Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 6 of 39
Found at i:688950 original size:15 final size:15
Alignment explanation
Indices: 688903--688955 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 15
688893 TGGATCAGTC
*
688903 TCGGGTTTAGGTTCTC
1 TCGGGTTTA-GTTCTT
*
688919 TCGGGTTTGGATTCTT
1 TCGGGTTTAG-TTCTT
688935 TCGGGTTTAGTTCTT
1 TCGGGTTTAGTTCTT
688950 TCGGGT
1 TCGGGT
688956 ACTGGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.06, C:0.15, G:0.32, T:0.47
Consensus pattern (15 bp):
TCGGGTTTAGTTCTT
Found at i:689021 original size:16 final size:16
Alignment explanation
Indices: 688986--689026 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
688976 GCTGTCTCAG
* **
688986 GTTCAGGCTATTTCGG
1 GTTCAGGTTATTTCAA
689002 GTTCAGGTTATTTCAA
1 GTTCAGGTTATTTCAA
689018 GTTCAGGTT
1 GTTCAGGTT
689027 TTTGACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.41
Consensus pattern (16 bp):
GTTCAGGTTATTTCAA
Found at i:689851 original size:21 final size:21
Alignment explanation
Indices: 689827--689867 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
689817 CAAAGTAAAA
689827 ATACATAAT-GTATCAATACAT
1 ATAC-TAATGGTATCAATACAT
*
689848 ATACTATTGGTATCAATACA
1 ATACTAATGGTATCAATACA
689868 CAAGGTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (21 bp):
ATACTAATGGTATCAATACAT
Found at i:689965 original size:13 final size:13
Alignment explanation
Indices: 689947--689972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
689937 ATTTTGCTTA
689947 GTATCGATACATT
1 GTATCGATACATT
689960 GTATCGATACATT
1 GTATCGATACATT
689973 AAAATTGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:690042 original size:32 final size:32
Alignment explanation
Indices: 690001--690063 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
689991 ATCATATTTT
690001 TCATTGTTCATAACTT-TTCATGTATCGATACA
1 TCATTGTTCATAA-TTGTTCATGTATCGATACA
* *
690033 TCATTGTTCATTATTGTTGATGTATCGATAC
1 TCATTGTTCATAATTGTTCATGTATCGATAC
690064 CTTGTGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (32 bp):
TCATTGTTCATAATTGTTCATGTATCGATACA
Found at i:690168 original size:20 final size:21
Alignment explanation
Indices: 690122--690168 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
690112 ATTTTCAAAT
*
690122 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTAGGA
690143 --ATTGTATCGATACA-TAGGA
1 GCA-TGTATCGATACATTAGGA
690162 GCATGTA
1 GCATGTA
690169 AGTGTGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GCATGTATCGATACATTAGGA
Found at i:692169 original size:32 final size:30
Alignment explanation
Indices: 692133--692191 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
692123 GAAATCAAAT
692133 ACAAAGAGCT-TAGAAAAATAATAACAATATAA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATAA
*
692165 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
692192 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATAA
Found at i:692490 original size:13 final size:13
Alignment explanation
Indices: 692472--692497 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
692462 ATATTTTTTG
692472 TGTATCGATACAT
1 TGTATCGATACAT
692485 TGTATCGATACAT
1 TGTATCGATACAT
692498 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:692508 original size:32 final size:33
Alignment explanation
Indices: 692451--692515 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
692441 TACAAGCCAA
692451 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
692485 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
692516 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:692509 original size:19 final size:19
Alignment explanation
Indices: 692451--692515 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
692441 TACAAGCCAA
692451 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
692472 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
692485 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
692504 TGTATCGATACA
1 TGTATCGATACA
692516 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:694577 original size:21 final size:20
Alignment explanation
Indices: 694548--694590 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
694538 GACTAGTGTG
* *
694548 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
694569 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
694589 GG
1 GG
694591 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:695043 original size:13 final size:13
Alignment explanation
Indices: 695021--695058 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
695011 ATAATCCCCC
*
695021 TGTATTGATACAG
1 TGTATCGATACAG
*
695034 TGTATCGATACAT
1 TGTATCGATACAG
695047 TGTATCGATACA
1 TGTATCGATACA
695059 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:697160 original size:15 final size:15
Alignment explanation
Indices: 697140--697170 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
697130 ATTTCGTTTG
*
697140 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
697155 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
697170 G
1 G
697171 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:699003 original size:21 final size:21
Alignment explanation
Indices: 698974--699018 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
698964 AAGTTTTTAT
*
698974 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
698994 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
699016 TTT
1 TTT
699019 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:700934 original size:32 final size:30
Alignment explanation
Indices: 700898--700956 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
700888 GAAATCAAAT
700898 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
700930 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
700957 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:701273 original size:32 final size:33
Alignment explanation
Indices: 701216--701280 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
701206 TACAAGCCAA
*
701216 TGTATTGATACATATTTTTTGTGTATCAATACAT
1 TGTATCGATACATA-TTTTTGTGTATCAATACAT
*
701250 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCAATACA
701281 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.55
34 13 0.45
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCAATACAT
Found at i:702129 original size:21 final size:21
Alignment explanation
Indices: 702105--702163 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
702095 TAATATCCTT
* *
702105 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
702126 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
702147 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
702164 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:702932 original size:15 final size:15
Alignment explanation
Indices: 702914--702953 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
702904 TCTTGTTTTT
*
702914 TTTATTGCTTGATAA
1 TTTAGTGCTTGATAA
702929 TTTAGTGCTTGATAA
1 TTTAGTGCTTGATAA
702944 TTTAGTGCTT
1 TTTAGTGCTT
702954 AATTGCCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (15 bp):
TTTAGTGCTTGATAA
Found at i:708890 original size:19 final size:19
Alignment explanation
Indices: 708866--708902 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
708856 ATGTTGAAAT
*
708866 AAAAAAAAAGAAGAAAAAG
1 AAAAAAAAAAAAGAAAAAG
708885 AAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAGAAAAA
708903 AATGGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAGAAAAAG
Found at i:708894 original size:22 final size:22
Alignment explanation
Indices: 708861--708904 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
708851 TAAGCATGTT
708861 GAAATAAAAAAAAAGAAGAAAAA
1 GAAATAAAAAAAAAGAA-AAAAA
708884 GAAA-AAAAAAAAAGAAAAAAA
1 GAAATAAAAAAAAAGAAAAAAA
708905 TGGAGAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (22 bp):
GAAATAAAAAAAAAGAAAAAAA
Found at i:708895 original size:13 final size:13
Alignment explanation
Indices: 708866--708904 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
708856 ATGTTGAAAT
*
708866 AAAAAA-AAAGAA
1 AAAAAAGAAAAAA
*
708878 GAAAAAGAAAAAA
1 AAAAAAGAAAAAA
708891 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
708904 A
1 A
708905 TGGAGAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:709868 original size:87 final size:87
Alignment explanation
Indices: 709710--710027 Score: 254
Period size: 87 Copynumber: 3.6 Consensus size: 87
709700 CCTACATTTG
* * * ** * * *
709710 CATTTTAAATGACATT-GATATTTGCATCATTGCATATGAATTTATC-CTTTATTTATTCTTGCA
1 CATTTTAGATAACATTAG-TATTTGCATCATTTCATATG-ATTTGCCACTTTATTGATACCTGCA
* * *
709773 ATTACATCATTTCACGCATATCTA
64 TTTGCATCATTTCACGCACATCTA
* *
709797 CATTTTAGATAACATTAGCATTCGCATCATTTCATATGCATTTGCCACTTT-TTGATACCTGCAT
1 CATTTTAGATAACATTAGTATTTGCATCATTTCATATG-ATTTGCCACTTTATTGATACCTGCAT
* * * *
709861 TTGCATCATTTAACGTACATGTG
65 TTGCATCATTTCACGCACATCTA
* * * ** * *
709884 CATTTTAGATGACA--ACGATATTTGCAAT-ATTTCGTATAAATTTGCCTTTTTATTGATGCTTG
1 CATTTTAGATAACATTA-G-TATTTGC-ATCATTTCATAT-GATTTGCCACTTTATTGATACCTG
** * *
709946 CATTTGTGTCGTTTCATGCACATCTA
62 CATTTGCATCATTTCACGCACATCTA
*
709972 CATTTTGGATAACATTAGTATTTGCATCATTTCATATG-TGTTGCCACTTTATTGAT
1 CATTTTAGATAACATTAGTATTTGCATCATTTCATATGAT-TTGCCACTTTATTGAT
710028 GCTACATTTA
Statistics
Matches: 179, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
85 1 0.01
86 2 0.01
87 114 0.64
88 60 0.34
89 1 0.01
90 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (87 bp):
CATTTTAGATAACATTAGTATTTGCATCATTTCATATGATTTGCCACTTTATTGATACCTGCATT
TGCATCATTTCACGCACATCTA
Found at i:710677 original size:181 final size:182
Alignment explanation
Indices: 710306--710762 Score: 547
Period size: 181 Copynumber: 2.5 Consensus size: 182
710296 TGGAGTCCAC
*
710306 ACATTTCC-AATCATATCCATCTTTC--TCAACCACTAGATGGTACTGATGCATCATAAAGCCTG
1 ACATTTCCTAATCATATCC--CTTTCATTCAACCACTAGATAGTACTGATGCATCATAAAGCCTG
* * *
710368 A-TTTTCCTAAGGCAAAGGTGTAGCCCATACA-TTCCTAATCATATTTCCCCTTCTTAAACACTA
64 ATTTTTCTTAAGGCAAAGGTGTAGCCCATACATTTCCCAATCATATTTCCCCTTCTTAAACACCA
* * * * *
710431 GATGGTACTGATGCATCACAAAGCCTGATTTTCCTGGGGCAAAGGTGCAACCCGT
129 GAAGATACTGATACATCACAAAGCCTGA-TTACCTGGGGCAAAGGTGCAACCCAT
*
710486 ACATTTCCTAATCATATCCCTTTCATTCAACTACTAGATAGTACTGATGCATCATAAAGCCTGAT
1 ACATTTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCATAAAGCCTGAT
*** * *
710551 TTTTCTTAAGGCAAAGGTGTAGCCCATACATTTCCCAATCATATCTTTTTCTT-TTAATCGCCAG
66 TTTTCTTAAGGCAAAGGTGTAGCCCATACATTTCCCAATCATAT-TTCCCCTTCTTAAACACCAG
* *
710615 AAGATATTGATACATTC-CAAAGCCTGA-TACCTTGGGGCAAAGGTTCAACCCAT
130 AAGATACTGATACA-TCACAAAGCCTGATTACC-TGGGGCAAAGGTGCAACCCAT
* * * * *
710668 ACA-TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTATTGGTGCATCACAAAACTTGAT
1 ACATTTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCATAAAGCCTGAT
* * * * *
710732 TTCT-TTAGGGTAAGGGTGCAGCCCATACATT
66 TTTTCTTAAGGCAAAGGTGTAGCCCATACATT
710763 CTTAATCATA
Statistics
Matches: 241, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
179 5 0.02
180 31 0.13
181 107 0.44
182 51 0.21
183 40 0.17
184 7 0.03
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (182 bp):
ACATTTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCATAAAGCCTGAT
TTTTCTTAAGGCAAAGGTGTAGCCCATACATTTCCCAATCATATTTCCCCTTCTTAAACACCAGA
AGATACTGATACATCACAAAGCCTGATTACCTGGGGCAAAGGTGCAACCCAT
Found at i:710823 original size:90 final size:91
Alignment explanation
Indices: 710310--710834 Score: 502
Period size: 90 Copynumber: 5.8 Consensus size: 91
710300 GTCCACACAT
* *
710310 TTCC-AATCATATCCATCTTTC--TCAACCACTAGATGGTACTGATGCATCATAAAGCCTGATTT
1 TTCCTAATCATATCC--CTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTT
* * *
710372 -TCCTAAGGCAAAGGTGTAGCCCATACA
64 CTCTTAGGGCAAAGGTGCAGCCCATACA
* * *
710399 TTCCTAATCATATTTCCCCTTC-TT-AAACACTAGATGGTACTGATGCATCACAAAGCCTGATTT
1 TTCCTAATCATA--TCCCTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTT
* * * *
710462 -TCCTGGGGCAAAGGTGCAACCCGTACA
64 CTCTTAGGGCAAAGGTGCAGCCCATACA
* * *
710489 TTTCCTAATCATATCCCTTTCATTCAACTACTAGATAGTACTGATGCATCATAAAGCCTGATTTT
1 -TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTTC
* *
710554 TCTTAAGGCAAAGGTGTAGCCCATACA
65 TCTTAGGGCAAAGGTGCAGCCCATACA
* ** * * * * * * *
710581 TTTCCCAATCATATCTTTTTCTTTTAATCGCCAGA-AGATATTGATACATTC-CAAAGCCTGA-T
1 -TTCCTAATCATATCCCTTTCATTCAACCACTAGATAG-TACTGATGCA-TCACAAAGCCTGATT
* * * *
710643 AC-CTTGGGGCAAAGGTTCAACCCATACA
63 TCTCTTAGGGCAAAGGTGCAGCCCATACA
* * * *
710671 TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTATTGGTGCATCACAAAACTTGATTTCT
1 TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTTCT
* *
710736 -TTAGGGTAAGGGTGCAGCCCATACA
66 CTTAGGGCAAAGGTGCAGCCCATACA
* * *
710761 TTCTTAATCATATCCCTTTCATTCAACCATTAGATAGTATTGATGCATCACAAAG-CTGGATTTC
1 TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCT-GATTTC
*
710825 T-TTGGGGCAA
65 TCTTAGGGCAA
710835 GGATATCCCA
Statistics
Matches: 358, Mismatches: 63, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
88 2 0.01
89 54 0.15
90 182 0.51
91 51 0.14
92 67 0.19
93 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (91 bp):
TTCCTAATCATATCCCTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTTCT
CTTAGGGCAAAGGTGCAGCCCATACA
Found at i:710865 original size:271 final size:271
Alignment explanation
Indices: 710378--710877 Score: 604
Period size: 271 Copynumber: 1.8 Consensus size: 271
710368 ATTTTCCTAA
* *
710378 GGCAAAGGTGTAGCCCATACATTCCTAATCATATTTCCCCTTCTTAAACACTAGATGGTACTGAT
1 GGCAAAGGTGTAACCCATACATTCCTAATCATA-TTCCCCTTCTTAAACACTAGATAGTACTGAT
* * *
710443 GCATCACAAAGCCTGATTTTCCTGGGGCAAAGGTGCAACCCGTACATTTCCTAATCATATCCCTT
65 GCATCACAAAACCTGATTTTCCTAGGGCAAAGGTGCAACCCATACATTTCCTAATCATATCCCTT
* * * *
710508 TCATTCAACTACTAGATAGTACTGATGCATCATAAAGCCTGATTTTTCTTAAGGCAAAGGTGTAG
130 TCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTTCTCTTAAGGCAAAGGTATAG
* *
710573 CCCATACATTTCCCAATCATATCTTTTTCTTTTAATCGCCAGAAGATATTGATACATTCCAAAGC
195 CCCATACATTTCCCAATCATATCCTTTTATTTTAATCGCCAGAAGATATTGATACATTCCAAAGC
710638 CTGATACCTTGG
260 CTGATACCTTGG
* * *
710650 GGCAAAGGT-TCAACCCATACATTCCTAATCATA-TCCCTTTCATTCAACCACTAGATAGTATTG
1 GGCAAAGGTGT-AACCCATACATTCCTAATCATATTCCCCTTC-TT-AAACACTAGATAGTACTG
* * * * * * *
710713 GTGCATCACAAAACTTGA-TTTCTTTAGGGTAAGGGTGCAGCCCATACA-TTCTTAATCATATCC
63 ATGCATCACAAAACCTGATTTTC-CTAGGGCAAAGGTGCAACCCATACATTTCCTAATCATATCC
* * **
710776 CTTTCATTCAACCATTAGATAGTATTGATGCATCACAAAG-CTGGATTTCT-TTGGGGC-AAGG-
127 CTTTCATTCAACCACTAGATAGTACTGATGCATCACAAAGCCT-GATTTCTCTTAAGGCAAAGGT
* *
710837 ATATCCCA-ACCATTTATTCCTAATCATATCCTTTTATTTTA
191 ATAGCCCATA-CA--T-TTCCCAATCATATCCTTTTATTTTA
710878 GCCATTAGAT
Statistics
Matches: 192, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
267 1 0.01
268 8 0.04
269 4 0.02
270 15 0.08
271 85 0.44
272 79 0.41
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (271 bp):
GGCAAAGGTGTAACCCATACATTCCTAATCATATTCCCCTTCTTAAACACTAGATAGTACTGATG
CATCACAAAACCTGATTTTCCTAGGGCAAAGGTGCAACCCATACATTTCCTAATCATATCCCTTT
CATTCAACCACTAGATAGTACTGATGCATCACAAAGCCTGATTTCTCTTAAGGCAAAGGTATAGC
CCATACATTTCCCAATCATATCCTTTTATTTTAATCGCCAGAAGATATTGATACATTCCAAAGCC
TGATACCTTGG
Found at i:711054 original size:30 final size:30
Alignment explanation
Indices: 711018--711310 Score: 112
Period size: 30 Copynumber: 9.7 Consensus size: 30
711008 GTTTTTCCTC
* *
711018 ATTTGATTGTACTT-GGTTAAGTCTTTACTT
1 ATTTGATTGTA-TTCGGTCAAGACTTTACTT
*
711048 ATTTGATTGTATTCGGTCAAGACTTTCCTT
1 ATTTGATTGTATTCGGTCAAGACTTTACTT
* * * * *
711078 ATTTGACTATATTCAGCCAA-A-TTTCACCCTC
1 ATTTGATTGTATTCGGTCAAGACTTT-A--CTT
** * * * * *
711109 GCTTGACTATATTCGATCAAGACTTTCCTC
1 ATTTGATTGTATTCGGTCAAGACTTTACTT
* *
711139 ATTTGATTGTATTCGATCAA-ATTTTACCTT
1 ATTTGATTGTATTCGGTCAAGACTTTA-CTT
* * * * *
711169 CACTTGACTGTATTTGGTCAAGACTTTCCTC
1 -ATTTGATTGTATTCGGTCAAGACTTTACTT
* * * *
711200 ATTTGACTATATTCGATCAA-A-TTTCACCCT
1 ATTTGATTGTATTCGGTCAAGACTTT-A-CTT
* * * * *
711230 CTCTTGATTGTATTTGGTCAAGTCTTTCCTC
1 AT-TTGATTGTATTCGGTCAAGACTTTACTT
* * ** * * *
711261 ATTTGACTATATTCAATTAAGACTCTCCTT
1 ATTTGATTGTATTCGGTCAAGACTTTACTT
*
711291 ATTTGATTGTATTCGATCAA
1 ATTTGATTGTATTCGGTCAA
711311 ATTTCACCCT
Statistics
Matches: 190, Mismatches: 59, Indels: 28
0.69 0.21 0.10
Matches are distributed among these distances:
28 6 0.03
29 8 0.04
30 114 0.60
31 51 0.27
32 5 0.03
33 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (30 bp):
ATTTGATTGTATTCGGTCAAGACTTTACTT
Found at i:711130 original size:61 final size:61
Alignment explanation
Indices: 711050--711274 Score: 299
Period size: 61 Copynumber: 3.7 Consensus size: 61
711040 CTTTACTTAT
* * * *
711050 TTGATTGTATTCGGTCAAGACTTTCCTTATTTGACTATATTC-AGCCAAATTTCACCCTCGC
1 TTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTATATTCGA-TCAAATTTCACCCTCAC
* * * * * *
711111 TTGACTATATTCGATCAAGACTTTCCTCATTTGATTGTATTCGATCAAATTTTACCTTCAC
1 TTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTATATTCGATCAAATTTCACCCTCAC
* *
711172 TTGACTGTATTTGGTCAAGACTTTCCTCATTTGACTATATTCGATCAAATTTCACCCTCTC
1 TTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTATATTCGATCAAATTTCACCCTCAC
* * *
711233 TTGATTGTATTTGGTCAAGTCTTTCCTCATTTGACTATATTC
1 TTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTATATTC
711275 AATTAAGACT
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
61 142 0.99
62 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (61 bp):
TTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTATATTCGATCAAATTTCACCCTCAC
Found at i:711209 original size:122 final size:121
Alignment explanation
Indices: 711011--711266 Score: 329
Period size: 122 Copynumber: 2.1 Consensus size: 121
711001 CGGTAACGTT
* * * * *
711011 TTTCCTCATTTGATTGTACTTGGTTAAGTCTTTACTTATTTGATTGTATTCGGTCAAGACTTTCC
1 TTTCCTCATTTGATTGTACTTGATCAAATCTTTACTTACTTGACTGTATTCGGTCAAGACTTTCC
*
711076 TTATTTGACTATATTC-AGCCAAATTTCACCCTCGCTTGACTATATTCGATCAAGAC
66 TCATTTGACTATATTCGA-CCAAATTTCACCCTCGCTTGACTATATTCGATCAAGAC
*
711132 TTTCCTCATTTGATTGTA-TTCGATCAAAT-TTTACCTTCACTTGACTGTATTTGGTCAAGACTT
1 TTTCCTCATTTGATTGTACTT-GATCAAATCTTTA-CTT-ACTTGACTGTATTCGGTCAAGACTT
* * * * * * *
711195 TCCTCATTTGACTATATTCGATCAAATTTCACCCTCTCTTGATTGTATTTGGTCAAGTC
63 TCCTCATTTGACTATATTCGACCAAATTTCACCCTCGCTTGACTATATTCGATCAAGAC
711254 TTTCCTCATTTGA
1 TTTCCTCATTTGA
711267 CTATATTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
120 6 0.05
121 26 0.22
122 84 0.72
123 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (121 bp):
TTTCCTCATTTGATTGTACTTGATCAAATCTTTACTTACTTGACTGTATTCGGTCAAGACTTTCC
TCATTTGACTATATTCGACCAAATTTCACCCTCGCTTGACTATATTCGATCAAGAC
Found at i:711267 original size:91 final size:90
Alignment explanation
Indices: 711050--711359 Score: 281
Period size: 91 Copynumber: 3.4 Consensus size: 90
711040 CTTTACTTAT
* * * **
711050 TTGATTGTATTCGGTCAAGACTTTCCTTATTTGACTATATTCAGCCAAA-TTTCACCCTCGCTTG
1 TTGATTGTATTCGGTCAAGTCTTTCCTCATTTGACTATATTCAGTCAAACTTT---CCTCATTTG
711114 ACTATATTCGATCAAGACTTT---CCTCAT-
63 ACTATATTCGATCAA-A-TTTCACCCTC-TC
* * * * **
711141 TTGATTGTATTCGATCAAAT-TTTACCTTCACTTGACTGTATTTGGTCAAGACTTTCCTCATTTG
1 TTGATTGTATTCGGTCAAGTCTTT-CC-TCATTTGACTATATTCAGTCAA-ACTTTCCTCATTTG
711205 ACTATATTCGATCAAATTTCACCCTCTC
63 ACTATATTCGATCAAATTTCACCCTCTC
* * * * * *
711233 TTGATTGTATTTGGTCAAGTCTTTCCTCATTTGACTATATTCAATTAAGACTCTCCTTATTTGAT
1 TTGATTGTATTCGGTCAAGTCTTTCCTCATTTGACTATATTCAGTCAA-ACTTTCCTCATTTGAC
* *
711298 TGTATTCGATCAAATTTCACCCTCGC
65 TATATTCGATCAAATTTCACCCTCTC
* * * *
711324 TTGAATGTACTCAGTCAAGTCTTTCCTTATTTGACT
1 TTGATTGTATTCGGTCAAGTCTTTCCTCATTTGACT
711360 GTACTTGGTC
Statistics
Matches: 180, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
89 3 0.02
90 4 0.02
91 127 0.71
92 39 0.22
93 4 0.02
94 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (90 bp):
TTGATTGTATTCGGTCAAGTCTTTCCTCATTTGACTATATTCAGTCAAACTTTCCTCATTTGACT
ATATTCGATCAAATTTCACCCTCTC
Found at i:711395 original size:91 final size:89
Alignment explanation
Indices: 711172--711396 Score: 229
Period size: 91 Copynumber: 2.5 Consensus size: 89
711162 TTACCTTCAC
*
711172 TTGACTGTATTTGGTCAAGACTTT-CCTCATTTGACTATATTCGATCAAATTTCACCCTCTCTTG
1 TTGACTGTA-TTGGTCAAGACTTTCCCTC--TTGACTATATTCGATCAAATTTCACCCTCGCTTG
* * **
711236 ATTGTATTTGGTCAAGTCTTTCCTCAT
63 AATGTACTCAGTCAAGTCTTTCCTCAT
* ** * * * * * *
711263 TTGACTATATTCAATTAAGACTCTCCTTATTTGATTGTATTCGATCAAATTTCACCCTCGCTTGA
1 TTGACTGTATT-GGTCAAGACTTTCCCT-CTTGACTATATTCGATCAAATTTCACCCTCGCTTGA
*
711328 ATGTACTCAGTCAAGTCTTTCCTTAT
64 ATGTACTCAGTCAAGTCTTTCCTCAT
711354 TTGACTGTACTTGGTCAA-ATCTTATCCCTCTTGACTATATTCG
1 TTGACTGTA-TTGGTCAAGA-CTT-TCCCTCTTGACTATATTCG
711397 GTTAAGACTT
Statistics
Matches: 104, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
90 3 0.03
91 93 0.89
92 8 0.08
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (89 bp):
TTGACTGTATTGGTCAAGACTTTCCCTCTTGACTATATTCGATCAAATTTCACCCTCGCTTGAAT
GTACTCAGTCAAGTCTTTCCTCAT
Found at i:711642 original size:47 final size:47
Alignment explanation
Indices: 711456--711992 Score: 466
Period size: 47 Copynumber: 11.6 Consensus size: 47
711446 GACTATTTGA
* * * *
711456 TCAAACTCTTCTCA-CCTTGTTTGATTGTATTGGCGTTAGGACCTAG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* * * *
711502 TCAAACT-TTC-CACCCTCATTTAACTATATTGGCTTTAGGA-CTGG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
** *
711546 TCAAACTCTTCTCA-CCTTATTTGACT-TATTGGCGTTAGGACCTGG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* * * * *
711591 TCAAACTTTTCTCACCTTTGTTTGACTGTAATGGCATTAGGACATGG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
** ** * * ** * **
711638 TCAAACTC-TCTCCACATTTATTTAATTGTATTAACGTTAAAACCTGG
1 TCAAACTCTTCT-CACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* * * * *
711685 TCAAACTCTTCTCACCCTCATTTAACTGCATTGGCATTAAGACCTAG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* *
711732 TCAAACTCTTCTCACCCTCGTTTGACTGCATTGGCATTAGGACTTGG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* * * * * *
711779 CCCAACTCTTCTCACCTTCGTTTGACTGTCTTGGCGTTAGGACTTGG
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* ** ** * *
711826 TCAAACTCTTCTAACTTTCGTTTGACTACATTGGCATT-GAAGCCTGA
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGA-CCTGG
* * * *
711873 TCAAACTCTTCTCACCTTCGTTTGACTGTATTAGCATTAAGACCT-A
1 TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
* * * *
711919 TCCAAACTCTT-TCCACCCTCGTTTGACTGCATTGGCGTT-GGGCTTGG
1 T-CAAACTCTTCT-CACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
711966 TCAAACTCTTCTCACCCTCGTTTGACT
1 TCAAACTCTTCTCACCCTCGTTTGACT
711993 AGCATTAGTC
Statistics
Matches: 402, Mismatches: 75, Indels: 28
0.80 0.15 0.06
Matches are distributed among these distances:
44 25 0.06
45 54 0.13
46 54 0.13
47 265 0.66
48 4 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (47 bp):
TCAAACTCTTCTCACCCTCGTTTGACTGTATTGGCATTAGGACCTGG
Found at i:711744 original size:141 final size:138
Alignment explanation
Indices: 711456--711992 Score: 521
Period size: 141 Copynumber: 3.9 Consensus size: 138
711446 GACTATTTGA
* * * * *
711456 TCAAACTCTTCTCACCTT-GTTTGATTGTATTGGCGTTAGGACCTAGTCAAACT-TTCCACCCTC
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGGACATGGTCAAACTCTTCCACCTTC
* * * * *
711519 ATTTAACTATATTGGCTTTAGGA-CTGGTCAAACTCTTCTCA-CCTTATTTGACTTATTGGCGTT
66 ATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCCTCATTTGACTCATTGGCATT
*
711582 AGGACCTGG
131 AAGACCT-G
* * * *
711591 TCAAACTTTTCTCACCTTTGTTTGACTGTAATGGCATTAGGACATGGTCAAACTCTCTCCACATT
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGGACATGGTCAAACTCT-TCCACCTT
* * ** ** *
711656 TATTTAATTGTATTAACGTTAAAACCTGGTCAAACTCTTCTCACCCTCATTTAACTGCATTGGCA
65 CATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCCTCATTTGACT-CATTGGCA
711721 TTAAGACCTAG
129 TTAAGACCT-G
* * * * *
711732 TCAAACTCTTCTCACCCTCGTTTGACTGCATTGGCATTAGGACTTGGCCCAACTCTTCTCACCTT
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGGACATGGTCAAACTCTTC-CACCTT
* * * * * ** *
711797 CGTTTGACTGTCTTGGCGTTAGGACTTGGTCAAACTCTTCTAACTTTCGTTTGACTACATTGGCA
65 CATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCCTCATTTGACT-CATTGGCA
711862 TTGAAG-CCTG
129 TT-AAGACCTG
* * * *
711872 ATCAAACTCTTCTCACCTTCGTTTGACTGTATTAGCATTAAGACCT-ATCCAAACTCTTTCCACC
1 -TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGGACATGGT-CAAACTC-TTCCACC
* * * * * * *
711936 CTCGTTTGACTGCATTGGCGTT-GGGCTTGGTCAAACTCTTCTCACCCTCGTTTGACT
63 TTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCCTCATTTGACT
711993 AGCATTAGTC
Statistics
Matches: 329, Mismatches: 62, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
135 17 0.05
136 30 0.09
137 1 0.00
138 22 0.07
139 18 0.05
140 44 0.13
141 191 0.58
142 6 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (138 bp):
TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGGACATGGTCAAACTCTTCCACCTTC
ATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCCTCATTTGACTCATTGGCATT
AAGACCTG
Found at i:712159 original size:41 final size:42
Alignment explanation
Indices: 712085--712165 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
712075 ATGGTTACCA
*
712085 CCCTGGTCAAACCCATCTAACCCATTAGCTTTATCGGTTTTG
1 CCCTGGTCAAACCCATCTAACCCATTAGCTTTATCAGTTTTG
* * *
712127 CCCTGG-CCAACCCGTCTAACCCATT-GTTTTTATCAGTTT
1 CCCTGGTCAAACCCATCTAACCCATTAG-CTTTATCAGTTT
712166 CACCCTAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.03
41 27 0.79
42 6 0.18
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.35
Consensus pattern (42 bp):
CCCTGGTCAAACCCATCTAACCCATTAGCTTTATCAGTTTTG
Found at i:712399 original size:37 final size:37
Alignment explanation
Indices: 712298--712501 Score: 104
Period size: 37 Copynumber: 5.3 Consensus size: 37
712288 TTTGTCTCGA
* * *
712298 TCAACTTCTTTCATTGGTTCGTACGGTTTCGTCCTGG
1 TCAACATCTTTCATTGGTTTGTATGGTTTCGTCCTGG
* * * * * *
712335 CTAATACCTTTTTCTTTGTTGACTTGTATGGTTTTGTCCTGG
1 -TCA-ACATCTTTCATTG--G-TTTGTATGGTTTCGTCCTGG
* * *
712377 TCAACGTCTTTCATTGGTTTGTATGGTTTCATCCCGG
1 TCAACATCTTTCATTGGTTTGTATGGTTTCGTCCTGG
* * * * ** * * *
712414 CCAACACCTTTCCTTTGTTGACTTGTACAGTTTTGTTCTAG
1 TCAACATCTTT-CATTG--G-TTTGTATGGTTTCGTCCTGG
* * *
712455 TCAACTTCTTTCATTGGTTCGTAGGGTTTCGTCCTGG
1 TCAACATCTTTCATTGGTTTGTATGGTTTCGTCCTGG
712492 TCAACA-CTTT
1 TCAACATCTTT
712502 TCCTTTGTTG
Statistics
Matches: 118, Mismatches: 40, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
36 4 0.03
37 42 0.36
38 8 0.07
39 10 0.08
40 15 0.13
41 23 0.19
42 16 0.14
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (37 bp):
TCAACATCTTTCATTGGTTTGTATGGTTTCGTCCTGG
Found at i:712465 original size:78 final size:78
Alignment explanation
Indices: 712232--712525 Score: 374
Period size: 78 Copynumber: 3.7 Consensus size: 78
712222 TTCTAACTCG
** * * *
712232 TTGGTTCGTATGGTTTCGTCCTAACCAACACCTTTCTTTTGTTGACTTGCATGGTTTT-TGTCTC
1 TTGGTTCGTATGGTTTCGTCCTGGCCAACACCTTTCCTTTGTTGACTTGTATGGTTTTGT-TCTA
712296 GATCAACTTCTTTCA
65 G-TCAACTTCTTTCA
* * * * * *
712311 TTGGTTCGTACGGTTTCGTCCTGGCTAATACCTTTTTCTTTGTTGACTTGTATGGTTTTGTCCTG
1 TTGGTTCGTATGGTTTCGTCCTGGCCAACACC-TTTCCTTTGTTGACTTGTATGGTTTTGTTCTA
*
712376 GTCAACGTCTTTCA
65 GTCAACTTCTTTCA
* * * **
712390 TTGGTTTGTATGGTTTCATCCCGGCCAACACCTTTCCTTTGTTGACTTGTACAGTTTTGTTCTAG
1 TTGGTTCGTATGGTTTCGTCCTGGCCAACACCTTTCCTTTGTTGACTTGTATGGTTTTGTTCTAG
712455 TCAACTTCTTTCA
66 TCAACTTCTTTCA
* * *
712468 TTGGTTCGTAGGGTTTCGTCCTGGTCAACACTTTTCCTTTGTTGACTTGTATGGTTTT
1 TTGGTTCGTATGGTTTCGTCCTGGCCAACACCTTTCCTTTGTTGACTTGTATGGTTTT
712526 TGTAGACACC
Statistics
Matches: 182, Mismatches: 31, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
78 90 0.49
79 65 0.36
80 26 0.14
81 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (78 bp):
TTGGTTCGTATGGTTTCGTCCTGGCCAACACCTTTCCTTTGTTGACTTGTATGGTTTTGTTCTAG
TCAACTTCTTTCA
Found at i:713991 original size:79 final size:79
Alignment explanation
Indices: 713874--714042 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 79
713864 GTGTTCATGT
* * **
713874 ATACTCTAACCTCGTTATTTTCGAGGGAATACTGCAACCTTGGTTTTATTTCCAAAACATCGATT
1 ATACTCTAACCTCATTATTTTCGAGGGAATACTCCAACCCCGGTTTTATTTCCAAAACATCGATT
**
713939 TTCCACAATGGGGG
66 TTCCACAATCAGGG
* *
713953 ATACTCTAATCCT-ATTATTTTCGAGAGG-GTACTCCAACCCCGGTTTTATTTCTAAAACATCGA
1 ATACTCTAA-CCTCATTATTTTCGAG-GGAATACTCCAACCCCGGTTTTATTTCCAAAACATCGA
*
714016 TTTTCCACCATCAGGG
64 TTTTCCACAATCAGGG
*
714032 ATACTCCAACC
1 ATACTCTAACC
714043 CCGATTTTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.03
79 71 0.91
80 5 0.06
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
ATACTCTAACCTCATTATTTTCGAGGGAATACTCCAACCCCGGTTTTATTTCCAAAACATCGATT
TTCCACAATCAGGG
Found at i:714043 original size:51 final size:51
Alignment explanation
Indices: 713978--714093 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
713968 TATTTTCGAG
* *
713978 AGGG-TACTCCAACCCCGGTTTTATTTCTAAAACA-TCGATTTTCCACCATC
1 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTCCACCATC
714028 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATC
1 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATC
**
714079 AAAGATACTCCAACC
1 AGGGATACTCCAACC
714094 TCGTTGTTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 4 0.07
51 55 0.92
52 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.29
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATC
Found at i:714166 original size:79 final size:78
Alignment explanation
Indices: 714028--714403 Score: 397
Period size: 79 Copynumber: 4.8 Consensus size: 78
714018 TTCCACCATC
* *
714028 AGGGATACTCCAACCC-CGATTTTATTTCTAAAACACTAATTTTCCACCATC-AAAGATACTCCA
1 AGGGATACTCCAACCCTAGATTTTATTTCTAAAACAC-GATTTTCCACCATCGAAA-ATACTCCA
714091 ACCTCGTTGTTTCGA
64 ACCTCGTTGTTTCGA
* * *
714106 AGGAGATACTCCAACCCTAG-TTTTATTTCTAAAACATCGACTTTCCACCTTTGAAAATACTCCA
1 AGG-GATACTCCAACCCTAGATTTTATTTCTAAAACA-CGATTTTCCACCATCGAAAATACTCCA
* *
714170 ACCCCGTTGTTTTTGA
64 ACCTCGTTG-TTTCGA
* * * * **
714186 AAGGATACTCCAA-CCTCGATTCTATTTCTAAAACACTGATTTTCAACCATCGAGGATACTCCAA
1 AGGGATACTCCAACCCTAGATTTTATTTCTAAAACAC-GATTTTCCACCATCGAAAATACTCCAA
*
714250 CCTCGTTATTTCGA
65 CCTCGTTGTTTCGA
* * * * *** *
714264 AGGGATACTCTAGCCCTA-ATCTTATTTCTAAAACACCGATTTTCTACCATCGGGGATATTCCAA
1 AGGGATACTCCAACCCTAGATTTTATTTCTAAAACA-CGATTTTCCACCATCGAAAATACTCCAA
714328 CCTCGTTGTTTCCGA
65 CCTCGTTGTTT-CGA
* *
714343 AGGGATACTCCAACCCT-GATTTTATTTCCAAAACATCGATTTTCCACAATC-AAAGATACTC
1 AGGGATACTCCAACCCTAGATTTTATTTCTAAAACA-CGATTTTCCACCATCGAAA-ATACTC
714404 TTACCCCAAT
Statistics
Matches: 246, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
78 72 0.29
79 162 0.66
80 12 0.05
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (78 bp):
AGGGATACTCCAACCCTAGATTTTATTTCTAAAACACGATTTTCCACCATCGAAAATACTCCAAC
CTCGTTGTTTCGA
Found at i:714245 original size:209 final size:209
Alignment explanation
Indices: 713874--714251 Score: 474
Period size: 209 Copynumber: 1.8 Consensus size: 209
713864 GTGTTCATGT
* * * * * * *
713874 ATACTCTAACCTCGTTATTTTCGAGGGAATACTGCAACCTTGGTTTTATTTCCAAAACATCGATT
1 ATACTCCAACCTCGTTAGTTTCGAAGGAATACTCCAACCCTAGTTTTATTTCCAAAACATCGACT
*** * * * * * * *
713939 TTCCACAATGGGGGATACTCTAATCCTATTATTTTCGAGAGGGTACTCCAACCCCGGTTTTATTT
66 TTCCACAATGGAAAATACTCCAACCCCATTATTTTCGAAAGGATACTCCAACCCCGATTCTATTT
*
714004 CTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATT
131 CTAAAACATCGATTTTCAACCATCAGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATT
714069 TTCCACCATCAAAG
196 TTCCACCATCAAAG
*
714083 ATACTCCAACCTCGTT-GTTTCGAAGGAGATACTCCAACCCTAGTTTTATTTCTAAAACATCGAC
1 ATACTCCAACCTCGTTAGTTTCGAAGGA-ATACTCCAACCCTAGTTTTATTTCCAAAACATCGAC
** * * * * *
714147 TTTCCACCTTTGAAAATACTCCAACCCCGTTGTTTTTGAAAGGATACTCCAACCTCGATTCTATT
65 TTTCCACAATGGAAAATACTCCAACCCCATTATTTTCGAAAGGATACTCCAACCCCGATTCTATT
714212 TCTAAAACA-CTGATTTTCAACCATC-GAGGATACTCCAACC
130 TCTAAAACATC-GATTTTCAACCATCAG-GGATACTCCAACC
714252 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
208 11 0.08
209 129 0.92
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (209 bp):
ATACTCCAACCTCGTTAGTTTCGAAGGAATACTCCAACCCTAGTTTTATTTCCAAAACATCGACT
TTCCACAATGGAAAATACTCCAACCCCATTATTTTCGAAAGGATACTCCAACCCCGATTCTATTT
CTAAAACATCGATTTTCAACCATCAGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATT
TTCCACCATCAAAG
Found at i:714369 original size:157 final size:158
Alignment explanation
Indices: 714028--714403 Score: 470
Period size: 157 Copynumber: 2.4 Consensus size: 158
714018 TTCCACCATC
* * *
714028 AGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATCAAAGATACTCCAAC
1 AGGGATACTCCAACCCTGATTTTATTTCTAAAACACTGATTTTCAACCATCAAAGATACTCCAAC
* * * * * *
714093 CTCGTTGTTTCGAAGGAGATACTCCAACCCTAGTTTTATTTCTAAAACATCGACTTTCCACCTTT
66 CTCGTTATTTCGAAGGAGATACTCCAACCCTAATCTTATTTCTAAAACACCGACTTTCCACCATC
**
714158 GAAAATACTCCAACCCCGTTGTTTTTGA
131 GAAAATACTCCAACCCCGTTGTTTCCGA
* * * *
714186 AAGGATACTCCAA-CCTCGATTCTATTTCTAAAACACTGATTTTCAACCATCGAGGATACTCCAA
1 AGGGATACTCCAACCCT-GATTTTATTTCTAAAACACTGATTTTCAACCATCAAAGATACTCCAA
* * * *
714250 CCTCGTTATTTCGAAGG-GATACTCTAGCCCTAATCTTATTTCTAAAACACCGATTTTCTACCAT
65 CCTCGTTATTTCGAAGGAGATACTCCAACCCTAATCTTATTTCTAAAACACCGACTTTCCACCAT
*** * *
714314 CGGGGATATTCCAACCTCGTTGTTTCCGA
130 CGAAAATACTCCAACCCCGTTGTTTCCGA
* * *
714343 AGGGATACTCCAACCCTGATTTTATTTCCAAAACA-TCGATTTTCCACAATCAAAGATACTC
1 AGGGATACTCCAACCCTGATTTTATTTCTAAAACACT-GATTTTCAACCATCAAAGATACTC
714404 TTACCCCAAT
Statistics
Matches: 184, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
156 1 0.01
157 110 0.60
158 73 0.40
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (158 bp):
AGGGATACTCCAACCCTGATTTTATTTCTAAAACACTGATTTTCAACCATCAAAGATACTCCAAC
CTCGTTATTTCGAAGGAGATACTCCAACCCTAATCTTATTTCTAAAACACCGACTTTCCACCATC
GAAAATACTCCAACCCCGTTGTTTCCGA
Found at i:714402 original size:51 final size:50
Alignment explanation
Indices: 714346--714466 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 50
714336 TTTCCGAAGG
714346 GATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACAATCAAA
1 GATACTCCAACCCT-ATTTTATTTCCAAAACATCGATTTTCCACAATCAAA
* * * * * * * * **
714397 GATACTCTTACCCCAATTTTTTTTCTAAAACGTCGATTTTTCACCATCGGA
1 GATACTC-CAACCCTATTTTATTTCCAAAACATCGATTTTCCACAATCAAA
714448 GATACTCCAACCCTATTTT
1 GATACTCCAACCCTATTTT
714467 TCGAAGGGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 9 0.16
51 43 0.77
52 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (50 bp):
GATACTCCAACCCTATTTTATTTCCAAAACATCGATTTTCCACAATCAAA
Found at i:726743 original size:13 final size:12
Alignment explanation
Indices: 726707--726756 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
726697 CATTTTTCTA
726707 AAAAAAAAAAAC
1 AAAAAAAAAAAC
726719 AAACAAAAAAAAC
1 AAA-AAAAAAAAC
* *
726732 AAAATAATAAAAG
1 AAAA-AAAAAAAC
726745 AAAAAAGAAAAA
1 AAAAAA-AAAAA
726757 AAGAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.19
13 26 0.81
ACGTcount: A:0.86, C:0.06, G:0.04, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:726750 original size:15 final size:15
Alignment explanation
Indices: 726707--726763 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
726697 CATTTTTCTA
* *
726707 AAAAAAAAAAACAAAC
1 AAAAAAAGAAA-AAAG
* *
726723 AAAAAAA-ACAAAAT
1 AAAAAAAGAAAAAAG
*
726737 AATAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
726752 AAAAAAAGAAAA
1 AAAAAAAGAAAA
726764 GAAAAGAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 9 0.26
15 18 0.53
16 7 0.21
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.04
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:726763 original size:13 final size:13
Alignment explanation
Indices: 726706--726768 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
726696 TCATTTTTCT
*
726706 AAAAAAAAAAAAC
1 AAAAAAAGAAAAC
726719 AAACAAAA-AAAAC
1 AAA-AAAAGAAAAC
* *
726732 AAAATAATAAAA-
1 AAAAAAAGAAAAC
*
726744 GAAAAAAGAAAA-
1 AAAAAAAGAAAAC
726756 AAAGAAAAGAAAA
1 AAA-AAAAGAAAA
726769 GAACCTACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
12 14 0.33
13 24 0.57
14 4 0.10
ACGTcount: A:0.86, C:0.05, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAAAC
Found at i:727815 original size:61 final size:61
Alignment explanation
Indices: 727739--728187 Score: 485
Period size: 61 Copynumber: 7.3 Consensus size: 61
727729 ACCTTTTTAT
* *
727739 CTTTTCAGTCTTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTT-AGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
727801 CTTTTAGTCTTCAAAGAGCAGGACAAT-TCTTTT--TTGTTAAAGCCTACACAAGTTGGTGCCAC
1 CTTTTAGTCCTCAAAGAGCAGG---ATGTCTTTTCCTT-TTAAAGCCCACACAAGTTGGTGGCAC
* **
727863 CTTTCAAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCAC
1 CTTT-TAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* ** * **
727925 CTTTTTGTCCTCAAAGAATAGGATGCCTTTTTTTTGTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGTCTTTTCCTT-TTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
727987 CTTTTAGTCCTCAAATAGTAGGATGCCTTTTCCTTTTAAAGCCCATACGAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *** * * *
728048 CTTTTAGTCCTCAAAGAGTA-GAACACGTATTCCTTTTAAAGCCCACATAAGTCGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGTC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
728109 CTTTCAGTTCTCAAAGAGTAGGACGTCTTTT-CTTTTCAAAGCCCACATAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
728170 CTTTTAATCCCCAAAGAG
1 CTTTTAGTCCTCAAAGAG
728188 TAAGACACTT
Statistics
Matches: 330, Mismatches: 45, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
60 10 0.03
61 178 0.54
62 116 0.35
63 24 0.07
64 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (61 bp):
CTTTTAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:727903 original size:124 final size:123
Alignment explanation
Indices: 727741--728203 Score: 583
Period size: 124 Copynumber: 3.8 Consensus size: 123
727731 CTTTTTATCT
* *
727741 TTTCAGTCTTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 TTTCAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * *
727806 AGTCTTCAAAGAGCAGGACAATTCTTTTTTGTTAAAGCCTACACAAGTTGGTGCCACC
66 AGTCCTCAAAGAGTAGGACACTTCTTTTTTGTTAAAGCCCACACAAGTTGGTGGCACC
**
727864 TTTCAAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTT
1 TTTC-AGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
727929 TTGTCCTCAAAGAATAGGATGC-CTT-TTTTTTGTTAAAGCCCACACAAGTTGGTGGCACC
65 TAGTCCTCAAAGAGTAGGA--CACTTCTTTTTTGTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * *
727988 TTTTAGTCCTCAAATAGTAGGATGCCTTTTCCTTTTAAAGCCCATACGAGTTGGTGGCACCTTTT
1 TTTCAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * ** * *
728053 AGTCCTCAAAGAGTAGAACACGTATTCCTT-TTAAAGCCCACATAAGTCGGTGGCACC
66 AGTCCTCAAAGAGTAGGACACTTCTTTTTTGTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
728110 TTTCAGTTCTCAAAGAGTAGGACGTCTTTT-CTTTTCAAAGCCCACATAAGTTGGTGGCACCTTT
1 TTTCAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* * *
728174 TAATCCCCAAAGAGTAAGACACTTCTTTTT
65 TAGTCCTCAAAGAGTAGGACACTTCTTTTT
728204 GTTTAAAAAA
Statistics
Matches: 293, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
121 6 0.02
122 99 0.34
123 79 0.27
124 106 0.36
125 2 0.01
126 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (123 bp):
TTTCAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
AGTCCTCAAAGAGTAGGACACTTCTTTTTTGTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:731367 original size:79 final size:79
Alignment explanation
Indices: 731236--731812 Score: 578
Period size: 79 Copynumber: 7.3 Consensus size: 79
731226 TCATTCATGT
* * * * * *
731236 TTTTATTTTTAAAATATCGATTTTCCACCATCAGGGATGCTCCAACCTTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGGGA
* *
731301 TACTCCAACCTCGG
66 TACTCCAACCCCGA
* * * * *
731315 TTTTATTT-TCAAAACATTGATTTTTCACAATCGGGGATACTCTAACCCTGTTA-TTTCTAGGGG
1 TTTTATTTCT-AAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTC-AAGGG
* *
731378 GATACT-CAAACCCTA
64 GATACTCCAACCCCGA
* *
731393 GTTTTATTTCTAAAACA-CTGATTTTCCACCATCGGGGATACTCCAACCCTATTATTTTTAAGGG
1 -TTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGG
* **
731457 GATGCTTTAACCCCGA
64 GATACTCCAACCCCGA
* ** * *
731473 TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCCATTGTTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGGGA
*
731538 TACTCCAATCCCGA
66 TACTCCAACCCCGA
* * ** * * * *
731552 TTTTATTTCTAAAACATCAATTTTCCACCATCAGAAATACTCCAACCTTGTTGTTTCCAAGGAGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGGGA
*
731617 TACTCCAACCCCAA
66 TACTCCAACCCCGA
* * * * * *
731631 TTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCTAACCC---CATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGGGA
**
731693 TACTCCAACCTTGA
66 TACTCCAACCCCGA
* * * *
731707 TTTTATTTCAAAAACACCGATTTTCCACCATCGGGGATACTCTAA-CCTAGTT-GTTTCTAAGGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCT-GTTATTTTC-AAGGG
*
731770 GATACTCCAACCCCAA
64 GATACTCCAACCCCGA
* * *
731786 TTTTATTTTTAAAACACCAATTTTCCA
1 TTTTATTTCTAAAACATCGATTTTCCA
731813 TAATTGAGGA
Statistics
Matches: 409, Mismatches: 76, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
75 2 0.00
76 62 0.15
78 14 0.03
79 320 0.78
80 11 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTCAAGGGGA
TACTCCAACCCCGA
Found at i:731662 original size:237 final size:232
Alignment explanation
Indices: 731236--731812 Score: 638
Period size: 237 Copynumber: 2.4 Consensus size: 232
731226 TCATTCATGT
* * * * * *
731236 TTTTATTTTTAAAATATCGATTTTCCACCATC-AGGGATGCTCCAACCTTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGA-GGATACTCCAACCCTATTGTTTTCGAGGGG
* ** * * ** *
731300 ATACTCCAACCTCGGTTTTATTTTCAAAACATTGATTTTTCACAATCGGGGATACTCTAACCCTG
65 ATACTCCAACC-CGATTTTATTTT-AAAACATCAATTTTCCACAATCAGAAATACTCCAACCCTG
* * * * * * *
731365 TTATTTCTAGGGGGATACTCAAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCGGGG
128 TTATTTCCAAGGAGATACTCAAACCCCAATTTTATTTCTAAAACACCGATTTTCCACCATCGAGG
* * * **
731430 ATACTCCAACCCTATTATTTTTAAGGGGATGCTTTAACCCCGA
193 ATACTCCAACCC---CATTTTCAAGGGGATACTCCAACCCCGA
*
731473 TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCCATTGTTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCTATTGTTTTCGAGGGGA
* *
731538 TACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTCCACCATCAGAAATACTCCAACCTTGT
66 TACTCCAA-CCCGATTTTATTT-TAAAACATCAATTTTCCACAATCAGAAATACTCCAACCCTGT
* * *
731603 TGTTTCCAAGGAGATACTCCAACCCCAATTTTATTTCTAAAACACCGATTTTTCACCATCGAGGA
129 TATTTCCAAGGAGATACTCAAACCCCAATTTTATTTCTAAAACACCGATTTTCCACCATCGAGGA
* * **
731668 TACTCTAACCCCATTTTCGAGGGGATACTCCAACCTTGA
194 TACTCCAACCCCATTTTCAAGGGGATACTCCAACCCCGA
* * * * *
731707 TTTTATTTCAAAAACACCGATTTTCCACCATCGGGGATACTCTAA-CCTAGTTG-TTTCTAAGGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCTA-TTGTTTTC-GAGGG
* *
731770 GATACTCCAACCCCAATTTTATTTTTAAAACACCAATTTTCCA
64 GATACTCCAA-CCCGATTTTA-TTTTAAAACATCAATTTTCCA
731813 TAATTGAGGA
Statistics
Matches: 289, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
233 7 0.02
234 104 0.36
235 3 0.01
237 171 0.59
238 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (232 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCTATTGTTTTCGAGGGGA
TACTCCAACCCGATTTTATTTTAAAACATCAATTTTCCACAATCAGAAATACTCCAACCCTGTTA
TTTCCAAGGAGATACTCAAACCCCAATTTTATTTCTAAAACACCGATTTTCCACCATCGAGGATA
CTCCAACCCCATTTTCAAGGGGATACTCCAACCCCGA
Found at i:733021 original size:38 final size:41
Alignment explanation
Indices: 732945--733233 Score: 156
Period size: 41 Copynumber: 7.3 Consensus size: 41
732935 TTTCGTTGGT
* ** *
732945 TCGTATGGTTTCCATCCCAGCCAACACTTTTCCTTTGTTGAC
1 TCGTATGGTTT-TATCCTGGCCAACACCTTTCCTTTGTTGAC
* **
732987 TCGTATGGTTTTATCCTGG-CTA-A-CTTTCCTTTGTTGGT
1 TCGTATGGTTTTATCCTGGCCAACACCTTTCCTTTGTTGAC
* * * *
733025 TTGTATAGTTTT-TCCCTGGCCAACACCTTTCTTTTATTGAC
1 TCGTATGGTTTTAT-CCTGGCCAACACCTTTCCTTTGTTGAC
* ** * * *
733066 TCGTATGGTTTCATCCCAGCC-A-A-TTTTCCTTCGTTG-G
1 TCGTATGGTTTTATCCTGGCCAACACCTTTCCTTTGTTGAC
* * * *
733103 TTGT-TCGGTTTCAT-CTCGACCAACACCTTTCTTTTGTTGAC
1 TCGTAT-GGTTTTATCCT-GGCCAACACCTTTCCTTTGTTGAC
** * * **
733144 TCGTATGGTTTCGTCCTGGTC-A-A-CTTT-CTTTCATTGGT
1 TCGTATGGTTTTATCCTGGCCAACACCTTTCCTTT-GTTGAC
* * *
733182 TTGTATGGTTTTATCCTGACCAACACCTTTCCTTTATTGAC
1 TCGTATGGTTTTATCCTGGCCAACACCTTTCCTTTGTTGAC
*
733223 TTGTATGGTTT
1 TCGTATGGTTT
733234 CATCTCGGTC
Statistics
Matches: 182, Mismatches: 47, Indels: 37
0.68 0.18 0.14
Matches are distributed among these distances:
36 2 0.01
37 17 0.09
38 60 0.33
39 7 0.04
40 16 0.09
41 61 0.34
42 19 0.10
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.45
Consensus pattern (41 bp):
TCGTATGGTTTTATCCTGGCCAACACCTTTCCTTTGTTGAC
Found at i:733071 original size:79 final size:79
Alignment explanation
Indices: 732965--733237 Score: 288
Period size: 79 Copynumber: 3.5 Consensus size: 79
732955 TCCATCCCAG
* * *
732965 CCAACACTTTTCCTTTGTTGACTCGTATGGTTTTATCCTGGCTAACTTTCCTTTGTTGGTTTGTA
1 CCAACACCTTTCCTTTATTGACTCGTATGGTTTCATCCTGGCTAACTTTCCTTTGTTGGTTTGTA
*
733030 TAGTTTTTCCCTGG
66 TAGTTTTTCCCTGA
* ** * * *
733044 CCAACACCTTTCTTTTATTGACTCGTATGGTTTCATCCCAGCCAATTTTCCTTCGTTGG-TTGT-
1 CCAACACCTTTCCTTTATTGACTCGTATGGTTTCATCCTGGCTAACTTTCCTTTGTTGGTTTGTA
* * *
733107 TCG-GTTTCATCTCGA
66 TAGTTTTTC-CCT-GA
* * * *
733122 CCAACACCTTTCTTTTGTTGACTCGTATGGTTTCGTCCTGG-TCAACTTT-CTTTCATTGGTTTG
1 CCAACACCTTTCCTTTATTGACTCGTATGGTTTCATCCTGGCT-AACTTTCCTTT-GTTGGTTTG
*
733185 TATGGTTTTAT-CCTGA
64 TATAGTTTT-TCCCTGA
*
733201 CCAACACCTTTCCTTTATTGACTTGTATGGTTTCATC
1 CCAACACCTTTCCTTTATTGACTCGTATGGTTTCATC
733238 TCGGTCAATT
Statistics
Matches: 158, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
76 4 0.03
77 7 0.04
78 51 0.32
79 89 0.56
80 4 0.03
81 2 0.01
82 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (79 bp):
CCAACACCTTTCCTTTATTGACTCGTATGGTTTCATCCTGGCTAACTTTCCTTTGTTGGTTTGTA
TAGTTTTTCCCTGA
Found at i:733283 original size:157 final size:155
Alignment explanation
Indices: 732934--733421 Score: 517
Period size: 157 Copynumber: 3.1 Consensus size: 155
732924 GTTGCGACAG
** * * *
732934 TTTTCGTTGGTTCGTATGGTTTCCATCCCAGCCAACACTTTTCCTTTGTTGACTCGTATGGTTTT
1 TTTTCGTTGGTTCGTATGGTTT-CATCCTGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTC
*
732999 ATCCTGG-CTAACTTTCCTTT-GTTGGTTTGTATAGTTTTTCCCTGGCCAACACCTTTCTTTTAT
65 ATCCTGGTC-AACTTT-CTTTCGTTGGTTTGTATGGTTTTT-CCTGGCCAACACCTTTCTTTTAT
* *
733062 TGACTCGTATGGTTTCATCCCAGCCAATTT
127 TGACTCGTATGGTTTCAT-CCGGTCAATTT
* *
733092 TCCTTCGTTGGTT-GT-TCGGTTTCAT-CTCGACCAACACCTTTCTTTTGTTGACTCGTATGGTT
1 T-TTTCGTTGGTTCGTAT-GGTTTCATCCT-GGCCAACACCTTTCTTTTGTTGACTCGTATGGTT
* * * *
733154 TCGTCCTGGTCAACTTTCTTTCATTGGTTTGTATGGTTTTATCCTGACCAACACCTTTCCTTTAT
63 TCATCCTGGTCAACTTTCTTTCGTTGGTTTGTATGGTTTT-TCCTGGCCAACACCTTTCTTTTAT
*
733219 TGACTTGTATGGTTTCATCTCGGTCAATTT
127 TGACTCGTATGGTTTCATC-CGGTCAATTT
*
733249 TTTTCGTTGGTTCGTAT-GTTTACATCCTGGCCAACA-CTTT-TTCGTTGTTGACTTGTATGGTT
1 TTTTCGTTGGTTCGTATGGTTT-CATCCTGGCCAACACCTTTCTT--TTGTTGACTCGTATGGTT
** ** * * * *
733311 TCATCCTAATCAACTTT-TTTCGTTGGTTCATATGGTTTCGTCCCGGCCAATACCTTTCTTTTGT
63 TCATCCTGGTCAACTTTCTTTCGTTGGTTTGTATGGTTT-TTCCTGGCCAACACCTTTCTTTTAT
* * *
733375 TGGCTCATATGGTTTCATCCTGGTCAACTT
127 TGACTCGTATGGTTTCATCC-GGTCAATTT
* *
733405 CTTTCATTGGTTCGTAT
1 TTTTCGTTGGTTCGTAT
733422 ATGTTAGGAT
Statistics
Matches: 279, Mismatches: 36, Indels: 32
0.80 0.10 0.09
Matches are distributed among these distances:
155 3 0.01
156 100 0.36
157 153 0.55
158 13 0.05
159 10 0.04
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (155 bp):
TTTTCGTTGGTTCGTATGGTTTCATCCTGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTCA
TCCTGGTCAACTTTCTTTCGTTGGTTTGTATGGTTTTTCCTGGCCAACACCTTTCTTTTATTGAC
TCGTATGGTTTCATCCGGTCAATTT
Found at i:733402 original size:78 final size:78
Alignment explanation
Indices: 732934--733421 Score: 483
Period size: 78 Copynumber: 6.2 Consensus size: 78
732924 GTTGCGACAG
* * * *
732934 TTTTCGTTGGTTCGTATGGTTTCCATCCCAGCCAACACTTTTCCTTTGTTGACTCGTATGGTTTT
1 TTTTCGTTGGTTCGTATGGTTT-CATCCCGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTC
732999 ATCCTGG-CTAACTT
65 ATCCTGGTC-AACTT
* * * *
733013 TCCTTT-GTTGGTTTGTATAGTTT-TTCCCTGGCCAACACCTTTCTTTTATTGACTCGTATGGTT
1 T--TTTCGTTGGTTCGTATGGTTTCATCCC-GGCCAACACCTTTCTTTTGTTGACTCGTATGGTT
** *
733076 TCATCCCAGCCAA-TT
63 TCATCCTGGTCAACTT
* *
733091 TTCCTTCGTTGGTT-GT-TCGGTTTCATCTCGACCAACACCTTTCTTTTGTTGACTCGTATGGTT
1 TT--TTCGTTGGTTCGTAT-GGTTTCATCCCGGCCAACACCTTTCTTTTGTTGACTCGTATGGTT
*
733154 TCGTCCTGGTCAACTT
63 TCATCCTGGTCAACTT
* * * * * * * *
733170 TCTTTCATTGGTTTGTATGGTTTTATCCTGACCAACACCTTTCCTTTATTGACTTGTATGGTTTC
1 T-TTTCGTTGGTTCGTATGGTTTCATCCCGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTC
*
733235 AT-CTCGGTCAATTT
65 ATCCT-GGTCAACTT
* *
733249 TTTTCGTTGGTTCGTAT-GTTTACATCCTGGCCAACA-CTTT-TTCGTTGTTGACTTGTATGGTT
1 TTTTCGTTGGTTCGTATGGTTT-CATCCCGGCCAACACCTTTCTT--TTGTTGACTCGTATGGTT
**
733311 TCATCCTAATCAACTT
63 TCATCCTGGTCAACTT
* * * * *
733327 TTTTCGTTGGTTCATATGGTTTCGTCCCGGCCAATACCTTTCTTTTGTTGGCTCATATGGTTTCA
1 TTTTCGTTGGTTCGTATGGTTTCATCCCGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTCA
733392 TCCTGGTCAACTT
66 TCCTGGTCAACTT
* *
733405 CTTTCATTGGTTCGTAT
1 TTTTCGTTGGTTCGTAT
733422 ATGTTAGGAT
Statistics
Matches: 339, Mismatches: 49, Indels: 43
0.79 0.11 0.10
Matches are distributed among these distances:
76 2 0.01
77 9 0.03
78 190 0.56
79 115 0.34
80 20 0.06
81 3 0.01
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (78 bp):
TTTTCGTTGGTTCGTATGGTTTCATCCCGGCCAACACCTTTCTTTTGTTGACTCGTATGGTTTCA
TCCTGGTCAACTT
Found at i:733409 original size:41 final size:41
Alignment explanation
Indices: 733129--733409 Score: 128
Period size: 41 Copynumber: 7.1 Consensus size: 41
733119 CGACCAACAC
*
733129 CTTTCTTTTGTTGACTCGTATGGTTTCGTCCTGGTCAACTTT
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAAC-TT
* * * ** **
733171 CTTTCATTGGTT---T-GTATGGTTTTATCCTGACCAACAC
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAACTT
* * *
733208 CTTTCCTTTATTGACTTGTATGGTTTCAT-CTCGGTCAA--T
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCT-GGTCAACTT
* ** *
733247 -TTT-TTTCGTTGGTTCGTAT-GTTTACATCCTGGCCAACACTT
1 CTTTCTTTTGTTGACTCGTATGGTTT-CATCCTGGTC-A-ACTT
* * **
733288 -TTTC-GTTGTTGACTTGTATGGTTTCATCCTAATCAA---
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAACTT
* ** * * * * *
733324 CTTT-TTTCGTTGGTTCATATGGTTTCGTCCCGGCCAA-TAC
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAACT-T
* *
733364 CTTTCTTTTGTTGGCTCATATGGTTTCATCCTGGTCAACTT
1 CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAACTT
733405 CTTTC
1 CTTTC
733410 ATTGGTTCGT
Statistics
Matches: 172, Mismatches: 47, Indels: 41
0.66 0.18 0.16
Matches are distributed among these distances:
36 4 0.02
37 49 0.28
38 24 0.14
39 3 0.02
40 8 0.05
41 69 0.40
42 15 0.09
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (41 bp):
CTTTCTTTTGTTGACTCGTATGGTTTCATCCTGGTCAACTT
Found at i:734633 original size:33 final size:33
Alignment explanation
Indices: 734569--734637 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
734559 ACATTATGCT
* * *
734569 TTGTATCGATACATGGTACATTATATTGATACA
1 TTGTATCAATACATGATACATTATATCGATACA
*
734602 TTGTATCAATACATGATGA-ATTGTATCGATACA
1 TTGTATCAATACATGAT-ACATTATATCGATACA
734635 TTG
1 TTG
734638 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (33 bp):
TTGTATCAATACATGATACATTATATCGATACA
Found at i:736875 original size:21 final size:20
Alignment explanation
Indices: 736841--736883 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
736831 TATTAAAAAG
*
736841 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
736862 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
736882 TT
1 TT
736884 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:736882 original size:20 final size:21
Alignment explanation
Indices: 736841--736883 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
736831 TATTAAAAAG
*
736841 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
736862 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
736882 TT
1 TT
736884 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:742730 original size:23 final size:22
Alignment explanation
Indices: 742682--742732 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
742672 TTTTGTAAGA
* * *
742682 TTTGACAAAGGGGTAGAAATGC
1 TTTGATAAAGGGGGAGAAATAC
*
742704 TTTGATAAAGGGGGAGAAAATAT
1 TTTGATAAAGGGGGAG-AAATAC
742727 TTTGAT
1 TTTGAT
742733 GAGAAAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.29
Consensus pattern (22 bp):
TTTGATAAAGGGGGAGAAATAC
Found at i:743344 original size:19 final size:19
Alignment explanation
Indices: 743319--743375 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
743309 TTGATTCGAT
*
743319 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
743338 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGG
*
743357 ACAATTATATCGATACATG
1 AC-ATTGTATCGATACATG
743376 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:748246 original size:13 final size:13
Alignment explanation
Indices: 748228--748255 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
748218 ATACAAAGAT
748228 CAATGTATCGATA
1 CAATGTATCGATA
748241 CAATGTATCGATA
1 CAATGTATCGATA
748254 CA
1 CA
748256 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:751262 original size:28 final size:28
Alignment explanation
Indices: 751219--752001 Score: 969
Period size: 28 Copynumber: 27.5 Consensus size: 28
751209 CGTTTATCTC
751219 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751247 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751275 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751303 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
751331 TTTAAAGCCCACGAGTCAATAGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
751361 TTCAAAGCCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751389 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751417 TTCAAAGGCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751445 TTCGAAGCCCACAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
751473 TTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751501 TTCAAAGGCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751529 TTCAAAGCCCACAAGTCTGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751557 TTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCATCCT
* *
751587 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
751616 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
751644 TTCAAAGCCCATAAGTCAATGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751672 TTCAAAGCCCACAATTCAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
751700 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
751728 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751756 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751784 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
751812 TTCAAAGCCCACAAGTTAGTTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAG-TGGCATCC-T
*
751841 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
751870 TTCAAAGCCTACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
751898 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * * * *
751927 TTCAAAGCCCATAAGCCAGGGGTAACACTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-C-T
* * *
751957 TTTAAAGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
751989 TTCAAAGCCCACA
1 TTCAAAGCCCACA
752002 CAAGTTAGTC
Statistics
Matches: 656, Mismatches: 79, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
27 3 0.00
28 471 0.72
29 98 0.15
30 63 0.10
32 19 0.03
33 1 0.00
34 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:756314 original size:72 final size:72
Alignment explanation
Indices: 756154--756312 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 72
756144 CAATAACAGT
* * *
756154 AAGCATACGAAGAAAAGGAGAGAGCAATTCTATTTCAGCTGGTGGCTTGCAGCAATGTTCAAAGG
1 AAGCATACGAAGAAAAGAAGAGAGCAATTCTATTTCAGCTGGTGGCTGGCAGCAATGCTCAAAGG
756219 AAATAGC
66 AAATAGC
* * *
756226 AAGCATGCGAAGAAAAGAAGAGAGCAATTCTGTTTCAGCTTGTGGCTGGCAGCGAA-GCTCAAAG
1 AAGCATACGAAGAAAAGAAGAGAGCAATTCTATTTCAGCTGGTGGCTGGCAGC-AATGCTCAAAG
756290 G-AATCAGC
65 GAAAT-AGC
756298 AAGCATAC-AAGAAAA
1 AAGCATACGAAGAAAA
756313 AGGAAATAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
71 10 0.13
72 66 0.85
73 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (72 bp):
AAGCATACGAAGAAAAGAAGAGAGCAATTCTATTTCAGCTGGTGGCTGGCAGCAATGCTCAAAGG
AAATAGC
Found at i:756503 original size:83 final size:82
Alignment explanation
Indices: 756335--756517 Score: 258
Period size: 83 Copynumber: 2.2 Consensus size: 82
756325 ACAAATTATA
* * * *
756335 AAGAATATACAAACAAGAAGAGGGGAAAGAAATCAATTCTGTTGCAGGAAAGTAGTTAGCAGCAA
1 AAGAACATACAAACAAGAAAAGAGGAAAGAAATCAATTCTATTGCAGGAAAGTAGTTAGCAGCAA
*
756400 AGCAATTTTGTTTCAGC
66 AGCAATTTTGTTTCAAC
* * * *
756417 AAGAACATACAAACAAGAAAAGAGGAAAGAAATCAATTCTATTGTAGCTAAGGTAGTTGGCAGCA
1 AAGAACATACAAACAAGAAAAGAGGAAAGAAATCAATTCTATTGCAG-GAAAGTAGTTAGCAGCA
756482 AAGCAATTTTGTTTCAAC
65 AAGCAATTTTGTTTCAAC
* *
756500 AAGAACATGCGAACAAGA
1 AAGAACATACAAACAAGA
756518 GAAGGAAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 42 0.47
83 47 0.53
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (82 bp):
AAGAACATACAAACAAGAAAAGAGGAAAGAAATCAATTCTATTGCAGGAAAGTAGTTAGCAGCAA
AGCAATTTTGTTTCAAC
Found at i:756571 original size:36 final size:36
Alignment explanation
Indices: 756526--756611 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
756516 GAGAAGGAAA
* * **
756526 AAACAACAACAGCAACTACTGAAGAAAGGAAGGAAG
1 AAACGACAACAGCAACTACTGAAGAAAAGAACAAAG
* * * **
756562 AAATGACAACAGTAGCTGTTGAAGAAAAGAACAAAG
1 AAACGACAACAGCAACTACTGAAGAAAAGAACAAAG
756598 AAACGACAACAGCA
1 AAACGACAACAGCA
756612 GCAGCTGAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.55, C:0.16, G:0.21, T:0.08
Consensus pattern (36 bp):
AAACGACAACAGCAACTACTGAAGAAAAGAACAAAG
Found at i:758539 original size:153 final size:152
Alignment explanation
Indices: 758155--759030 Score: 813
Period size: 153 Copynumber: 5.7 Consensus size: 152
758145 TAGGGTAAAA
* *
758155 TCATCCCTTTTCATTTTTAAGTCCCTTAGAGTTATCGGGATACTTTCACGTCGAAGGTATACC-T
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTA-CAGGATACTTTCACGTCGAAGGTATACCAT
* ** * *** * * * *
758219 ATAGGG-ATATTTTAGCAATTTTTCTAAAATTAAGCCCTAGGTTATCA-TCAGATATACTTCTAT
65 A-AGGGCAT-TTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACT-GGGTATGCTTCTAT
* *
758282 GCCGAAGGTGTACATTTAGAATAAGT
127 GCCGAAGGTGTACATTTAGGATAGGT
** * *
758308 TCATCTTTTTTTCCTTTTTAAGTCTTTTAGAGTTACTAGGATACTTTCACGTCGAAGGTATACC-
1 TCATC-CCTTTTCATTTTTAAGTCCTTTAGAGTTAC-AGGATACTTTCACGTCGAAGGTATACCA
* * * *
758372 TCTAGAGACA-TTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACTGGGTTTGCTTATAT
64 T-AAG-GGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACTGGGTATGCTTCTAT
* *
758436 GCCAAAGGTGTACGTTTAGGATAGGT
127 GCCGAAGGTGTACATTTAGGATAGGT
* * * * * * *
758462 TTATCCCTTTTCCTTTTTATGTCCTTTAGGGTTATCGGGATATTTTCACGTTGAAGGTATACCAT
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTA-CAGGATACTTTCACGTCGAAGGTATACCAT
* * * *
758527 AAGGGCATTTTC-ATAATTTTTGTAGAATCGAGTCCTAGGTTATCACCGGGTATGCTTCTCTGCC
65 AAGGGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACTGGGTATGCTTCTATGCC
*
758591 GAAGATGTACATTTAGGATAGGT
130 GAAGGTGTACATTTAGGATAGGT
* * * * *
758614 TCATCCCTTCTCATTTTTAAGTCCTTTAGGGTTACTATGATACTTTCATGTCAAAGGTATACCCA
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTAC-AGGATACTTTCACGTCGAAGGTATA-CCA
* * * * * * *
758679 TAAGGGTATTTT-AGTAATTTTTCTAGAACCGAGTCCTAGGTTATCACCGGATATGGTTCTCTAC
64 TAAGGGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACTGGGTATGCTTCTATGC
* * *
758743 CAAAGGTGCACATTTAGAATAGGT
129 CGAAGGTGTACATTTAGGATAGGT
* * * * * *
758767 TCATTCGTTTTCATTGTTAAGTCCTTTAGAGTTGCCAAGATACTTTCACGTC-AACAGTATACCT
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTT-ACAGGATACTTTCACGTCGAA-GGTATACC-
* * * * *
758831 ATAAAGGCATTTTC-ATAATTTTTCTAGAATCGAGTCTTAGGTTATCA-TAGGGTATGTTTCTTT
63 ATAAGGGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACT-GGGTATGCTTCTAT
* **
758894 GCCGAAGTTGTATGTTTAGGATAGGT
127 GCCGAAGGTGTACATTTAGGATAGGT
* * * * * *
758920 TCATCCCTTTTCATTTTTAGGTCCTTTAGGGTTACCAAGATACTTTCACGTTGAAGGAATACCCT
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTA-CAGGATACTTTCACGTCGAAGGTATA-CCA
* * * * **
758985 TAAAGGTATTTT-AGTAATTTTT-TATAACCGAGTTTTAGGTTATCAC
64 TAAGGGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCAC
759031 CGAGTCTGTC
Statistics
Matches: 595, Mismatches: 106, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
151 1 0.00
152 142 0.24
153 324 0.54
154 125 0.21
155 2 0.00
156 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (152 bp):
TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTACAGGATACTTTCACGTCGAAGGTATACCATA
AGGGCATTTTCAATAATTTTTCTAGAACCGAGTCCTAGGTTATCACTGGGTATGCTTCTATGCCG
AAGGTGTACATTTAGGATAGGT
Found at i:758946 original size:458 final size:459
Alignment explanation
Indices: 758155--759032 Score: 1106
Period size: 458 Copynumber: 1.9 Consensus size: 459
758145 TAGGGTAAAA
* * * *
758155 TCATCCCTTTTCATTTTTAAGTCCCTTAGAGTTATCGGGATACTTTCACGTCGAAGGTATACCTA
1 TCATCCCTTCTCATTTTTAAGTCCCTTAGAGTTATCAGGATACTTTCACGTCAAAGGTATACCCA
** * *
758220 TAGGGATATTTTAGCAATTTTTCTAAAATTAAGCCCTAGGTTATCATCAGATATACTTCTATGCC
66 TAGGGATATTTTAGCAATTTTTCTAAAACCAAGCCCTAGGTTATCACCAGATATACTTCTATACC
* * ** * * * * *
758285 GAAGGTGTACATTTAGAATAAGTTCATCTTTTTTTCCTTTTTAAGTCTTTTAGAGTTACTAGGAT
131 AAAGGTGCACATTTAGAATAAGTTCATCTCGTTTTCATTGTTAAGTCCTTTAGAGTTACCAAGAT
* * *
758350 ACTTTCACGTCGAAGGTATACCTCTAGAGACATTTCAATAATTTTTCTAGAACCGAGTCCTAGGT
196 ACTTTCACGTCGAAAGTATACCTATAAAGACATTTCAATAATTTTTCTAGAACCGAGTCCTAGGT
* * *
758415 TATCACTGGGTTTGCTTATATGCCAAAGGTGTACGTTTAGGATAGGTTTATCCCTTTTCCTTTTT
261 TATCACTGGGTATGCTTATATGCCAAAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCATTTTT
* * ** * * *
758480 ATGTCCTTTAGGGTTATCGGGATATTTTCACGTTGAAGGTATA-CCATAAGGGCATTTTCA-TAA
326 AGGTCCTTTAGGGTTACCAAGATACTTTCACGTTGAAGGAATACCCATAAAGGCATTTT-AGTAA
*
758543 TTTTTGTAGAATCGAGTCCTAGGTTATCACCGGGTATGCTTCTCTGCCGAAGATGTACATTTAGG
390 TTTTT-TAGAACCGAGTCCTAGGTTATCACCGGGTATGCTTCTCTGCCGAAGATGTACATTTAGG
758608 ATAGGT
454 ATAGGT
* * * *
758614 TCATCCCTTCTCATTTTTAAGTCCTTTAGGGTTA-CTATGATACTTTCATGTCAAAGGTATACCC
1 TCATCCCTTCTCATTTTTAAGTCCCTTAGAGTTATC-AGGATACTTTCACGTCAAAGGTATACCC
* * * * * ** *
758678 ATAAGGG-TATTTTAGTAATTTTTCTAGAACCGAGTCCTAGGTTATCACCGGATATGGTTCTCTA
65 AT-AGGGATATTTTAGCAATTTTTCTAAAACCAAGCCCTAGGTTATCACCAGATATACTTCTATA
* *
758742 CCAAAGGTGCACATTTAGAATAGGTTCAT-TCGTTTTCATTGTTAAGTCCTTTAGAGTTGCCAAG
129 CCAAAGGTGCACATTTAGAATAAGTTCATCTCGTTTTCATTGTTAAGTCCTTTAGAGTTACCAAG
* * *
758806 ATACTTTCACGTC-AACAGTATACCTATAAAGGCATTTTC-ATAATTTTTCTAGAATCGAGTCTT
194 ATACTTTCACGTCGAA-AGTATACCTATAAAGACA-TTTCAATAATTTTTCTAGAACCGAGTCCT
* * * * * *
758869 AGGTTATCA-TAGGGTATGTTTCTTTGCCGAAGTTGTATGTTTAGGATAGGTTCATCCCTTTTCA
257 AGGTTATCACT-GGGTATGCTTATATGCCAAAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCA
* *
758933 TTTTTAGGTCCTTTAGGGTTACCAAGATACTTTCACGTTGAAGGAATACCCTTAAAGGTATTTTA
321 TTTTTAGGTCCTTTAGGGTTACCAAGATACTTTCACGTTGAAGGAATACCCATAAAGGCATTTTA
* **
758998 GTAATTTTTTATAACCGAGTTTTAGGTTATCACCG
386 GTAATTTTTTAGAACCGAGTCCTAGGTTATCACCG
759033 AGTCTGTCTT
Statistics
Matches: 353, Mismatches: 59, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
457 3 0.01
458 195 0.55
459 151 0.43
460 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (459 bp):
TCATCCCTTCTCATTTTTAAGTCCCTTAGAGTTATCAGGATACTTTCACGTCAAAGGTATACCCA
TAGGGATATTTTAGCAATTTTTCTAAAACCAAGCCCTAGGTTATCACCAGATATACTTCTATACC
AAAGGTGCACATTTAGAATAAGTTCATCTCGTTTTCATTGTTAAGTCCTTTAGAGTTACCAAGAT
ACTTTCACGTCGAAAGTATACCTATAAAGACATTTCAATAATTTTTCTAGAACCGAGTCCTAGGT
TATCACTGGGTATGCTTATATGCCAAAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCATTTTT
AGGTCCTTTAGGGTTACCAAGATACTTTCACGTTGAAGGAATACCCATAAAGGCATTTTAGTAAT
TTTTTAGAACCGAGTCCTAGGTTATCACCGGGTATGCTTCTCTGCCGAAGATGTACATTTAGGAT
AGGT
Found at i:758954 original size:306 final size:304
Alignment explanation
Indices: 758155--759032 Score: 985
Period size: 306 Copynumber: 2.9 Consensus size: 304
758145 TAGGGTAAAA
*
758155 TCATCCCTTTTCATTTTTAAGTCCCTTAGAGTTATCGGGATACTTTCACGTCGAAGGTATACCTA
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTATCGGGATACTTTCACGTC-AAGGTATACCTA
* * * * ** * * *
758220 T--AGGGATATTTTAGCAATTTTTCTAAAATTAAGCCCTAGGTTATCATCA-GATATACTTCTAT
65 TAAAGGCAT-TTTCA-TAATTTTTCTAGAATCGAGTCCTAGGTTATCAT-AGGGTATGCTTCTAT
* * * ** * * * *
758282 GCCGAAGGTGTACATTTAGAATAAGTTCATCTTTTTTTCCTTTTTAAGTCTTTTAGAGTTACTAG
127 GCCGAAGATGTACATTTAGGATAGGTTCATC-CCTTTTCATTTTTAAGTCCTTTAGGGTTACTAA
** * *
758347 GATACTTTCACGTCGAAGGTATACCTCT-AGAGACATTTCAATAATTTTTCTAGAACCGAGTCCT
191 GATACTTTCACGTCGAAGGTATACC-CTAAG-GGTATTTTAGTAATTTTTCTAGAACCGAGTCCT
* * * * * * *
758411 AGGTTATCACTGGGTTTGCTTATATGCCAAAGGTGTACGTTTAGGATAGGT
254 AGGTTATCACCGGATATGCTTATATACCAAAGGTGCACATTTAGAATAGGT
* * * * * *
758462 TTATCCCTTTTCCTTTTTATGTCCTTTAGGGTTATCGGGATATTTTCACGTTGAAGGTATACC-A
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTATCGGGATACTTTCACG-TCAAGGTATACCTA
* * ** *
758526 TAAGGGCATTTTCATAATTTTTGTAGAATCGAGTCCTAGGTTATCACCGGGTATGCTTCTCTGCC
65 TAAAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTATCATAGGGTATGCTTCTATGCC
* *
758591 GAAGATGTACATTTAGGATAGGTTCATCCCTTCTCATTTTTAAGTCCTTTAGGGTTACTATGATA
130 GAAGATGTACATTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTACTAAGATA
* *
758656 CTTTCATGTCAAAGGTATACCCATAAGGGTATTTTAGTAATTTTTCTAGAACCGAGTCCTAGGTT
195 CTTTCACGTCGAAGGTATACCC-TAAGGGTATTTTAGTAATTTTTCTAGAACCGAGTCCTAGGTT
* * *
758721 ATCACCGGATATGGTTCTCTACCAAAGGTGCACATTTAGAATAGGT
259 ATCACCGGATATGCTTATATACCAAAGGTGCACATTTAGAATAGGT
* * * ** ** *
758767 TCATTCGTTTTCATTGTTAAGTCCTTTAGAGTTGCCAAGATACTTTCACGTCAACAGTATACCTA
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTATCGGGATACTTTCACGTCAA-GGTATACCTA
* * *
758832 TAAAGGCATTTTCATAATTTTTCTAGAATCGAGTCTTAGGTTATCATAGGGTATGTTTCTTTGCC
65 TAAAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTATCATAGGGTATGCTTCTATGCC
* ** * *
758897 GAAGTTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAGGTCCTTTAGGGTTACCAAGATA
130 GAAGATGTACATTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTACTAAGATA
* * * * **
758962 CTTTCACGTTGAAGGAATACCCTTAAAGGTATTTTAGTAATTTTT-TATAACCGAGTTTTAGGTT
195 CTTTCACGTCGAAGGTATACCC-TAAGGGTATTTTAGTAATTTTTCTAGAACCGAGTCCTAGGTT
759026 ATCACCG
259 ATCACCG
759033 AGTCTGTCTT
Statistics
Matches: 479, Mismatches: 84, Indels: 18
0.82 0.14 0.03
Matches are distributed among these distances:
304 4 0.01
305 188 0.39
306 224 0.47
307 58 0.12
308 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (304 bp):
TCATCCCTTTTCATTTTTAAGTCCTTTAGAGTTATCGGGATACTTTCACGTCAAGGTATACCTAT
AAAGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTATCATAGGGTATGCTTCTATGCCG
AAGATGTACATTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTACTAAGATAC
TTTCACGTCGAAGGTATACCCTAAGGGTATTTTAGTAATTTTTCTAGAACCGAGTCCTAGGTTAT
CACCGGATATGCTTATATACCAAAGGTGCACATTTAGAATAGGT
Found at i:765429 original size:52 final size:52
Alignment explanation
Indices: 765361--765514 Score: 209
Period size: 52 Copynumber: 3.0 Consensus size: 52
765351 CTCTAAGTCC
*
765361 ATGTCACTAGCCTTGGATCAGCACTTTGGCACCTTTCTCATCTTCAAGTCTA
1 ATGTCACTAGCCTTGGATCAGCACGTTGGCACCTTTCTCATCTTCAAGTCTA
* * ** *
765413 ATGTCGCTAGCTTTGGATCAGCACGTTGAAACCTTTCTCATCTTCCAGTCTA
1 ATGTCACTAGCCTTGGATCAGCACGTTGGCACCTTTCTCATCTTCAAGTCTA
* * * * *
765465 ATATCATTAGCCTTGGATCAACACGTTGGCACCTTTGTCATCTTTAAGTC
1 ATGTCACTAGCCTTGGATCAGCACGTTGGCACCTTTCTCATCTTCAAGTC
765515 CTATGTTGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (52 bp):
ATGTCACTAGCCTTGGATCAGCACGTTGGCACCTTTCTCATCTTCAAGTCTA
Found at i:765551 original size:104 final size:104
Alignment explanation
Indices: 765368--765557 Score: 247
Period size: 104 Copynumber: 1.8 Consensus size: 104
765358 TCCATGTCAC
* * * *
765368 TAGCCTTGGATCAGCACTTTGGCACCTTTCTCATCTTCAAGTCTAATGTCGCTAGCTTTGGATCA
1 TAGCCTTGGATCAACACGTTGGCACCTTTCTCATCTTCAAGTCTAATGTCGATAGCTTTGAATCA
*
765433 GCACGTTGAAACCTTTCTCATCTTCCAGTCTAATATCAT
66 GCACGTTGAAACCTTTATCATCTTCCAGTCTAATATCAT
* * * * *
765472 TAGCCTTGGATCAACACGTTGGCACCTTTGTCATCTTTAAGTCCT-ATGTTGATGGCTTTGAATT
1 TAGCCTTGGATCAACACGTTGGCACCTTTCTCATCTTCAAGT-CTAATGTCGATAGCTTTGAATC
* **
765536 AGCATGTTGGTACCTTTATCAT
65 AGCACGTTGAAACCTTTATCAT
765558 TTTTAAAATC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 70 0.97
105 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (104 bp):
TAGCCTTGGATCAACACGTTGGCACCTTTCTCATCTTCAAGTCTAATGTCGATAGCTTTGAATCA
GCACGTTGAAACCTTTATCATCTTCCAGTCTAATATCAT
Found at i:766244 original size:52 final size:52
Alignment explanation
Indices: 766161--766355 Score: 210
Period size: 52 Copynumber: 3.8 Consensus size: 52
766151 TGTCAAACCC
* * **
766161 TCATCTTTAAGTCCAACATTGCTAGCCTTGAATTAGCATATCGACACTCTTT
1 TCATCTTTAAGTCCAACATCGCTGGCCTTGAATTAGCACCTCGACACTCTTT
** * * **
766213 TCATCTTTAAGTCCAATGTCGCTGGCTTTGAATTAACACCTCGGTACTCTTT
1 TCATCTTTAAGTCCAACATCGCTGGCCTTGAATTAGCACCTCGACACTCTTT
* * * **
766265 TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCACCTCGACACCCTCA
1 TCATCTTTAAGTCCAACATCGCTGGCCTTGAATTAGCACCTCGACACTCTTT
* ** * *
766317 TCATCTTTATGTCCAATGTTGTTGGCCTTGAATTAGCAC
1 TCATCTTTAAGTCCAACATCGCTGGCCTTGAATTAGCAC
766356 ATTGGCACCC
Statistics
Matches: 115, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 115 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (52 bp):
TCATCTTTAAGTCCAACATCGCTGGCCTTGAATTAGCACCTCGACACTCTTT
Found at i:766283 original size:104 final size:104
Alignment explanation
Indices: 766161--766351 Score: 267
Period size: 104 Copynumber: 1.8 Consensus size: 104
766151 TGTCAAACCC
* * * * **
766161 TCATCTTTAAGTCCAACATTGCT-AGCCTTGAATTAGCATATCGACACTCTTTTCATCTTTAAGT
1 TCATCTTTAAGTCCAACATCGCTGA-CCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGT
*
766225 CCAATGTCGCTGGCTTTGAATTAACACCTCGGTACTCTTT
65 CCAATGTCGCTGGCCTTGAATTAACACCTCGGTACTCTTT
* *
766265 TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCACCTCGACACCCTCATCATCTTTATGTC
1 TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGTC
* *
766330 CAATGTTGTTGGCCTTGAATTA
66 CAATGTCGCTGGCCTTGAATTA
766352 GCACATTGGC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
104 74 0.99
105 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.36
Consensus pattern (104 bp):
TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGTC
CAATGTCGCTGGCCTTGAATTAACACCTCGGTACTCTTT
Found at i:766378 original size:104 final size:104
Alignment explanation
Indices: 766161--766378 Score: 251
Period size: 104 Copynumber: 2.1 Consensus size: 104
766151 TGTCAAACCC
* * * * **
766161 TCATCTTTAAGTCCAACATTGCTAGCCTTGAATTAGCATATCGACACTCTTTTCATCTTTAAGTC
1 TCATCTTTAAGTCCAACATCGCTAGCCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGTC
* * * * *
766226 CAATGTCGCTGGCTTTGAATTAACACCTCGGTACTCTTT
66 CAATGTCGCTGGCCTTGAATTAACACATCGGCACCCTTG
* *
766265 TCATCTTTAAGTCCAACATCGCT-GACCTTGAATCAGCACCTCGACACCCTCATCATCTTTATGT
1 TCATCTTTAAGTCCAACATCGCTAG-CCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGT
* * * *
766329 CCAATGTTGTTGGCCTTGAATTAGCACATTGGCACCCTTCG
65 CCAATGTCGCTGGCCTTGAATTAACACATCGGCACCCTT-G
766370 TCAT-TTTAA
1 TCATCTTTAA
766379 ATCTAATGTT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
103 1 0.01
104 90 0.95
105 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (104 bp):
TCATCTTTAAGTCCAACATCGCTAGCCTTGAATCAGCACATCGACACCCTCATCATCTTTAAGTC
CAATGTCGCTGGCCTTGAATTAACACATCGGCACCCTTG
Found at i:767033 original size:20 final size:20
Alignment explanation
Indices: 766982--767035 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
766972 TTCTACAATT
766982 TGTATCGATACAATAAATGAA
1 TGTATCGATAC-ATAAATGAA
* * *
767003 TATATTGATACATAAGTGAA
1 TGTATCGATACATAAATGAA
*
767023 TGTATCAATACAT
1 TGTATCGATACAT
767036 GTCCAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAATGAA
Found at i:770504 original size:13 final size:13
Alignment explanation
Indices: 770486--770510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
770476 CTATTTATAG
770486 TGTATCGATACAA
1 TGTATCGATACAA
770499 TGTATCGATACA
1 TGTATCGATACA
770511 TGAATAGTGA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:773945 original size:84 final size:84
Alignment explanation
Indices: 773790--773954 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
773780 CATTTTCCAC
* * * *
773790 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
773855 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
773874 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
773936 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
773955 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:775518 original size:34 final size:35
Alignment explanation
Indices: 775480--775546 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
775470 CCTTACAACA
775480 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
775514 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
775547 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:776035 original size:13 final size:13
Alignment explanation
Indices: 776017--776041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
776007 CTATTTATAG
776017 TGTATCGATACAA
1 TGTATCGATACAA
776030 TGTATCGATACA
1 TGTATCGATACA
776042 TGAATAGTGA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:780923 original size:51 final size:51
Alignment explanation
Indices: 780867--781012 Score: 231
Period size: 50 Copynumber: 2.9 Consensus size: 51
780857 TTTTAACTAG
* *
780867 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
* *
780918 ATGTATCGATACATTTAAGAATGTATCGATACATCTGGGT-AAAAGACAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
* *
780968 ATTTATCGATCCATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
781013 TGTGACTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.52
51 41 0.48
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
Found at i:783704 original size:49 final size:45
Alignment explanation
Indices: 783651--783757 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 45
783641 CATTGTGCCT
*
783651 ATTCAAGGCTAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCTAGCGACATTGGGCTAA--GAAAAGT-G-CCAATATGCTG
* * *
783700 ATTCAAGGCCAGCGACATTGGGCTAATAAAGGTGCCAATATGCTG
1 ATTCAAGGCTAGCGACATTGGGCTAAGAAAAGTGCCAATATGCTG
*
783745 ATTCAATGCTAGC
1 ATTCAAGGCTAGC
783758 AATATCGGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 21 0.40
46 1 0.02
47 5 0.10
49 25 0.48
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (45 bp):
ATTCAAGGCTAGCGACATTGGGCTAAGAAAAGTGCCAATATGCTG
Found at i:783872 original size:65 final size:64
Alignment explanation
Indices: 783790--783925 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 64
783780 AAAGTGGTGA
* * * *
783790 TTTGAAAAGGGTTGCCACCAACTTGCATGGGCTTTAAAAAAAAGGTGCCACTAATTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACCAACTTGCATAGGCTTT-AAAAAAAGGTGCCACCAACTTGTGTGGGC
** ** * *
783855 TTTGAAAAGAGTTGCCACCAACTTGTGTAGGCTTTAAAAGGAGTTGGCACCAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACCAACTTGCATAGGCTTTAAAAAAAGGTGCCACCAACTTGTGTGGGC
783919 TTTGAAA
1 TTTGAAA
783926 GGGTATGCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 30 0.49
65 31 0.51
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (64 bp):
TTTGAAAAGAGTTGCCACCAACTTGCATAGGCTTTAAAAAAAGGTGCCACCAACTTGTGTGGGC
Found at i:783881 original size:32 final size:32
Alignment explanation
Indices: 783790--783925 Score: 157
Period size: 32 Copynumber: 4.2 Consensus size: 32
783780 AAAGTGGTGA
* **
783790 TTTGAAAAGGGTTGCCACCAACTTGCATGGGC
1 TTTGAAAAGAGTTGCCACCAACTTGTGTGGGC
* * * * *
783822 TTTAAAAAAAAGGTGCCACTAATTTGTGTGGGC
1 TTT-GAAAAGAGTTGCCACCAACTTGTGTGGGC
*
783855 TTTGAAAAGAGTTGCCACCAACTTGTGTAGGC
1 TTTGAAAAGAGTTGCCACCAACTTGTGTGGGC
*
783887 TTT-AAAAGGAGTTGGCACCAACTTGTGTGGGC
1 TTTGAAAA-GAGTTGCCACCAACTTGTGTGGGC
783919 TTTGAAA
1 TTTGAAA
783926 GGGTATGCCA
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.05
32 54 0.64
33 27 0.32
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (32 bp):
TTTGAAAAGAGTTGCCACCAACTTGTGTGGGC
Found at i:783990 original size:28 final size:28
Alignment explanation
Indices: 783912--784211 Score: 336
Period size: 28 Copynumber: 10.6 Consensus size: 28
783902 CACCAACTTG
*
783912 TGTGGGCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
** * *
783942 AATGGGTTTTAAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
783970 TATTGGCTTTGAAAGGATGCCACTGA--
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
783996 TGTGGGCTTTGAAATGATGCCTCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
784024 TGTGTTCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
784054 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
784083 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
784111 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
784139 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
784167 TATGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
784196 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
784212 GGTCGTATTG
Statistics
Matches: 230, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.09
27 2 0.01
28 125 0.54
29 47 0.20
30 32 0.14
31 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:784144 original size:85 final size:85
Alignment explanation
Indices: 783829--784209 Score: 360
Period size: 85 Copynumber: 4.4 Consensus size: 85
783819 GGCTTTAAAA
* * **
783829 AAAAGGTGCCACTAATTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTAGGCTTT-AAA
1 AAAAGATGCCACTAA-CT-TGTGGGCTTTGAAAAGA--TGCCACTGACTTGTG--GGCTTTGAAA
* **
783893 AGGAGTTGGCACCAACTTGTGTGGGCTTTG
60 AGGA--TGCCACTGAC-T-TGTGGGCTTTG
* * * ** * * * *
783923 AAAGGGTATGCCATTGACTAATGGG-TTTTAAAATGGTGCCACTGACTTATTGGCTTTG-AAAGG
1 AAA-AG-ATGCCACTAACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGG
783986 ATGCCACTGA--TGTGGGCTTTG
63 ATGCCACTGACTTGTGGGCTTTG
* * ** * * *
784007 AAATGATGCCTCTAACTTGTGTTCTTTGAAAGGGTATGCCATTGACTTGTGGGCTTTGAAAAGGG
1 AAAAGATGCCACTAACTTGTGGGCTTTGAAA-AG-ATGCCACTGACTTGTGGGCTTTGAAAAGGA
784072 TGCCACTGACTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
784094 AAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GATG
1 AAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATG
*
784158 CCACTGACTTATGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
784178 AAAAGGATGCCACTAACTTGTGGGCTTTGAAA
1 AAAA-GATGCCACTAACTTGTGGGCTTTGAAA
784210 GGGGTCGTAT
Statistics
Matches: 237, Mismatches: 39, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
82 11 0.05
83 8 0.03
84 59 0.25
85 67 0.28
86 1 0.00
87 38 0.16
88 6 0.03
90 12 0.05
92 11 0.05
93 7 0.03
94 8 0.03
95 2 0.01
96 7 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (85 bp):
AAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATG
CCACTGACTTGTGGGCTTTG
Found at i:784159 original size:113 final size:115
Alignment explanation
Indices: 783848--784209 Score: 421
Period size: 113 Copynumber: 3.1 Consensus size: 115
783838 CACTAATTTG
* * *
783848 TGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTAGGCTTT-AAAAGGAGTTGGCACCAACTTG
1 TGTGGGCTTTGAAAAGA--TGCCACTAACTTGTG--GGCTTTGAAAA-GA--TGCCACTAAC-T-
* * *
783912 TGTGGGCTTTGAAAGGGTATGCCATTGACTAATGGG-TTTTAAAATGGTGCCACTGACT
57 TGTGGGCTTTGAAAGGGTATGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTGACT
* * * * * * **
783970 TATTGGCTTTGAAAGGATGCCACTGA--TGTGGGCTTTGAAATGATGCCTCTAACTTGTGTTCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTT
*
784033 TGAAAGGGTATGCCATTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
66 TGAAAGGGTATGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTGACT
*
784083 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTT
* * * *
784148 TGAAA-AG-ATGCCACTGACTTATGGGCTTTGAAAAGGATGCCACTAACT
66 TGAAAGGGTATGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTGACT
784196 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
784210 GGGGTCGTAT
Statistics
Matches: 207, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
112 32 0.15
113 94 0.45
114 8 0.04
115 37 0.18
116 8 0.04
117 3 0.01
118 4 0.02
120 7 0.03
122 14 0.07
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (115 bp):
TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTT
TGAAAGGGTATGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:791049 original size:79 final size:79
Alignment explanation
Indices: 790916--791116 Score: 210
Period size: 79 Copynumber: 2.5 Consensus size: 79
790906 ATAATAACAG
* * ** ** *
790916 GGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-T
1 GGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAAT-ATT
*
790979 TAGAAAAAAAAATCG-
64 TAGAAAAAAAAACCGA
790994 GGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTT
1 GG-TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTT
* ** * *
791059 TGGGAATAAAGCCGA
65 AGAAAAAAAAACCGA
* * *
791074 GGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
791117 GATGAAATAA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
78 9 0.09
79 92 0.89
80 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (79 bp):
GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTA
GAAAAAAAAACCGA
Found at i:791127 original size:28 final size:28
Alignment explanation
Indices: 791073--791142 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
791063 AATAAAGCCG
** * *
791073 AGGTTGGAGTATCCCCTCGGAAGTAACG
1 AGGTTGGAGTATCCCCGAGGAAATAACA
* *
791101 GGGTTGGAGTATCCCCGATGAAATAACA
1 AGGTTGGAGTATCCCCGAGGAAATAACA
791129 AGGTTGGAGTATCC
1 AGGTTGGAGTATCC
791143 TCGACTGTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (28 bp):
AGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:791262 original size:52 final size:52
Alignment explanation
Indices: 791130--791520 Score: 196
Period size: 52 Copynumber: 7.5 Consensus size: 52
791120 GAAATAACAA
* * * *
791130 GGTTGGAGTATCCTCGACTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTTGAAAATAAAATCGG
* * ** * *
791182 AGTTAGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *
791234 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGA-AAATAAAATC-GG
* * * * *** * * *
791286 GATTGGAATATACCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* * * ** ** *
791337 GGTTGAAGTATCCCC---T-CGGAAATAACGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTATCCCCGATTGTGGAAA-AA-----TTGGTGT-T--TTGAAAATAAAATCGG
* *
791392 GATTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAA-AAATTGGTG--TTTTGAAAATAAAATCGG
* * * * *
791446 AGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *
791497 AGTTGGAATATCCCCGATTGTGGA
1 GGTTGGAGTATCCCCGATTGTGGA
791521 GAATTGAGAA
Statistics
Matches: 248, Mismatches: 63, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 72 0.29
52 89 0.36
53 24 0.10
54 26 0.10
55 19 0.08
56 1 0.00
57 3 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:791456 original size:54 final size:51
Alignment explanation
Indices: 791394--791523 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 51
791384 ATCAACGGGA
* * *
791394 TTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TCTTGAAAATAAAATCGGAG
*
791448 TTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGAG-AAATTAGTGTCTTGAAAATAAAATCGGAG
*
791499 TTGGAATATCCCCGATTGTGGAGAA
1 TTGGAGTATCCCCGATTGT-GAGAA
791524 TTGAGAAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.52
52 4 0.06
53 10 0.15
54 18 0.27
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAGAAATTAGTGTCTTGAAAATAAAATCGGAG
Found at i:791514 original size:263 final size:262
Alignment explanation
Indices: 791047--791520 Score: 731
Period size: 263 Copynumber: 1.8 Consensus size: 262
791037 CAATTACGAG
* * *
791047 AAATCAATATTTTGGGAATAAAGCCGAGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTA
1 AAATCAATATTTTGGAAATAAAGCCGAGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTA
*
791112 TCCCCGATGAAATAACAAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAA
66 TCCCCGATG-AATAACAAGGTTGGAGTATCCCCGACTGTGAAAAATTGGTATTTTTGGAAATAAA
* * *
791177 ATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGGGGTTGGAG
130 ATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGTGTTTCGAAAATAAAACCGGAGTTGGAA
791242 TATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACTGGGATTGGAATATACCCGATTAT
195 TATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACTGGGATTGGAATATACCCGATTAT
791307 GAA
260 GAA
* *
791310 AAATCAATATTTTGGAAATAAAGTCGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTA
1 AAATCAATATTTTGGAAATAAAGCCGAGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTA
* * *
791375 TCCCCGATG-ATCAAC-GGGATTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAAT
66 TCCCCGATGAAT-AACAAGG-TTGGAGTATCCCCGACTGTGAA-AAATTGGT-ATTTTTGGAAAT
* * *
791438 AAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAATTAGTGTCTT-GAAAATAAAATCGGAGTT
127 AAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGTGT-TTCGAAAATAAAACCGGAGTT
791501 GGAATATCCCCGATTGTGGA
191 GGAATATCCCCGATTGTGGA
791521 GAATTGAGAA
Statistics
Matches: 191, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
261 4 0.02
262 23 0.12
263 123 0.64
264 41 0.21
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (262 bp):
AAATCAATATTTTGGAAATAAAGCCGAGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTA
TCCCCGATGAATAACAAGGTTGGAGTATCCCCGACTGTGAAAAATTGGTATTTTTGGAAATAAAA
TCGGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGTGTTTCGAAAATAAAACCGGAGTTGGAAT
ATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACTGGGATTGGAATATACCCGATTATG
AA
Found at i:793899 original size:13 final size:13
Alignment explanation
Indices: 793881--793906 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
793871 ACAAAGATCC
793881 ATGTATCGATACA
1 ATGTATCGATACA
793894 ATGTATCGATACA
1 ATGTATCGATACA
793907 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:793902 original size:33 final size:33
Alignment explanation
Indices: 793860--793926 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
793850 AAAATTTCCA
***
793860 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
793893 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
793926 A
1 A
793927 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:793970 original size:19 final size:18
Alignment explanation
Indices: 793946--794013 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
793936 CAGTAGCTAA
793946 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
793965 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
793980 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
793997 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
794014 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:793986 original size:13 final size:13
Alignment explanation
Indices: 793968--793992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
793958 ACAATACTTA
793968 TGTATCGATACAT
1 TGTATCGATACAT
793981 TGTATCGATACA
1 TGTATCGATACA
793993 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:793990 original size:32 final size:32
Alignment explanation
Indices: 793949--794011 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
793939 TAGCTAATTA
*
793949 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
793981 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
794012 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:801137 original size:20 final size:20
Alignment explanation
Indices: 801114--801186 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
801104 ACAATTCAAA
801114 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
801134 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
801155 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
801175 GTATCGATACAT
1 GTATCGATACAT
801187 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:801158 original size:21 final size:21
Alignment explanation
Indices: 801132--801207 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
801122 ACATGTTGCA
801132 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
801153 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
801171 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
801194 ATGTATCGATACAT
1 ATGTATCGATACAT
801208 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:801165 original size:41 final size:41
Alignment explanation
Indices: 801114--801207 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
801104 ACAATTCAAA
* *
801114 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
801155 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
801196 GTATCGATACAT
1 GTATCGATACAT
801208 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:801264 original size:13 final size:13
Alignment explanation
Indices: 801246--801271 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801236 TACAGCAAGT
801246 ATGTATCGATACA
1 ATGTATCGATACA
801259 ATGTATCGATACA
1 ATGTATCGATACA
801272 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:803510 original size:21 final size:21
Alignment explanation
Indices: 803477--803521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
803467 TTGCAAGTTG
*
803477 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
803499 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
803519 AAA
1 AAA
803522 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:807439 original size:20 final size:21
Alignment explanation
Indices: 807370--807447 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
807360 AATGTCCAAA
*
807370 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
807390 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
807415 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
807435 TTGTATCGATACA
1 ATGTATCGATACA
807448 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:807454 original size:13 final size:13
Alignment explanation
Indices: 807436--807473 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
807426 CATTTTTCTT
807436 TGTATCGATACAA
1 TGTATCGATACAA
*
807449 TGTATCGATACAC
1 TGTATCGATACAA
807462 TGTATCGATACA
1 TGTATCGATACA
807474 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:809948 original size:20 final size:20
Alignment explanation
Indices: 809925--809997 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
809915 ACAATTCAAA
809925 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
809945 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
809966 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
809986 GTATCGATACAT
1 GTATCGATACAT
809998 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:809969 original size:21 final size:21
Alignment explanation
Indices: 809943--810018 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
809933 ACATGTTGCA
809943 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
809964 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
809982 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
810005 ATGTATCGATACAT
1 ATGTATCGATACAT
810019 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:809976 original size:41 final size:41
Alignment explanation
Indices: 809925--810018 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
809915 ACAATTCAAA
* *
809925 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
809966 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
810007 GTATCGATACAT
1 GTATCGATACAT
810019 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:810075 original size:13 final size:13
Alignment explanation
Indices: 810057--810082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
810047 TACAGCAAGT
810057 ATGTATCGATACA
1 ATGTATCGATACA
810070 ATGTATCGATACA
1 ATGTATCGATACA
810083 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:813745 original size:20 final size:20
Alignment explanation
Indices: 813717--813791 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
813707 TCATACCCTG
813717 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
813737 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
813757 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
813777 ATGTATCGATACATT
1 ATGTATCGATACATT
813792 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:813784 original size:40 final size:39
Alignment explanation
Indices: 813717--813794 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
813707 TCATACCCTG
* *
813717 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
813757 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
813795 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:814734 original size:24 final size:24
Alignment explanation
Indices: 814702--814759 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
814692 AGCCTTTGAC
814702 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
814726 CATGCA-TTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
814749 CATGCATTTTT
1 CATGCATTTTT
814760 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:814766 original size:20 final size:21
Alignment explanation
Indices: 814711--814766 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
814701 CCATGCATTT
**
814711 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
814732 TTTTTTTTATTATGTTTCATGCA
1 --TTTTTTAACATGTTTCATGCA
814755 -TTTTTAACATGT
1 TTTTTTAACATGT
814767 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
23 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:819384 original size:24 final size:23
Alignment explanation
Indices: 819331--819407 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 23
819321 ATCTTATCAT
* * *
819331 TTTTTTA-TGTTTAGTTATTTAG
1 TTTTTTATTTTTTATTTTTTTAG
**
819353 TTAATTATTTTTTATTATTTTTAG
1 TTTTTTATTTTTTATT-TTTTTAG
819377 TTTTTTA-TTTTTATTTTTTTAG
1 TTTTTTATTTTTTATTTTTTTAG
**
819399 AATTTTATT
1 TTTTTTATT
819408 CAATTTTATC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
22 17 0.40
23 15 0.35
24 11 0.26
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTTTATTTTTTATTTTTTTAG
Found at i:819386 original size:14 final size:14
Alignment explanation
Indices: 819362--819397 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
819352 GTTAATTATT
819362 TTTTATTATTTTTAG
1 TTTT-TTATTTTTAG
*
819377 TTTTTTATTTTTAT
1 TTTTTTATTTTTAG
819391 TTTTTTA
1 TTTTTTA
819398 GAATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTTTAG
Found at i:819396 original size:32 final size:31
Alignment explanation
Indices: 819330--819396 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
819320 GATCTTATCA
819330 TTTTTTTATGTTTAGTTATTTAGTTAATTAT
1 TTTTTTTATGTTTAGTTATTTAGTTAATTAT
* * *
819361 TTTTTATTATTTTTAGTTTTTTA-TT-TTTAT
1 TTTTT-TTATGTTTAGTTATTTAGTTAATTAT
819391 TTTTTT
1 TTTTTT
819397 AGAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 9 0.28
31 7 0.22
32 15 0.47
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (31 bp):
TTTTTTTATGTTTAGTTATTTAGTTAATTAT
Found at i:825369 original size:13 final size:13
Alignment explanation
Indices: 825351--825376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
825341 CAGAGTAGCT
825351 TTGTATCGATACA
1 TTGTATCGATACA
825364 TTGTATCGATACA
1 TTGTATCGATACA
825377 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:830414 original size:21 final size:21
Alignment explanation
Indices: 830381--830425 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
830371 TTGCAAGTTG
*
830381 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
830403 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
830423 AAA
1 AAA
830426 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:832249 original size:15 final size:15
Alignment explanation
Indices: 832229--832259 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
832219 TAAAAATGTC
*
832229 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
832244 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
832259 C
1 C
832260 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:834352 original size:20 final size:20
Alignment explanation
Indices: 834273--834352 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
834263 AATGTCCAAA
*
834273 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
834293 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
834318 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
834338 TTGTATCGATACATT
1 ATGTATCGATACATT
834353 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:834356 original size:13 final size:13
Alignment explanation
Indices: 834338--834376 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
834328 ACATTTTTCT
834338 TTGTATCGATACA
1 TTGTATCGATACA
834351 TTGTATCGATACA
1 TTGTATCGATACA
*
834364 CTGTATCGATACA
1 TTGTATCGATACA
834377 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:834521 original size:21 final size:21
Alignment explanation
Indices: 834497--834543 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
834487 AAATCTTTTG
834497 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
834518 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
834538 CAAAAT
1 CAAAAT
834544 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:834540 original size:20 final size:19
Alignment explanation
Indices: 834499--834541 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
834489 ATCTTTTGCA
834499 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
834519 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
834539 AAA
1 AAA
834542 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:836287 original size:24 final size:24
Alignment explanation
Indices: 836260--836306 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
836250 CCTTATTAAG
836260 GGGGAGAATGTACAAATTCGTTAT
1 GGGGAGAATGTACAAATTCGTTAT
836284 GGGGAGAATGTACAAATTCGTTA
1 GGGGAGAATGTACAAATTCGTTA
836307 AATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (24 bp):
GGGGAGAATGTACAAATTCGTTAT
Found at i:836966 original size:13 final size:13
Alignment explanation
Indices: 836948--836973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
836938 TACAGCAAGT
836948 ATGTATCGATACA
1 ATGTATCGATACA
836961 ATGTATCGATACA
1 ATGTATCGATACA
836974 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.