-AATTTAAA
*
49429371 TTTTTTTAATTTAAA
1 TTTTTATAATTTAAA
49429386 TTTTTAATAATTT
1 TTTTT-ATAATTT
49429399 TTATAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.32
16 8 0.21
17 6 0.16
18 7 0.18
19 3 0.08
20 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATTTAAA
Found at i:49429427 original size:51 final size:47
Alignment explanation
Indices: 49429296--49429448 Score: 156
Period size: 51 Copynumber: 3.2 Consensus size: 47
49429286 AAAAAATTAG
*
49429296 AATTTATTAGAATTTT-TATAATATTTATAATTTTTTTATT-TTTTT-AT
1 AATTT-TTATAATTTTATATAA-ATTT-TAATTTTTTTATTATTTTTAAT
49429343 AATTTTTATAATTTTATATAAATTTTAATTTTTTTAATTTAAATTTTTAAT
1 AATTTTTATAATTTTATATAAATTTTAATTTTTTT-A-TT--ATTTTTAAT
**
49429394 AATTTTTATAATTTTATA-ATTGTTTCTAA-TTTTTTATTATTTTTAAT
1 AATTTTTATAATTTTATATA-AATTT-TAATTTTTTTATTATTTTTAAT
49429441 -ATTTTTAT
1 AATTTTTAT
49429449 TGAAAAATAT
Statistics
Matches: 94, Mismatches: 3, Indels: 19
0.81 0.03 0.16
Matches are distributed among these distances:
45 10 0.11
46 22 0.23
47 21 0.22
49 2 0.02
50 7 0.07
51 29 0.31
52 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (47 bp):
AATTTTTATAATTTTATATAAATTTTAATTTTTTTATTATTTTTAAT
Found at i:49429994 original size:15 final size:15
Alignment explanation
Indices: 49429974--49430002 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49429964 AATAAAATTA
49429974 TGTCTTTTATATTTC
1 TGTCTTTTATATTTC
49429989 TGTCTTTTATATTT
1 TGTCTTTTATATTT
49430003 TGCATGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (15 bp):
TGTCTTTTATATTTC
Found at i:49431662 original size:12 final size:12
Alignment explanation
Indices: 49431645--49431669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49431635 ATTTTATAAG
49431645 ATTTAATATTAA
1 ATTTAATATTAA
49431657 ATTTAATATTAA
1 ATTTAATATTAA
49431669 A
1 A
49431670 GTAATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:49447065 original size:19 final size:17
Alignment explanation
Indices: 49447050--49447140 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
49447040 ATTTTTATAG
49447050 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
49447067 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* **
49447084 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
* *
49447098 TTGAATATTAAAGTTATTA
1 TTTAATATTAAA-TT-TAA
49447117 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
49447135 TTTAAT
1 TTTAAT
49447141 GTTGATCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 20
0.67 0.10 0.24
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 9 0.16
17 16 0.29
18 6 0.11
19 5 0.09
20 10 0.18
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:49455000 original size:17 final size:17
Alignment explanation
Indices: 49454978--49455012 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49454968 ATTACAAAAT
*
49454978 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
49454995 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
49455012 C
1 C
49455013 TTTCCCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:49458313 original size:30 final size:31
Alignment explanation
Indices: 49458279--49458339 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
49458269 AACGTCCAAT
49458279 ATGAACTTAGACAA-ATTTATCCATATTCAA
1 ATGAACTTAGACAACATTTATCCATATTCAA
*
49458309 ATGAACTTGGACAACTATTTATCCATATTCA
1 ATGAACTTAGACAAC-ATTTATCCATATTCA
49458340 TTCTAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 13 0.46
32 15 0.54
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (31 bp):
ATGAACTTAGACAACATTTATCCATATTCAA
Found at i:49459473 original size:68 final size:73
Alignment explanation
Indices: 49459380--49459561 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 73
49459370 TTTTATTCCG
* * * * * *
49459380 AAATGTATAAACTTAATTTAATAAAATATTTCATTATTTC-A-AAC-TATT-TA-TAAAAATCTT
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTTCAACAACTTATTAAATTAAAAACCCT
49459440 TATTCAAA
66 TATTCAAA
* *
49459448 AAATATATAAACTTAATTTAATAAAACATCTCATTGTTTCAAACAACTTATTAAAATTTAAAACC
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTTC-AACAACTTATT-AAATTAAAAACC
49459513 CTTATTCAAA
64 CTTATTCAAA
* *
49459523 AAATATATAAACTTAATTTAATAACACATCTCCTTATTT
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTT
49459562 TTGTTTTTGT
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
68 36 0.38
70 1 0.01
71 3 0.03
72 4 0.04
74 1 0.01
75 51 0.53
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (73 bp):
AAATATATAAACTTAATTTAATAAAACATCTCATTATTTCAACAACTTATTAAATTAAAAACCCT
TATTCAAA
Found at i:49460002 original size:67 final size:65
Alignment explanation
Indices: 49459920--49460182 Score: 330
Period size: 67 Copynumber: 3.9 Consensus size: 65
49459910 TCCCGAAGTC
* * * * * *
49459920 AAACTACTTACTAAAATCCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTT
1 AAACTACTTACTAAAA-CCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTATT
49459985 CT
65 -T
* * *
49459987 AAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTATT
1 AAACTACTTACTAAAACC-TTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTA-T
49460052 TT
64 TT
* *
49460054 AAACTACTTACTAAAACATTTATCCTG-AAATGTATAAACTTAATTTAATAAAACATCTCATTAT
1 AAACTACTTACTAAAAC-CTTATTC-GAAAATGTATAAACTTAATTTAATAAAACATCTCATTAT
49460118 TT
64 TT
* *
49460120 CAAACTACTTACTAAAATCTTTATTCGGAAATGTATAAACTTAATTTAATAAAACATCTCATT
1 -AAACTACTTACTAAAA-CCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATT
49460183 GTTTTTGTTT
Statistics
Matches: 174, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
66 6 0.03
67 165 0.95
68 3 0.02
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (65 bp):
AAACTACTTACTAAAACCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTATTT
Found at i:49460160 original size:134 final size:134
Alignment explanation
Indices: 49459920--49460187 Score: 364
Period size: 134 Copynumber: 2.0 Consensus size: 134
49459910 TCCCGAAGTC
* * * * *
49459920 AAACTACTTACTAAAATCCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTT
1 AAACTACTTACTAAAATCCTTATCCGAAAATATATAAACTTAATTTAATAAAACATCTCATTGTT
*
49459985 CTAAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTA
66 CTAAACTACTTACTAAAACCTTTATTCGAAACTGTATAAACTTAATTTAATAAAACATCACATTA
49460050 TTTT
131 TTTT
* * *
49460054 AAACTACTTACTAAAA-CATTTATCCTG-AAATGTATAAACTTAATTTAATAAAACATCTCATTA
1 AAACTACTTACTAAAATC-CTTATCC-GAAAATATATAAACTTAATTTAATAAAACATCTCATTG
* *
49460117 TT-TCAAACTACTTACTAAAATCTTTATTCGGAAA-TGTATAAACTTAATTTAATAAAACATCTC
64 TTCT-AAACTACTTACTAAAACCTTTATTC-GAAACTGTATAAACTTAATTTAATAAAACATCAC
*
49460180 ATTGTTTT
127 ATTATTTT
49460188 TGTTTCTGTG
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
133 2 0.02
134 112 0.95
135 4 0.03
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (134 bp):
AAACTACTTACTAAAATCCTTATCCGAAAATATATAAACTTAATTTAATAAAACATCTCATTGTT
CTAAACTACTTACTAAAACCTTTATTCGAAACTGTATAAACTTAATTTAATAAAACATCACATTA
TTTT
Found at i:49460645 original size:642 final size:626
Alignment explanation
Indices: 49459352--49460703 Score: 1766
Period size: 642 Copynumber: 2.1 Consensus size: 626
49459342 ATCCCAAAGT
* ** * *
49459352 TAAATTACTTACTAAAATTTTTATTCCGAAATGTATAAACTTAATTTAATAAAATATTTCATTAT
1 TAAACTACTTACTAAAACCTTTATT-CGAAATGTATAAACTTAATTTAATAAAACA-TACATTAT
*
49459417 TTCAAACTATTTATAAAAATCTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCAT
64 TTCAAACTACTTATAAAAA-CTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCAT
* *
49459482 TGTTTCAAACAACTTATTAAAATTTAAAACCCTTATTCAAAAAATATATAAACTTAATTTAATAA
128 TATTTCAAACAACTTACTAAAA-TT---A-CCTTATTCAAAAAATATATAAACTTAATTTAATAA
* * * * *
49459547 CACATCTCCTTATTTTTGTTTTTGTGTATATGCTCATTTAGTATTGACAGCAAATCTCTTTCCAC
188 AACATCTCATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCGCTTTCCAC
* * * *** *
49459612 AATTGTCATATTTCAGGCGCTGGTTGAGTGAAAGAATCGAAAAAAAATTTATCTTTTTTACAGAA
253 AATTGTCATATTTCAAGCACTGGTTGAGTGAAAGAAACGAAAAAAAAAACATCCTTTTTACAGAA
*
49459677 GTATACCAATTGTCACCATCAAATTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATTA
318 GTATACCAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATTA
* * ** * *
49459742 CTTGGATACACAAAACAAAATATTTGCAAAGCTGCATCAAATTATACAAAAAAGGCTTTTCTATT
383 CTCGCATACACAAAACAAAATATTTGCAAAGCCACATCAAATTATACAAAAAAAGCTTTCCTATT
49459807 TCAAGATATCTTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAAA
448 TCAAGATATCTTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAAA
*
49459872 AAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAAT
513 AAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAAC
* * *
49459937 CCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTTC
578 CCTTATTCGAAAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
*
49459986 TAAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTAT
1 TAAACTACTTACTAAAACCTTTATTCGAAA-TGTATAAACTTAATTTAATAAAACAT-ACATTAT
* *** *
49460051 TTTAAACTACTTACT-AAAACATTTA-TCCTGAAATGTATAAACTTAATTTAATAAAACATCTCA
64 TTCAAACTACTTA-TAAAAAC-TTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCA
* * ** *
49460114 TTATTTCAAACTACTTACTAAAA-T-CTTTATTC-GGAAATGTATAAACTTAATTTAATAAAACA
127 TTATTTCAAACAACTTACTAAAATTACCTTATTCAAAAAATATATAAACTTAATTTAATAAAACA
* * *
49460176 TCTCATTGTTTTTGTTTCTGTGTATCTGCCCATTTAGTATTTACAGCAAATCGCTTTCCA-AATT
192 TCTCATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCGCTTTCCACAATT
* * *
49460240 GCACTCAATTTTCCTGTTTCAAGCACTGGTTTAGTGAAAGAAAGGAAAAAAAAACAACATCCTTT
257 G---TC-A------TATTTCAAGCACTGGTTGAGTGAAAGAAACG-AAAAAAAA-AACATCCTTT
* ** * * *
49460305 TTAGAGGGGTCTACCAATTGTCCCCATCAAACTTATCTCCTAACTGAAAGTACCATGTTTGGCTT
310 TTACAGAAGTATACCAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTT
*
49460370 ATATATTACTCGCATACACAAAACAAAATATTTGCAAAGCCATATCAAATTATACAAAAAAAAAA
375 ATATATTACTCGCATACACAAAACAAAATATTTGCAAAGCCACATCAAATTATAC-----AAAAA
* *
49460435 AAGCTTTCCTATTTCAAGATATCTTTCCATGCCAATATGGGTTATTTGAAATCAAATAGAGAATA
435 AAGCTTTCCTATTTCAAGATATCTTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATA
* * * *
49460500 GTTATTACTTTAAGAAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCTCTAGGTCAAA
500 GTTATTA-TTTAAAAAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAA
*
49460565 CTACTTACTAAAACCCTTATTC-ATAAATGTATAAATTTAATTTAATAAAACATCTCATTGTT-
564 CTACTTACTAAAACCCTTATTCGA-AAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
* *
49460627 TCAAACTACTTACTAAAACCTTTGTTTCGAAATGTATAAACTTAATTTAATAAAACATATCATTG
1 T-AAACTACTTACTAAAACCTTT-ATTCGAAATGTATAAACTTAATTTAATAAAACATA-CATTA
49460692 TTTCAAACTACT
63 TTTCAAACTACT
49460704 GACGTGGATG
Statistics
Matches: 626, Mismatches: 66, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
624 5 0.01
625 79 0.13
626 7 0.01
627 2 0.00
628 1 0.00
631 1 0.00
633 60 0.10
634 96 0.15
635 9 0.01
636 114 0.18
641 76 0.12
642 170 0.27
643 6 0.01
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (626 bp):
TAAACTACTTACTAAAACCTTTATTCGAAATGTATAAACTTAATTTAATAAAACATACATTATTT
CAAACTACTTATAAAAACTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCATTAT
TTCAAACAACTTACTAAAATTACCTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTC
ATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCGCTTTCCACAATTGTCA
TATTTCAAGCACTGGTTGAGTGAAAGAAACGAAAAAAAAAACATCCTTTTTACAGAAGTATACCA
ATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATTACTCGCATA
CACAAAACAAAATATTTGCAAAGCCACATCAAATTATACAAAAAAAGCTTTCCTATTTCAAGATA
TCTTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAAAAAAACAAC
ATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAACCCTTATTC
GAAAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
Found at i:49460672 original size:67 final size:67
Alignment explanation
Indices: 49460560--49460703 Score: 227
Period size: 67 Copynumber: 2.1 Consensus size: 67
49460550 GATCTCTAGG
* * *
49460560 TCAAACTACTTACTAAAACCCTTATTCATAAATGTATAAATTTAATTTAATAAAACATCTCATTG
1 TCAAACTACTTACTAAAACCCTTATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATTG
49460625 TT
66 TT
* *
49460627 TCAAACTACTTACTAAAACCTTTGTTTC-GAAATGTATAAACTTAATTTAATAAAACATATCATT
1 TCAAACTACTTACTAAAACCCTT-ATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATT
49460691 GTT
65 GTT
49460694 TCAAACTACT
1 TCAAACTACT
49460704 GACGTGGATG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 68 0.96
68 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (67 bp):
TCAAACTACTTACTAAAACCCTTATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATTG
TT
Found at i:49467056 original size:67 final size:67
Alignment explanation
Indices: 49466948--49467079 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
49466938 GGTGTATAAC
* *
49466948 AACTACTTACTAAAACCTTTATTCCAAAATGCGTAAACTTAATTTAATAAAACATCTCATTGTTT
1 AACTACTTACTAAAACATTTATTCCAAAATGCATAAACTTAATTTAATAAAACATCTCATTGTTT
49467013 CA
66 CA
* ** * * *
49467015 AACTACTTACTAAAATATTTATTCGGAAATGTATAAACTTAATTTAATAATACATCTTATTGTTT
1 AACTACTTACTAAAACATTTATTCCAAAATGCATAAACTTAATTTAATAAAACATCTCATTGTTT
49467080 TTGTTTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.39
Consensus pattern (67 bp):
AACTACTTACTAAAACATTTATTCCAAAATGCATAAACTTAATTTAATAAAACATCTCATTGTTT
CA
Found at i:49467619 original size:7 final size:7
Alignment explanation
Indices: 49467607--49467658 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
49467597 ATATTTAGAG
49467607 TTTTAAA
1 TTTTAAA
49467614 TTTTAAA
1 TTTTAAA
49467621 TTTTAAA
1 TTTTAAA
49467628 TTTTAAA
1 TTTTAAA
49467635 TTTTAAA
1 TTTTAAA
49467642 TTTTAAA
1 TTTTAAA
* *
49467649 ATTCAAA
1 TTTTAAA
49467656 TTT
1 TTT
49467659 ACTTGTAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTTAAA
Found at i:49479780 original size:1 final size:1
Alignment explanation
Indices: 49479774--49479826 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
49479764 GAATTCAATT
* * * * * *
49479774 AAAAAAACAAAAAAGAAAAAAAAAGAAAAAAGAAAAAGAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49479827 GAGGAGAGGC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:49479796 original size:17 final size:17
Alignment explanation
Indices: 49479774--49479826 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
49479764 GAATTCAATT
*
49479774 AAAAAAACAAAAAAGAA
1 AAAAAAAGAAAAAAGAA
49479791 AAAAAAAGAAAAAAGAA
1 AAAAAAAGAAAAAAGAA
49479808 AAAGAAAAGAAAAAA-AA
1 AAA-AAAAGAAAAAAGAA
49479825 AA
1 AA
49479827 GAGGAGAGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 23 0.68
18 11 0.32
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAGAA
Found at i:49479802 original size:23 final size:23
Alignment explanation
Indices: 49479783--49479826 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
49479773 TAAAAAAACA
49479783 AAAAAGAAAA-AAAAAGAAAAAAG
1 AAAAAGAAAAGAAAAA-AAAAAAG
49479806 AAAAAGAAAAGAAAAAAAAAA
1 AAAAAGAAAAGAAAAAAAAAA
49479827 GAGGAGAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAGAAAAAAAAAAAG
Found at i:49479803 original size:11 final size:11
Alignment explanation
Indices: 49479774--49479828 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
49479764 GAATTCAATT
*
49479774 AAAAAAACAAA
1 AAAAAAAGAAA
*
49479785 AAAGAAAAAAAA
1 AAA-AAAAGAAA
49479797 AGAAAAAAGAAA
1 A-AAAAAAGAAA
*
49479809 AAGAAAAGAAA
1 AAAAAAAGAAA
49479820 AAAAAAAGA
1 AAAAAAAGA
49479829 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 20 0.53
12 16 0.42
13 2 0.05
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:49480278 original size:108 final size:107
Alignment explanation
Indices: 49480090--49480310 Score: 291
Period size: 108 Copynumber: 2.1 Consensus size: 107
49480080 AGGGCACCTG
* * * * * * *
49480090 TTTTCATCTTATTCCTTTTGTATCTTAGCAAAATTTGCTATCTTGATTATTTATTTATTTCGAGC
1 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATTATTTATTTATTTAGAGC
**
49480155 TTTGTTCTCAATAAAATTCCATCTTCTCC-ATTGTGATAATCC
66 TTTACTCTCAATAAAATTCCATCTT-TCCTATTGTGATAATCC
* * *
49480197 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGTTATCCTGTTTAATTTATTTGTTTAGAG
1 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATT-ATTTATTTATTTAGAG
* *
49480262 CTTTACTCTCAATAAAATTTCATCTTTCCTATTGTGATAATCT
65 CTTTACTCTCAATAAAATTCCATCTTTCCTATTGTGATAATCC
49480305 TTTTCA
1 TTTTCA
49480311 AGCATTTTCC
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 43 0.44
108 55 0.56
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (107 bp):
TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATTATTTATTTATTTAGAGC
TTTACTCTCAATAAAATTCCATCTTTCCTATTGTGATAATCC
Found at i:49480816 original size:24 final size:24
Alignment explanation
Indices: 49480784--49480841 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
49480774 ATGTCCCAAA
*
49480784 ATTATAGTGGATTGAACCTTGAAG
1 ATTAAAGTGGATTGAACCTTGAAG
* *
49480808 ATTACAGTGGATTGAACTTTGAAG
1 ATTAAAGTGGATTGAACCTTGAAG
49480832 ATTAAAGTGG
1 ATTAAAGTGG
49480842 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (24 bp):
ATTAAAGTGGATTGAACCTTGAAG
Found at i:49481382 original size:44 final size:44
Alignment explanation
Indices: 49481305--49481731 Score: 202
Period size: 44 Copynumber: 9.8 Consensus size: 44
49481295 CCACCAGTCC
* * *
49481305 TATCTCCCTGAA-CAGTAGTGGAGTAGGTTGAAGATTATAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGATCATAGATCT
* ***
49481349 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATAG-ATCT
* * * * * * * * *
49481393 TATCTTCCTGAG-A-TACTAGGAAGCA-AACTTAAG-CCACCAG-TCC
1 TATCTCCCTAAGCAGTAGT-GG-AGTAGATC-GAAGATCA-TAGATCT
* * * * **
49481436 TATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATAGATCT
*
49481480 TATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGA-CA-ACGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATA-G-ATCT
* * ** * * *
49481524 TATCTTCCC-GAG-A-TAGTCGGAAGTGGATTTAAG-CCACCAG-CCT
1 TATC-TCCCTAAGCAGTAGT-GG-AGTAGATCGAAGATCA-TAGATCT
* * * * **
49481567 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATAGATCT
* * *
49481611 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAA-AACACCAG-CCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCA-TAGATCT
* * * * **
49481654 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATAGATCT
* *
49481698 TATCTACCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
49481732 CGGCAAATCT
Statistics
Matches: 278, Mismatches: 77, Indels: 56
0.68 0.19 0.14
Matches are distributed among these distances:
42 12 0.04
43 84 0.30
44 171 0.62
45 10 0.04
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATCATAGATCT
Found at i:49481417 original size:131 final size:131
Alignment explanation
Indices: 49481174--49481642 Score: 706
Period size: 131 Copynumber: 3.6 Consensus size: 131
49481164 TATCAAGCCT
* * * * *
49481174 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATCTTACCTCCCTAAGCAGTAGTAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
*
49481239 AGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGAAAGCAAATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
49481304 C
131 C
* * * *
49481305 TATCTCCCTGAACAGTAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
49481370 AGCAGATCGAAGACGGCGAATCTTATCTTCCTGAGATACTAGGAAGCAAACTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
49481435 C
131 C
* *
49481436 TATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* ** * ***
49481501 AGAAGATCGAAGACAACGAATCTTATCTTCCCGAGATAGTCGGAAGTGGATTTAAGCCACCAG-C
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
49481565 C
131 C
*
49481566 TTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 -TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
*
49481631 GAGTAGATCGAA
65 GAGCAGATCGAA
49481643 AACACCAGCC
Statistics
Matches: 307, Mismatches: 30, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
130 2 0.01
131 305 0.99
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
C
Found at i:49481649 original size:87 final size:87
Alignment explanation
Indices: 49481558--49481729 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
49481548 GGATTTAAGC
*
49481558 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
*
49481623 CAGTAGTGGAGTAGATCGAAAA
66 CAGTAGTGGAGCAGATCGAAAA
49481645 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
49481710 CAGTAGTGGAGCAGATCGAA
66 CAGTAGTGGAGCAGATCGAA
49481730 GACGGCAAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (87 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
CAGTAGTGGAGCAGATCGAAAA
Found at i:49481682 original size:218 final size:219
Alignment explanation
Indices: 49481427--49481939 Score: 638
Period size: 218 Copynumber: 2.3 Consensus size: 219
49481417 AAACTTAAGC
*
49481427 CACCAGTCC-TATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAG-CCTTATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAA
* * ****
49481491 GCAGTAGTGGAGAAGATCGAAGACAACGAATCTTATCTTCCCGAGATAGTCGGAAGTGGATTTAA
65 GCAGTAGTGGAGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAA
* * *
49481556 GCCACCAG-CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCT
130 GCCACCAGTCC-TATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCT
* * *
49481620 -AAGC-AGTAGTGGAGTAGATCGAAAA
194 GAA-CTAGCAGTGAAGCAGATCGAAAA
* * *
49481645 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
* **
49481710 CAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAG
66 CAGTAGTGGAGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAG
* * * * * *
49481775 CCACCAGTCCTATCTCCCTGAGTAGCAGTGAAGTAGGTCAAAGATTATAGATCTTGTCTTCGTGT
131 CCACCAGTCCTATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCTGA
* *
49481840 ACTGGCAGTGAAGCAGATCGAAAG
196 ACTAGCAGTGAAGCAGATCGAAAA
* ** * * * * * *
49481864 CACCAGCCTTACCTCTTTGGGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
*
49481929 TAGTAGTGGAG
66 CAGTAGTGGAG
49481940 CGGATTAAAG
Statistics
Matches: 252, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
217 2 0.01
218 167 0.66
219 83 0.33
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (219 bp):
CACCAGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAG
CCACCAGTCCTATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCTGA
ACTAGCAGTGAAGCAGATCGAAAA
Found at i:49481742 original size:44 final size:43
Alignment explanation
Indices: 49481172--49481746 Score: 200
Period size: 44 Copynumber: 13.2 Consensus size: 43
49481162 CATATCAAGC
* * * * *
49481172 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAAAT
* * * *
49481216 CTTACCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAAAT
* * * * ** * * * *
49481260 CTTATCTTCCC-GAG-A-TAGTAGAAAGCAAATTTAAGCCACCAGT
1 CTTATC-TCCCTAAGCAGTAGT-G-GAGTAGATCGAAGACGCAAAT
* * * **
49481303 CCTATCTCCCTGAA-CAGTAGTGGAGTAGGTTGAAGA-TTATAGAT
1 CTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGACGCA-A-AT
* *
49481347 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAAAT
* * * * * * * * * *
49481391 CTTATCTTCCTGAG-A-TACTAGGAAGCA-AACTTAAGCCACCAGT
1 CTTATCTCCCTAAGCAGTAGT-GG-AGTAGATC-GAAGACGCAAAT
* * * * * * * *
49481434 CCTATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAAAT
* * *
49481478 CTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACAACGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAAAT
* * ** * * * **
49481522 CTTATCTTCCC-GAG-A-TAGTCGGAAGTGGATTTAAGCCACCAGC
1 CTTATC-TCCCTAAGCAGTAGT-GG-AGTAGATCGAAGACGCAAAT
* * * * * * *
49481565 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAAAT
* * * **
49481609 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAAACACCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGCAAAT
* * * * * * *
49481652 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAAAT
* *
49481696 CTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAAAT
49481740 CTTATCT
1 CTTATCT
49481747 TCCCGAGATA
Statistics
Matches: 370, Mismatches: 131, Indels: 60
0.66 0.23 0.11
Matches are distributed among these distances:
42 19 0.05
43 99 0.27
44 235 0.64
45 17 0.05
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGCAAAT
Found at i:49482192 original size:44 final size:44
Alignment explanation
Indices: 49481961--49482336 Score: 260
Period size: 44 Copynumber: 8.8 Consensus size: 44
49481951 CAGGCTACAA
* * * *
49481961 ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
* ** * ** *
49482005 ATATTATCTTTCTGAAGTTGCAGTAGAGCAAATCGCATC-A-AG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
** * *
49482047 -TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGA-AACTA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCA-AA-ACAAC-AG
* ** *
49482089 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC--CAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
* * * *
49482131 -TCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
* * *
49482174 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATC--CA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
* * *
49482215 ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CAGAAGAAGCCA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAA--CAG
* * * * * * * *
49482259 ATCCTATCTCCCTAAAATTGCAGTGGAGCGGATTAAAGCCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
*
49482303 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC
49482337 GCATTAGACT
Statistics
Matches: 246, Mismatches: 67, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 17 0.07
41 71 0.29
42 5 0.02
43 18 0.07
44 130 0.53
45 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAACAG
Found at i:49482202 original size:85 final size:85
Alignment explanation
Indices: 49481966--49482246 Score: 372
Period size: 85 Copynumber: 3.3 Consensus size: 85
49481956 TACAAATCTC
* * *
49481966 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATATTATCTTTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAG
* *
49482031 AGCAAATCGCATCAAGTCTT
66 AGCAGATCGCATCCAGTCTT
** * *
49482051 ATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGA-AACTA-ATCTTATCTCTCTGAAGTTGCAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACAAC-AGATCTTATCTCTCTGAAGTTGCAG
49482112 TAGAGCAGATCGCATCCAGTCTT
63 TAGAGCAGATCGCATCCAGTCTT
* *
49482135 ATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAG
* *
49482200 AGCAGATCACATCCAATCTT
66 AGCAGATCGCATCCAGTCTT
* *
49482220 ATCTCCCTGAAGTTGTAGTAGAGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA
49482247 CAGAAGAAGC
Statistics
Matches: 169, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
83 1 0.01
84 71 0.42
85 96 0.57
86 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (85 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAG
AGCAGATCGCATCCAGTCTT
Found at i:49482267 original size:85 final size:84
Alignment explanation
Indices: 49481960--49482334 Score: 328
Period size: 85 Copynumber: 4.4 Consensus size: 84
49481950 ACAGGCTACA
* * * * * *
49481960 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACCACAGATATTATCTTTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CAGAAGAAC-CA-ATCTTATCTCTCTGAAGT
* *
49482023 TGCAGTAGAGCAAATCGCAT-C
63 TGCAGTAGAGCAGATCACATCC
** * * *
49482044 AAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAACTAATCTTATCTCTCTGAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAG-AACCAATCTTATCTCTCTGAAGTT
*
49482108 GCAGTAGAGCAGATCGCATCC
64 GCAGTAGAGCAGATCACATCC
* * * * * * *
49482129 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAA-CAGATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CAGAAGAACCA-ATCTTATCTCTCTGAAGTT
49482193 GCAGTAGAGCAGATCACATCC
64 GCAGTAGAGCAGATCACATCC
* * * * *
49482214 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAGCCAATCCTATCTCCCTAAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAA-CCAATCTTATCTCTCTGAAGTTG
* * * * *
49482279 CAGTGGAGCGGATTAAAGCCAC
65 CAGTAGAGCAGATCACA-TC-C
*
49482301 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
49482335 TCGCATTAGA
Statistics
Matches: 239, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
83 1 0.00
84 72 0.30
85 126 0.53
86 8 0.03
87 2 0.01
88 30 0.13
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (84 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAACCAATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATCACATCC
Found at i:49482303 original size:129 final size:126
Alignment explanation
Indices: 49482088--49482336 Score: 374
Period size: 129 Copynumber: 2.0 Consensus size: 126
49482078 AGAAGAAACT
* * * * * *
49482088 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGCCAATCCTATCTCCCTAAAATTGCAG
49482153 TGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
66 TGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
*
49482214 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CAGAAGAAGCCAATCCTATCTCCCTAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC----GAAGCCAATCCTATCTCCCTAAAATT
* *
49482278 GCAGTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
62 GCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
49482337 GCATTAGACT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
125 1 0.01
126 31 0.28
129 78 0.71
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (126 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGCCAATCCTATCTCCCTAAAATTGCAG
TGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
Found at i:49483978 original size:3 final size:3
Alignment explanation
Indices: 49483965--49484000 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
49483955 ACATCACTAA
49483965 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49484001 GCTATGTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49495821 original size:97 final size:97
Alignment explanation
Indices: 49495655--49495845 Score: 294
Period size: 97 Copynumber: 2.0 Consensus size: 97
49495645 ATTCATTTTG
* * * *
49495655 TATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTCGAGCTTTACTCTCAATAAAATTT
1 TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTTTACTCTCAACAAAATTT
49495720 CATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* *
49495752 TATCTCAGCAGAATTTGCTATCTTGATTAATTTATTCATTTCAAGC-TTAGTTCTCAACAAAATT
1 TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTTTA-CTCTCAACAAAATT
* *
49495816 TCATCTTGTCTATTGTGATAATCTTTTTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
49495846 AGCATTTTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
96 3 0.04
97 82 0.96
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (97 bp):
TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGCTTTACTCTCAACAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:49496166 original size:15 final size:15
Alignment explanation
Indices: 49496146--49496186 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
49496136 TGACATTCTG
49496146 CATTCATACAAATAT
1 CATTCATACAAATAT
*
49496161 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
49496177 CATTCATACA
1 CATTCATACA
49496187 CATCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:49496521 original size:44 final size:44
Alignment explanation
Indices: 49496311--49497060 Score: 216
Period size: 44 Copynumber: 17.2 Consensus size: 44
49496301 AGAAACCAAC
* * * * * **
49496311 CTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * * * * *
49496355 CTTATCTCCCTAAGAAGTAGTTGAGAAGATTAAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * ** *
49496399 CTTATCTTTCC-AAG-A-TAGTGGGGAGCAGATTTAAGCCACCAG-C
1 CTTATC-TCCCTAAGCAGTAGT--GGAGCAGATTGAAGACAGTAGAT
* * * * **
49496442 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * *
49496486 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * * ** *
49496530 CTTTTCTTTCC-AAG-A-TAGTGAGGAGCAGATTTAAGCCACCAG-C
1 CTTATC-TCCCTAAGCAGTAGT--GGAGCAGATTGAAGACAGTAGAT
* * * * * **
49496573 CTCGA-CTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CT-TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * * *
49496617 CTTATCTCCCTAAGTAGTAATAGAGCAGATCGAAGACAGTAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * * *
49496661 CTTATCTTTCC-AAG-A-TAGTGGGGAGCAGATTTAAGCCACTAG-C
1 CTTATC-TCCCTAAGCAGTAGT--GGAGCAGATTGAAGACAGTAGAT
* * ** * * *
49496704 CTTGTCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTA-TAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CAGTAGAT
* * * * * * *
49496748 CTTATCTCCCTAATCAGTAGTGGAACAGATCGAATACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* ** * * * ** *
49496792 CTTATAT-TTTCAAG-A-TAGTGGGGAGCAAATTTAAGCCACCAG-C
1 CTTATCTCCCT-AAGCAGTAGT--GGAGCAGATTGAAGACAGTAGAT
* * * * * * *
49496835 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAATATTA-TAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CAGTAGAT
* * * *
49496879 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * * * ** *
49496923 TTTATCTTTCC-AAG-A-TAGTGGGGAGCAGATTTAAGCCACCA-AC
1 CTTATC-TCCCTAAGCAGTAGT--GGAGCAGATTGAAGACAGTAGAT
* * * * * * **
49496966 CTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
* * *
49497010 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGAGGA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-AGTAGAT
49497054 CTTATCT
1 CTTATCT
49497061 TCCCAAGGTA
Statistics
Matches: 480, Mismatches: 184, Indels: 84
0.64 0.25 0.11
Matches are distributed among these distances:
42 31 0.06
43 103 0.21
44 317 0.66
45 29 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGTAGAT
Found at i:49496544 original size:131 final size:131
Alignment explanation
Indices: 49496305--49497144 Score: 1211
Period size: 131 Copynumber: 6.4 Consensus size: 131
49496295 CGGTGAAGAA
* * *
49496305 ACCAACCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGA
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * **
49496370 AGTAGTTGAGAAGATTAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
49496435 C
131 C
49496436 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * *
49496501 AGTAGTGGAGCAGATCGAAGACGGTAAATCTTTTCTTTCCAAGATAGTGAGGAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
49496566 C
131 C
*
49496567 ACCAGCCTCGA-CTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAGCCT-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * * *
49496631 TAGTAATAGAGCAGATCGAAGACAGTAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAG
65 CAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAG
49496696 CC
130 CC
* * * * *
49496698 ACTAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAATC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * *
49496763 AGTAGTGGAACAGATCGAATACGGCAAATCTTATATTTTCAAGATAGTGGGGAGCAAATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
49496828 C
131 C
* * *
49496829 ACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAATATTATAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
49496894 AGTAGTGGAGCAGATCGAAGACGGCAAATTTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
49496959 C
131 C
* * *
49496960 ACCAACCTTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * * *
49497025 AGTAGTAGAGCAGATCGAAGACGAG-GAATCTTATCTTCCCAAGGTAATAGGGAAGCAGATTTAA
66 AGTAGTGGAGCAGATCGAAGACG-GCAAATCTTATCTTTCCAAGATAGT-GGGGAGCAGATTTAA
49497089 GCC
129 GCC
** * * *
49497092 ACTGGTCC-TATCTCCCTGAGCAGCAATGGTA-TACGTTGAAGAATGTAGATCTT
1 ACCAG-CCTTATCTCCCTGAGCAGCAGTGG-AGTAGGTTGAAGATTGTAGATCTT
49497145 GTCTTCCTGT
Statistics
Matches: 641, Mismatches: 62, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
131 579 0.90
132 59 0.09
133 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGC
C
Found at i:49499002 original size:12 final size:12
Alignment explanation
Indices: 49498964--49499003 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
49498954 AAATTTAGAT
49498964 TTATTATTATGG
1 TTATTATTATGG
* * *
49498976 TTATTGTTCTTG
1 TTATTATTATGG
49498988 TTATTATTATGG
1 TTATTATTATGG
49499000 TTAT
1 TTAT
49499004 ATTGTCATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.03, G:0.15, T:0.62
Consensus pattern (12 bp):
TTATTATTATGG
Found at i:49499429 original size:107 final size:107
Alignment explanation
Indices: 49499243--49499442 Score: 337
Period size: 107 Copynumber: 1.9 Consensus size: 107
49499233 AAAAAATTAT
* *
49499243 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAATGTGCCCCAACGTGTTGGGTTTCGATT
1 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
49499308 TCTCGTTCGACCAAATAGCCAAATATCCCTTTTAAACTTTCA
66 TCTCGTTCGACCAAATAGCCAAATATCCCTTTTAAACTTTCA
* * * * *
49499350 AAGTAAGGCAATATTTTGCGTTTGGAAATTCGGGAGAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
49499415 TCTCGTTCGACCAAATAGCCAAATATCC
66 TCTCGTTCGACCAAATAGCCAAATATCC
49499443 TATTAAATCT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 86 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (107 bp):
AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCCCTTTTAAACTTTCA
Found at i:49504598 original size:31 final size:31
Alignment explanation
Indices: 49504560--49504635 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
49504550 TTACACCAAC
49504560 AATCACTCAACTTTGATCTCAATGACAAAAA
1 AATCACTCAACTTTGATCTCAATGACAAAAA
* *
49504591 AATCACTCAAATTTGATCTCAATGACAAAAC
1 AATCACTCAACTTTGATCTCAATGACAAAAA
*
49504622 AGTCACTCAACTTT
1 AATCACTCAACTTT
49504636 CAAAACAGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (31 bp):
AATCACTCAACTTTGATCTCAATGACAAAAA
Found at i:49504641 original size:20 final size:20
Alignment explanation
Indices: 49504616--49504660 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
49504606 ATCTCAATGA
* *
49504616 CAAAACAGTCACTCAACTTT
1 CAAAACAGCCACCCAACTTT
*
49504636 CAAAACAGCCACCCAATTTT
1 CAAAACAGCCACCCAACTTT
49504656 CAAAA
1 CAAAA
49504661 AATAACAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.20
Consensus pattern (20 bp):
CAAAACAGCCACCCAACTTT
Found at i:49504967 original size:74 final size:74
Alignment explanation
Indices: 49504837--49504989 Score: 252
Period size: 74 Copynumber: 2.1 Consensus size: 74
49504827 GTTGCTGACC
*
49504837 ATCTCCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
1 ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
*
49504902 GACTTTGGG
66 GACTTTAGG
* * * *
49504911 ATCTTCGCTGCTCTTCTTCTAATCTATCTCTCATCCTTTTTTGCTATAATACCTAGTCCAATTTT
1 ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
49504976 GACTTTAGG
66 GACTTTAGG
49504985 ATCTT
1 ATCTT
49504990 GTTAATCACT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (74 bp):
ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
GACTTTAGG
Found at i:49505698 original size:31 final size:30
Alignment explanation
Indices: 49505646--49505715 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
49505636 AAAATGTTAA
49505646 TGAGTGACTGATATATAATTTTTCGATAACGT
1 TGAGTGACTGATATATAATTTTTCGA-AA-GT
* * * *
49505678 T-AGTGACTGATTTGTTATTTTTTGAAAGT
1 TGAGTGACTGATATATAATTTTTCGAAAGT
49505707 TGAGTGACT
1 TGAGTGACT
49505716 AAATTGAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 20 0.61
32 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.44
Consensus pattern (30 bp):
TGAGTGACTGATATATAATTTTTCGAAAGT
Found at i:49505890 original size:30 final size:32
Alignment explanation
Indices: 49505821--49505895 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
49505811 AAAATGTTAA
*
49505821 TGAGTGACTGATTTGTCACTTTTTGATAACGT
1 TGAGTGACTAATTTGTCACTTTTTGATAACGT
* * *
49505853 T-AATGACTAATTTGTTATTTTTTGA-AA-GT
1 TGAGTGACTAATTTGTCACTTTTTGATAACGT
49505882 TGAGTGACTGAATT
1 TGAGTGACT-AATT
49505896 GAAATCAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 3 0.08
30 8 0.22
31 24 0.67
32 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (32 bp):
TGAGTGACTAATTTGTCACTTTTTGATAACGT
Found at i:49509792 original size:24 final size:24
Alignment explanation
Indices: 49509735--49509786 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49509725 GTGGCTGGCT
* *
49509735 GCTGCTGCTGAGGCTGGGATTGCG
1 GCTGCTGCTGAGGCTGAGACTGCG
*
49509759 GCTGCTGCTGAGGCTGAGACTGTG
1 GCTGCTGCTGAGGCTGAGACTGCG
49509783 GCTG
1 GCTG
49509787 TGGCTGTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.21, G:0.44, T:0.25
Consensus pattern (24 bp):
GCTGCTGCTGAGGCTGAGACTGCG
Found at i:49512954 original size:29 final size:29
Alignment explanation
Indices: 49512897--49512956 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
49512887 ATAAAATATG
* * *
49512897 GAACTCGTCGAAGGAAGCTCCTAAACTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
* *
49512926 GAACTCGTCAAAGGGAGCACCGAACCTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
49512955 GA
1 GA
49512957 CTCAAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (29 bp):
GAACTCGTCAAAGGAAGCACCGAAACTTA
Found at i:49519151 original size:119 final size:119
Alignment explanation
Indices: 49519015--49519362 Score: 508
Period size: 116 Copynumber: 2.9 Consensus size: 119
49519005 ACTTCCAGCA
* * *
49519015 CTAACCACCACAATACCTAAGTAGGGAAAATTTCGACTGTTCTTCCATTGAATATTTTAATGTGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
49519080 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
* * * *
49519134 CTAACCACCACAATACCTAGGTAGGCAAAACTTCCACAGTTCTCCCATTGAATATCTTAATGTGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
* *
49519199 CCCAACT---AACACAATTGATTTTCCGAAACACAGTACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
*
49519250 CTAACCACCACAATACCTCAGTAGGCAAAACTTCCACAT-TTCTTCCATTGAAT-TCTTTAATGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCAC-TGTTCTTCCATTGAATAT-TTTAATGT
** * * *
49519313 GTCTGAACTCCCAACAAAATTGATTTTCTGAAACACAATACACCGAGACT
64 GTCCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACT
49519363 TTCTATAGGA
Statistics
Matches: 204, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
115 1 0.00
116 104 0.51
119 99 0.49
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (119 bp):
CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
Found at i:49519922 original size:21 final size:21
Alignment explanation
Indices: 49519898--49519937 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49519888 TTCAATTCCA
49519898 CTTCTACTTATTTTCTTAGAG
1 CTTCTACTTATTTTCTTAGAG
49519919 CTTCTACTTATTTTCTTAG
1 CTTCTACTTATTTTCTTAG
49519938 CAGCCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (21 bp):
CTTCTACTTATTTTCTTAGAG
Found at i:49520858 original size:18 final size:19
Alignment explanation
Indices: 49520821--49520858 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
49520811 TTGTTTTAAA
* *
49520821 TATGTTTGTTAAAAAGTTT
1 TATGTTTGTAAAAAAATTT
49520840 TATGTTT-TAAAAAAATTT
1 TATGTTTGTAAAAAAATTT
49520858 T
1 T
49520859 GTTAGAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (19 bp):
TATGTTTGTAAAAAAATTT
Found at i:49521344 original size:11 final size:11
Alignment explanation
Indices: 49521304--49521486 Score: 123
Period size: 11 Copynumber: 17.9 Consensus size: 11
49521294 TGCCCATTTT
49521304 TATTTT-AAAA
1 TATTTTAAAAA
49521314 -ATTTTAAAAA
1 TATTTTAAAAA
**
49521324 -ATTAAAAAAA
1 TATTTTAAAAA
49521334 GTATTTTAAAAA
1 -TATTTTAAAAA
49521346 TATTTTAAAAA
1 TATTTTAAAAA
49521357 TATTTT--AAA
1 TATTTTAAAAA
49521366 -A-TTTAAAAA
1 TATTTTAAAAA
*
49521375 -A-TTAAAAAA
1 TATTTTAAAAA
49521384 GTATTTTAAAAA
1 -TATTTTAAAAA
49521396 TATTTT--AAA
1 TATTTTAAAAA
49521405 -A-TTTAAAAA
1 TATTTTAAAAA
**
49521414 -ATTAAAAAAA
1 TATTTTAAAAA
49521424 GTATTTTAAAAA
1 -TATTTTAAAAA
49521436 TATTTT--AAA
1 TATTTTAAAAA
49521445 -A-TTTAAAAA
1 TATTTTAAAAA
* *
49521454 AAATTTAAAAA
1 TATTTTAAAAA
* *
49521465 GTATGTAAAAAA
1 -TATTTTAAAAA
49521477 TATTTTAAAA
1 TATTTTAAAA
49521487 TTAAAAAAAA
Statistics
Matches: 139, Mismatches: 16, Indels: 35
0.73 0.08 0.18
Matches are distributed among these distances:
7 9 0.06
8 3 0.02
9 32 0.23
10 19 0.14
11 46 0.33
12 30 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:49521383 original size:28 final size:29
Alignment explanation
Indices: 49521338--49521394 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
49521328 AAAAAAGTAT
**
49521338 TTTAAAAATATTTTAAAAATATTTTAAAA
1 TTTAAAAATATTAAAAAAATATTTTAAAA
*
49521367 TTTAAAAA-ATTAAAAAAGTATTTTAAAA
1 TTTAAAAATATTAAAAAAATATTTTAAAA
49521395 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTAAAAATATTAAAAAAATATTTTAAAA
Found at i:49521389 original size:50 final size:53
Alignment explanation
Indices: 49521304--49521405 Score: 183
Period size: 50 Copynumber: 2.0 Consensus size: 53
49521294 TGCCCATTTT
49521304 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
49521357 TATTTT-AAAA-TTTAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
49521406 TTTAAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 28 0.57
51 11 0.22
52 4 0.08
53 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (53 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:49521425 original size:40 final size:39
Alignment explanation
Indices: 49521341--49521500 Score: 241
Period size: 39 Copynumber: 4.1 Consensus size: 39
49521331 AAAGTATTTT
49521341 AAAAA-TATTTTAAAAATATTTTAAAATTTAAAAAATTA
1 AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTA
49521379 AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATT-A
*
49521419 AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAAATTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTT--AAAAAATTA
* * * *
49521460 AAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAATA
1 AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTA
49521499 AA
1 AA
49521501 TATATTTATT
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
38 5 0.04
39 41 0.37
40 31 0.28
41 27 0.24
42 8 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (39 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTA
Found at i:49524615 original size:16 final size:16
Alignment explanation
Indices: 49524590--49524620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49524580 ATTAGGAAAC
*
49524590 TAATTTAAAATTTTTA
1 TAATTAAAAATTTTTA
49524606 TAATTAAAAATTTTT
1 TAATTAAAAATTTTT
49524621 TATTTGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTAAAAATTTTTA
Found at i:49527086 original size:27 final size:27
Alignment explanation
Indices: 49527056--49527110 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
49527046 TATTATAAAA
49527056 TTAAATAAAATTTAA-TATGTTACTAAT
1 TTAAATAAAATTTAAGTATGTTA-TAAT
* * *
49527083 TTAAGTACAATTTAAGTATTTTATAAT
1 TTAAATAAAATTTAAGTATGTTATAAT
49527110 T
1 T
49527111 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (27 bp):
TTAAATAAAATTTAAGTATGTTATAAT
Found at i:49548925 original size:6 final size:6
Alignment explanation
Indices: 49548914--49548960 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
49548904 TTTTCATATA
49548914 AAAAAT AAAAAT AAAAAT AAAAAT AAGAAA- AACAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AA-AAAT AAAAAT AAAA
49548961 TCTAACCTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:49549421 original size:26 final size:26
Alignment explanation
Indices: 49549392--49549441 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49549382 GGCTAGTTTG
49549392 TTTGACCAACTAATTCTATTAACTAA
1 TTTGACCAACTAATTCTATTAACTAA
*
49549418 TTTGACCAACTAATTTTATTAACT
1 TTTGACCAACTAATTCTATTAACT
49549442 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTGACCAACTAATTCTATTAACTAA
Found at i:49550436 original size:32 final size:32
Alignment explanation
Indices: 49550400--49550465 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
49550390 CAAATTTGGT
49550400 AATTAAAAAATTATGCAAACTTTACAGAAAAC
1 AATTAAAAAATTATGCAAACTTTACAGAAAAC
* *
49550432 AATTAAAATATTATGCAAACTTTACATAAAAC
1 AATTAAAAAATTATGCAAACTTTACAGAAAAC
49550464 AA
1 AA
49550466 ATTTTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (32 bp):
AATTAAAAAATTATGCAAACTTTACAGAAAAC
Found at i:49552918 original size:35 final size:35
Alignment explanation
Indices: 49552879--49552953 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
49552869 CCTTATTTTA
*
49552879 CTAGATTAGAGTATCAACATTACATAAAGTATATG
1 CTAGATTAGAATATCAACATTACATAAAGTATATG
49552914 CTAGATTAGAATATCAACATTACATAAAGTATATG
1 CTAGATTAGAATATCAACATTACATAAAGTATATG
*
49552949 TTAGA
1 CTAGA
49552954 AAAAAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (35 bp):
CTAGATTAGAATATCAACATTACATAAAGTATATG
Found at i:49553617 original size:19 final size:19
Alignment explanation
Indices: 49553569--49553618 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
49553559 TTTTGCAAAA
49553569 AAAATGCCAAAATAAATTTT
1 AAAATGCC-AAATAAATTTT
* *
49553589 AACATCCCAAATAAA-TTT
1 AAAATGCCAAATAAATTTT
49553607 AAAATGTCCAAA
1 AAAATG-CCAAA
49553619 AGTCATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATGCCAAATAAATTTT
Found at i:49555710 original size:30 final size:30
Alignment explanation
Indices: 49555674--49555736 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49555664 ATATTTTTTA
49555674 AAACCACCCATATCCCCACTAACTCCCACT
1 AAACCACCCATATCCCCACTAACTCCCACT
* * *
49555704 AAACCACCTATATCCCTACTAATTCCCACT
1 AAACCACCCATATCCCCACTAACTCCCACT
49555734 AAA
1 AAA
49555737 TATGATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (30 bp):
AAACCACCCATATCCCCACTAACTCCCACT
Found at i:49558050 original size:16 final size:16
Alignment explanation
Indices: 49558029--49558060 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49558019 GTTTTGTTGC
*
49558029 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
49558045 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
49558061 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:49558118 original size:38 final size:37
Alignment explanation
Indices: 49558049--49558121 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
49558039 TTTTCATAAT
* *
49558049 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
49558086 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
49558122 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:49558277 original size:23 final size:23
Alignment explanation
Indices: 49558251--49558303 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
49558241 ATAAGTGCCA
*
49558251 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATATAGCCGAAGCTAC
*
49558274 CACTAATATATAGCCGAAGCTAC
1 CACTGATATATAGCCGAAGCTAC
49558297 CACTGAT
1 CACTGAT
49558304 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (23 bp):
CACTGATATATAGCCGAAGCTAC
Found at i:49558783 original size:30 final size:30
Alignment explanation
Indices: 49558749--49558807 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
49558739 TCCTTGACTC
49558749 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
49558779 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
49558808 AAAGCTCGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:49564176 original size:16 final size:16
Alignment explanation
Indices: 49564155--49564189 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49564145 CCACAACCTT
*
49564155 ACAATCTTACATTAGA
1 ACAATCTTACATCAGA
49564171 ACAATCTTACATCAGA
1 ACAATCTTACATCAGA
49564187 ACA
1 ACA
49564190 CACCCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
ACAATCTTACATCAGA
Found at i:49568450 original size:12 final size:12
Alignment explanation
Indices: 49568430--49568464 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49568420 GCCCAAAATG
49568430 GCCTAACACACA
1 GCCTAACACACA
*
49568442 GCCTTACACACA
1 GCCTAACACACA
*
49568454 GCCTATCACAC
1 GCCTAACACAC
49568465 GACTGTGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.43, G:0.09, T:0.14
Consensus pattern (12 bp):
GCCTAACACACA
Done.