Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 157 of 189
Found at i:47181706 original size:75 final size:74
Alignment explanation
Indices: 47181566--47181768 Score: 240
Period size: 75 Copynumber: 2.8 Consensus size: 74
47181556 GAATATAAAG
* * *
47181566 GGGGTTGCTAAGTGCTGATT-CC--CTCA-AGG-GGTTGCTAAGTGCTGATTCCACCGTATTTTA
1 GGGGTTGCTAAGTGCTGATTCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
47181626 AATGTG-AA
66 AATGTGAAA
* * *
47181634 GGGTGTTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGTTGATCCCACTGTGTCT
1 GGG-GTTGCTAAGTGCTGATTCCC-GACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
47181699 TAAATGTGAAA
64 TAAATGTGAAA
* * *
47181710 GGGGTTGCTAAGTGTTGATACCCCGAATCATTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 GGGGTTGCTAAGTGCTGAT-TCCCGACTCATTGGTGGTTGCTAAGTGCTG-ATCCCACCG
47181769 ATAACGGACA
Statistics
Matches: 114, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
68 3 0.03
69 17 0.15
70 2 0.02
73 4 0.04
74 2 0.02
75 76 0.67
76 10 0.09
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (74 bp):
GGGGTTGCTAAGTGCTGATTCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
AATGTGAAA
Found at i:47185895 original size:21 final size:23
Alignment explanation
Indices: 47185848--47185903 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
47185838 GATCGGATGA
*
47185848 AATAAAAAGAATAATAACAGTAGT
1 AATAAAAAGAATAATAACA-TAAT
*
47185872 AATGAAAAGAAT-ATAAC-TAAT
1 AATAAAAAGAATAATAACATAAT
47185893 AATAAAAAGAA
1 AATAAAAAGAA
47185904 AAGATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
23 5 0.17
24 11 0.38
ACGTcount: A:0.66, C:0.04, G:0.11, T:0.20
Consensus pattern (23 bp):
AATAAAAAGAATAATAACATAAT
Found at i:47185904 original size:26 final size:27
Alignment explanation
Indices: 47185875--47185925 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
47185865 CAGTAGTAAT
*
47185875 GAAAAGA-ATATAACTAAT-AATAAAAA
1 GAAAAGATA-ATAACCAATAAATAAAAA
47185901 GAAAAGATAATAACCAATAAATAAA
1 GAAAAGATAATAACCAATAAATAAA
47185926 TAAAGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.18
Consensus pattern (27 bp):
GAAAAGATAATAACCAATAAATAAAAA
Found at i:47193403 original size:17 final size:18
Alignment explanation
Indices: 47193364--47193404 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47193354 CTAAATCTAC
*
47193364 AATTCTGTTGTAAACAGG
1 AATTCTGTTATAAACAGG
*
47193382 AATTCTGTTATGAACA-G
1 AATTCTGTTATAAACAGG
47193399 AATTCT
1 AATTCT
47193405 TATCTCAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
AATTCTGTTATAAACAGG
Found at i:47194390 original size:21 final size:22
Alignment explanation
Indices: 47194344--47194390 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
47194334 GAACTATTTC
* *
47194344 ATCAGTATCATCACCAGTGATT
1 ATCAGTATCATCAACAGTGATA
47194366 ATCA-TATCATCAACA-TAGATA
1 ATCAGTATCATCAACAGT-GATA
47194387 ATCA
1 ATCA
47194391 AGCATGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCAGTATCATCAACAGTGATA
Found at i:47195300 original size:62 final size:63
Alignment explanation
Indices: 47195176--47195302 Score: 229
Period size: 62 Copynumber: 2.0 Consensus size: 63
47195166 TACATGAATA
47195176 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGGGTACTTACCTCTTGAATATCCAGTGGGGTC
1 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGGGTACTTACCTCTTGAATATCCAGTGGGGTC
* *
47195239 ACTTCATCAGTGGGAGTATCAATAGAGTC-GGGGTACTTACCTCTTGGATATCCAGTGGGGTC
1 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGGGTACTTACCTCTTGAATATCCAGTGGGGTC
47195301 AC
1 AC
47195303 CTCAGCAGGC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 34 0.55
63 28 0.45
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (63 bp):
ACTTCATCAGTGGGAGTATCAACAGAGTCGGGGGTACTTACCTCTTGAATATCCAGTGGGGTC
Found at i:47198281 original size:17 final size:18
Alignment explanation
Indices: 47198242--47198282 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47198232 CTAAATCTAC
*
47198242 AATTCTGTTGTAAACAGG
1 AATTCTGTTATAAACAGG
*
47198260 AATTCTGTTATGAACA-G
1 AATTCTGTTATAAACAGG
47198277 AATTCT
1 AATTCT
47198283 TACCTCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
AATTCTGTTATAAACAGG
Found at i:47200069 original size:21 final size:20
Alignment explanation
Indices: 47200028--47200097 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
47200018 AGGCTCGTCC
47200028 ATATTATTTTTTAAAATATAT
1 ATATTA-TTTTTAAAATATAT
**
47200049 ATATTATTTTTAATTTA-AT
1 ATATTATTTTTAAAATATAT
* *
47200068 ATTTTTATTTATTAAAATTTTAT
1 A-TATTATTT-TTAAAA-TATAT
47200091 ATATTAT
1 ATATTAT
47200098 CATCTTAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 3 0.08
20 16 0.42
21 10 0.26
22 6 0.16
23 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATTTTTAAAATATAT
Found at i:47201620 original size:20 final size:21
Alignment explanation
Indices: 47201591--47201640 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47201581 AATAATCAAG
* *
47201591 GTATCGATAT-TTTAAGGCAT
1 GTATCAATATCTTTAAAGCAT
47201611 GTATCAATATCTTTAAAGCAT
1 GTATCAATATCTTTAAAGCAT
47201632 GTATCAATA
1 GTATCAATA
47201641 CCTAATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (21 bp):
GTATCAATATCTTTAAAGCAT
Found at i:47208233 original size:19 final size:19
Alignment explanation
Indices: 47208209--47208246 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47208199 ATTGATAGAT
47208209 TTTAAGCTTAAGAGTGAAA
1 TTTAAGCTTAAGAGTGAAA
47208228 TTTAAGCTTAAGAGTGAAA
1 TTTAAGCTTAAGAGTGAAA
47208247 AAGGACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (19 bp):
TTTAAGCTTAAGAGTGAAA
Found at i:47210644 original size:14 final size:15
Alignment explanation
Indices: 47210620--47210648 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47210610 CCAATTTAAG
47210620 TTTTTATGAATTTTT
1 TTTTTATGAATTTTT
47210635 TTTTTA-GAATTTTT
1 TTTTTATGAATTTTT
47210649 ATAAGCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTATGAATTTTT
Found at i:47210676 original size:9 final size:9
Alignment explanation
Indices: 47210662--47210872 Score: 73
Period size: 9 Copynumber: 22.7 Consensus size: 9
47210652 AGCTTATATC
47210662 AATTTTAAT
1 AATTTTAAT
47210671 AATTTTAAT
1 AATTTTAAT
47210680 AATTTTTAATT
1 AA-TTTTAA-T
*
47210691 ATTTTTAATT
1 AATTTTAA-T
* *
47210701 ATTTTTTAAG
1 A-ATTTTAAT
47210711 AATTTTAAT
1 AATTTTAAT
*
47210720 -ATGTTT-TT
1 AAT-TTTAAT
* *
47210728 ACTTTAAAT
1 AATTTTAAT
47210737 -ATTTTAAAT
1 AATTTT-AAT
*
47210746 AAGTTTTATT
1 AA-TTTTAAT
47210756 AATTTT-AT
1 AATTTTAAT
*
47210764 AATTTT-TT
1 AATTTTAAT
* *
47210772 ACAATTTATT
1 A-ATTTTAAT
*
47210782 AGA-TTTATT
1 A-ATTTTAAT
47210791 ATATTGTTAAT
1 A-ATT-TTAAT
47210802 AATATTT-AT
1 AAT-TTTAAT
*
47210811 AAGTTTTCAT
1 AA-TTTTAAT
47210821 AATTTCT-AT
1 AATTT-TAAT
*
47210830 AAGTTTATAT
1 AATTTTA-AT
47210840 CAATTTTAAT
1 -AATTTTAAT
*
47210850 -ATTTT-TT
1 AATTTTAAT
47210857 AATTTTCAAT
1 AATTTT-AAT
47210867 AATTTT
1 AATTTT
47210873 TTTAATTTTT
Statistics
Matches: 158, Mismatches: 21, Indels: 45
0.71 0.09 0.20
Matches are distributed among these distances:
7 1 0.01
8 28 0.18
9 57 0.36
10 47 0.30
11 25 0.16
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (9 bp):
AATTTTAAT
Found at i:47210688 original size:10 final size:10
Alignment explanation
Indices: 47210664--47210892 Score: 68
Period size: 10 Copynumber: 24.3 Consensus size: 10
47210654 CTTATATCAA
47210664 TTTTAATAA-
1 TTTTAATAAT
47210673 TTTTAATAAT
1 TTTTAATAAT
*
47210683 TTTTAATTAT
1 TTTTAATAAT
*
47210693 TTTTAATTATT
1 TTTTAA-TAAT
*
47210704 TTTTAAGAA-
1 TTTTAATAAT
47210713 TTTTAAT-AT
1 TTTTAATAAT
*
47210722 GTTTT--T-AC
1 -TTTTAATAAT
*
47210730 TTTAAAT-AT
1 TTTTAATAAT
* *
47210739 TTTAAATAAG
1 TTTTAATAAT
*
47210749 TTTTATTAA-
1 TTTTAATAAT
47210758 TTTT-ATAAT
1 TTTTAATAAT
* *
47210767 TTTTTACAAT
1 TTTTAATAAT
47210777 TTATTAGAT--T
1 TT-TTA-ATAAT
*
47210787 TATT-AT-AT
1 TTTTAATAAT
*
47210795 TGTTAATAAT
1 TTTTAATAAT
* *
47210805 ATTT-ATAAG
1 TTTTAATAAT
*
47210814 TTTTCATAAT
1 TTTTAATAAT
*
47210824 TTCT-ATAA-
1 TTTTAATAAT
*
47210832 GTTTATATCAA-
1 TTTTA-AT-AAT
47210843 TTTTAAT-AT
1 TTTTAATAAT
47210852 TTTT--TAAT
1 TTTTAATAAT
*
47210860 TTTCAATAAT
1 TTTTAATAAT
*
47210870 TTTT-TTAATT
1 TTTTAATAA-T
*
47210880 TTTTAATCAT
1 TTTTAATAAT
47210890 TTT
1 TTT
47210893 ATAGGAAAAA
Statistics
Matches: 164, Mismatches: 32, Indels: 47
0.67 0.13 0.19
Matches are distributed among these distances:
7 6 0.04
8 18 0.11
9 54 0.33
10 67 0.41
11 18 0.11
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:47210717 original size:20 final size:19
Alignment explanation
Indices: 47210664--47210728 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
47210654 CTTATATCAA
*
47210664 TTTTAATAATTTTAATAAT
1 TTTTAATAATTTTAATATT
*
47210683 TTTTAATTATTTTTAATTATT
1 TTTTAA-TAATTTTAA-TATT
*
47210704 TTTTAAGAATTTTAATATGT
1 TTTTAATAATTTTAATAT-T
47210724 TTTTA
1 TTTTA
47210729 CTTTAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 9 0.23
20 21 0.54
21 9 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTTTAATATT
Found at i:47210868 original size:65 final size:62
Alignment explanation
Indices: 47210662--47210872 Score: 167
Period size: 65 Copynumber: 3.2 Consensus size: 62
47210652 AGCTTATATC
* * * * * *
47210662 AATTTTAATAATTTTAATAATTTTTAATTATTTTTAATTATTTTTTAAGAATTTTAATATGTTTT
1 AATTTTAATAATTTTAATAAGTTTT-ATTAATTTT-ATAAGTTTAT-ACAATTTTAATAT-TTTT
47210727 T
62 T
* * * * * * *
47210728 ACTTTAAAT-ATTTTAAATAAGTTTTATTAATTTTATAATTTTTTACAATTTATTAGATTTATT
1 AATTTTAATAATTTT-AATAAGTTTTATTAATTTTATAAGTTTATACAATTT-TAATATTTTTT
47210791 ATATTGTTAATAATATTT-ATAAGTTTTCA-TAATTTCTATAAGTTTATATCAATTTTAATATTT
1 A-ATT-TTAATAAT-TTTAATAAGTTTT-ATTAATTT-TATAAGTTTATA-CAATTTTAATATTT
47210854 TTT
60 TTT
47210857 AATTTTCAATAATTTT
1 AATTTT-AATAATTTT
47210873 TTTAATTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
63 11 0.09
64 20 0.17
65 41 0.34
66 38 0.32
67 9 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (62 bp):
AATTTTAATAATTTTAATAAGTTTTATTAATTTTATAAGTTTATACAATTTTAATATTTTTT
Found at i:47214956 original size:25 final size:25
Alignment explanation
Indices: 47214923--47214973 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
47214913 TAAATTATAG
47214923 TTTCATCC-TCAAAGTCTTTTTATTTT
1 TTTCATCCTTCAAAG--TTTTTATTTT
47214949 TTTC-TCCTTCAAAGTTTTTATTTT
1 TTTCATCCTTCAAAGTTTTTATTTT
47214973 T
1 T
47214974 ATTTTGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 3 0.12
26 10 0.42
ACGTcount: A:0.18, C:0.18, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTCATCCTTCAAAGTTTTTATTTT
Found at i:47216023 original size:11 final size:10
Alignment explanation
Indices: 47215995--47216049 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
47215985 AATTAAAATG
47215995 TTAAAATAAA
1 TTAAAATAAA
*
47216005 TTTAAATAAA
1 TTAAAATAAA
47216015 TTAACAAT--A
1 TTAA-AATAAA
* *
47216024 TTGAAATAAG
1 TTAAAATAAA
*
47216034 TTGAAATAAA
1 TTAAAATAAA
47216044 TTAAAA
1 TTAAAA
47216050 ATGTGAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:47216059 original size:29 final size:29
Alignment explanation
Indices: 47215985--47216060 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
47215975 ATAATATATG
* *
47215985 AATT-AAAATGTTAAAATAAATTTAAATA
1 AATTAAAAATGTGAAAATAAATTGAAATA
*
47216013 AATTAACAATAT-TG-AAATAAGTTGAAATA
1 AATTAA-AA-ATGTGAAAATAAATTGAAATA
47216042 AATTAAAAATGTGAAAATA
1 AATTAAAAATGTGAAAATA
47216061 TTTGAAAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 2 0.05
28 8 0.20
29 25 0.62
30 3 0.08
31 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (29 bp):
AATTAAAAATGTGAAAATAAATTGAAATA
Found at i:47221604 original size:31 final size:31
Alignment explanation
Indices: 47221569--47221632 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47221559 AGATTCACTC
47221569 AAATCACTCAAAGTGTTTGAGGTTCAAGAAT
1 AAATCACTCAAAGTGTTTGAGGTTCAAGAAT
47221600 AAATCACTCAAAGTGTTTGAGGTTCAAGAAT
1 AAATCACTCAAAGTGTTTGAGGTTCAAGAAT
47221631 AA
1 AA
47221633 GCACTCACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (31 bp):
AAATCACTCAAAGTGTTTGAGGTTCAAGAAT
Found at i:47224671 original size:6 final size:6
Alignment explanation
Indices: 47224663--47224748 Score: 75
Period size: 6 Copynumber: 13.5 Consensus size: 6
47224653 GAAAGAAAAT
* * * *
47224663 AATAAT AATAAT AATAATA AATAGAA AATAGAA AATAACA AACAAA AATAAT
1 AATAAA AATAAA AATAA-A AATA-AA AATA-AA AATAA-A AATAAA AATAAA
47224715 AAT-AA AATAAA AATAAA AATAAA GAACTAAA AAT
1 AATAAA AATAAA AATAAA AATAAA -AA-TAAA AAT
47224749 GGGGAAATAG
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 4 0.06
6 35 0.51
7 25 0.36
8 5 0.07
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:47224745 original size:20 final size:19
Alignment explanation
Indices: 47224669--47224748 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
47224659 AAATAATAAT
*
47224669 AATAATAATAATAAA-TAGAA
1 AATAAAAATAA-AAACTA-AA
47224689 AATAGAAAATAACAAAC-AAA
1 AATA-AAAATAA-AAACTAAA
*
47224709 AATAATAAT-AAAA-TAAA
1 AATAAAAATAAAAACTAAA
47224726 AATAAAAATAAAGAACTAAA
1 AATAAAAATAAA-AACTAAA
47224746 AAT
1 AAT
47224749 GGGGAAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
17 14 0.28
18 3 0.06
19 6 0.12
20 17 0.34
21 10 0.20
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (19 bp):
AATAAAAATAAAAACTAAA
Found at i:47225015 original size:19 final size:20
Alignment explanation
Indices: 47224980--47225020 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47224970 GAAAGGGATC
*
47224980 GAAGTTGGTGAGGGAGGCGT
1 GAAGTTGGAGAGGGAGGCGT
*
47225000 GAAGTTGGAG-GGGAGGTGT
1 GAAGTTGGAGAGGGAGGCGT
47225019 GA
1 GA
47225021 CGATGGGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.22, C:0.02, G:0.56, T:0.20
Consensus pattern (20 bp):
GAAGTTGGAGAGGGAGGCGT
Found at i:47227986 original size:31 final size:31
Alignment explanation
Indices: 47227939--47228034 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
47227929 ACGAATCAGT
*
47227939 ATTAAAATT--TCAAAATTTAAAAAGTATAGGG
1 ATTAAAATTGATC-AAATTT-AAAAGTATAGAG
*
47227970 ATTAAAATTGA-CAAATTTGAAAAG-ATAGAA
1 ATTAAAATTGATCAAATTT-AAAAGTATAGAG
*
47228000 ACTAAAATTGATCAAA-TTAAAA-TATAGAG
1 ATTAAAATTGATCAAATTTAAAAGTATAGAG
47228029 ATTAAA
1 ATTAAA
47228035 TCCATAACTC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
29 14 0.25
30 16 0.29
31 24 0.44
32 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.29
Consensus pattern (31 bp):
ATTAAAATTGATCAAATTTAAAAGTATAGAG
Found at i:47229544 original size:18 final size:18
Alignment explanation
Indices: 47229522--47229562 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
47229512 AGTAAAATAT
*
47229522 TTTTTGGAAAATGATTTAC
1 TTTTCGGAAAATG-TTTAC
*
47229541 TTTTCTGAAAATGTTTAC
1 TTTTCGGAAAATGTTTAC
47229559 TTTT
1 TTTT
47229563 TTGGTGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (18 bp):
TTTTCGGAAAATGTTTAC
Found at i:47235856 original size:31 final size:31
Alignment explanation
Indices: 47235798--47235855 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
47235788 CGAAAAGAAA
*
47235798 ATTTATATTTTCCATCATTTTACTTTTTACC
1 ATTTATATTTTCCATCATTTCACTTTTTACC
* *
47235829 ATTTAT-TTTTCCATTATTTCATTTTTT
1 ATTTATATTTTCCATCATTTCACTTTTT
47235856 TCACTCTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTATATTTTCCATCATTTCACTTTTTACC
Found at i:47240143 original size:19 final size:20
Alignment explanation
Indices: 47240095--47240147 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
47240085 AATGATTTTA
47240095 TTATTAGGGTTTTAGGTGTG
1 TTATTAGGGTTTTAGGTGTG
* *
47240115 TTAATTAGGGTTTTTGGTTTG
1 TT-ATTAGGGTTTTAGGTGTG
47240136 TT-TTAGGGTTTT
1 TTATTAGGGTTTT
47240148 GGATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 10 0.33
20 2 0.07
21 18 0.60
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (20 bp):
TTATTAGGGTTTTAGGTGTG
Found at i:47241625 original size:16 final size:16
Alignment explanation
Indices: 47241604--47241638 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
47241594 ACTACATAAG
47241604 CATGAACATAACTTAC
1 CATGAACATAACTTAC
47241620 CATGAACATAACTTAC
1 CATGAACATAACTTAC
47241636 CAT
1 CAT
47241639 TTCAACGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
CATGAACATAACTTAC
Found at i:47266954 original size:17 final size:18
Alignment explanation
Indices: 47266904--47267014 Score: 67
Period size: 17 Copynumber: 6.2 Consensus size: 18
47266894 AAATTAACTA
47266904 ATTTAATATATTA-TTTCT
1 ATTT-ATATATTATTTTCT
47266922 A-TTAT-TATTATGTTTCT
1 ATTTATATATTAT-TTTCT
47266939 ATTTATAT-TTATTTTCTT
1 ATTTATATATTATTTTC-T
* *
47266957 ATTCTA-ATACTATTAT-T
1 ATT-TATATATTATTTTCT
*
47266974 ATTTATCTATTTATATTTCT
1 ATTTATATA-TTAT-TTTCT
*
47266994 A-CTAT-TATTATATTTCT
1 ATTTATATATTAT-TTTCT
47267011 ATTT
1 ATTT
47267015 CTATTTTTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.07
16 4 0.05
17 29 0.39
18 21 0.28
19 13 0.18
20 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTATATATTATTTTCT
Found at i:47266987 original size:29 final size:28
Alignment explanation
Indices: 47266963--47267039 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 28
47266953 TCTTATTCTA
47266963 ATACTATTATTATTTATCTA-TTTATATTT
1 ATACTATTATTATTT-TCTATTTTAT-TTT
*
47266992 CTACTATTATTATATTTCTATTTCTATTTTT
1 ATACTATTATTAT-TTTCTATTT-TA-TTTT
*
47267023 ATACTAATATTATTTTC
1 ATACTATTATTATTTTC
47267040 GTTATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 16 0.39
30 8 0.20
31 16 0.39
32 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (28 bp):
ATACTATTATTATTTTCTATTTTATTTT
Found at i:47267013 original size:43 final size:43
Alignment explanation
Indices: 47266924--47267005 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
47266914 TTATTTCTAT
** * *
47266924 TATTATTATGTTTCTATTTATATTTATTTTCTTATTCTAATAC
1 TATTATTATGTTTCTATTTATATTTATACTATTATTATAATAC
*
47266967 TATTATTAT-TTATCTATTTATATTTCTACTATTATTATA
1 TATTATTATGTT-TCTATTTATATTTATACTATTATTATA
47267006 TTTCTATTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 31 0.94
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (43 bp):
TATTATTATGTTTCTATTTATATTTATACTATTATTATAATAC
Found at i:47267210 original size:27 final size:25
Alignment explanation
Indices: 47267147--47267245 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
47267137 TATAACGCTC
* *
47267147 ATTTTAAA-TTTTTATACATTATTT
1 ATTTTAAATTTTTTATATATTATAT
* * *
47267171 ACTTT-AATATTTTCATATATTATGT
1 ATTTTAAAT-TTTTTATATATTATAT
*
47267196 ATTTTAAACTTTTTTTGTATATTATAT
1 ATTTTAAA--TTTTTTATATATTATAT
* *
47267223 ATTTTGAATTGTTTATATATTAT
1 ATTTTAAATTTTTTATATATTAT
47267246 TTTTAAAGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.03
24 4 0.07
25 30 0.51
26 2 0.03
27 20 0.34
28 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
ATTTTAAATTTTTTATATATTATAT
Found at i:47274087 original size:13 final size:13
Alignment explanation
Indices: 47274071--47274105 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
47274061 GTGACACGAT
47274071 CGTGTGATATGAC
1 CGTGTGATATGAC
47274084 CGTGTGATATGAC
1 CGTGTGATATGAC
47274097 CGTGTGATA
1 CGTGTGATA
47274106 GTAGAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (13 bp):
CGTGTGATATGAC
Found at i:47274694 original size:5 final size:5
Alignment explanation
Indices: 47274634--47274706 Score: 51
Period size: 5 Copynumber: 13.6 Consensus size: 5
47274624 TTTTGAAGAC
**
47274634 TTTTA -TTTA TTATT- TTTTA CTTTTA TCTTTA TTTATA TTTTTA AATTA
1 TTTTA TTTTA TT-TTA TTTTA -TTTTA T-TTTA TTT-TA -TTTTA TTTTA
47274682 CTTTTTA TTTTA TTTTA TTTTA TTT
1 --TTTTA TTTTA TTTTA TTTTA TTT
47274707 CTCTTTAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
4 6 0.11
5 27 0.49
6 16 0.29
7 6 0.11
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:47280948 original size:13 final size:13
Alignment explanation
Indices: 47280932--47280956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47280922 AAAAAAACAC
47280932 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
47280945 AAAAAGAAAAAG
1 AAAAAGAAAAAG
47280957 GAGAGGCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:47282146 original size:46 final size:45
Alignment explanation
Indices: 47282078--47282207 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 45
47282068 GAAATTACAG
47282078 ATCCTATACTCCTGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
1 ATCCTATAC-CCTGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
* * *
47282124 ATCCTATACCCTTGAGATGCAGTGGGATGGATTGAAGAAAATGCAG
1 ATCCTATACCC-TGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
47282170 ATCCTATACCCCTGAGACGCAGTGGGATGGATTGAAGA
1 ATCCTATA-CCCTGAGACGCAGTGGGATGGATTGAAGA
47282208 GGATTACAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.03
46 73 0.94
47 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (45 bp):
ATCCTATACCCTGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
Found at i:47282546 original size:132 final size:130
Alignment explanation
Indices: 47282209--47282664 Score: 556
Period size: 132 Copynumber: 3.5 Consensus size: 130
47282199 GATTGAAGAG
* * * * ** *
47282209 GATTACAGATCGTATCTCCCTAAGCAGTACTAGAGTAGATCGAAGACGGCGAATCTTATCTTCCA
1 GATTGCAGATCTTATCTCCCTAAGAAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTCCG
* * * *
47282274 AGGTAGTAGGGAAGCTGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGTAGTGGAGCAAGCTAA
66 AGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTC-CTGAGCAGCAGTGGAGCAGGCTGA
47282339 A
130 A
* * * **
47282340 G-TTACAGATCTTATCTCTCTAAGAAGTAGTAGAGCAGATCGAAGACGATGAATCTTATCTTCCT
1 GATTGCAGATCTTATCTCCCTAAGAAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTCC-
*
47282404 GAGGTAGTAGGGAAGCAGATTTAAGCTACTAGCCTTATCTGCCTGAGCAGCAGTGGAGCAGGCTG
65 GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCT-CCTGAGCAGCAGTGGAGCAGGCTG
47282469 AA
129 AA
* * * * *
47282471 GATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAACAGATCGAGGACGGCGAATCTTATCTTTTC
1 GATTGCAGATCTTATCTCCCTAAGAAGTAGTAGAACAGATCGAAGACGGCGAATCTTATC-TTCC
* * * *
47282536 GAGGTAGTAGGGAAGCAGATTTAAGCCACTGGCTTTATCTCCCTGAGTAGCAGTGGAGAAGGCTG
65 GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCT-CCTGAGCAGCAGTGGAGCAGGCTG
47282601 AA
129 AA
* * * * *
47282603 GATTGTAGATCTTATCTTCCTAAAAAAGTAGT-GAAGTAGATCAAAGACGGCGAATCTTATCT
1 GATTGCAGATCTTATCTCCCT-AAGAAGTAGTAGAA-CAGATCGAAGACGGCGAATCTTATCT
47282665 CCATGAAGCA
Statistics
Matches: 282, Mismatches: 37, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
130 55 0.20
131 61 0.22
132 133 0.47
133 33 0.12
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (130 bp):
GATTGCAGATCTTATCTCCCTAAGAAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTCCG
AGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCTGAGCAGCAGTGGAGCAGGCTGAA
Found at i:47282707 original size:88 final size:89
Alignment explanation
Indices: 47282613--47282798 Score: 230
Period size: 88 Copynumber: 2.1 Consensus size: 89
47282603 GATTGTAGAT
* * *
47282613 CTTATCTTCCTAAAAAAGTAGTGAAGTAGATCAAAGACGGCGAATCTTATCTCCATGAAGCAGCA
1 CTTATCTCCCTAAAAAAGCAGTGAAGTAGATCAAAGACGGCGAATCTTATCTCCATGAAGCAGAA
*
47282678 ATGAAACAGATTTAGGCCACCAGC
66 ATGAAACAGATTTAAGCCACCAGC
** ** * * * * * *
47282702 C-TATCTCCCTAAAGTAGCAGTGGGGTAGATCGAAGACGGTGAATCTTATTTTCATGTAGCGGAA
1 CTTATCTCCCTAAAAAAGCAGTGAAGTAGATCAAAGACGGCGAATCTTATCTCCATGAAGCAGAA
*
47282766 ATGAAGCAGATTTAAGCCACCAGC
66 ATGAAACAGATTTAAGCCACCAGC
47282790 CTTATCTCC
1 CTTATCTCC
47282799 TTGAGGTAGC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 73 0.90
89 8 0.10
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (89 bp):
CTTATCTCCCTAAAAAAGCAGTGAAGTAGATCAAAGACGGCGAATCTTATCTCCATGAAGCAGAA
ATGAAACAGATTTAAGCCACCAGC
Found at i:47282718 original size:133 final size:132
Alignment explanation
Indices: 47282209--47282724 Score: 323
Period size: 132 Copynumber: 3.9 Consensus size: 132
47282199 GATTGAAGAG
* * ** * * ** *
47282209 GATTACAGATCGTATCTCCCTAAGCAGTACTAGAGTAGATCGAAGACGGCGAATCTTATCT--TC
1 GATTGCAGATCTTATCTCCCTAAAAAGTAGTGGAACAGATCAAAGACGGCGAATCTTATCTCATC
* * * * * * * * * * *
47282272 CAAGGTAGTAGGGAAGCTGATTTAAGCCACTAGC-CTTATCTCTCTGAGCAGTAGTGGAGCAA-G
66 GAA-GCAGCAAGGAAACAGATTTAAGCCACCAGCTC-TATCTCCCTAAGTAGCAGTGGAG-AAGG
*
47282335 CTAAA
128 CTGAA
* * * * * * ** *
47282340 G-TTACAGATCTTATCTCTCTAAGAAGTAGTAGAGCAGATCGAAGACGATGAATCTTATCTTCCT
1 GATTGCAGATCTTATCTCCCTAAAAAGTAGTGGAACAGATCAAAGACGGCGAATCTTATC-TCAT
* * * * * * * * * * *
47282404 -GAGGTAGTAGGGAAGCAGATTTAAGCTACTAGC-CTTATCTGCCTGAGCAGCAGTGGAGCAGGC
65 CGAAGCAGCAAGGAAACAGATTTAAGCCACCAGCTC-TATCTCCCTAAGTAGCAGTGGAGAAGGC
47282467 TGAA
129 TGAA
* ** * * **
47282471 GATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAACAGATCGAGGACGGCGAATCTTATCTTTTC
1 GATTGCAGATCTTATCTCCCTAAAAAGTAGTGGAACAGATCAAAGACGGCGAATCTTATCTCATC
* * * * * ** * *
47282536 GAGGTAGTAGGGAAGCAGATTTAAGCCACTGGCTTTATCTCCCTGAGTAGCAGTGGAGAAGGCTG
66 GAAGCAGCAAGGAAACAGATTTAAGCCACCAGCTCTATCTCCCTAAGTAGCAGTGGAGAAGGCTG
47282601 AA
131 AA
* * *
47282603 GATTGTAGATCTTATCTTCCTAAAAAAGTAGT-GAAGTAGATCAAAGACGGCGAATCTTATCTCC
1 GATTGCAGATCTTATCTCCCT-AAAAAGTAGTGGAA-CAGATCAAAGACGGCGAATCTTATCT-C
* *
47282667 AT-GAAGCAGCAATGAAACAGATTTAGGCCACCAGC-CTATCTCCCTAAAGTAGCAGTGG
63 ATCGAAGCAGCAAGGAAACAGATTTAAGCCACCAGCTCTATCTCCCT-AAGTAGCAGTGG
47282725 GGTAGATCGA
Statistics
Matches: 320, Mismatches: 54, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
130 52 0.16
131 60 0.19
132 140 0.44
133 67 0.21
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GATTGCAGATCTTATCTCCCTAAAAAGTAGTGGAACAGATCAAAGACGGCGAATCTTATCTCATC
GAAGCAGCAAGGAAACAGATTTAAGCCACCAGCTCTATCTCCCTAAGTAGCAGTGGAGAAGGCTG
AA
Found at i:47282971 original size:134 final size:134
Alignment explanation
Indices: 47282813--47283170 Score: 443
Period size: 134 Copynumber: 2.7 Consensus size: 134
47282803 GGTAGCAAAG
* * *
47282813 GAGCAGGTTGAAGATAGTAGGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGATAGCAG
1 GAGCAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
* *
47282878 ATCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAACAAACCTCATC-TCTCTAAAGTT
66 GTCTTATCTCCCTGAAGTTGCAGTG-AGCAGAATGAAGATAACAAACCTCATCTTC-CTAAAGTT
47282942 GCAGTA
129 GCAGTA
* *
47282948 GAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAG
1 GAGCAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
* * * * *
47283012 GTCTTATCTCCATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAATCTTATCTTCCTGAAGTTG
66 GTCTTATCTCCCTGAAGTTGCAGT-GAGCAGAATGAAGATAACAAACCTCATCTTCCTAAAGTTG
47283077 CAGTA
130 CAGTA
** * * ** * ** * * *
47283082 GAATAGATTG-AGATAACAAACCTCATCTATCTAAAGTTGCAGTGGAGCAGACTAAAAATAACAG
1 GAGCAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
*
47283146 GTTTTATCTCCCTGAAGTTGCAGTG
66 GTCTTATCTCCCTGAAGTTGCAGTG
47283171 GAGTAGGTTG
Statistics
Matches: 192, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
133 3 0.02
134 173 0.90
135 16 0.08
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (134 bp):
GAGCAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
GTCTTATCTCCCTGAAGTTGCAGTGAGCAGAATGAAGATAACAAACCTCATCTTCCTAAAGTTGC
AGTA
Found at i:47283003 original size:89 final size:90
Alignment explanation
Indices: 47282838--47283173 Score: 376
Period size: 89 Copynumber: 3.8 Consensus size: 90
47282828 AGTAGGTCTT
* *
47282838 ATCTCCCTAAAGTTGCAGT-GAAGCAGACTGAAGATAGC-AGATCTTATCTCCCTGAAGTTGCAG
1 ATCTCTCTAAAGTTGCAGTAG-AGCAGATTGAAGATAGCAAG-TCTTATCTCCCTGAAGTTGCAG
*
47282901 TGCAGCAGACTGAAGATAACAAACCTC
64 TGGAGCAGACTGAAGATAACAAACCTC
*
47282928 ATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
1 ATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
* * *** *
47282992 GAGCAGGCTGAAGATAGCAGGTCTT
66 GAGCAGACTGAAGATAACAAACCTC
* * * *
47283017 ATCTC-CATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAATCTTATCTTCCTGAAGTTGCAGT
1 ATCTCTC-TAAAGTTGCAGTAGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGT
* ** *
47283081 AGAATAGATTG-AGATAACAAACCTC
65 GGAGCAGACTGAAGATAACAAACCTC
* * * * * * * *
47283106 ATCTATCTAAAGTTGCAGTGGAGCAGACTAAAAATAACAGGTTTTATCTCCCTGAAGTTGCAGTG
1 ATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
47283171 GAG
66 GAG
47283174 TAGGTTGAAA
Statistics
Matches: 203, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.00
89 136 0.67
90 65 0.32
91 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (90 bp):
ATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAGACTGAAGATAACAAACCTC
Found at i:47283171 original size:45 final size:45
Alignment explanation
Indices: 47282834--47283173 Score: 342
Period size: 45 Copynumber: 7.6 Consensus size: 45
47282824 AGATAGTAGG
* * *
47282834 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* *
47282879 TCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* * * * * ** *
47282924 CCTCATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* **
47282968 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* * *
47283013 TCTTATCTCCATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* * ** * *
47283058 TCTTATCTTCCTGAAGTTGCAGTAGAATAGATTG-AGATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* * ** * * * * **
47283102 CCTCATCTATCTAAAGTTGCAGTGGAGCAGACTAAAAATAACAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
*
47283147 TTTTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
47283174 TAGGTTGAAA
Statistics
Matches: 241, Mismatches: 52, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
44 69 0.29
45 172 0.71
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
Found at i:47284200 original size:29 final size:29
Alignment explanation
Indices: 47284163--47284273 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 29
47284153 ATATTATTGC
* *
47284163 TATTATTATTATGTTTCTATTTATATTTA
1 TATTGTTATTATATTTCTATTTATATTTA
* * * *
47284192 TTTTGTTATTCTAATACTA-TTATTATTTA
1 TATTGTTATTATATTTCTATTTA-TATTTA
* ** * *
47284221 TCTAATTTTTAT-TTATCTATTTATATTTC
1 TATTGTTATTATATT-TCTATTTATATTTA
*
47284250 TACTGTTATTATATTTCTATTTAT
1 TATTGTTATTATATTTCTATTTAT
47284274 TATATTTCTA
Statistics
Matches: 59, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
28 4 0.07
29 50 0.85
30 5 0.08
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTGTTATTATATTTCTATTTATATTTA
Found at i:47284234 original size:15 final size:14
Alignment explanation
Indices: 47284178--47284294 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
47284168 TTATTATGTT
*
47284178 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
47284192 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
47284206 TACTATTATTATTTA
1 T-CTATTTTTATTTA
47284221 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
47284236 TCTATTTATATTTC
1 TCTATTTTTATTTA
* *
47284250 TACTGTTATTATATT-
1 T-CTATTTTTAT-TTA
47284265 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
47284280 TCTATTTCTATTTA
1 TCTATTTTTATTTA
47284294 T
1 T
47284295 ATACTAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 23 0.28
15 37 0.46
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:47284257 original size:58 final size:58
Alignment explanation
Indices: 47284178--47284294 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
47284168 TTATTATGTT
** * *
47284178 TCTATTTATATTTATTTTGTTATTCTAATACTA-TTATTAT-TTATCTAATTTTTATTTA
1 TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATT-TCT-ATTTCTATTTA
* * *
47284236 TCTATTTATATTTCTACTGTTATTATATTTCTATTTATTATATTTCTATTTCTATTTA
1 TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATTTCTATTTCTATTTA
47284294 T
1 T
47284295 ATACTAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 38 0.76
59 10 0.20
60 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (58 bp):
TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATTTCTATTTCTATTTA
Found at i:47284259 original size:44 final size:44
Alignment explanation
Indices: 47284206--47284292 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
47284196 GTTATTCTAA
47284206 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
* *
47284250 TACTGTTATTATATTTCTATTTATTATATTTCTATTTCTATTT
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTT
47284293 ATATACTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 4 0.11
44 30 0.79
45 4 0.11
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:47284263 original size:17 final size:15
Alignment explanation
Indices: 47284241--47284286 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
47284231 ATTTATCTAT
47284241 TTATATTTCTACTGTTA
1 TTATATTTCTA-T-TTA
47284258 TTATATTTCTATTTA
1 TTATATTTCTATTTA
47284273 TTATATTTCTATTT
1 TTATATTTCTATTT
47284287 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:47288871 original size:34 final size:32
Alignment explanation
Indices: 47288833--47288895 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
47288823 TTAATAAAAA
*
47288833 TATAATTTTTATAAATTTTTTAATAAATTTTGTT
1 TATAATTTTTAT-AATTTTTAAAT-AATTTTGTT
*
47288867 TATAATTTTTATTATTTTTAAATAATTTT
1 TATAATTTTTATAATTTTTAAATAATTTT
47288896 AAAAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 6 0.22
33 9 0.33
34 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (32 bp):
TATAATTTTTATAATTTTTAAATAATTTTGTT
Found at i:47289793 original size:11 final size:11
Alignment explanation
Indices: 47289777--47289804 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
47289767 CAAATACCTT
47289777 CAAAACAGCAC
1 CAAAACAGCAC
47289788 CAAAACAGCAC
1 CAAAACAGCAC
47289799 CAAAAC
1 CAAAAC
47289805 GTAACAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.36, G:0.07, T:0.00
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:47289996 original size:9 final size:9
Alignment explanation
Indices: 47289984--47290025 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
47289974 AATCGAAGAA
47289984 ATCGTCCTC
1 ATCGTCCTC
47289993 ATCGTCCTC
1 ATCGTCCTC
* *
47290002 GTTGTCCCTC
1 ATCGT-CCTC
47290012 ATCGTCCTC
1 ATCGTCCTC
47290021 ATCGT
1 ATCGT
47290026 TCTTGCAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.10, C:0.40, G:0.14, T:0.36
Consensus pattern (9 bp):
ATCGTCCTC
Found at i:47309058 original size:43 final size:43
Alignment explanation
Indices: 47308998--47309089 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
47308988 TCATTCTATC
47308998 TTTCC-CTATTATTCTAAATAGATCAAGTTTCTTATATATCAT
1 TTTCCGCTATTATTCTAAATAGATCAAGTTTCTTATATATCAT
47309040 TTTCCGCTATTATTCTAAATAGATCAAGTTTCTTATATATCAT
1 TTTCCGCTATTATTCTAAATAGATCAAGTTTCTTATATATCAT
47309083 TTTCCGC
1 TTTCCGC
47309090 GGAAAATGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.10
43 44 0.90
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (43 bp):
TTTCCGCTATTATTCTAAATAGATCAAGTTTCTTATATATCAT
Found at i:47311087 original size:22 final size:21
Alignment explanation
Indices: 47311061--47311114 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
47311051 TAATAAAAAA
47311061 TATAATTTTTTTTAATT-TTTT
1 TATAATTTTTTTT-ATTATTTT
*
47311082 TAATAAATTTTGTTTATTATTTT
1 T-AT-AATTTTTTTTATTATTTT
*
47311105 TATTATTTTT
1 TATAATTTTT
47311115 AAAAGACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.22
22 7 0.26
23 14 0.52
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TATAATTTTTTTTATTATTTT
Found at i:47311090 original size:23 final size:24
Alignment explanation
Indices: 47311059--47311106 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
47311049 TTTAATAAAA
*
47311059 AATATAATTTTTTTTAATT-TTTTT
1 AATATAATTTTGTTT-ATTATTTTT
47311083 AATA-AATTTTGTTTATTATTTTT
1 AATATAATTTTGTTTATTATTTTT
47311106 A
1 A
47311107 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 15 0.68
24 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
AATATAATTTTGTTTATTATTTTT
Found at i:47319075 original size:21 final size:22
Alignment explanation
Indices: 47319035--47319075 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47319025 TCAAACTGAA
47319035 AAAATTTGTTTAATTATTAAAT
1 AAAATTTGTTTAATTATTAAAT
47319057 AAAATATT-TTTAA-TATTAA
1 AAAAT-TTGTTTAATTATTAA
47319076 TATTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATTTGTTTAATTATTAAAT
Found at i:47320667 original size:31 final size:31
Alignment explanation
Indices: 47320629--47320694 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
47320619 GGCTAGGTAT
**
47320629 CAAATTGAACATTGAAGGCAAACTCAAATAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
* **
47320660 CAAATTGAATATTGAAACCAAACTCAGGTAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
47320691 CAAA
1 CAAA
47320695 ATAATTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAATAC
Found at i:47321550 original size:20 final size:20
Alignment explanation
Indices: 47321517--47321556 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47321507 TCTCTCCCAA
*
47321517 AGTAATTATGAAAGTAAAAT
1 AGTAATTATAAAAGTAAAAT
* *
47321537 AGTAATTTTAAAAGTCAAAT
1 AGTAATTATAAAAGTAAAAT
47321557 TCAACGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAATTATAAAAGTAAAAT
Found at i:47326611 original size:3 final size:3
Alignment explanation
Indices: 47326603--47326642 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
47326593 TTTAGCAAAG
*
47326603 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47326643 AATTGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47326654 original size:12 final size:12
Alignment explanation
Indices: 47326603--47326654 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
47326593 TTTAGCAAAG
*
47326603 TTATTATTATTA
1 TTATTATTGTTA
47326615 TTATTATTGTTA
1 TTATTATTGTTA
*
47326627 TTATTATTATTA
1 TTATTATTGTTA
* *
47326639 TTATAATTGTTT
1 TTATTATTGTTA
47326651 TTAT
1 TTAT
47326655 GCATATACGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:47339309 original size:44 final size:45
Alignment explanation
Indices: 47339197--47339658 Score: 270
Period size: 44 Copynumber: 10.8 Consensus size: 45
47339187 ATACAGGTCT
*
47339197 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAA-AT-TACAGAT-C
1 TATCTCCCTGAGATTACAGTGGAGCAGATC-AAAGATAT-CAGATCC
* * * *
47339241 TGATCT-CCTGAGATCATAGCGGAGCAGATCAAAGATATTA-ATCC
1 T-ATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATATCAGATCC
* * * *
47339285 TATCTCCCTGAGATTACAATGGAGCGGATTAAAG------GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATATCAGATCC
* * ** * *
47339324 TATCTCTCTGA-AGTTACAGTAGAGTGGATC---G-TATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATATCAGATCC
* * * * *
47339365 TATCTCTCTGAGATTACAGTGGAGCATACCGAAGA-AGTACAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-T-CAGATCC
*
47339411 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-TCAGATCC
* * *
47339455 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAG------GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATATCAGATCC
* * ** * *
47339494 TATCTCTCTGA-AGTTACAGTAGAGTGGATC---G-TATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATATCAGATCC
* * *
47339535 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-AGTGCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-T-CAGATCC
*
47339581 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-TCAGATCC
* *
47339625 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAG
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG
47339659 GATCTTATCT
Statistics
Matches: 331, Mismatches: 52, Indels: 70
0.73 0.11 0.15
Matches are distributed among these distances:
36 2 0.01
38 2 0.01
39 53 0.16
41 54 0.16
42 2 0.01
43 9 0.03
44 120 0.36
45 9 0.03
46 74 0.22
47 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATATCAGATCC
Found at i:47339415 original size:46 final size:46
Alignment explanation
Indices: 47339362--47339649 Score: 226
Period size: 46 Copynumber: 6.6 Consensus size: 46
47339352 TCGTATCAGG
* *
47339362 TCTTATCTCTCTGAGATTACAGTGGAGCATACCGAAGA-AGTACAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-CGAAGATAGTACAGA
* *
47339408 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT--A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-CGAAGATAGTACAGA
* *
47339452 TCCTATCTCCCTGAGATTACAGT-G-G-AG-CG--GAT--TAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACGAAGATAGTACA-GA
* * * *
47339491 TCTTATCTCTCTGA-AGTTACAGT--AG-AG-TG--GATCGTATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACGAAGATAGTA-CAGA
*
47339532 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-AGTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-CGAAGATAGTACAGA
* *
47339578 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT--A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-CGAAGATAGTACAGA
*
47339622 TCCTATCTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
47339650 GGATTAAAGG
Statistics
Matches: 200, Mismatches: 23, Indels: 40
0.76 0.09 0.15
Matches are distributed among these distances:
35 1 0.00
37 4 0.02
38 1 0.00
39 28 0.14
41 25 0.12
42 3 0.01
43 3 0.01
44 51 0.25
45 2 0.01
46 72 0.36
47 8 0.04
48 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACGAAGATAGTACAGA
Found at i:47339470 original size:170 final size:170
Alignment explanation
Indices: 47339190--47339802 Score: 996
Period size: 170 Copynumber: 3.6 Consensus size: 170
47339180 GTTCATTATA
* *
47339190 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTACAGATCTGATCT-CCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTACAGATCTTATCTCCCTGAG
* * * *
47339253 ATCATAGCGGAGCAGATCAAAGATATTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
47339318 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
* *
47339358 CAGGTCTTATCTCTCTGAGATTACAGTGGAGCATACCGAAGAAGTACAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTACAGATCTTATCTCCCTGAG
47339423 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
47339488 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
*
47339528 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTACAGATCTTATCTCCCTGAG
47339593 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * * **
47339658 GGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCGT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
* * * *
47339698 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTACAGATCTTATCTCCCTGAG
* ** ** *
47339763 ATTATAGCGGAGCAGATTGAAGCCAGTAATTCTATCTCCC
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCC
47339803 CGACGTTGCG
Statistics
Matches: 417, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
168 38 0.09
169 15 0.04
170 364 0.87
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (170 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTACAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
Found at i:47341328 original size:3 final size:3
Alignment explanation
Indices: 47341320--47341347 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47341310 ATTTTAGCAA
47341320 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47341348 GTTTTTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47346895 original size:20 final size:20
Alignment explanation
Indices: 47346862--47346901 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47346852 TCTCTCCCAA
*
47346862 AGTAATTATGAAAGTAAAAT
1 AGTAATTATAAAAGTAAAAT
* *
47346882 AGTAATTTTAAAAGTCAAAT
1 AGTAATTATAAAAGTAAAAT
47346902 TCAATGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAATTATAAAAGTAAAAT
Found at i:47351363 original size:15 final size:15
Alignment explanation
Indices: 47351322--47351364 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
47351312 TCATATATGA
47351322 TATTTTAAAATTTAGT
1 TATTTTAAAA-TTAGT
47351338 TATCTTT-AAATTAGT
1 TAT-TTTAAAATTAGT
47351353 TATTTTAAAATT
1 TATTTTAAAATT
47351365 CCTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 6 0.24
17 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (15 bp):
TATTTTAAAATTAGT
Found at i:47351708 original size:18 final size:18
Alignment explanation
Indices: 47351685--47351719 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47351675 AAGTTCTCCA
*
47351685 TTTTATATATATTACTTT
1 TTTTATATATACTACTTT
47351703 TTTTATATATACTACTT
1 TTTTATATATACTACTT
47351720 ATATAGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATATACTACTTT
Found at i:47351756 original size:15 final size:13
Alignment explanation
Indices: 47351719--47351748 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47351709 ATATACTACT
47351719 TATATAG-ATTAA
1 TATATAGTATTAA
47351731 TATATAGTATTAA
1 TATATAGTATTAA
47351744 TATAT
1 TATAT
47351749 TAGTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TATATAGTATTAA
Found at i:47356176 original size:17 final size:17
Alignment explanation
Indices: 47356154--47356191 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
47356144 AGTTATGTTA
47356154 TATGAAAGGTCAAAAGT
1 TATGAAAGGTCAAAAGT
*
47356171 TATGAAAGGTCAAGAGT
1 TATGAAAGGTCAAAAGT
47356188 TATG
1 TATG
47356192 TTGTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (17 bp):
TATGAAAGGTCAAAAGT
Found at i:47357236 original size:36 final size:36
Alignment explanation
Indices: 47357187--47357258 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
47357177 CTTAGACCCC
47357187 ATGTGATGATGTGACTACCATGCATTATTCCACATT
1 ATGTGATGATGTGACTACCATGCATTATTCCACATT
*
47357223 ATGTGATGTTGTGACTACCATGCATTATTCCACATT
1 ATGTGATGATGTGACTACCATGCATTATTCCACATT
47357259 TTCAGTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (36 bp):
ATGTGATGATGTGACTACCATGCATTATTCCACATT
Found at i:47364522 original size:31 final size:31
Alignment explanation
Indices: 47364484--47364549 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
47364474 GTTTCAGTAT
*
47364484 CAAATTGAGCATTGAAACCAAACTCAAATAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
* ** *
47364515 CAAATTGAATATTGAAGTCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
47364546 CAAA
1 CAAA
47364550 ATACTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAATAC
Found at i:47373277 original size:2 final size:2
Alignment explanation
Indices: 47373270--47373315 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
47373260 TGTATCTAAT
* *
47373270 TA TA TA TA TA T- TA TT TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
47373311 CA TA T
1 TA TA T
47373316 TTTATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:47374554 original size:25 final size:26
Alignment explanation
Indices: 47374479--47374554 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 26
47374469 AATAGTGGAT
*
47374479 ATAAAAATAAAAATAACATAAATAAAA
1 ATAAAAATAAAAATAA-ATTAATAAAA
* * * *
47374506 ATAAAGAATAATAAACAGATTAATAGAC
1 ATAAA-AATAA-AAATAAATTAATAAAA
47374534 A-AAAAATAAAAATAAATTAAT
1 ATAAAAATAAAAATAAATTAAT
47374555 TAAAGGACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 10 0.25
26 5 0.12
27 8 0.20
28 13 0.32
29 4 0.10
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (26 bp):
ATAAAAATAAAAATAAATTAATAAAA
Found at i:47374972 original size:13 final size:14
Alignment explanation
Indices: 47374954--47374986 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47374944 TATAAATGCC
47374954 AAAAAA-AATTTAA
1 AAAAAACAATTTAA
*
47374967 AAAAAACCATTTAA
1 AAAAAACAATTTAA
47374981 AAAAAA
1 AAAAAA
47374987 TTTGAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAACAATTTAA
Found at i:47375689 original size:14 final size:15
Alignment explanation
Indices: 47375660--47375694 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
47375650 TTGGTTTTTT
*
47375660 TTTTGTTGTTGTTTA
1 TTTTGTTGTGGTTTA
47375675 TTTTGTT-TGGTTTA
1 TTTTGTTGTGGTTTA
47375689 TTTTGT
1 TTTTGT
47375695 GTTTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.06, C:0.00, G:0.20, T:0.74
Consensus pattern (15 bp):
TTTTGTTGTGGTTTA
Found at i:47382150 original size:18 final size:18
Alignment explanation
Indices: 47382129--47382163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47382119 GGCCAAGACC
* *
47382129 GAGGTCGAGGTCGAGGTT
1 GAGGTAGAGGTAGAGGTT
47382147 GAGGTAGAGGTAGAGGT
1 GAGGTAGAGGTAGAGGT
47382164 AGATTTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.51, T:0.20
Consensus pattern (18 bp):
GAGGTAGAGGTAGAGGTT
Found at i:47385276 original size:3 final size:3
Alignment explanation
Indices: 47385268--47385300 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
47385258 ATGTGAGTAA
47385268 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
47385301 GTGTTTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47392027 original size:22 final size:22
Alignment explanation
Indices: 47391999--47392054 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
47391989 AAATTCTCTT
*
47391999 AAACTCTCAAATTCCTTCCAAA
1 AAACTCTCAAATTCCTTCAAAA
** *
47392021 ATCCTCTCAATTTCCTTCAAAA
1 AAACTCTCAAATTCCTTCAAAA
47392043 AAACTCTCAAAT
1 AAACTCTCAAAT
47392055 CCATATTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (22 bp):
AAACTCTCAAATTCCTTCAAAA
Found at i:47392111 original size:27 final size:27
Alignment explanation
Indices: 47392088--47392141 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
47392078 TCAATTTCAT
*
47392088 TTTTTTAAAA-AATTTTAAATATTTTTA
1 TTTTTAAAAATAATTTT-AATATTTTTA
47392115 TTTTTAAAAATAATTTTAATATTTTTA
1 TTTTTAAAAATAATTTTAATATTTTTA
47392142 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTAAAAATAATTTTAATATTTTTA
Found at i:47392261 original size:14 final size:15
Alignment explanation
Indices: 47392232--47392265 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47392222 TAAATTTAAA
47392232 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
47392247 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
47392261 TTTTA
1 TTTTA
47392266 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:47393234 original size:7 final size:7
Alignment explanation
Indices: 47393222--47393246 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47393212 AGTGGATTGA
47393222 TATTTAG
1 TATTTAG
47393229 TATTTAG
1 TATTTAG
47393236 TATTTAG
1 TATTTAG
47393243 TATT
1 TATT
47393247 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:47395470 original size:23 final size:23
Alignment explanation
Indices: 47395443--47395564 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
47395433 AGTGTTATTG
*
47395443 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47395466 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47395489 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47395512 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47395535 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47395558 ATCAGTG
1 ATCAGTG
47395565 TTGCACTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:47395498 original size:46 final size:46
Alignment explanation
Indices: 47395445--47395564 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
47395435 TGTTATTGAT
*
47395445 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
47395491 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
*
47395537 CAGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
47395565 TTGCACTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:47397188 original size:29 final size:29
Alignment explanation
Indices: 47397100--47397621 Score: 693
Period size: 29 Copynumber: 18.6 Consensus size: 29
47397090 TTTTGATATT
*
47397100 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397128 ATTTAATTAAAAACCC-AA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397155 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397184 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
47397213 ATTTAATTAAAAA-CCTAAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397241 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
47397270 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
47397299 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
47397328 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
47397357 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
47397386 ATTTAATT-AAAACCCTAAACCCCAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
47397415 ATTTGATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397444 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397473 ATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
47397497 -TTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
** *
47397525 ATTTAATT-AAAACCCTAAACCCTAACCTC
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
47397554 ATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
47397578 -TTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
47397606 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
47397622 ATTTTAATTA
Statistics
Matches: 437, Mismatches: 38, Indels: 37
0.85 0.07 0.07
Matches are distributed among these distances:
23 42 0.10
25 3 0.01
27 31 0.07
28 60 0.14
29 285 0.65
30 16 0.04
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:47397823 original size:25 final size:25
Alignment explanation
Indices: 47397789--47397843 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
47397779 ATAAAATGTA
*
47397789 ATTGCATCTAACATTACATTCAACT
1 ATTGCATCTAAAATTACATTCAACT
47397814 ATTGCATCTAAAATTACATTCAACT
1 ATTGCATCTAAAATTACATTCAACT
47397839 ATTGC
1 ATTGC
47397844 GATTAGGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (25 bp):
ATTGCATCTAAAATTACATTCAACT
Found at i:47401037 original size:125 final size:126
Alignment explanation
Indices: 47400815--47401090 Score: 414
Period size: 125 Copynumber: 2.2 Consensus size: 126
47400805 CCACGAGGGC
* * *
47400815 GCGATTTGACACTATTTGCTCAG-AAACGCCAAAAAATAATTATTTCCTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGCCAAAAAATAATTATTTCCTACATGACCAACTGTAC
* **
47400879 CGAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCA
66 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTAGAA
* * *
47400940 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACTTGACCAACTGTAC
1 GCGATTTTATACTATTTGCTCAGAAAACGCCAAAAAATAATTATTTCCTACATGACCAACTGTAC
*
47401004 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCTTGGTAGAA
66 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
* *
47401065 GCAATTTTATACTATTTGATCAGAAA
1 GCGATTTTATACTATTTGCTCAGAAA
47401091 TGTCAACTCG
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
124 1 0.01
125 124 0.91
126 12 0.09
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGCCAAAAAATAATTATTTCCTACATGACCAACTGTAC
CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
Found at i:47401434 original size:28 final size:28
Alignment explanation
Indices: 47401375--47401436 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
47401365 CGATTTCGCG
47401375 AAAAATGGCCCATTCCGGTAAATAATTA
1 AAAAATGGCCCATTCCGGTAAATAATTA
* **
47401403 AAAAAGTGGCCCATTTCGGTAAATTTTTA
1 AAAAA-TGGCCCATTCCGGTAAATAATTA
47401432 AAAAA
1 AAAAA
47401437 AAGAGGCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (28 bp):
AAAAATGGCCCATTCCGGTAAATAATTA
Found at i:47411734 original size:12 final size:12
Alignment explanation
Indices: 47411717--47411741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47411707 GATGTTTTCC
47411717 AATTAAGCACTA
1 AATTAAGCACTA
47411729 AATTAAGCACTA
1 AATTAAGCACTA
47411741 A
1 A
47411742 CACAAAGAAA
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:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AATTAAGCACTA
Found at i:47423740 original size:37 final size:37
Alignment explanation
Indices: 47423603--47423733 Score: 172
Period size: 37 Copynumber: 3.5 Consensus size: 37
47423593 GGCGGATGTA
* * * *
47423603 TAGCTCATATGATCATTTGACGTGTTTTTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
* * *
47423640 TAACTCTTATGAGCATTTGGCATGTTATCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
** *
47423677 TAGCTCTTCGGAGCACTTGGCATGTTTTTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
47423714 TAGCTCTTATGAGCATTTGG
1 TAGCTCTTATGAGCATTTGG
47423734 TGTGTTTCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
Found at i:47429137 original size:19 final size:18
Alignment explanation
Indices: 47429110--47429145 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47429100 AGTAATGATA
47429110 TTAAAAATATATAAATATT
1 TTAAAAATATA-AAATATT
*
47429129 TTAATAATATAAAATAT
1 TTAAAAATATAAAATAT
47429146 AAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAATATAAAATATT
Found at i:47429191 original size:23 final size:22
Alignment explanation
Indices: 47429144--47429189 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
47429134 AATATAAAAT
47429144 ATAAAATATTAATTTAAATTAA
1 ATAAAATATTAATTTAAATTAA
47429166 ATAAAA-ATTACATTTCAAAATTAA
1 ATAAAATATTA-ATTT--AAATTAA
47429190 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
24 7 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAAATATTAATTTAAATTAA
Found at i:47429615 original size:17 final size:18
Alignment explanation
Indices: 47429585--47429626 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
47429575 AATAATTTAA
47429585 ATAATATTAAATTAAATT
1 ATAATATTAAATTAAATT
* *
47429603 ATAA-ATTACATTATATT
1 ATAATATTAAATTAAATT
47429620 ATAATAT
1 ATAATAT
47429627 AATTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATATTAAATTAAATT
Found at i:47436973 original size:21 final size:19
Alignment explanation
Indices: 47436925--47436973 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
47436915 TACAAACTCT
47436925 TAAA-TAAAACCAGAATTA
1 TAAATTAAAACCAGAATTA
* *
47436943 TAAATAAAAACCATAGATTA
1 TAAATTAAAACCAGA-ATTA
47436963 CTAAATTAAAA
1 -TAAATTAAAA
47436974 TAGTTCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 4 0.16
21 9 0.36
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (19 bp):
TAAATTAAAACCAGAATTA
Found at i:47437477 original size:17 final size:17
Alignment explanation
Indices: 47437455--47437489 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47437445 TTACATGCTC
47437455 ATATACAGATATCAAAT
1 ATATACAGATATCAAAT
*
47437472 ATATACATATATCAAAT
1 ATATACAGATATCAAAT
47437489 A
1 A
47437490 AATCAGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATACAGATATCAAAT
Found at i:47437708 original size:17 final size:17
Alignment explanation
Indices: 47437644--47437708 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
47437634 CAGAATTGTG
* *
47437644 GGCCCACATGCCAATGT
1 GGCCCACACGCCCATGT
* * **
47437661 AGCCCACATGCCTGTGT
1 GGCCCACACGCCCATGT
* *
47437678 GGCCCAGACTCCCATGT
1 GGCCCACACGCCCATGT
47437695 GGCCCACACGCCCA
1 GGCCCACACGCCCA
47437709 ACTTGGCCTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.20, C:0.42, G:0.23, T:0.15
Consensus pattern (17 bp):
GGCCCACACGCCCATGT
Found at i:47448231 original size:22 final size:22
Alignment explanation
Indices: 47448185--47448233 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
47448175 TACAGGTTGT
*
47448185 TGTCTTAAGACAAAAGCCTGCA
1 TGTCTTAAGACAAAAGCCTACA
* *
47448207 TGTCTTAAGATAAAAGCCTATA
1 TGTCTTAAGACAAAAGCCTACA
47448229 TGTCT
1 TGTCT
47448234 CGATACATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (22 bp):
TGTCTTAAGACAAAAGCCTACA
Found at i:47449929 original size:30 final size:30
Alignment explanation
Indices: 47449887--47449947 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
47449877 GCCCAGACGT
47449887 GTAACCTCGATATAATGTCAGCTTGTGTGA
1 GTAACCTCGATATAATGTCAGCTTGTGTGA
*
47449917 GTAACC-CTGATATATTGTCAGCTTGTGTGA
1 GTAACCTC-GATATAATGTCAGCTTGTGTGA
47449947 G
1 G
47449948 CAACGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (30 bp):
GTAACCTCGATATAATGTCAGCTTGTGTGA
Found at i:47452269 original size:18 final size:17
Alignment explanation
Indices: 47452236--47452274 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47452226 TTTTATAAAT
47452236 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
47452254 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
47452271 TGTG
1 TGTG
47452275 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:47452598 original size:23 final size:23
Alignment explanation
Indices: 47452501--47452591 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
47452491 GTGTTATTGA
47452501 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
47452524 TCAGCGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* **
47452547 TCAGTGGTAGCTACAACTACATT
1 TCAGTGGTAGCTTCGGCTACATT
47452570 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
47452592 ATTAGTGTGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:47454272 original size:26 final size:26
Alignment explanation
Indices: 47454236--47454298 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
47454226 TTCAATCCCT
47454236 ATTTTACCCCTAACAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*** *
47454262 ATTTTACCCCTTGTAAACTTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*
47454288 ATTTTGCCCCT
1 ATTTTACCCCT
47454299 GGTAAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:47454303 original size:26 final size:26
Alignment explanation
Indices: 47454250--47454321 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
47454240 TACCCCTAAC
* *
47454250 AAAATTTTGACGATTTTACCCCTTGT
1 AAAATTTTGACGATTTTGCCCCTGGT
*
47454276 AAACTTTTGACGATTTTGCCCCTGGT
1 AAAATTTTGACGATTTTGCCCCTGGT
* *
47454302 AAAATTTTAATGATTTTGCC
1 AAAATTTTGACGATTTTGCC
47454322 TTAATAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (26 bp):
AAAATTTTGACGATTTTGCCCCTGGT
Found at i:47461019 original size:5 final size:5
Alignment explanation
Indices: 47461006--47461052 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
47460996 TGAAGTTTTC
* *
47461006 TCGAA TCGAG TCGAA T-GAGA TGGAAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGA-A TCG-AA TCGAA TCGAA TCGAA TCGAA T
47461053 ATATTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 29 0.81
6 4 0.11
7 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (5 bp):
TCGAA
Found at i:47461740 original size:30 final size:31
Alignment explanation
Indices: 47461701--47461759 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
47461691 AGAGGTGGGA
*
47461701 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
47461732 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAA
47461760 CTAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:47461980 original size:9 final size:9
Alignment explanation
Indices: 47461966--47462002 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47461956 TATAGTTTGA
47461966 TATTCGAAT
1 TATTCGAAT
47461975 TATTCGAAT
1 TATTCGAAT
* *
47461984 TATTTGAGT
1 TATTCGAAT
47461993 TATTCGAAT
1 TATTCGAAT
47462002 T
1 T
47462003 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47466325 original size:19 final size:19
Alignment explanation
Indices: 47466303--47466351 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
47466293 TTATTTTTAA
* **
47466303 TAATTTTTTTACAAATTTT
1 TAATTTTTTTAAAAAAGTT
*
47466322 TAATTATTTTAAAAAAGTT
1 TAATTTTTTTAAAAAAGTT
*
47466341 TAAATTTTTTA
1 TAATTTTTTTA
47466352 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTTTTTAAAAAAGTT
Found at i:47476585 original size:21 final size:20
Alignment explanation
Indices: 47476561--47476603 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
47476551 AAAACCGTAG
47476561 AAATTGTAATTCCT-AGAAAAT
1 AAATT-TAATT-CTAAGAAAAT
*
47476582 AAATTTTATTCTAAGAAAAT
1 AAATTTAATTCTAAGAAAAT
47476602 AA
1 AA
47476604 TTTCCACTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (20 bp):
AAATTTAATTCTAAGAAAAT
Found at i:47476996 original size:17 final size:16
Alignment explanation
Indices: 47476976--47477009 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47476966 TTAATTTAAT
47476976 TAATCAAATTAATTTTC
1 TAATCAAA-TAATTTTC
*
47476993 TAATTAAATAATTTTC
1 TAATCAAATAATTTTC
47477009 T
1 T
47477010 CAACCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATCAAATAATTTTC
Found at i:47478097 original size:31 final size:31
Alignment explanation
Indices: 47478032--47478090 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
47478022 AGACAGAATG
*
47478032 TTAGTCTTTCAATCGACTTGCTCATTTTCGA
1 TTAGTCTTTCAATCGACTTGCCCATTTTCGA
47478063 TTAGTCTTTCAATCGACTTGCCCATTTT
1 TTAGTCTTTCAATCGACTTGCCCATTTT
47478091 TTATTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (31 bp):
TTAGTCTTTCAATCGACTTGCCCATTTTCGA
Found at i:47485359 original size:21 final size:21
Alignment explanation
Indices: 47485335--47485403 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
47485325 TCCAATCTTA
47485335 TTTCAATCTTCAAATTTTAAT
1 TTTCAATCTTCAAATTTTAAT
* *
47485356 TTTCAATTTTC-AATTTCGAAT
1 TTTCAATCTTCAAATTT-TAAT
*
47485377 TTTCAATCCTCAATTATTTTTAAT
1 TTTCAATCTTCAA--A-TTTTAAT
47485401 TTT
1 TTT
47485404 TTTTTTGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 5 0.13
21 22 0.58
22 1 0.03
24 7 0.18
25 3 0.08
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTCAATCTTCAAATTTTAAT
Found at i:47485363 original size:7 final size:7
Alignment explanation
Indices: 47485335--47485383 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
47485325 TCCAATCTTA
47485335 TTTCAAT
1 TTTCAAT
*
47485342 CTTCAAAT
1 TTTC-AAT
47485350 TTT-AAT
1 TTTCAAT
47485356 TTTCAAT
1 TTTCAAT
47485363 TTTCAA-
1 TTTCAAT
47485369 TTTCGAAT
1 TTTC-AAT
47485377 TTTCAAT
1 TTTCAAT
47485384 CCTCAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 10 0.28
7 17 0.47
8 9 0.25
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (7 bp):
TTTCAAT
Found at i:47485391 original size:14 final size:15
Alignment explanation
Indices: 47485335--47485389 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 15
47485325 TCCAATCTTA
47485335 TTTCAATCTTCAAAT
1 TTTCAATCTTCAAAT
*
47485350 TTT-AATTTTC-AAT
1 TTTCAATCTTCAAAT
*
47485363 TTTCAAT-TTCGAAT
1 TTTCAATCTTCAAAT
*
47485377 TTTCAATCCTCAA
1 TTTCAATCTTCAA
47485390 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 19 0.56
15 6 0.18
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTCAATCTTCAAAT
Found at i:47485568 original size:24 final size:24
Alignment explanation
Indices: 47485541--47485587 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47485531 ATTATTTTAA
47485541 TTTA-AATAGTTAATTATTATGTTG
1 TTTAGAATA-TTAATTATTATGTTG
* *
47485565 TTTAGATTATTAATTTTTATGTT
1 TTTAGAATATTAATTATTATGTT
47485588 TATATACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (24 bp):
TTTAGAATATTAATTATTATGTTG
Found at i:47495231 original size:69 final size:69
Alignment explanation
Indices: 47495127--47497027 Score: 379
Period size: 69 Copynumber: 27.6 Consensus size: 69
47495117 AGGTATGTCA
* * * * * * *
47495127 ATTTAAGATCGCAATCTCCAAAACAACTAGAGAACCTCCATTCTCAGCTGATACTCTAAAGGCTT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCTT
47495192 ATCG
66 ATCG
* * *** * *
47495196 ATTTATGATCGCAACCTCCGACATAGCTAGCGAACCTATGCTCCCAGTTGATA-TCATAAAAG-T
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
*
47495259 TTTCTG
65 TATC-G
* * * * * * *
47495265 ATTTGA-GATCGCAACCTCCGGA-ACAGCTACCAAACATACATTTCCAACTGATACTGTAAAGGC
1 ATTT-ATGATCGCAACCTCC-AACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGC
** *
47495328 TCGTCA
64 TTATCG
* * * * * ** * *
47495334 ATTTATAATCCCAGCCTCCAACACAACTAGTGAACCTACGCTCCCAACTGAT-GTCATAAAGG-T
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
*
47495397 T-TGCC
65 TAT-CG
* * * * * * * * *
47495402 AATTAAGATAGCAAACTCCAA-ATAGCTAGCGAACCAACATTCCCAGCCGATACTCCAAAGGCTC
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCTT
47495466 ATCG
66 ATCG
* * * * *
47495470 GTTTATGATCGCAGCCTCCAACACAGCTAGCGAACCTATGC-TT-CCAACTGAT-GTCAAAAAGG
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTA--CATTCCCAGCTGATACTC-TAAAGG
47495532 --TAGGTCG
63 CTTA--TCG
* * * ** * **
47495539 TTTTAAGATTGCAACCTTTGAA-ATAGCTAGC-AGACCTACATTCCCAATTGATACTCTAAAGGC
1 ATTTATGATCGCAACC-TCCAACACAGCTAGCGA-ACCTACATTCCCAGCTGATACTCTAAAGGC
**
47495602 TCGTCG
64 TTATCG
* * * * * * * * *** *
47495608 GTTTATAATCACAGCCTCTAACATAGCTAGTGGACCTATGGTCCCAGCTGAT-GTCATAAAGG-T
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
*
47495671 T-TGCC
65 TAT-CG
* * * * * *
47495676 AGTTTAAGATCGCAACCTCCAAAATAGTTAGC-AGACCTACGTTCCCAGCTAATACTCTAAAGGC
1 A-TTTATGATCGCAACCTCCAACACAGCTAGCGA-ACCTACATTCCCAGCTGATACTCTAAAGGC
* *
47495740 TCACCG
64 TTATCG
* * * * * * ** * *
47495746 ATTTATGATC-CTAGCCTCTAACATAGCTAGCGAACCTACACTTCCAATC-AATGTTATAAAGGT
1 ATTTATGATCGC-AACCTCCAACACAGCTAGCGAACCTACA-TTCCCAGCTGATACTCTAAAGGC
*
47495809 TTACCG
64 TTATCG
* * * * * ** *** * * *
47495815 GTTTAAGATCGCAACCTCCAAAATAGCTAACGAACCTATGTTTTAAGTTGATACTTTAAAGGCTC
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCTT
*
47495880 ACCG
66 ATCG
* * ** ** * ** * * * *
47495884 GTTTATGATTGCAACCTCCGGCACAGCTAATGGACCTACGCTCCTAGCTGAT-GTCATAAAAGTT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
**
47495948 TGGCG
65 TATCG
* * * * ** * * *
47495953 GTTTAAGATCGCAACCTCCAAAACAGCTAGTGGTCCTACGTTCCGAACTGATA-TGCTAAAGGCT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACT-CTAAAGGCT
* *
47496017 CACCG
65 TATCG
* * * * * *** *
47496022 ATTTATGATCACAACCTTCAACACAACTAACAAACCTATGCTCCTAGCTG--ACGTCATAAA-GC
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATAC-TC-TAAAGGC
47496084 TT-TGCTG
64 TTAT-C-G
* * * * ** * *
47496091 ATTTAAGATCGCAACCTCCAAAATAGCTAGC-AGTCCTATGTTCCGAGCCGATACTCTAAAGGCT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGA-ACCTACATTCCCAGCTGATACTCTAAAGGCT
* *
47496155 CA-CC
65 TATCG
* * ** * ** ** *
47496159 AGTTTATGATCGGAGCCTCTGACACAACTAGCGGAA-CTACGCTCCCAAATGAT-GTCATAAAGG
1 A-TTTATGATCGCAACCTCCAACACAGCTAGC-GAACCTACATTCCCAGCTGATACTC-TAAAGG
* *
47496222 TTTGTC-
63 CTTATCG
* * * * * * * * ** * *
47496228 AGTTTAAGATTGCAACCTTCAAAACAGTTAGCGGACCCACTTTCCTTGTTGATAATCTAAAGGCT
1 A-TTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCT
**
47496293 CGTCG
65 TATCG
* * * *** * * * * *
47496298 GTTTATGATCGCAACCTTCAACACAGCTAGCGGACCTATGCTCCCAACTAAT-GTCATGAAGGTT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
* *
47496362 TGT-T
65 TATCG
* ** * * * *
47496366 AGTTTAAGATCATAACCTCCGAA-ACAACTA-CCAGACTTACATTCCCAGCTGATACTTTAAA-G
1 A-TTTATGATCGCAACCTCC-AACACAGCTAGCGA-ACCTACATTCCCAGCTGATACTCTAAAGG
*
47496428 CTTGTCG
63 CTTATCG
* * * * * * ** * * * * * *
47496435 ATTTATAATCGCAGCATCTAACACGGCTAGCGAAACTACGCTCCTAGTTAAT-GTCATAAAAGTT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
*
47496499 TTTCG
65 TATCG
* * * * * * * * *
47496504 ATTTAAGATTGTAACCTCTAAAATAGCTAGTGGACCTACATTCCCAGCTGATTA-TCTAAGGGCT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGA-TACTCTAAAGGCT
* *
47496568 CA-CC
65 TATCG
* ** * * ** ** ** * *
47496572 AGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACCTACGCTCCCAATTGAT-GTCATAAAGGT
1 A-TTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGC
*
47496636 TTA-CC
64 TTATCG
** * * * * * * **
47496641 AGTTTAAAATCACAACCTCCAAAATAACTAGTGGACCTATGTTCCCAGCTGATACTCTAAAGGCT
1 A-TTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCT
* *
47496706 CA-CC
65 TATCG
* * * * * * * *
47496710 AGTTTATTATCGCAACCTCCAACATAGCTAACAGACCTCTACACTCCTAGCTGA-AATCATAAAT
1 A-TTTATGATCGCAACCTCCAACACAGCTAGC-GAAC-CTACATTCCCAGCTGATACTC-TAAAG
* *
47496774 G-TTTTCT
62 GCTTATCG
* * * * * * *
47496781 AGTTTAAGATCGTAACATCCAAAACAACTAGCGATCCTACGTTCCCAGCTGATACT-TAAAAGGC
1 A-TTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCT-AAAGGC
*
47496845 TT-GCTG
64 TTATC-G
** * * * * * * * * * * * *
47496851 ATTTATGATTACAACCTCTAATACAACTTGTGTACCTATACTCCCAACGGAT-GTCATAAAGGTT
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTC-TAAAGGCT
*
47496915 TTTCG
65 TATCG
* * * * * * * * *
47496920 ATTTAAGATCGTAAACTCCAAAACAACTAGCGAACCTACGTTCCCAACTAATACTCTAAAGGCTC
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCTT
*
47496985 ACCG
66 ATCG
* * * *
47496989 ATTTATGATCACAACCTTCAACACAGCTAGTGGACCTAC
1 ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTAC
47497028 GCTCCTAACT
Statistics
Matches: 1285, Mismatches: 458, Indels: 178
0.67 0.24 0.09
Matches are distributed among these distances:
67 35 0.03
68 120 0.09
69 1022 0.80
70 62 0.05
71 46 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (69 bp):
ATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTACATTCCCAGCTGATACTCTAAAGGCTT
ATCG
Found at i:47495831 original size:276 final size:276
Alignment explanation
Indices: 47495113--47497100 Score: 1469
Period size: 276 Copynumber: 7.2 Consensus size: 276
47495103 TTGGTATAAT
* * * * * * * * *
47495113 ATAAAGGTATGTCAATTTAAGATCGCAATCTCCAAAACAACTAGAGAACCTCCATTCTCAGCTGA
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
* * ** * *
47495178 TACTCTAAAGGCTTATCGATTTATGATCGCAACCTCCGACATAGCTAGCGAACCTATGCTCCCAG
66 TACTCTAAAGGCTCACCGATTTATGATCGCAACCTCTAACACAGCTAGCGAACCTATGCTCCCAA
* * * * * * ** * * * * * *
47495243 TTGATATCATAAAAGTTTTCTGATTTGAGATCGCAACCTCCGGAACAGCTACCAAACATACATTT
131 CTGATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACGTTC
* ** ** * * * *
47495308 CCAACTGATACTGTAAAGGCTCGTCAATTTATAATCCCAGCCTCCAACACAACTAGTGAACCTAC
196 CCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGACCTAC
* *
47495373 GCTCCCAACTGATGTC
261 GCTCCTAGCTGATGTC
* * * * * * *
47495389 ATAAAGGTTTGCCA-ATTAAGATAGCAAACTCC-AAATAGCTAGCGAACCAACATTCCCAGCCGA
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
* * * * * *
47495452 TACTCCAAAGGCTCATCGGTTTATGATCGCAGCCTCCAACACAGCTAGCGAACCTATGCTTCCAA
66 TACTCTAAAGGCTCACCGATTTATGATCGCAACCTCTAACACAGCTAGCGAACCTATGCTCCCAA
* ** * * * *** *
47495517 CTGATGTCAAAAAGGTAGGTCGTTTTAAGATTGCAACCTTTGAAATAGCTAGCAGACCTACATTC
131 CTGATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACGTTC
* ** * * *
47495582 CCAATTGATACTCTAAAGGCTCGTCGGTTTATAATCACAGCCTCTAACATAGCTAGTGGACCTAT
196 CCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGACCTAC
* *
47495647 GGTCCCAGCTGATGTC
261 GCTCCTAGCTGATGTC
* * * * *
47495663 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAATAGTTAGCAGACCTACGTTCCCAGCTAA
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
* * ** *
47495728 TACTCTAAAGGCTCACCGATTTATGATC-CTAGCCTCTAACATAGCTAGCGAACCTACACTTCCA
66 TACTCTAAAGGCTCACCGATTTATGATCGC-AACCTCTAACACAGCTAGCGAACCTATGCTCCCA
* * * * * *
47495792 A-TCAATGTTATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAAC-GAACCTATG
130 ACT-GATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAG-ACCTACG
** * * * * * *** *
47495855 TT-TTAAGTTGATACTTTAAAGGCTCACCGGTTTATGATTGCAACCTCCGGCACAGCTAATGGAC
193 TTCCCAA-CTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGAC
47495919 CTACGCTCCTAGCTGATGTC
257 CTACGCTCCTAGCTGATGTC
* * * * * * * *
47495939 ATAAAAGTTTGGCGGTTTAAGATCGCAACCTCCAAAACAGCTAGTGGTCCTACGTTCCGAACTGA
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
* * * * *
47496004 TA-TGCTAAAGGCTCACCGATTTATGATCACAACCT-TCAACACAACTAACAAACCTATGCTCCT
66 TACT-CTAAAGGCTCACCGATTTATGATCGCAACCTCT-AACACAGCTAGCGAACCTATGCTCCC
* * * * * *
47496067 AGCTGACGTCATAAAGCTTTGCTGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGTCCTATGT
129 AACTGATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACGT
* * * * * * * * * *
47496132 TCCGAGCCGATACTCTAAAGGCTCACCAGTTTATGATCGGAGCCTCTGACACAACTAGCGGAACT
194 TCCCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGACCT
* **
47496197 ACGCTCCCAAATGATGTC
259 ACGCTCCTAGCTGATGTC
* * * * * * ** *
47496215 ATAAAGGTTTGTCAGTTTAAGATTGCAACCTTCAAAACAGTTAGCGGACCCACTTTCCTTGTTGA
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
* ** * *
47496280 TAATCTAAAGGCTCGTCGGTTTATGATCGCAACCT-TCAACACAGCTAGCGGACCTATGCTCCCA
66 TACTCTAAAGGCTCACCGATTTATGATCGCAACCTCT-AACACAGCTAGCGAACCTATGCTCCCA
* * ** ** * * * * * *
47496344 ACTAATGTCATGAAGGTTTG-TTAGTTTAAGATCATAACCTCCGAAACAACTACCAGACTTACAT
130 ACTGATGTCATAAAGGTTTGCCGA-TTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACGT
* * *** * * * * * *
47496408 TCCCAGCTGATACTTTAAA-GCTTGTCGATTTATAATCGCAGCATCTAACACGGCTAGCGAAACT
194 TCCCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGACCT
* *
47496472 ACGCTCCTAGTTAATGTC
259 ACGCTCCTAGCTGATGTC
* ** * * * * *
47496490 ATAAAAGTTTTTC-GATTTAAGATTGTAACCTCTAAAATAGCTAGTGGACCTACATTCCCAGCTG
1 ATAAAGGTTTGCCAG-TTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTG
* * ** * * * ** *
47496554 ATTA-TCTAAGGGCTCACC-AGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACCTACGCTCC
65 A-TACTCTAAAGGCTCACCGA-TTTATGATCGCAACCTCTAACACAGCTAGCGAACCTATGCTCC
* * * * * ** *
47496617 CAATTGATGTCATAAAGGTTTACC-AGTTTAAAATCACAACCTCCAAAATAACTAGTGGACCTAT
128 CAACTGATGTCATAAAGGTTTGCCGA-TTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTAC
* * * * * * ***
47496681 GTTCCCAGCTGATACTCTAAAGGCTCACCAGTTTATTATCGCAACCTCCAACATAGCTAACAGAC
192 GTTCCCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGA-
* **
47496746 CTCTACACTCCTAGCTGAAATC
256 C-CTACGCTCCTAGCTGATGTC
* * * * * * *
47496768 ATAAATGTTTTCTAGTTTAAGATCGTAACATCCAAAACAACTAGC-GATCCTACGTTCCCAGCTG
1 ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGA-CCTACATTCCCAGCTG
** * ** * * * * * *
47496832 ATACT-TAAAAGGCTTGCTGATTTATGATTACAACCTCTAATACAACTTGTGTACCTATACTCCC
65 ATACTCT-AAAGGCTCACCGATTTATGATCGCAACCTCTAACACAGCTAGCGAACCTATGCTCCC
* ** * * * *
47496896 AACGGATGTCATAAAGGTTTTTCGATTTAAGATCGTAAACTCCAAAACAACTAGC-GAACCTACG
129 AACTGATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAG-ACCTACG
* * * * *
47496960 TTCCCAACTAATACTCTAAAGGCTCACCGATTTATGATCACAACCT-TCAACACAGCTAGTGGAC
193 TTCCCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCT-AACACAGCTAGTGGAC
*
47497024 CTACGCTCCTAACTGATGTC
257 CTACGCTCCTAGCTGATGTC
* * * * * *
47497044 ATAAACGTTTAG-CGGTTTAATATTGCAACCTCCAAAACAACTAGTGGACCTACATTC
1 ATAAAGGTTT-GCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTC
47497101 ACAATTGACA
Statistics
Matches: 1345, Mismatches: 335, Indels: 64
0.77 0.19 0.04
Matches are distributed among these distances:
274 210 0.16
275 247 0.18
276 668 0.50
277 14 0.01
278 203 0.15
279 3 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (276 bp):
ATAAAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAACAGCTAGCGGACCTACATTCCCAGCTGA
TACTCTAAAGGCTCACCGATTTATGATCGCAACCTCTAACACAGCTAGCGAACCTATGCTCCCAA
CTGATGTCATAAAGGTTTGCCGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACGTTC
CCAACTGATACTCTAAAGGCTCACCGGTTTATAATCGCAGCCTCTAACACAGCTAGTGGACCTAC
GCTCCTAGCTGATGTC
Found at i:47497077 original size:138 final size:137
Alignment explanation
Indices: 47495128--47497096 Score: 1269
Period size: 138 Copynumber: 14.3 Consensus size: 137
47495118 GGTATGTCAA
* * * * * * *
47495128 TTTAAGATCGCAATCTCCAAAACAACTAGAGAACCTCCATTCTCAGCTGATACTCTAAAGGCTTA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * * ** * *
47495193 TCGATTTATGATCGCAACCTCCGACATAGCTAGCGAACCTATGCTCCCAGTTGATATCATAAAAG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
* *
47495258 TTTTCTGA
131 TTTGC-GG
* ** * * * * * * * *
47495266 TTTGAGATCGCAACCTCCGGAACAGCTACCAAACATACATTTCCAACTGATACTGTAAAGGCTCG
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * * * * *
47495331 TCAATTTATAATCCCAGCCTCCAACACAACTAGTGAACCTACGCTCCCAACTGATGTCATAAAGG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
**
47495396 TTTGCCA
131 TTTGCGG
* * * * * * * *
47495403 ATTAAGATAGCAAACTCC-AAATAGCTAGCGAACCAACATTCCCAGCCGATACTCCAAAGGCTCA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * * * *
47495467 TCGGTTTATGATCGCAGCCTCCAACACAGCTAGCGAACCTATGCTTCCAACTGATGTCAAAAAGG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
** *
47495532 TAGGTCGT
131 TTTG-CGG
* *** * * **
47495540 TTTAAGATTGCAACCTTTGAAATAGCTAGC-AGACCTACATTCCCAATTGATACTCTAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGA-ACCTACGTTCCCAGCTGATACTCTAAAGGCTC
** * * * * * * * * * *
47495604 GTCGGTTTATAATCACAGCC-TCTAACATAGCTAGTGGACCTATGGTCCCAGCTGATGTCATAAA
65 ACCGATTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAA
*
47495668 GGTTTGCCAG
129 GGTTTG-CGG
* * *
47495678 TTTAAGATCGCAACCTCCAAAATAGTTAGC-AGACCTACGTTCCCAGCTAATACTCTAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGA-ACCTACGTTCCCAGCTGATACTCTAAAGGCTC
* * * * * *
47495742 ACCGATTTATGATC-CTAGCC-TCTAACATAGCTAGCGAACCTACACTTCCAA-TCAATGTTATA
65 ACCGATTTATGATCGC-AACCTTC-AACACAGCTAGCGAACCTACGCTCCCAACT-GATGTCATA
*
47495804 AAGGTTTACCGG
127 AAGGTTT-GCGG
* * * *** * *
47495816 TTTAAGATCGCAACCTCCAAAATAGCTAACGAACCTATGTTTTAAGTTGATACTTTAAAGGCTCA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * ** ** * * * *
47495881 CCGGTTTATGATTGCAACCTCCGGCACAGCTAATGGACCTACGCTCCTAGCTGATGTCATAAAAG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
47495946 TTTGGCGG
131 TTT-GCGG
* ** * *
47495954 TTTAAGATCGCAACCTCCAAAACAGCTAGTGGTCCTACGTTCCGAACTGATA-TGCTAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACT-CTAAAGGCTC
* * * * * * * *
47496018 ACCGATTTATGATCACAACCTTCAACACAACTAACAAACCTATGCTCCTAGCTGACGTCATAAAG
65 ACCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAG
* *
47496083 CTTTGCTGA
130 GTTTGC-GG
* * * * *
47496092 TTTAAGATCGCAACCTCCAAAATAGCTAGC-AGTCCTATGTTCCGAGCCGATACTCTAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGA-ACCTACGTTCCCAGCTGATACTCTAAAGGCTC
* * * * *
47496156 ACC-AGTTTATGATCGGAGCC-TCTGACACAACTAGCGGAA-CTACGCTCCCAAATGATGTCATA
65 ACCGA-TTTATGATCGCAACCTTC-AACACAGCTAGC-GAACCTACGCTCCCAACTGATGTCATA
*
47496218 AAGGTTTGTCAG
127 AAGGTTTG-CGG
* * * * * * ** * * *
47496230 TTTAAGATTGCAACCTTCAAAACAGTTAGCGGACCCACTTTCCTTGTTGATAATCTAAAGGCTCG
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * * *
47496295 TCGGTTTATGATCGCAACCTTCAACACAGCTAGCGGACCTATGCTCCCAACTAATGTCATGAAGG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
**
47496360 TTTGTTAG
131 TTTG-CGG
** * * * * * * *
47496368 TTTAAGATCATAACCTCCGAAACAACTA-CCAGACTTACATTCCCAGCTGATACTTTAAA-GCTT
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGA-ACCTACGTTCCCAGCTGATACTCTAAAGGCTC
** * * * * * * ** *
47496431 GTCGATTTATAATCGC-AGCATCTAACACGGCTAGCGAAACTACGCTCCTAGTTAATGTCATAAA
65 ACCGATTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCCAACTGATGTCAT-AA
* * *
47496495 AGTTTTTCGA
128 AGGTTTGCGG
* * * * * * * *
47496505 TTTAAGATTGTAACCTCTAAAATAGCTAGTGGACCTACATTCCCAGCTGATTA-TCTAAGGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGA-TACTCTAAAGGCTC
* ** * * * ** *
47496569 ACC-AGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACCTACGCTCCCAATTGATGTCATAAA
65 ACCGA-TTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAA
* *
47496633 GGTTTACCAG
129 GGTTT-GCGG
* * * * * * *
47496643 TTTAAAATCACAACCTCCAAAATAACTAGTGGACCTATGTTCCCAGCTGATACTCTAAAGGCTCA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * * * * * **
47496708 CC-AGTTTATTATCGCAACCTCCAACATAGCTAACAGACCTCTACACTCCTAGCTGAAATCATAA
66 CCGA-TTTATGATCGCAACCTTCAACACAGCTAGC-GAAC-CTACGCTCCCAACTGATGTCATAA
* * *
47496772 ATGTTTTCTAG
128 AGGTTTGC-GG
* * * * *
47496783 TTTAAGATCGTAACATCCAAAACAACTAGCGATCCTACGTTCCCAGCTGATACT-TAAAAGGCTT
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCT-AAAGGCTC
* * ** * * * * * ** *
47496847 GCTGATTTATGATTACAACC-TCTAATACAACTTGTGTACCTATACTCCCAACGGATGTCATAAA
65 ACCGATTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAA
* *
47496911 GGTTTTTCGA
129 GG-TTTGCGG
* * * * *
47496921 TTTAAGATCGTAAACTCCAAAACAACTAGCGAACCTACGTTCCCAACTAATACTCTAAAGGCTCA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
* * * * *
47496986 CCGATTTATGATCACAACCTTCAACACAGCTAGTGGACCTACGCTCCTAACTGATGTCATAAACG
66 CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
47497051 TTTAGCGG
131 TTT-GCGG
* * * * *
47497059 TTTAATATTGCAACCTCCAAAACAACTAGTGGACCTAC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTAC
47497097 ATTCACAATT
Statistics
Matches: 1421, Mismatches: 367, Indels: 86
0.76 0.20 0.05
Matches are distributed among these distances:
136 96 0.07
137 146 0.10
138 1055 0.74
139 27 0.02
140 96 0.07
141 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (137 bp):
TTTAAGATCGCAACCTCCAAAACAGCTAGCGAACCTACGTTCCCAGCTGATACTCTAAAGGCTCA
CCGATTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAACTGATGTCATAAAGG
TTTGCGG
Found at i:47500552 original size:21 final size:21
Alignment explanation
Indices: 47500522--47500576 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
47500512 AAAACTGAAA
* *
47500522 ACACGACCGTGTGGCTACCCC
1 ACACGCCCGTGTGACTACCCC
*
47500543 ACACGCCCGTGTGACTACTCC
1 ACACGCCCGTGTGACTACCCC
*
47500564 ACACACCCGTGTG
1 ACACGCCCGTGTG
47500577 CTCAGACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.42, G:0.22, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGACTACCCC
Found at i:47501702 original size:13 final size:13
Alignment explanation
Indices: 47501664--47501706 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
47501654 ATATCTATAC
*
47501664 TCATAAAAACATT
1 TCATATAAACATT
* *
47501677 TCGTATAACCATT
1 TCATATAAACATT
*
47501690 TCATCTAAACATT
1 TCATATAAACATT
47501703 TCAT
1 TCAT
47501707 TCTACCATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (13 bp):
TCATATAAACATT
Found at i:47501705 original size:53 final size:52
Alignment explanation
Indices: 47501599--47501706 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 52
47501589 CCCTTTTTTA
* * * * *
47501599 CATATTCTATATTCCTAAAAATATTTCGTATAAACACTTCATCTATCTGTTT
1 CATATTCTATACTCATAAAAACATTTCGTATAAACACTTCATCTAACTATTT
* *
47501651 CATATATCTATACTCATAAAAACATTTCGTATAACCATTTCATCTAAAC-ATTT
1 CATAT-TCTATACTCATAAAAACATTTCGTATAAACACTTCATCT-AACTATTT
47501704 CAT
1 CAT
47501707 TCTACCATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
52 5 0.11
53 40 0.85
54 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (52 bp):
CATATTCTATACTCATAAAAACATTTCGTATAAACACTTCATCTAACTATTT
Found at i:47502706 original size:13 final size:13
Alignment explanation
Indices: 47502684--47502720 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
47502674 CAAAATTTAC
*
47502684 ACTTTTACCTTGA
1 ACTTTCACCTTGA
47502697 ACTTTCACCTTGA
1 ACTTTCACCTTGA
47502710 ACTTTCACCTT
1 ACTTTCACCTT
47502721 TTATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (13 bp):
ACTTTCACCTTGA
Found at i:47509611 original size:17 final size:17
Alignment explanation
Indices: 47509591--47509642 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
47509581 AGCTCACACC
47509591 TTTGGTGAGCTTGCACA
1 TTTGGTGAGCTTGCACA
47509608 TTTGGTGAGCTTGCAGC-
1 TTTGGTGAGCTTGCA-CA
*
47509625 TTTGGTGAGCTCGCACA
1 TTTGGTGAGCTTGCACA
47509642 T
1 T
47509643 ATGATAACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 1 0.03
17 30 0.94
18 1 0.03
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (17 bp):
TTTGGTGAGCTTGCACA
Found at i:47509705 original size:17 final size:18
Alignment explanation
Indices: 47509688--47509748 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
47509678 TTTTAGGCTT
* *
47509688 GTATCTTTGGCTG-GCTT
1 GTATCTTTGGATGAGCTC
*
47509705 GTATATTTGGATGAGCTC
1 GTATCTTTGGATGAGCTC
* *
47509723 GCATCTTTGGGTGAGCTC
1 GTATCTTTGGATGAGCTC
47509741 GTATCTTT
1 GTATCTTT
47509749 ACAATCTATG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 11 0.31
18 25 0.69
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.43
Consensus pattern (18 bp):
GTATCTTTGGATGAGCTC
Found at i:47517001 original size:23 final size:22
Alignment explanation
Indices: 47516975--47517024 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 22
47516965 TCAAAAGTAT
47516975 ATCAATTTAACTTACTATAATC
1 ATCAATTTAACTTACTATAATC
47516997 AATCAATTTAACTTACTATAATC
1 -ATCAATTTAACTTACTATAATC
47517020 ATCAA
1 ATCAA
47517025 GTCATCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCAATTTAACTTACTATAATC
Found at i:47518096 original size:32 final size:32
Alignment explanation
Indices: 47518060--47518496 Score: 385
Period size: 32 Copynumber: 13.7 Consensus size: 32
47518050 ATAAATACAA
*
47518060 ATACAAATT-AATTCGGCAATAGGTGTATACTT
1 ATAC-AATTCAATTCGGCAATAGGTGTATACCT
** *** *
47518092 ATACAATTCAATTCGGTGATATAAGTATACAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
*
47518124 ATAAAATTCAATTCGGCAATAGGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* **** **
47518156 ATACAATTCAATTCGGCTATATAAATATAAAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
47518188 ATACAATTCAATTCGGCAATAGGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* * *** **
47518220 ATACAATTCCATTCGGTAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* * *
47518252 ACACAATTCAATTCGGTAATAAGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* *** **
47518284 ATACAATTCCATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
*
47518316 ATACAATTCAATTCGACAATAGGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
*** **
47518348 ATACAATTCAATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* *
47518380 ATACAATTCAATTCGGTAATAGGTGTATACTT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
**** **
47518412 ATACAATTCAATTCGGCAATATAAATATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCT
* * *
47518444 ATACAATTCAATTCGACAAAATAAGTATATA--T
1 ATACAATTCAATTCGGC--AATAGGTGTATACCT
*
47518476 ATACAATTCAATTCAGCAATA
1 ATACAATTCAATTCGGCAATA
47518497 TATAAAACAT
Statistics
Matches: 320, Mismatches: 82, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
30 4 0.01
31 4 0.01
32 303 0.95
34 9 0.03
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (32 bp):
ATACAATTCAATTCGGCAATAGGTGTATACCT
Done.