Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold501
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: 850550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:695108 original size:74 final size:74
Alignment explanation
Indices: 695016--695184 Score: 234
Period size: 74 Copynumber: 2.3 Consensus size: 74
695006 ATTAGATTTT
* * * *
695016 AAAAATTTAAACTCGTATAATCATACTAAAAAATAAATTTAAACTTT-TATAAAGAATAATAAGT
1 AAAAATTTAAACTTGTATAATCATACCAAAAAATAAATTTAAA-TTTCTATAAAGAAAAATAAAT
695080 CATACCTTAA
65 CATACCTTAA
* *
695090 AAAAATTTAAACTTGTATAATCATACCAAAAAATAAATTTAAATTTCTGTAAATAAAAATAAATC
1 AAAAATTTAAACTTGTATAATCATACCAAAAAATAAATTTAAATTTCTATAAAGAAAAATAAATC
* *
695155 ATACTTTTA
66 ATACCTTAA
*
695164 AAAAA-TTAAACTTGTGTAATC
1 AAAAATTTAAACTTGTATAATC
695185 CTTTCAAACT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 18 0.21
74 67 0.79
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (74 bp):
AAAAATTTAAACTTGTATAATCATACCAAAAAATAAATTTAAATTTCTATAAAGAAAAATAAATC
ATACCTTAA
Found at i:695926 original size:17 final size:17
Alignment explanation
Indices: 695886--695927 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
695876 CTAATTATTA
* *
695886 TTTA-ATTATATAAATT
1 TTTATATTAAATAAAAT
695902 TATTATATTAAATAAAAT
1 T-TTATATTAAATAAAAT
695920 TTTATATT
1 TTTATATT
695928 TTTCACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATATTAAATAAAAT
Found at i:696000 original size:12 final size:12
Alignment explanation
Indices: 695982--696011 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
695972 GAATAACATA
695982 AAAAAAATTAAGT
1 AAAAAAATTAA-T
695995 AAAAAAATTAAT
1 AAAAAAATTAAT
696007 AAAAA
1 AAAAA
696012 GAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAAAAATTAAT
Found at i:696018 original size:18 final size:18
Alignment explanation
Indices: 695995--696035 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
695985 AAAATTAAGT
695995 AAAAAAATTAATAAAAAG
1 AAAAAAATTAATAAAAAG
* *
696013 -AAAAAATTAGTAAAAAT
1 AAAAAAATTAATAAAAAG
696030 AAAAAA
1 AAAAAA
696036 GAAAAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAAAATTAATAAAAAG
Found at i:696040 original size:29 final size:29
Alignment explanation
Indices: 695983--696041 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
695973 AATAACATAA
*
695983 AAAAAATTAAGTAAAAAAATTAATAAAAAG
1 AAAAAATTAAGTAAAAAAA-TAAAAAAAAG
696013 AAAAAATT-AGTAAAAATAA-AAAAGAAAAG
1 AAAAAATTAAGTAAAAA-AATAAAA-AAAAG
696042 TAAAGTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 3 0.12
29 13 0.50
30 10 0.38
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (29 bp):
AAAAAATTAAGTAAAAAAATAAAAAAAAG
Found at i:696603 original size:19 final size:22
Alignment explanation
Indices: 696539--696608 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 22
696529 GCTAAGGGAA
**
696539 TGTATCGATACATTATTA-AA-
1 TGTATCGATACATGCTTACAAT
696559 TGTATCGATACATGCTTACAAT
1 TGTATCGATACATGCTTACAAT
*
696581 TGTATTGATACATGC-T-C-AT
1 TGTATCGATACATGCTTACAAT
696600 TGTATCGAT
1 TGTATCGAT
696609 GCATTCTGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 10 0.23
20 17 0.39
21 3 0.07
22 14 0.32
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
TGTATCGATACATGCTTACAAT
Found at i:703436 original size:12 final size:12
Alignment explanation
Indices: 703407--703457 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
703397 AAAAATAATG
*
703407 AAAAAGTCAAAAG
1 AAAAAG-CAAAAA
*
703420 CAAAAGCAAAAA
1 AAAAAGCAAAAA
*
703432 AAAAAACACAAAA
1 AAAAAGCA-AAAA
703445 AAAAA-CAAAAA
1 AAAAAGCAAAAA
703456 AA
1 AA
703458 TGCAAAGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 6 0.18
12 13 0.39
13 14 0.42
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (12 bp):
AAAAAGCAAAAA
Found at i:703444 original size:10 final size:10
Alignment explanation
Indices: 703430--703500 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
703420 CAAAAGCAAA
703430 AAAAAAAACAC
1 AAAAAAAA-AC
703441 AAAAAAAAAC
1 AAAAAAAAAC
**
703451 AAAAAAATGC
1 AAAAAAAAAC
*
703461 AAAGGAAAAATC
1 AAA--AAAAAAC
703473 AAAAAGGAAAAC
1 AAAAA--AAAAC
* *
703485 AACAAAAATC
1 AAAAAAAAAC
703495 AAAAAA
1 AAAAAA
703501 TAAAGACATG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 24 0.50
11 8 0.17
12 16 0.33
ACGTcount: A:0.77, C:0.11, G:0.07, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:704818 original size:33 final size:33
Alignment explanation
Indices: 704764--704915 Score: 171
Period size: 33 Copynumber: 4.6 Consensus size: 33
704754 GGTATCTCTT
* * *
704764 TTCCAAGTTCACGTCTCAGTGGCATCCTTTTCC
1 TTCCAAGTCCACGACTCAGTGGCATCCTTTTTC
* * *
704797 TTCCAAGTCCACGACTTAGTGGTATTCTTTTTC
1 TTCCAAGTCCACGACTCAGTGGCATCCTTTTTC
* **
704830 TTCCAAGTCCACAACTCAAAGGCATCCTTTTTC
1 TTCCAAGTCCACGACTCAGTGGCATCCTTTTTC
* *
704863 TTCCAAGTCCACGACTTAGTGGCATTCC-TTTAC
1 TTCCAAGTCCACGACTCAGTGGCA-TCCTTTTTC
* *
704896 TTCTAAGTCCACAACTCAGT
1 TTCCAAGTCCACGACTCAGT
704916 CGCAGCTTTT
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
33 95 0.97
34 3 0.03
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (33 bp):
TTCCAAGTCCACGACTCAGTGGCATCCTTTTTC
Found at i:704857 original size:66 final size:66
Alignment explanation
Indices: 704784--704913 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 66
704774 ACGTCTCAGT
* * *
704784 GGCATCCTTTTCCTTCCAAGTCCACGACTTAGTGGTATTCTTTTTCTTCCAAGTCCACAACTCAA
1 GGCATCCTTTTCCTTCCAAGTCCACGACTTAGTGGCATTCCTTTACTTCCAAGTCCACAACTCAA
704849 A
66 A
* *
704850 GGCATCCTTTTTCTTCCAAGTCCACGACTTAGTGGCATTCCTTTACTTCTAAGTCCACAACTCA
1 GGCATCCTTTTCCTTCCAAGTCCACGACTTAGTGGCATTCCTTTACTTCCAAGTCCACAACTCA
704914 GTCGCAGCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (66 bp):
GGCATCCTTTTCCTTCCAAGTCCACGACTTAGTGGCATTCCTTTACTTCCAAGTCCACAACTCAA
A
Found at i:705010 original size:30 final size:30
Alignment explanation
Indices: 704974--705084 Score: 98
Period size: 30 Copynumber: 3.6 Consensus size: 30
704964 GTGGCATTTT
* *
704974 TTTCTTCCCAAAGTCCATGATTCAATGGCA
1 TTTCTTCCCAAAGTCCACGACTCAATGGCA
* *
705004 TTTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TTTCTTCCCAAAGTCCACGACTCAATGGCA
* *
705034 TTCTTTTTCTTCC-AAGTCCACGACTCAGTGGCA
1 -T-TTCTTC--CCAAAGTCCACGACTCAATGGCA
* * *
705067 TCTCTTCTCAAAGCCCAC
1 TTTCTTCCCAAAGTCCAC
705085 AACTTCATAG
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.02
30 33 0.50
31 5 0.08
32 6 0.09
33 20 0.30
34 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.32
Consensus pattern (30 bp):
TTTCTTCCCAAAGTCCACGACTCAATGGCA
Found at i:705053 original size:33 final size:33
Alignment explanation
Indices: 704939--705072 Score: 150
Period size: 33 Copynumber: 4.1 Consensus size: 33
704929 TAAGTCCACC
* *
704939 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATT
1 CTTTTTCTTCCAAGTCCACGACTCAGTGGCATT
* * *
704972 -TTTTTCTTCCCAAAGTCCATGATTCAATGGCA-T
1 CTTTTTCTT-CC-AAGTCCACGACTCAGTGGCATT
* *
705005 -TTCTTC-TCAAAGTCCACGACTCAGTGGCATT
1 CTTTTTCTTCCAAGTCCACGACTCAGTGGCATT
705036 CTTTTTCTTCCAAGTCCACGACTCAGTGGCATCT
1 CTTTTTCTTCCAAGTCCACGACTCAGTGGCAT-T
705070 CTT
1 CTT
705073 CTCAAAGCCC
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
30 17 0.20
31 2 0.02
32 14 0.17
33 30 0.36
34 20 0.24
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (33 bp):
CTTTTTCTTCCAAGTCCACGACTCAGTGGCATT
Found at i:705076 original size:63 final size:64
Alignment explanation
Indices: 704950--705084 Score: 193
Period size: 63 Copynumber: 2.1 Consensus size: 64
704940 TTTTTCTTCT
* * * *
704950 AAGTCCACGACTTAGTGGCATTTTTTTCTTCCCAAAGTCCATGATTCAATGGCATTTCTTCTCA
1 AAGTCCACGACTCAGTGGCATTTTTTTCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCA
*
705014 AAGTCCACGACTCAGTGGCATTCTTTTTCTT-CC-AAGTCCACGACTCAGTGGCATCTCTTCTCA
1 AAGTCCACGACTCAGTGGCATT-TTTTTCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCA
*
705077 AAGCCCAC
1 AAGTCCAC
705085 AACTTCATAG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 33 0.52
64 23 0.36
65 8 0.12
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (64 bp):
AAGTCCACGACTCAGTGGCATTTTTTTCTTCCCAAAGTCCACGACTCAATGGCATCTCTTCTCA
Found at i:705183 original size:34 final size:34
Alignment explanation
Indices: 705099--705357 Score: 149
Period size: 34 Copynumber: 7.9 Consensus size: 34
705089 TCATAGCACA
* * *
705099 TTTTAAGTCCATAACTCCGTGGTAAC-TTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTTCC
* * * *
705132 TTTCAAAGCCCATAACTCCGTGGCATCTTTTTTCC
1 TTT-TAAGTCCACAACTCCGTGGCACCTTTTTTCC
* *
705167 TTTTAAGTTCACAACTCCGTGGCACCCTTTCTT-C
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTTCC
* ** * *
705201 TTTTAAGTCCACGACTTAGTGGCA--TCTCTT-C
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTTCC
** * * *
705232 -TCAAAG-CTCAAAACTTCATGGCA--------CC
1 TTTTAAGTC-CACAACTCCGTGGCACCTTTTTTCC
705257 TTTTAAGTCCACAACTCCGTGGCACCTTTTTT-C
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTTCC
705290 TTTTCAAAG-CCTACAACTCCGTGGCA-CTATTTTTCC
1 TTTT--AAGTCC-ACAACTCCGTGGCACCT-TTTTTCC
*
705326 TTTTAAGTCCACAACTCTGTGGCACCTTTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTT
705358 AGTCCATAAC
Statistics
Matches: 177, Mismatches: 27, Indels: 43
0.72 0.11 0.17
Matches are distributed among these distances:
25 1 0.01
26 16 0.09
27 1 0.01
29 1 0.01
30 15 0.08
31 6 0.03
33 8 0.05
34 82 0.46
35 42 0.24
36 5 0.03
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.37
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTTCC
Found at i:705232 original size:158 final size:159
Alignment explanation
Indices: 705014--705351 Score: 475
Period size: 158 Copynumber: 2.1 Consensus size: 159
705004 TTTCTTCTCA
* * ** **
705014 AAGTCCACGACTCAGTGGCATTCTTT-TTCTTCCAAGTCCACGACTCAGTGGCATCTCTTCTCAA
1 AAGTCCACAACTCCGTGGCACCCTTTCTTCTTTTAAGTCCACGACTCAGTGGCATCTCTTCTCAA
* * *
705078 AGCCCACAACTTCATAGCACATTTTAAGTCCATAACTCCGTGGTAAC-TTTTTCCTTTCAAAGCC
66 AGCCCAAAACTTCATAGCACATTTTAAGTCCACAACTCCGTGGCAACTTTTTTCCTTTCAAAGCC
*
705142 CATAACTCCGTGGCATCT-TTTTTCCTTTT
131 CACAACTCCGTGGCA-CTATTTTTCCTTTT
* *
705171 AAGTTCACAACTCCGTGGCACCCTTTCTTCTTTTAAGTCCACGACTTAGTGGCATCTCTTCTCAA
1 AAGTCCACAACTCCGTGGCACCCTTTCTTCTTTTAAGTCCACGACTCAGTGGCATCTCTTCTCAA
* * * * *
705236 AGCTCAAAACTTCATGGCACCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCAAAGCC
66 AGCCCAAAACTTCATAGCACATTTTAAGTCCACAACTCCGTGGCAACTTTTTTCCTTTCAAAGCC
*
705301 TACAACTCCGTGGCACTATTTTTCCTTTT
131 CACAACTCCGTGGCACTATTTTTCCTTTT
*
705330 AAGTCCACAACTCTGTGGCACC
1 AAGTCCACAACTCCGTGGCACC
705352 TTTTTTAGTC
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
157 21 0.13
158 77 0.49
159 60 0.38
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (159 bp):
AAGTCCACAACTCCGTGGCACCCTTTCTTCTTTTAAGTCCACGACTCAGTGGCATCTCTTCTCAA
AGCCCAAAACTTCATAGCACATTTTAAGTCCACAACTCCGTGGCAACTTTTTTCCTTTCAAAGCC
CACAACTCCGTGGCACTATTTTTCCTTTT
Found at i:705306 original size:35 final size:34
Alignment explanation
Indices: 705255--705357 Score: 140
Period size: 35 Copynumber: 3.0 Consensus size: 34
705245 CTTCATGGCA
705255 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTT
705289 -CTTTTCAAAG-CCTACAACTCCGTGGCA-CTATTTTT
1 CCTTTT--AAGTCC-ACAACTCCGTGGCACCT-TTTTT
*
705324 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTT
705358 AGTCCATAAC
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
33 5 0.08
34 25 0.41
35 26 0.43
36 5 0.08
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTT
Found at i:705382 original size:27 final size:27
Alignment explanation
Indices: 705326--705382 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
705316 CTATTTTTCC
*
705326 TTTTAAGTCCACAACTCTGTGGCACCT
1 TTTTAAGTCCACAACTCTGTGGCACAT
* * *
705353 TTTTTAGTCCATAACT-TCGTGGCATAT
1 TTTTAAGTCCACAACTCT-GTGGCACAT
705380 TTT
1 TTT
705383 CCTTCAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCACAT
Found at i:705434 original size:32 final size:33
Alignment explanation
Indices: 705389--705586 Score: 198
Period size: 32 Copynumber: 6.2 Consensus size: 33
705379 TTTTCCTTCA
* *
705389 AAAGCCCATACAAGTTGGTGGCAACCTCTTCT-
1 AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
* * *
705421 AAAGCTCACACAAGTTGGTGGCAACC-CTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
*
705453 AAAGCCCACACAAGTCGGTGGCAACCTCTT-TG
1 AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
* * *
705485 AAAGCCCATACCAGTCGATGGCAACC-CTTCT-
1 AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
* **
705516 AAAGCCCACATAAGTCAATGGCAA-CT-TTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
*
705547 AAAAGCCCACACAAGTCGGTGGC-ATCTCTT-TC
1 -AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
*
705579 TAAGCCCA
1 AAAGCCCA
705587 ATGTTGCTGG
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
30 5 0.04
31 35 0.25
32 96 0.68
33 5 0.04
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCTCTTCTC
Found at i:705553 original size:95 final size:95
Alignment explanation
Indices: 705389--705570 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 95
705379 TTTTCCTTCA
* * * ***
705389 AAAGCCCATACAAGTTGGTGGCAACCTCTTCTAAAGCTCACACAAGTTGGTGGCAACCCTTTTCA
1 AAAGCCCATACAAGTCGATGGCAACCTCTTCTAAAGCCCACACAAGTCAATGGCAA-CCTTTTCA
705454 AAGCCCACACAAGTCGGTGGCAACCTCTTTG
65 AAGCCCACACAAGTCGGTGGCAACCTCTTTG
* *
705485 AAAGCCCATACCAGTCGATGGCAACC-CTTCTAAAGCCCACATAAGTCAATGGCAA-CTTTCTCA
1 AAAGCCCATACAAGTCGATGGCAACCTCTTCTAAAGCCCACACAAGTCAATGGCAACCTTT-TC-
705548 AAAGCCCACACAAGTCGGTGGCA
64 AAAGCCCACACAAGTCGGTGGCA
705571 TCTCTTTCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 4 0.05
94 2 0.03
95 47 0.62
96 23 0.30
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (95 bp):
AAAGCCCATACAAGTCGATGGCAACCTCTTCTAAAGCCCACACAAGTCAATGGCAACCTTTTCAA
AGCCCACACAAGTCGGTGGCAACCTCTTTG
Found at i:705584 original size:63 final size:62
Alignment explanation
Indices: 705407--705586 Score: 168
Period size: 63 Copynumber: 2.8 Consensus size: 62
705397 TACAAGTTGG
* * * **
705407 TGGCAACCTCTTCT-AAAGCTCACACAAGTTGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGG
1 TGGCAACCTCTT-TAAAAGCCCACACAAGTCGGTGGCAA-CC-TTTCTAAGCCCACACAAGTCAA
* * * * * *
705471 TGGCAACCTCTTTGAAAGCCCATACCAGTCGATGGCAACCCTTCTAAAGCCCACATAAGTCAA
1 TGGCAACCTCTTTAAAAGCCCACACAAGTCGGTGGCAACCTTTCT-AAGCCCACACAAGTCAA
*
705534 TGGCAA-CT-TTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTAAGCCCA
1 TGGCAACCTCTT-T-AAAAGCCCACACAAGTCGGTGGCAAC-CTTTCTAAGCCCA
705587 ATGTTGCTGG
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
61 2 0.02
62 6 0.06
63 51 0.54
64 36 0.38
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (62 bp):
TGGCAACCTCTTTAAAAGCCCACACAAGTCGGTGGCAACCTTTCTAAGCCCACACAAGTCAA
Found at i:705784 original size:49 final size:49
Alignment explanation
Indices: 705637--705777 Score: 237
Period size: 49 Copynumber: 2.9 Consensus size: 49
705627 CATCTCTTTC
* *
705637 TAAGTTCAATGTCGTTGGCCTTGAATCAACACATTGGCACTTTCATCTT
1 TAAGTCCAATGTCGATGGCCTTGAATCAACACATTGGCACTTTCATCTT
*
705686 TAAGTCCAATGTCGATGGCCTTGAATCAACACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGATGGCCTTGAATCAACACATTGGCACTTTCATCTT
* *
705735 TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACTTT
1 TAAGTCCAATGTCGATGGCCTTGAATCAACACATTGGCACTTT
705778 TTTCTTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATGTCGATGGCCTTGAATCAACACATTGGCACTTTCATCTT
Found at i:708956 original size:52 final size:52
Alignment explanation
Indices: 708886--709006 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
708876 GAAAATTTAT
*
708886 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
708938 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
708990 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
709007 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:709019 original size:52 final size:51
Alignment explanation
Indices: 708886--709026 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
708876 GAAAATTTAT
708886 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
708938 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
708990 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
709027 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:709033 original size:13 final size:13
Alignment explanation
Indices: 709015--709039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709005 CAAAGATCAG
709015 TGTATCGATACAA
1 TGTATCGATACAA
709028 TGTATCGATACA
1 TGTATCGATACA
709040 TGTGAGTAAT
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:709123 original size:13 final size:13
Alignment explanation
Indices: 709105--709129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709095 CAAAAAAATA
709105 TGTATCGATACAT
1 TGTATCGATACAT
709118 TGTATCGATACA
1 TGTATCGATACA
709130 ACATTTTATG
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:709125 original size:33 final size:33
Alignment explanation
Indices: 709083--709149 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
709073 AGTAGCTTAA
709083 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
709116 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
709149 A
1 A
709150 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:709503 original size:38 final size:39
Alignment explanation
Indices: 709452--709538 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 39
709442 AAGTGTCTAC
* *
709452 AGCCTTGAATCAGCACATTGGCA-CAATCCAATATCGCT
1 AGCCTTGAATCAGCACATTGGCATAAACCCAATATCGCT
709490 AGCCTTGAATCAGCACATTGGCATAAACCCAATATCGCT
1 AGCCTTGAATCAGCACATTGGCATAAACCCAATATCGCT
709529 AGCCTTGAAT
1 AGCCTTGAAT
709539 AAGTATATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 23 0.50
39 23 0.50
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (39 bp):
AGCCTTGAATCAGCACATTGGCATAAACCCAATATCGCT
Found at i:709620 original size:52 final size:52
Alignment explanation
Indices: 709564--710029 Score: 241
Period size: 52 Copynumber: 8.8 Consensus size: 52
709554 TTTACCATCT
* *
709564 TTAAGTCCAATGTCGCTGGCCTTAAATCAACATATTAGCACCTTTTTCTTTC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTCTTTC
* ** * *
709616 TTAAGTCCAATATC-ATCGGTTTTGAAT-AAGCATATTGGCA-CTTTTGTC-ATC
1 TTAAGTCCAATATCGCT-GGCCTTGAATCAA-CATATTAGCACCTTTT-TCTTTC
* * * * *
709667 TATCAGTCTAATATCGCTGGCCGTGACTCATCATATTAGCACCTTTATCATTCTTTGCATC
1 T-TAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACC-TT-T--TTC-TT---TC
* * * * ** *
709728 TTTGAGTCTAATGTCGTTAACTTTGAATCAACATATTAGCA-C-TTTTCTTTTC
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTC-TTTC
** ** * * * * *
709780 TTAAGTCCAATATCATTGGCCTTGAATCAGTATATTAACGCATTTGTC-ATC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTCTTTC
* * * *
709831 TTCAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCA-CTGTTTTCTTTC
1 TT-AAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCT-TTTTCTTTC
* * * * * * * *
709884 TTAAGTCTAATATCGCTGGCCTTAAATCAGCATACTAACGCCTTTGTC-CTC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTCTTTC
* * * ** *
709935 TTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTAGCACCTTCGTC-CTC
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTCTTTC
* * * * *
709987 TTTAAGCCCAATATCACTAGCTTTGAATCAGCATATTAGCACC
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACC
710030 ATTATCATTC
Statistics
Matches: 313, Mismatches: 77, Indels: 48
0.71 0.18 0.11
Matches are distributed among these distances:
51 47 0.15
52 205 0.65
53 13 0.04
54 2 0.01
55 7 0.02
56 2 0.01
57 2 0.01
58 1 0.00
60 1 0.00
61 32 0.10
62 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTTTCTTTC
Found at i:709702 original size:104 final size:104
Alignment explanation
Indices: 709533--709721 Score: 243
Period size: 104 Copynumber: 1.8 Consensus size: 104
709523 ATCGCTAGCC
* * * *
709533 TTGAATAAGTATATTGGAACCTTTACCATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACATA
1 TTGAATAAGCATATTGGAACCTTTACCATCTATAAGTCCAATATCGCTGGCCGTAAATCAACATA
* *
709598 TTAGCACCTTTTTCTTTCTTAAGTCCAATATCATCGGTT
66 TTAGCACCTTTATCATTCTTAAGTCCAATATCATCGGTT
* * ** * * * * *
709637 TTGAATAAGCATATTGGCACTTTTGTCATCTATCAGTCTAATATCGCTGGCCGTGACTCATCATA
1 TTGAATAAGCATATTGGAACCTTTACCATCTATAAGTCCAATATCGCTGGCCGTAAATCAACATA
709702 TTAGCACCTTTATCATTCTT
66 TTAGCACCTTTATCATTCTT
709722 TGCATCTTTG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
104 70 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (104 bp):
TTGAATAAGCATATTGGAACCTTTACCATCTATAAGTCCAATATCGCTGGCCGTAAATCAACATA
TTAGCACCTTTATCATTCTTAAGTCCAATATCATCGGTT
Found at i:709923 original size:104 final size:103
Alignment explanation
Indices: 709732--710021 Score: 323
Period size: 104 Copynumber: 2.8 Consensus size: 103
709722 TGCATCTTTG
* * * * *
709732 AGTCTAATGTCGTTAACTTTGAATCAACATATTAGCACTTTTCTTTTCTTAAGTCCAATATCATT
1 AGTCCAATGTCGCTAGCCTTGAATCAACATATTAGCACTTTTCTTTTCTTAAGTCCAATATCACT
* * *
709797 GGCCTTGAATCAGTATATTAACGCATTTGTCATCTTCA
66 GGCCTTAAATCAGCATACTAACGCATTTGTCATCTTCA
* * * *
709835 AGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACTGTTT-TCTTTCTTAAGTCTAATATCG
1 AGTCCAATGTCGCTAGCCTTGAATCAACATATTAGCACT-TTTCT-TTTCTTAAGTCCAATATCA
* * *
709899 CTGGCCTTAAATCAGCATACTAACGCCTTTGTCCTCTTTA
64 CTGGCCTTAAATCAGCATACTAACGCATTTGTCATCTTCA
* * ** *
709939 AGTCCAATGTCGCTAGCCTTGAATCAACACATTAGCAC-CTTCGTCCTCTTTAAGCCCAATATCA
1 AGTCCAATGTCGCTAGCCTTGAATCAACATATTAGCACTTTTC-TTTTC-TTAAGTCCAATATCA
* * *
710003 CTAGCTTTGAATCAGCATA
64 CTGGCCTTAAATCAGCATA
710022 TTAGCACCAT
Statistics
Matches: 155, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
102 2 0.01
103 36 0.23
104 117 0.75
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (103 bp):
AGTCCAATGTCGCTAGCCTTGAATCAACATATTAGCACTTTTCTTTTCTTAAGTCCAATATCACT
GGCCTTAAATCAGCATACTAACGCATTTGTCATCTTCA
Found at i:715987 original size:2 final size:2
Alignment explanation
Indices: 715980--716010 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
715970 AAAATTAACA
*
715980 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
716011 CTTTTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:716793 original size:12 final size:12
Alignment explanation
Indices: 716776--716816 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
716766 GTATACATAC
*
716776 ATATACATATGT
1 ATATACATATAT
716788 ATATACATATAT
1 ATATACATATAT
*
716800 ATATATATATAT
1 ATATACATATAT
716812 ATATA
1 ATATA
716817 AAGAAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (12 bp):
ATATACATATAT
Found at i:716803 original size:4 final size:4
Alignment explanation
Indices: 716745--716816 Score: 56
Period size: 4 Copynumber: 18.0 Consensus size: 4
716735 ACATGAATTT
* * * * * * *
716745 TATA TACA TACA TATA CATA -AGTA TACA TACA TATA CATA TGTA TATA
1 TATA TATA TATA TATA TATA TA-TA TATA TATA TATA TATA TATA TATA
*
716793 CATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA
716817 AAGAAGGAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
3 1 0.02
4 53 0.96
5 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (4 bp):
TATA
Found at i:716816 original size:10 final size:10
Alignment explanation
Indices: 716745--716812 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
716735 ACATGAATTT
716745 TATATACATA
1 TATATACATA
*
716755 CATATACATA
1 TATATACATA
716765 -AGTATACATA
1 TA-TATACATA
*
716775 CATATACATA
1 TATATACATA
716785 TGTATATACATA
1 --TATATACATA
*
716797 TATATATATA
1 TATATACATA
716807 TATATA
1 TATATA
716813 TATAAAGAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.02
10 40 0.78
11 1 0.02
12 9 0.18
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (10 bp):
TATATACATA
Found at i:717393 original size:2 final size:2
Alignment explanation
Indices: 717386--717420 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
717376 CATTACGGAC
717386 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
717421 TCTTTCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:719848 original size:218 final size:218
Alignment explanation
Indices: 719456--719863 Score: 556
Period size: 218 Copynumber: 1.9 Consensus size: 218
719446 TTTTTCATGT
*
719456 TACTGTTTAAGAGCTTGTTTCAAGCCATATAATGACTTGATAAGTTTGAACACTTTATTTTATTT
1 TACTGTTTAAGAGCTTATTTCAAGCCATATAATGACTTGATAAGTTTGAACACTTTATTTTATTT
* * * *
719521 TTCTATAATAACAAACCTATCGAGTTGCTTTACATAAACTTTTCATTAAGGTCACTATTTAAAAA
66 TTCTATAATAACAAACCTATCAAGTTGCTTTACATAAACTTTCCATCAAGATCACTATTTAAAAA
*
719586 AAACTTTCTTTATATCCATTTGATGTATTCTCATCTTCTTAATAACAAAAATAGCTATTACCGTT
131 AAACTTTCTTTATATCCATTTGATGTATTCTCATCTTATTAATAACAAAAATAGCTATTACCGTT
719651 TGTATGGATATTATTCTTTATGC
196 TGTATGGATATTATTCTTTATGC
* * * * * *
719674 TACTGTTTAGGAGTTTATTTCAAGTCATATAATGACTTGGTAAGTTTGCACACTTTATTTT-GTT
1 TACTGTTTAAGAGCTTATTTCAAGCCATATAATGACTTGATAAGTTTGAACACTTTATTTTATTT
* * * *
719738 TTCTTTTAATAATAAACCTATCAAGTTG-TTGTATATAAACCTTTCCATCCAGATCACTATTT-A
66 TTC-TATAATAACAAACCTATCAAGTTGCTT-TACATAAA-CTTTCCATCAAGATCACTATTTAA
** * *
719801 GGAAAACTTGT-TTTATATCCATTTGATGTATT-TCTATCTTATTAATAACAACAATTGCTATTA
128 AAAAAACTT-TCTTTATATCCATTTGATGTATTCTC-ATCTTATTAATAACAAAAATAGCTATTA
719864 ATATTCGTAT
Statistics
Matches: 165, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
217 9 0.05
218 137 0.83
219 19 0.12
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (218 bp):
TACTGTTTAAGAGCTTATTTCAAGCCATATAATGACTTGATAAGTTTGAACACTTTATTTTATTT
TTCTATAATAACAAACCTATCAAGTTGCTTTACATAAACTTTCCATCAAGATCACTATTTAAAAA
AAACTTTCTTTATATCCATTTGATGTATTCTCATCTTATTAATAACAAAAATAGCTATTACCGTT
TGTATGGATATTATTCTTTATGC
Found at i:723063 original size:16 final size:17
Alignment explanation
Indices: 723044--723084 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
723034 TCTATTCTTA
*
723044 TTATATTATATTAT-TT
1 TTATATTATATCATATT
723060 TTATATTATATCATATT
1 TTATATTATATCATATT
723077 TTA-ATTAT
1 TTATATTAT
723085 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTATATCATATT
Found at i:723084 original size:21 final size:21
Alignment explanation
Indices: 723042--723084 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
723032 TATCTATTCT
* *
723042 TATTATATTATATTATTTTTA
1 TATTATATCATATTATTATTA
723063 TATTATATCATATT-TTAATTA
1 TATTATATCATATTATT-ATTA
723084 T
1 T
723085 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATATCATATTATTATTA
Found at i:724701 original size:7 final size:6
Alignment explanation
Indices: 724688--724729 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
724678 AAAATTCAAT
724688 AATAAA AATAAA AATAAA AATAAA AATAAA ACATAAA TAATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAAA -AATA
724730 TTTGCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 25 0.74
7 8 0.24
8 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:724711 original size:18 final size:20
Alignment explanation
Indices: 724685--724729 Score: 76
Period size: 18 Copynumber: 2.4 Consensus size: 20
724675 TTCAAAATTC
724685 AATAATAAAAATAAAA-ATA
1 AATAATAAAAATAAAACATA
724704 AA-AATAAAAATAAAACATA
1 AATAATAAAAATAAAACATA
724723 AATAATA
1 AATAATA
724730 TTTGCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.54
19 7 0.29
20 4 0.17
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AATAATAAAAATAAAACATA
Found at i:727221 original size:23 final size:23
Alignment explanation
Indices: 727184--727235 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 23
727174 ATATTCATAA
727184 TTTAATTTTAATTATTAAATATATT
1 TTTAATTTT-ATTATT-AATATATT
*
727209 TTTAATTTT-TTATTAATATTTT
1 TTTAATTTTATTATTAATATATT
727231 TTTAA
1 TTTAA
727236 AAATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.46
23 5 0.19
25 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTAATTTTATTATTAATATATT
Found at i:727328 original size:25 final size:23
Alignment explanation
Indices: 727300--727347 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
727290 AACATAAAAT
727300 TATAACTATTATTATAAAATATATA
1 TATAACTA-TATTATAAAA-ATATA
*
727325 TATAATTATATTATAAAAATATA
1 TATAACTATATTATAAAAATATA
727348 AATTTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 10 0.45
25 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAACTATATTATAAAAATATA
Found at i:727355 original size:27 final size:27
Alignment explanation
Indices: 727293--727359 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
727283 AATCAGAAAC
* *
727293 ATAAAATTATAACTATTATTATAAAAT
1 ATAAATTTATAATTATTATTATAAAAT
*
727320 AT--ATATATAATTA-TATTATAAAAAT
1 ATAAATTTATAATTATTATTAT-AAAAT
727345 ATAAATTTATAATTA
1 ATAAATTTATAATTA
727360 AAAAAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.18
25 15 0.45
27 12 0.36
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
ATAAATTTATAATTATTATTATAAAAT
Found at i:728046 original size:13 final size:13
Alignment explanation
Indices: 728028--728053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728018 AAATTATTAG
728028 TATAATTGATATT
1 TATAATTGATATT
728041 TATAATTGATATT
1 TATAATTGATATT
728054 ATTTAAATAA
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:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TATAATTGATATT
Found at i:728256 original size:23 final size:25
Alignment explanation
Indices: 728225--728274 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
728215 ACGTGTCATG
* *
728225 TAAAGATAAGTT-T-TTTATTTTTT
1 TAAAAATAAGTTATATTAATTTTTT
728248 TAAAAATAAGTTATATTAATTTTTT
1 TAAAAATAAGTTATATTAATTTTTT
728273 TA
1 TA
728275 CATTGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (25 bp):
TAAAAATAAGTTATATTAATTTTTT
Found at i:728735 original size:17 final size:16
Alignment explanation
Indices: 728696--728741 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
728686 TTTTTATTAT
*
728696 TATTATATTATAATCA
1 TATTATATTATAATAA
728712 -ATT-TATTATAATAA
1 TATTATATTATAATAA
*
728726 TATTAATATTAAAATA
1 TATT-ATATTATAATA
728742 GCACAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 10 0.40
15 6 0.24
17 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTATATTATAATAA
Found at i:730297 original size:25 final size:25
Alignment explanation
Indices: 730269--730328 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
730259 TTAATAAATA
730269 ATTATAAATATTAATA-AAATTATTT
1 ATTATAAATATTAATACAAATT-TTT
* **
730294 ATTA-AAAAAGAAATACAAATTTTT
1 ATTATAAATATTAATACAAATTTTT
730318 -TTATAAATATT
1 ATTATAAATATT
730329 TAATTATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
23 3 0.11
24 15 0.56
25 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATAAATATTAATACAAATTTTT
Found at i:730673 original size:21 final size:23
Alignment explanation
Indices: 730622--730673 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
730612 GCAAATATAT
*
730622 ATTTTATAATTAATTATAATTTT
1 ATTTTATAATTAATTATAATTTC
730645 ATTATTATAA-TAA-T-TAATTTC
1 ATT-TTATAATTAATTATAATTTC
730666 ACTTTTAT
1 A-TTTTAT
730674 CTTTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 11 0.42
22 3 0.12
23 6 0.23
24 6 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTATAATTAATTATAATTTC
Found at i:731607 original size:18 final size:18
Alignment explanation
Indices: 731581--731624 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
731571 ATAAAAATAA
731581 AAATATAA-TATAAATTATT
1 AAATATAATTA-AAATT-TT
731600 AAAT-TAATTAAAATTTT
1 AAATATAATTAAAATTTT
731617 AAATATAA
1 AAATATAA
731625 ATTTGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.26
18 11 0.48
19 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATAATTAAAATTTT
Found at i:731649 original size:9 final size:9
Alignment explanation
Indices: 731630--731670 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
731620 TATAAATTTG
731630 ATATT-ATT
1 ATATTAATT
731638 ATATTAATT
1 ATATTAATT
*
731647 ATATTAAAT
1 ATATTAATT
731656 ATATTATATT
1 ATATTA-ATT
731666 ATATT
1 ATATT
731671 TATAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 5 0.17
9 17 0.59
10 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTAATT
Found at i:731695 original size:14 final size:13
Alignment explanation
Indices: 731634--731695 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
731624 AATTTGATAT
*
731634 TATTATATTAATTA
1 TATTATATTTA-TA
* *
731648 TATTAAATATATTA
1 TATTATATTTA-TA
731662 TATTATATTTATA
1 TATTATATTTATA
*
731675 AATTTATATTTGATA
1 TA-TTATATTT-ATA
731690 TATTAT
1 TATTAT
731696 TATCAATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 3 0.08
14 32 0.82
15 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TATTATATTTATA
Found at i:731698 original size:25 final size:23
Alignment explanation
Indices: 731633--731726 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 23
731623 AAATTTGATA
731633 TTAT-TATATTAATTA-TATTAAAT
1 TTATATATATT-ATTATTA-TAAAT
*
731656 ATAT-TATATTA-TATTTATAAAT
1 TTATATATATTATTA-TTATAAAT
* *
731678 TTATATTTGATATATTATTATCAA-
1 TTATATAT-AT-TATTATTATAAAT
731702 TTATATATATTATTATTAATAAAT
1 TTATATATATTATTATT-ATAAAT
731726 T
1 T
731727 AAATAATGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.04
22 16 0.28
23 19 0.33
24 10 0.18
25 8 0.14
26 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TTATATATATTATTATTATAAAT
Found at i:731782 original size:21 final size:21
Alignment explanation
Indices: 731758--731798 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
731748 AATATAATTA
*
731758 TTTATATTTATTTTTTAAAAT
1 TTTATATTTATTTGTTAAAAT
731779 TTTATATTTATTTGTTAAAA
1 TTTATATTTATTTGTTAAAA
731799 AGATACTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATATTTATTTGTTAAAAT
Found at i:731838 original size:23 final size:23
Alignment explanation
Indices: 731819--731864 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
731809 ATTATATGAC
731819 AAATAAT-TAAAATATAATATAAA
1 AAATAATATAAAA-ATAATATAAA
731842 AAATAATATAAAAATAATATAAA
1 AAATAATATAAAAATAATATAAA
731865 TATATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAATATAAAAATAATATAAA
Found at i:731847 original size:12 final size:12
Alignment explanation
Indices: 731819--731864 Score: 69
Period size: 11 Copynumber: 4.0 Consensus size: 12
731809 ATTATATGAC
731819 AAATAAT-TAAA
1 AAATAATATAAA
*
731830 ATATAATATAAA
1 AAATAATATAAA
731842 AAATAATAT-AA
1 AAATAATATAAA
731853 AAATAATATAAA
1 AAATAATATAAA
731865 TATATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 17 0.55
12 14 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATAATATAAA
Found at i:731882 original size:56 final size:56
Alignment explanation
Indices: 731822--731987 Score: 151
Period size: 57 Copynumber: 2.9 Consensus size: 56
731812 ATATGACAAA
731822 TAATTAAAATATAATATAAAAAATAATATAAAAATAATATAAATATATAAATATTT
1 TAATTAAAATATAATATAAAAAATAATATAAAAATAATATAAATATATAAATATTT
* * * * *
731878 TAATT--TATATAATATAAATTATTAACATATTAAAATTTATATAAATATA-AAATATTT
1 TAATTAAAATATAATATAAA-AAAT-A-ATA-TAAAAATAATATAAATATATAAATATTT
* * * * * *
731935 TAAATATAATTATTATATAATAAAAT-ATATAAATATAATATTAATATTTAAAT
1 TAATTA-AAATATAATATAA-AAAATAATATAAAAATAATATAAATATATAAAT
731988 TATTAAATAT
Statistics
Matches: 85, Mismatches: 16, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
54 12 0.14
55 2 0.02
56 20 0.24
57 22 0.26
58 17 0.20
60 11 0.13
61 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (56 bp):
TAATTAAAATATAATATAAAAAATAATATAAAAATAATATAAATATATAAATATTT
Found at i:731952 original size:27 final size:27
Alignment explanation
Indices: 731841--731999 Score: 92
Period size: 27 Copynumber: 5.7 Consensus size: 27
731831 TATAATATAA
* * * *
731841 AAAATAATATAAAAATAATATAAATAT
1 AAAATATTTTAAATATAATATTAATAT
*
731868 ATAAATATTTTAATTTATATAATATAAATTATT
1 A-AAATATTTTAA---ATATAATATTAA-TA-T
* * * *
731901 AACATA-TTAAAAT-TTATATAAATAT
1 AAAATATTTTAAATATAATATTAATAT
731926 AAAATATTTTAAATATAATTATTATATAAT
1 AAAATATTTTAAATATAA-TATTA-AT-AT
*
731956 AAAATA-TATAAATATAATATTAATATT
1 AAAATATTTTAAATATAATATTAATA-T
* *
731983 TAAAT-TATTAAATATAA
1 AAAATATTTTAAATATAA
732000 AAATATTATA
Statistics
Matches: 105, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
25 6 0.06
26 9 0.09
27 27 0.26
28 20 0.19
29 12 0.11
30 8 0.08
31 15 0.14
32 6 0.06
33 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATATTTTAAATATAATATTAATAT
Found at i:731972 original size:18 final size:18
Alignment explanation
Indices: 731949--732063 Score: 60
Period size: 18 Copynumber: 6.3 Consensus size: 18
731939 TATAATTATT
731949 ATATAATAAAATATATAA
1 ATATAATAAAATATATAA
* *
731967 ATATAATATTAATATTTAA
1 ATATAATA-AAATATATAA
* *
731986 AT-T-ATTAAATATAAAA
1 ATATAATAAAATATATAA
* * *
732002 ATATTATATAATTTA-ATA
1 ATATAATAAAATATATA-A
* *
732020 ATA-ATATATAAATTTATAT
1 ATATA-ATA-AAATATATAA
732039 A-ATAATAATAATATATTAA
1 ATATAATAA-AATATA-TAA
732058 ATATAA
1 ATATAA
732064 ATTTTATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
16 9 0.12
17 5 0.07
18 32 0.44
19 21 0.29
20 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATAAAATATATAA
Found at i:731998 original size:45 final size:44
Alignment explanation
Indices: 731826--732063 Score: 144
Period size: 45 Copynumber: 5.4 Consensus size: 44
731816 GACAAATAAT
* * ** *
731826 TAAAATATA-ATATA-AAAAATAATATAAAAATAATATAAATATA
1 TAAAATATATAAATATAATAATAATATTTAAATTAT-TAAATATA
* * *
731869 T-AAATATTTTAAT-TTAT-ATAATA--TAAATTATTAACATAT-
1 TAAAATATATAAATATAATAATAATATTTAAATTATTAA-ATATA
*
731908 TAAAATTTATATAAATATAA-AAT-AT-TTTAAATATAATTATTATATAA
1 TAAAA--TATATAAATATAATAATAATATTTAAAT-T-ATTA-AATAT-A
*
731955 TAAAATATATAAATATAATATTAATATTTAAATTATTAAATATA
1 TAAAATATATAAATATAATAATAATATTTAAATTATTAAATATA
* *
731999 -AAAATATTATATAATTTAATAATAATATATAAATT-TATATAATA-A
1 TAAAATA-TATA-AATATAATAATAATATTTAAATTAT-TA-AATATA
732044 TAATAATATATTAAATATAA
1 TAA-AATATA-TAAATATAA
732064 ATTTTATATA
Statistics
Matches: 153, Mismatches: 17, Indels: 47
0.71 0.08 0.22
Matches are distributed among these distances:
39 4 0.03
40 13 0.08
42 21 0.14
43 19 0.12
44 7 0.05
45 48 0.31
46 20 0.13
47 14 0.09
48 7 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (44 bp):
TAAAATATATAAATATAATAATAATATTTAAATTATTAAATATA
Found at i:732022 original size:26 final size:28
Alignment explanation
Indices: 731994--732059 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
731984 AAATTATTAA
* *
731994 ATATAAAAATATTATATAAT-TTAATAAT
1 ATATATAAAT-TTATATAATAATAATAAT
732022 AATATATAAATTTATATAATAATAATAAT
1 -ATATATAAATTTATATAATAATAATAAT
732051 ATAT-TAAAT
1 ATATATAAAT
732060 ATAAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 5 0.15
28 13 0.38
29 16 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
ATATATAAATTTATATAATAATAATAAT
Found at i:732037 original size:10 final size:11
Alignment explanation
Indices: 731938--732073 Score: 56
Period size: 11 Copynumber: 12.5 Consensus size: 11
731928 AATATTTTAA
*
731938 ATATAATTATT
1 ATATAAATATT
* *
731949 ATATAATAAAAT
1 ATATAA-ATATT
*
731961 ATATAAATATA
1 ATATAAATATT
*
731972 ATATTAATATT
1 ATATAAATATT
*
731983 -TA-AATTATT
1 ATATAAATATT
731992 AAATATAAAAATATT
1 --ATAT--AAATATT
732007 ATAT-AAT-TT
1 ATATAAATATT
*
732016 A-AT-AATAAT
1 ATATAAATATT
732025 ATATAAAT-TT
1 ATATAAATATT
*
732035 ATAT-AATAAT
1 ATATAAATATT
732045 A-ATAATATATT
1 ATATAA-ATATT
*
732056 AAATATAAATTTT
1 --ATATAAATATT
732069 ATATA
1 ATATA
732074 TTATATAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 32
0.66 0.11 0.23
Matches are distributed among these distances:
8 5 0.05
9 15 0.16
10 15 0.16
11 29 0.31
12 10 0.11
13 9 0.10
14 4 0.04
15 6 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATAAATATT
Found at i:732059 original size:91 final size:91
Alignment explanation
Indices: 731892--732063 Score: 212
Period size: 91 Copynumber: 1.9 Consensus size: 91
731882 TTATATAATA
* *
731892 TAAATTATTAACATATTAAAATTTATATAAATATAAAATATTTTAAATATAATTATTATATAATA
1 TAAATTATTAACATATAAAAATTTATATAAATATAAAATATTATAAATATAATTATTATATAATA
731957 AAATATATAAATATAATATTAATATT
66 AAATATATAAATATAATATTAATATT
* *
731983 TAAATTATTAA-ATATAAAAATATTATAT-AATTTAATAATA--ATATATA-AATT-TATATAAT
1 TAAATTATTAACATATAAAAAT-TTATATAAATATAA-AATATTATAAATATAATTAT-TAT-AT
732042 AATAATAATATATTAAATATAA
62 AATAA-AATATA-TAAATATAA
732064 ATTTTATATA
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
87 1 0.01
88 7 0.10
89 12 0.17
90 21 0.30
91 30 0.42
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (91 bp):
TAAATTATTAACATATAAAAATTTATATAAATATAAAATATTATAAATATAATTATTATATAATA
AAATATATAAATATAATATTAATATT
Found at i:732079 original size:18 final size:17
Alignment explanation
Indices: 732002--732085 Score: 66
Period size: 18 Copynumber: 4.9 Consensus size: 17
731992 AAATATAAAA
*
732002 ATATTATATAATTTAAT
1 ATATTATATAATTTTAT
* *
732019 AATAATATATAAATTTAT
1 -ATATTATATAATTTTAT
* *
732037 ATAATA-ATAA--TAAT
1 ATATTATATAATTTTAT
732051 ATATTAAATATAAATTTTAT
1 ATATT--ATAT-AATTTTAT
732071 ATATTATATAATTTT
1 ATATTATATAATTTT
732086 TGTATTTACC
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 7 0.13
16 5 0.09
17 14 0.26
18 20 0.37
20 8 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTATATAATTTTAT
Found at i:732390 original size:29 final size:28
Alignment explanation
Indices: 732358--732477 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 28
732348 ATAATTTTAA
*
732358 TAATTTTATTTTTAATATGATATAAATTT
1 TAATTTTATTTTTAATAT-AAATAAATTT
*
732387 TAA--TTATTATTTAATATAAATATATTT
1 TAATTTTATT-TTTAATATAAATAAATTT
* **
732414 TAAATTTTATATTTAAT-T--ATTTATTAT
1 T-AATTTTATTTTTAATATAAATAAATT-T
* *
732441 TTA-TTTATATTTAA-ATAAAT-AATTT
1 TAATTTTATTTTTAATATAAATAAATTT
732466 TAATTTTATTTT
1 TAATTTTATTTT
732478 ATTTTACATA
Statistics
Matches: 74, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
25 15 0.20
26 17 0.23
27 18 0.24
28 11 0.15
29 9 0.12
30 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (28 bp):
TAATTTTATTTTTAATATAAATAAATTT
Found at i:732429 original size:57 final size:50
Alignment explanation
Indices: 732358--732490 Score: 128
Period size: 57 Copynumber: 2.5 Consensus size: 50
732348 ATAATTTTAA
732358 TAATTTTATTTTTAATATGATATAAAT-TTTAATTATTATTTAATATAAATATATTT
1 TAATTTTA-TTTTAAT-T-AT-TAAATATTTAATTA-TATTTAA-ATAAATA-ATTT
* * *
732414 TAAATTTTATATTTAATTATTTATTATTTATTTATATTTAAATAAATAATTT
1 T-AATTTTAT-TTTAATTATTAAATATTTAATTATATTTAAATAAATAATTT
*
732466 TAATTTTATTTT-ATT-TTACATATTT
1 TAATTTTATTTTAATTATTAAATATTT
732491 TATAATTAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
48 7 0.10
49 3 0.04
50 3 0.04
51 8 0.12
52 5 0.07
53 7 0.10
54 10 0.15
55 9 0.13
56 3 0.04
57 13 0.19
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (50 bp):
TAATTTTATTTTAATTATTAAATATTTAATTATATTTAAATAAATAATTT
Found at i:744381 original size:22 final size:22
Alignment explanation
Indices: 744346--744387 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
744336 AATTATTTTT
744346 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
744368 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
744388 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:745642 original size:14 final size:14
Alignment explanation
Indices: 745623--745670 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
745613 TATAATTTTT
745623 TTATTAAATATAAA
1 TTATTAAATATAAA
745637 TTATTAAAAATATTAAAA
1 TTATT--AAATA-T-AAA
745655 TT-TTAAATATAAA
1 TTATTAAATATAAA
745668 TTA
1 TTA
745671 ATACGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 5 0.17
16 5 0.17
17 3 0.10
18 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATTAAATATAAA
Found at i:746845 original size:16 final size:15
Alignment explanation
Indices: 746826--746970 Score: 89
Period size: 16 Copynumber: 9.3 Consensus size: 15
746816 TATTCAAACC
*
746826 TAAACTTAAAGTAATT
1 TAAATTTAAA-TAATT
746842 TAAATTTAAATTAATT
1 TAAATTTAAA-TAATT
*
746858 AAAATTTTAAATAATT
1 TAAA-TTTAAATAATT
*
746874 AAAATTTAAATAATT
1 TAAATTTAAATAATT
*
746889 TAAAATAACTAAA-AA-T
1 T-AAAT--TTAAATAATT
* * **
746905 TATATTCATTTAATTT
1 TAAATTTAAATAA-TT
746921 TAAAATTT-AATAATT
1 T-AAATTTAAATAATT
*
746936 TAAATTCAAAATAATT
1 TAAATT-TAAATAATT
* *
746952 TAAACTCAAATAATT
1 TAAATTTAAATAATT
746967 TAAA
1 TAAA
746971 AATTATTTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.01
14 7 0.07
15 29 0.28
16 49 0.48
17 12 0.12
18 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (15 bp):
TAAATTTAAATAATT
Found at i:746954 original size:31 final size:31
Alignment explanation
Indices: 746837--746970 Score: 87
Period size: 31 Copynumber: 4.3 Consensus size: 31
746827 AAACTTAAAG
* * *
746837 TAATTTAAATTTAAATTAA-TTAAAATTTTAAA
1 TAATTTAAATTCAAAATAATTTAAAA-TCT-AA
* *
746869 TAATTAAAATT-TAAATAATTTAAAATAACTAA
1 TAATTTAAATTCAAAATAATTTAAAAT--CTAA
* * ** *
746901 -AAATTATATTC-ATTTAATTTTAAAATTTAA
1 TAATTTAAATTCAAAATAA-TTTAAAATCTAA
* *
746931 TAATTTAAATTCAAAATAATTTAAACTCAAA
1 TAATTTAAATTCAAAATAATTTAAAATCTAA
746962 TAATTTAAA
1 TAATTTAAA
746971 AATTATTTAA
Statistics
Matches: 78, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
30 3 0.04
31 44 0.56
32 30 0.38
33 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATTTAAATTCAAAATAATTTAAAATCTAA
Found at i:746990 original size:26 final size:26
Alignment explanation
Indices: 746943--746992 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
746933 ATTTAAATTC
*
746943 AAAATAATTTAAACTCAAATAATTTA
1 AAAATAATTTAAAATCAAATAATTTA
* * *
746969 AAAATTATTTAAAATTATATAATT
1 AAAATAATTTAAAATCAAATAATT
746993 CAAATTTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAATAATTTAAAATCAAATAATTTA
Found at i:759494 original size:19 final size:19
Alignment explanation
Indices: 759468--759506 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
759458 ATTTAATGGG
*
759468 ATGCTG-AACATATTAAAA
1 ATGCTGAAACATAATAAAA
759486 ATGCATGAAACATAATAAAA
1 ATGC-TGAAACATAATAAAA
759506 A
1 A
759507 AAATGCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 2 0.11
20 12 0.67
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (19 bp):
ATGCTGAAACATAATAAAA
Found at i:760389 original size:20 final size:20
Alignment explanation
Indices: 760364--760438 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
760354 AACTAGATGT
*
760364 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTAAAAA
* * *
760384 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTAAAAA
*
760404 ATGTATCAATACATTAAAAA
1 ATGTATCGATACATTAAAAA
*
760424 ATGTATTGATACATT
1 ATGTATCGATACATT
760439 TGGGTACTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTAAAAA
Found at i:761674 original size:35 final size:35
Alignment explanation
Indices: 761601--761674 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
761591 AAATATTATT
*
761601 AATAATTTTTTAAATTTAATAAAAATAATACATCA
1 AATAATTTTTTAAATATAATAAAAATAATACATCA
* *
761636 AATATATTTTTTAAAATATAAT-TAAATAAT-CATTA
1 AATA-ATTTTTT-AAATATAATAAAAATAATACATCA
761671 AATA
1 AATA
761675 GTATATAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 12 0.35
36 14 0.41
37 8 0.24
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (35 bp):
AATAATTTTTTAAATATAATAAAAATAATACATCA
Found at i:761965 original size:34 final size:34
Alignment explanation
Indices: 761927--762245 Score: 521
Period size: 34 Copynumber: 9.4 Consensus size: 34
761917 CTTTGTTAAG
* *
761927 TGTATTTGATGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
761961 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
761995 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
762029 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
762063 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
762097 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
762131 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
762165 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
762199 TGTATTTGGTGAAAATATTAGGTGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
762233 TGTGTTAGGTGAG
1 TGTATTTGGTGAG
762246 TAAAATATTT
Statistics
Matches: 268, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 268 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
Found at i:761979 original size:25 final size:25
Alignment explanation
Indices: 761951--762052 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 25
761941 ATGTTAGGTG
*
761951 TGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAGGTGATGTATTAGGTGAGAA
*
761976 TGTTAGGTG-TG--TTAGGTGATGTA
1 TGTTAGGTGATGTATTAGGTGA-GAA
761999 T-TT-GGTGA-GAATATTAGGT--G--
1 TGTTAGGTGATG--TATTAGGTGAGAA
*
762019 TGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAGGTGATGTATTAGGTGAGAA
*
762044 TATTAGGTG
1 TGTTAGGTG
762053 TGTTAGGTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 26
0.67 0.04 0.29
Matches are distributed among these distances:
20 1 0.02
21 14 0.23
22 15 0.25
23 5 0.08
24 2 0.03
25 23 0.38
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (25 bp):
TGTTAGGTGATGTATTAGGTGAGAA
Found at i:766880 original size:34 final size:34
Alignment explanation
Indices: 766838--767112 Score: 451
Period size: 34 Copynumber: 8.1 Consensus size: 34
766828 CTTTGTTAAG
* *
766838 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
766872 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
766906 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
766940 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
766974 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
*
767008 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
767042 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
* *
767076 TGTATTTGGTGAAAATATTAGGTGTGTTAGGTAA
1 TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
767110 TGT
1 TGT
767113 GTTAAGTGAG
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 227 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATATTAGGTGTGTTAGGTGA
Found at i:768483 original size:11 final size:11
Alignment explanation
Indices: 768467--768521 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
768457 TTTTTAATAG
768467 TTAAATTAATT
1 TTAAATTAATT
768478 TTAAATTAA-T
1 TTAAATTAATT
*
768488 TAAAATTTAATT
1 TTAAA-TTAATT
*
768500 CTTTAA-TAATT
1 -TTAAATTAATT
*
768511 TTAGATTAATT
1 TTAAATTAATT
768522 AAATTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
10 8 0.23
11 23 0.66
12 1 0.03
13 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTAATT
Found at i:768519 original size:33 final size:34
Alignment explanation
Indices: 768473--768538 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
768463 ATAGTTAAAT
768473 TAATTTTAAATTAATTAAA-ATTTAATTCTTTAA
1 TAATTTTAAATTAATTAAATATTTAATTCTTTAA
* * *
768506 TAATTTTAGATTAATTAAATTTTTAATTTTTTA
1 TAATTTTAAATTAATTAAATATTTAATTCTTTA
768539 TCCAACAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (34 bp):
TAATTTTAAATTAATTAAATATTTAATTCTTTAA
Found at i:769200 original size:20 final size:19
Alignment explanation
Indices: 769175--769214 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
769165 CGATGGACAA
769175 AATTAAAAAAAATAAAATTT
1 AATTAAAAAAAA-AAAATTT
* *
769195 AATTAAATATAAAAAATTT
1 AATTAAAAAAAAAAAATTT
769214 A
1 A
769215 TGTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAAAAAAAAAATTT
Found at i:769323 original size:76 final size:75
Alignment explanation
Indices: 769181--769339 Score: 187
Period size: 76 Copynumber: 2.1 Consensus size: 75
769171 ACAAAATTAA
* ** * **
769181 AAAAAATAAAATTTAATTAAATATAAAAAATTTATGTTAAAATTAATGTATTAATTATTAATTTT
1 AAAAAATAAAATTTAATTAAATATAAAAAATTCATGAAAAAATCAAAATATTAATTATTAATTTT
*
769246 TTTATAAAAGT
66 TTGATAAAA-T
* * *
769257 AAAATATAAAATTTAATTAAATTTAAAAAAATTGCAT-AAAAAATCAAAATATTAATTATTGA-T
1 AAAAAATAAAATTTAATTAAATAT-AAAAAATT-CATGAAAAAATCAAAATATTAATTATTAATT
769320 TTTTGATAAAAT
64 TTTTGATAAAAT
769332 AAAAAATA
1 AAAAAATA
769340 TTAAATTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
75 8 0.11
76 33 0.47
77 27 0.39
78 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (75 bp):
AAAAAATAAAATTTAATTAAATATAAAAAATTCATGAAAAAATCAAAATATTAATTATTAATTTT
TTGATAAAAT
Found at i:769340 original size:77 final size:78
Alignment explanation
Indices: 769173--769346 Score: 187
Period size: 77 Copynumber: 2.3 Consensus size: 78
769163 TTCGATGGAC
* * * ** * **
769173 AAAATTAAAAAAAATAAAATTTAATTAAATATAAAAAATTTATGTTAAAATTAATGTATTAATTA
1 AAAAGTAAAAAATATAAAATTTAATTAAATATAAAAAATTCATGAAAAAATCAAAATATTAATTA
*
769238 TTAATTTTTTTAT
66 TTAATTTTTTGAT
*
769251 AAAAGT--AAAATATAAAATTTAATTAAATTTAAAAAAATTGCAT-AAAAAATCAAAATATTAAT
1 AAAAGTAAAAAATATAAAATTTAATTAAATAT-AAAAAATT-CATGAAAAAATCAAAATATTAAT
*
769313 TATTGA-TTTTTGAT
64 TATTAATTTTTTGAT
*
769327 AAAA-TAAAAAATATTAAATT
1 AAAAGTAAAAAATATAAAATT
769347 AAAAAAATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
75 1 0.01
76 33 0.41
77 39 0.49
78 7 0.09
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (78 bp):
AAAAGTAAAAAATATAAAATTTAATTAAATATAAAAAATTCATGAAAAAATCAAAATATTAATTA
TTAATTTTTTGAT
Found at i:769349 original size:15 final size:14
Alignment explanation
Indices: 769326--769360 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
769316 TGATTTTTGA
769326 TAAAATAAAAAATAT
1 TAAAATAAAAAA-AT
*
769341 TAAATTAAAAAAAT
1 TAAAATAAAAAAAT
769355 TAAAAT
1 TAAAAT
769361 GTAAGATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATAAAAAAAT
Found at i:769606 original size:24 final size:25
Alignment explanation
Indices: 769561--769607 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
769551 ATAATTTTTG
* *
769561 TAAAGTATTATTTATTTTTAATTGT
1 TAAAGTATTATTTATATATAATTGT
*
769586 TAAAGTATTTTTTA-ATATAATT
1 TAAAGTATTATTTATATATAATT
769608 ATACGAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
TAAAGTATTATTTATATATAATTGT
Found at i:769786 original size:73 final size:73
Alignment explanation
Indices: 769699--771178 Score: 1356
Period size: 73 Copynumber: 20.5 Consensus size: 73
769689 AATTTGATTA
* * ****** * *
769699 AAGGTATTACTTATTTTTATTTGTAGAAGTTTAAATTTATTTACAAAATATAATCATACGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
*
769764 AAATTTTG
66 AAATTTTT
* * *
769772 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTAT---T-TGATTATGCAAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT-TGGGTATGATTATACGAGTT
769833 TAAA-TTTT
65 TAAATTTTT
* *
769841 --GGTATAATTTATTTTTATTTGTAGAAGTTTAAATATACTTTTTTAGGTATGATTATACGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGGGTATGATTATACGAGTT
*
769904 TATATTTTT
65 TAAATTTTT
* * * * * *
769913 AATTGTATAATTTATTTTTATTTATAAAAGTTTAAATTTAGTTTTTTGGGGT-TAATTACATGAG
1 AA-GGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTT-GGGTATGATTATACGAG
769977 TTTAAATTTTT
63 TTTAAATTTTT
* * * * * *
769988 AAGATATTATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTCGAGTATGATTATATGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
770053 AAATTTTT
66 AAATTTTT
* * **
770061 -AGAGTATAATTTATTTTTATTTATAGAAGTTTAAATTTGTTTTTAT---T-TGATTATGTGAG-
1 AAG-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT-TGGGTATGATTATACGAGT
*
770120 TGAAA-TTTT
64 TTAAATTTTT
* * * * * * * * *
770129 AGGGAATAATTTATATTTATTTATAAGAAGTTTAAATATGTTTGTTTAGGTATAATTATAAGAGT
1 AAGGTATAATTTATTTTTATTTGT-AGAAGTTTAAATTTATTT-TTTGGGTATGATTATACGAGT
*
770194 TTATATTTTT
64 TTAAATTTTT
* * * *
770204 AATGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTTCGGT-TGATTACATGAGT
1 AA-GGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGGGTATGATTATACGAGT
*
770268 TTAACTTTTT
64 TTAAATTTTT
* * * ***
770278 -AGTGTATTATTTATATTTATTTATAGAAGTTTAAATTTATTTTTCAAGTATGATTATACGAGTT
1 AAG-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTT
770342 TAAATTTTT
65 TAAATTTTT
* * * * * *
770351 -AGAGTATAATTTATTTTTCTTTGTAGAAGTTTAAATGTGTTTTTTGGATATAATTATATGAGTT
1 AAG-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTT
770415 TAAATTTTT
65 TAAATTTTT
* * * * * *
770424 GATGGTATAATTTATTTTTATTT-AATGAAGTTTAAATGTGTTTTTTGAGTATGATTATAGGAGT
1 -AAGGTATAATTTATTTTTATTTGTA-GAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGT
*
770488 TTATATTTTT
64 TTAAATTTTT
* * *
770498 -GGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTT-GTTTTTGGAT-TGATTATACGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
770560 AAATTTTT
66 AAATTTTT
* * * * * *
770568 AGGGTATTATTTATCTTTATTTATAGAAGTTTAAACTTATTTCTTGGGTATGATTATACGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
770633 AAATTTTT
66 AAATTTTT
* * * ** * ** *
770641 -AGAGTATAAATTA-TTTTATTTGTAGAAGCTTAAATGTAGCTTTTGGATATGATTATATAAGCT
1 AAG-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTT
*
770704 TAAATTTTG
65 TAAATTTTT
* * * * * *
770713 ATGGTATAATTTATTTTTATTTATAAAAGTTTAAATATATTTTTTGAGTATGATTATATGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
*
770778 ATATTTTT
66 AAATTTTT
* * * * *
770786 ATGGT-TAATTTATTTTCATTTGTAGAAGTTTAAATTTATTTTAT-GGT-TGATTACACAAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
770848 AAATTTTT
66 AAATTTTT
* ** * * * *
770856 AAGATATTTTTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTAGGGGTATGATTATATGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT-TGGGTATGATTATACGAGTT
770921 TAAATTTTT
65 TAAATTTTT
** * * * * * *
770930 TGGGATATAATTTA-TTTTATTTATAGAAGTTTAAATGT-GTTTTTGGATATGATTGTACGCGTT
1 AAGG-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTT
*
770993 TAAATTTTG
65 TAAATTTTT
* * * *
771002 ATA--TATAATTTA-TTTTATTTGTTGAAGTTTAAATTTATTTTTTAGATATAATTATACGAGTT
1 A-AGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTT
*
771064 TATATTTTT
65 TAAATTTTT
* * * *
771073 AATGGTATAATTTATTTTTATTTGTCA-AAGTTTAAATTTGTTTTTTTTGGT-TGATCATATGAG
1 AA-GGTATAATTTATTTTTATTTGT-AGAAGTTTAAATTT-ATTTTTTGGGTATGATTATACGAG
*
771136 TATAAATTTTT
63 TTTAAATTTTT
* * * *
771147 AGGGTATTA-TTATCTTTATTTATAGAAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTA
771179 GTTTCTTTTA
Statistics
Matches: 1154, Mismatches: 202, Indels: 103
0.79 0.14 0.07
Matches are distributed among these distances:
67 36 0.03
68 28 0.02
69 26 0.02
70 102 0.09
71 120 0.10
72 189 0.16
73 333 0.29
74 196 0.17
75 99 0.09
76 25 0.02
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (73 bp):
AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATACGAGTTT
AAATTTTT
Found at i:769834 original size:30 final size:26
Alignment explanation
Indices: 769779--769839 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 26
769769 TTGAAGGTAT
769779 AATTTATTTTTATTTGTAGAAGTTTA
1 AATTTATTTTTATTTGTAGAAGTTTA
*
769805 AATTTGTTTTTATTTGATTATGCAAGTTTA
1 AATTTATTTTTATTTG--TA-G-AAGTTTA
769835 AATTT
1 AATTT
769840 TGGTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 15 0.50
28 2 0.07
29 1 0.03
30 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (26 bp):
AATTTATTTTTATTTGTAGAAGTTTA
Found at i:770268 original size:217 final size:215
Alignment explanation
Indices: 769747--771178 Score: 1443
Period size: 217 Copynumber: 6.6 Consensus size: 215
769737 ATTTACAAAA
* *
769747 TATAATCATACGAGTTTAAATTTTGAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGT
1 TATAATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGT
* *** *
769812 TTTTAT--T-TGATTATGCAAGTTTAAA-TTTT--GGTATAATTTATTTTTATTTGTAGAAGTTT
66 TTTTTTGGTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAGTTT
** * * **
769871 AAATATACTTTTTTAGGTATGATTATACGAGTTTATATTTTTAATTGTATAATTTATTTTTATTT
131 AAAT-TTGTTTTTGA-GTATGATTATACGAGTTTA-AATTTT-AGGGTATAATTTA-TTTTATTT
* *
769936 ATAAAAGTTTAAATTTAGTTTTTTGGGG
191 ATAGAAGTTTAAA-TT-GTTTTTT-AGG
* * * *
769964 T-TAATTACATGAGTTTAAATTTTTAAGATATTATTTATTTTTATTTGTAGAAGTTTAAATTTG-
1 TATAATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGT
* *
770027 TTTTTCGAGTATGATTATATGAGTTTAAATTTTTAGAGTATAATTTATTTTTATTTATAGAAGTT
66 TTTTTTG-GTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAGTT
* ** * *
770092 TAAATTTGTTTTT-A-TTTGATTATGTGAG-TGAAATTTTAGGGAATAATTTATATTTATTTATA
130 TAAATTTGTTTTTGAGTATGATTATACGAGTTTAAATTTTAGGGTATAATTTAT-TTTATTTAT-
770154 AGAAGTTTAAATATGTTTGTTTAGG
193 AGAAGTTTAAAT-TGTTT-TTTAGG
* * * *
770179 TATAATTATAAGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTA
1 TATAATTATACGAGTTTAAATTTTTAA-GGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTG
* * * * *
770244 TTTTTTTCGGT-TGATTACATGAGTTTAACTTTTTAGTGTATTATTTATATTTATTTATAGAAGT
65 TTTTTTT-GGTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAGT
* * * *
770308 TTAAATTTATTTTTCAAGTATGATTATACGAGTTTAAATTTTTAGAGTATAATTTATTTTTCTTT
129 TTAAATTTGTTTTT-GAGTATGATTATACGAGTTTAAA-TTTTAGGGTATAATTTA-TTTTATTT
*
770373 GTAGAAGTTTAAATGTGTTTTTT-GG
191 ATAGAAGTTTAAAT-TGTTTTTTAGG
* * * *
770398 ATATAATTATATGAGTTTAAATTTTTGATGGTATAATTTATTTTTATTT-AATGAAGTTTAAATG
1 -TATAATTATACGAGTTTAAATTTTT-AAGGTATAATTTATTTTTATTTGTA-GAAGTTTAAATT
* * *
770462 TG-TTTTTTGAGTATGATTATAGGAGTTTATATTTTT-GGGTATAATTTATTTTTATTTGTAGAA
63 TGTTTTTTTG-GTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAA
*
770525 GTTTAAATTTGTTTTTG-G-ATTGATTATACGAGTTTAAATTTTTAGGGTATTATTTATCTTTAT
127 GTTTAAATTTGTTTTTGAGTA-TGATTATACGAGTTTAAA-TTTTAGGGTATAATTTAT-TTTAT
* * *
770588 TTATAGAAGTTTAAACTTATTTCTTGGG
189 TTATAGAAGTTTAAA-TTGTTTTTTAGG
* * *
770616 TATGATTATACGAGTTTAAATTTTT-AGAGTATAAATTA-TTTTATTTGTAGAAGCTTAAA--TG
1 TATAATTATACGAGTTTAAATTTTTAAG-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTG
** * * * * *
770677 TAGCTTTTGGATATGATTATATAAGCTTAAATTTTGATGGTATAATTTATTTTTATTTATAAAAG
65 T-TTTTTTGG-TATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAG
* * *
770742 TTTAAATATAT-TTTTTGAGTATGATTATATGAGTTTATATTTTTATGGT-TAATTTATTTTCAT
128 TTTAAAT-T-TGTTTTTGAGTATGATTATACGAGTTTA-AATTTTAGGGTATAATTTATTTT-AT
* *
770805 TTGTAGAAGTTTAAATT-TATTTTATGG
189 TTATAGAAGTTTAAATTGTTTTTTA-GG
* * * * ** *
770832 T-TGATTACACAAGTTTAAATTTTTAAGATATTTTTTATCTTTATTTGTAGAAGTTTAAATTTGT
1 TATAATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGT
** *
770896 TTTTAGGGGTATGATTATATGAGTTTAAATTTTTTGGGATATAATTTA-TTTTATTTATAGAAGT
66 TTTT-TTGGTATGATTATATGAGTTTAAATTTTTAGGG-TATAATTTATTTTTATTTATAGAAGT
* * * ** *
770960 TTAAATGTGTTTTTG-GATATGATTGTACGCGTTTAAATTTT-GATATATAATTTATTTTATTTG
129 TTAAATTTGTTTTTGAG-TATGATTATACGAGTTTAAATTTTAG-GGTATAATTTATTTTATTTA
* * *
771023 TTGAAGTTTAAATTTATTTTTTAGA
192 TAGAAGTTTAAA-TTGTTTTTTAGG
*
771048 TATAATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTCA-AAGTTTAAATTT
1 TATAATTATACGAGTTTAAATTTTTAA-GGTATAATTTATTTTTATTTGT-AGAAGTTTAAATTT
* * * *
771112 GTTTTTTTTGGT-TGATCATATGAGTATAAATTTTTAGGGTATTA-TTATCTTTATTTATAGAAG
64 G-TTTTTTTGGTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAG
771175 TTTA
128 TTTA
771179 GTTTCTTTTA
Statistics
Matches: 1016, Mismatches: 139, Indels: 121
0.80 0.11 0.09
Matches are distributed among these distances:
213 2 0.00
214 2 0.00
215 132 0.13
216 228 0.22
217 307 0.30
218 96 0.09
219 74 0.07
220 92 0.09
221 28 0.03
222 54 0.05
223 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (215 bp):
TATAATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGT
TTTTTTGGTATGATTATATGAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTATAGAAGTTT
AAATTTGTTTTTGAGTATGATTATACGAGTTTAAATTTTAGGGTATAATTTATTTTATTTATAGA
AGTTTAAATTGTTTTTTAGG
Found at i:770330 original size:290 final size:288
Alignment explanation
Indices: 769700--771178 Score: 1696
Period size: 290 Copynumber: 5.1 Consensus size: 288
769690 ATTTGATTAA
* * * * * * *
769700 AGGTATTACTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTACAAAATATAATCATACGAGTTT
1 AGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTTTTC-AAGTATGATTATACGAGTTT
* * **
769764 AAATTTTGA-AGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTATTTGATTATGC
65 AAATTTTTAGA-GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTATATGATTATAT
* *
769828 AAGTTTAAATTTT--GGTATAATTTATTTTTATTTGT-AGAAGTTTAAATATACTTTTTTAGGTA
129 GAGTTTAAATTTTAGGGTATAATTTATTTTTATTTATAAGAAGTTTAAATATA-TTTTTTAGGTA
* * *
769890 TGATTATACGAGTTTATATTTTTAATTGTATAATTTATTTTTATTTATAAAAGTTTAAATTTAGT
193 TGATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-T
* *
769955 TTTTTGGGGTTAATTACATGAGTTTAAATTTTT
257 TTTTT-TGGTTGATTACATGAGTTTAAATTTTT
* * * * * *
769988 AAGATATTATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTCGAGTATGATTATATGAGTTT
1 -AGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTTTTCAAGTATGATTATACGAGTTT
* * *
770053 AAATTTTTAGAGTATAATTTATTTTTATTTATAGAAGTTTAAATTTGTTTTTATTTGATTATGTG
65 AAATTTTTAGAGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTATATGATTATATG
* * * *
770118 AG-TGAAATTTTAGGGAATAATTTATATTTATTTATAAGAAGTTTAAATATGTTTGTTTAGGTAT
130 AGTTTAAATTTTAGGGTATAATTTATTTTTATTTATAAGAAGTTTAAATATATTT-TTTAGGTAT
* * *
770182 AATTATAAGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTT
194 GATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTT
*
770247 TTTTCGGTTGATTACATGAGTTTAACTTTTT
259 TTTT-GGTTGATTACATGAGTTTAAATTTTT
*
770278 AGTGTATTATTTATATTTATTTATAGAAGTTTAAATTTATTTTTCAAGTATGATTATACGAGTTT
1 AG-GTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTTTTCAAGTATGATTATACGAGTTT
* * *
770343 AAATTTTTAGAGTATAATTTATTTTTCTTTGTAGAAGTTTAAATGTGTTTTTTGGATATAATTAT
65 AAATTTTTAGAGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTG-TTTTT--ATATGATTAT
* * * *
770408 ATGAGTTTAAATTTTTGATGGTATAATTTATTTTTATTTA-ATGAAGTTTAAATGTGTTTTTT-G
127 ATGAGTTTAAA-TTTT-AGGGTATAATTTATTTTTATTTATAAGAAGTTTAAATATATTTTTTAG
* *
770471 AGTATGATTATAGGAGTTTATATTTTT--GGGTATAATTTATTTTTATTTGTAGAAGTTTAAA-T
190 -GTATGATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATT
* * *
770533 T-TGTTTTTGGATTGATTATACGAGTTTAAATTTTT
254 TATTTTTTTGG-TTGATTACATGAGTTTAAATTTTT
* **
770568 AGGGTATTATTTATCTTTATTTATAGAAGTTTAAACTTATTTCTT-GGGTATGATTATACGAGTT
1 A-GGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTT-TTCAAGTATGATTATACGAGTT
* * * *
770632 TAAATTTTTAGAGTATAAATTA-TTTTATTTGTAGAAGCTTAAATGTAGCTTTTGGATATGATTA
64 TAAATTTTTAGAGTATAATTTATTTTTATTTGTAGAAGTTTAAAT-TTG-TTTT-TATATGATTA
* * *
770696 TATAAGCTTAAATTTTGATGGTATAATTTATTTTTATTTATAA-AAGTTTAAATATATTTTTT-G
126 TATGAGTTTAAATTTT-AGGGTATAATTTATTTTTATTTATAAGAAGTTTAAATATATTTTTTAG
* *
770759 AGTATGATTATATGAGTTTATATTTTT-ATGGT-TAATTTATTTTCATTTGTAGAAGTTTAAATT
190 -GTATGATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATT
* **
770822 TA-TTTTATGGTTGATTACACAAGTTTAAATTTTT
254 TATTTTTTTGGTTGATTACATGAGTTTAAATTTTT
* * * * * *
770856 AAGATATTTTTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTT-AGGGGTATGATTATATGAGT
1 -AGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTTTTCA--AGTATGATTATACGAGT
* * * *
770920 TTAAATTTTTTGGGATATAATTTA-TTTTATTTATAGAAGTTTAAATGTGTTTTTGGATATGATT
63 TTAAATTTTTAGAG-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTT--ATATGATT
* * * ** * * *
770984 GTACGCGTTTAAATTTT-GATATATAATTTA-TTTTATTTGT-TGAAGTTTAAATTTATTTTTTA
125 ATATGAGTTTAAATTTTAG-GGTATAATTTATTTTTATTTATAAGAAGTTTAAATATATTTTTTA
* *
771046 GATATAATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTCA-AAGTTTAAAT
189 GGTATGATTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGT-AGAAGTTTAAAT
* * * *
771110 TTGTTTTTTTTGGTTGATCATATGAGTATAAATTTTT
253 TT-ATTTTTTTGGTTGATTACATGAGTTTAAATTTTT
771147 AGGGTATTA-TTATCTTTATTTATAGAAGTTTA
1 A-GGTATTATTTATCTTTATTTATAGAAGTTTA
771179 GTTTCTTTTA
Statistics
Matches: 1034, Mismatches: 117, Indels: 77
0.84 0.10 0.06
Matches are distributed among these distances:
287 52 0.05
288 184 0.18
289 244 0.24
290 317 0.31
291 120 0.12
292 32 0.03
293 13 0.01
294 31 0.03
295 21 0.02
296 20 0.02
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (288 bp):
AGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATTTTTCAAGTATGATTATACGAGTTTA
AATTTTTAGAGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTATATGATTATATGA
GTTTAAATTTTAGGGTATAATTTATTTTTATTTATAAGAAGTTTAAATATATTTTTTAGGTATGA
TTATACGAGTTTATATTTTTAATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT
TTGGTTGATTACATGAGTTTAAATTTTT
Found at i:771582 original size:181 final size:182
Alignment explanation
Indices: 771278--771637 Score: 634
Period size: 181 Copynumber: 2.0 Consensus size: 182
771268 CTTCATCATC
* *
771278 ATTGTTGAGATTGTAAGAAAATCATTTATCGCCAATGATATTATTTGAGGTATTATAATTTTGTT
1 ATTGTTGAGATTGTAAGAAAATCATATATCGCCAATGATATTATCTGAGGTATTATAATTTTGTT
771343 AATCATATATTTAAACTATTATTATTTATAAACTTTAGAGTTAATAAATTATTAACTTTTTAACA
66 AATCATATATTTAAACTATTATTATTTATAAACTTTAGAGTTAATAAATTATTAACTTTTTAACA
**
771408 TGATACTTGGTTGGAGATACAATC-GCGAAAATTTTCTTTTAAATTATCGAG
131 TGATACTTGGTTGGAGATACAATCAAAGAAAATTTTCTTTTAAATTATCGAG
*
771459 ATTGTTGAGATTGTAAGAAAATCATATATCGTCAA-GAGTATTATCTGAGGTATTATAATTTTGT
1 ATTGTTGAGATTGTAAGAAAATCATATATCGCCAATGA-TATTATCTGAGGTATTATAATTTTGT
* *
771523 TAATTATATATTTAAATTATTATTATTTATAAACTTTAGAGTTAATAAATTATTAACTTTTTAAC
65 TAATCATATATTTAAACTATTATTATTTATAAACTTTAGAGTTAATAAATTATTAACTTTTTAAC
771588 ATGATACTTGGTTGGAGATACAATCAAAGAAAATTTTCTTTTAAATTATC
130 ATGATACTTGGTTGGAGATACAATCAAAGAAAATTTTCTTTTAAATTATC
771638 AAGTTTTTTA
Statistics
Matches: 170, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
180 2 0.01
181 146 0.86
182 22 0.13
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (182 bp):
ATTGTTGAGATTGTAAGAAAATCATATATCGCCAATGATATTATCTGAGGTATTATAATTTTGTT
AATCATATATTTAAACTATTATTATTTATAAACTTTAGAGTTAATAAATTATTAACTTTTTAACA
TGATACTTGGTTGGAGATACAATCAAAGAAAATTTTCTTTTAAATTATCGAG
Found at i:775594 original size:165 final size:165
Alignment explanation
Indices: 775404--775711 Score: 456
Period size: 165 Copynumber: 1.9 Consensus size: 165
775394 AATAAAAGGC
* *
775404 ATTTCAAGAAAAAATGAAAAACTTATGAAAATAAATGAAATTTTAAAAACTGATTTAATATGAAC
1 ATTTCAAGAAAAAATGAAAAACTTATGAAAATAAATAAAATTCTAAAAACTGATTTAATATGAAC
* * *** *
775469 TAAATGATCATATTTGATGAATATTAAAAATTTTGAAC-AAAAAAAATCCCTCCCAAAACTTTTA
66 TAAATAATAATATTTGATGAATATTAAAAATTAAAAACTAAAAAAAATCCCTCCCAAAACATTTA
*
775533 TGGAATAAAAAACTTGGTTTTTCAAAAATGGGGAA
131 CGGAATAAAAAACTTGGTTTTTCAAAAATGGGGAA
* *
775568 ATTTCAAGAAAAAGATGGAAAACTTATGAAAATAAATAAAATTCTAAAAACTGATTTAATTTGAA
1 ATTTCAAGAAAAA-ATGAAAAACTTATGAAAATAAATAAAATTCTAAAAACTGATTTAATATGAA
* * * *
775633 TTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCTCCCAAAACATTT
65 CTAAATAATAATATTTGATGAATATTAAAAATTAAAAACTAAAAAAAATCCCTCCCAAAACATTT
*
775698 ACGGAGTAAAAAAC
130 ACGGAATAAAAAAC
775712 CTCATATTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 13 0.10
165 79 0.63
166 34 0.27
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (165 bp):
ATTTCAAGAAAAAATGAAAAACTTATGAAAATAAATAAAATTCTAAAAACTGATTTAATATGAAC
TAAATAATAATATTTGATGAATATTAAAAATTAAAAACTAAAAAAAATCCCTCCCAAAACATTTA
CGGAATAAAAAACTTGGTTTTTCAAAAATGGGGAA
Found at i:775785 original size:165 final size:165
Alignment explanation
Indices: 775278--775833 Score: 424
Period size: 165 Copynumber: 3.3 Consensus size: 165
775268 TTAATTTCTC
* ** * ** *
775278 AAAACTGATTTAATGA-GAATTTAATGATAATATCAGAT-ATATTATAAAAATTTTAAACTAAAG
1 AAAACTGATTTAAT-ATGAATTAAATGATAATATTTGATGA-ATTTTAAAAATTAAAAAC-AAAA
* * * *
775341 AAAATCCCCCTCCCCCGAAAACATTTATTGG-ATAAAAAA-ATCAGTTTTTCGAAAATAA-AAGG
63 AAAAT--CCCT--CCC-AAAACATTTA-CGGAATAAAAAACCTCA-TTTTTC-AAAA-AAGGAGA
* * * *
775403 CATTTCAAGAAAAA-ATGA-AAAACTTATGAAAATAAATGAAATTTTA
119 AATTTCAAGAAAAAGA-AACAAAACTCATGAAAATAAAAGAAATTTTA
* * * ***
775449 AAAACTGATTTAATATGAACTAAATGATCATATTTGATGAATATTAAAAATTTTGAACAAAAAAA
1 AAAACTGATTTAATATGAATTAAATGATAATATTTGATGAATTTTAAAAATTAAAAACAAAAAAA
* * * ** * *
775514 ATCCCTCCCAAAACTTTTATGGAATAAAAAACTTGGTTTTTCAAAAATGGGGAAATTTCAAGAAA
66 ATCCCTCCCAAAACATTTACGGAATAAAAAACCTCATTTTTCAAAAAAGGAGAAATTTCAAGAAA
*** * *
775579 AAGATGGAAAACTTATGAAAATAAATA-AAATTCTA
131 AAGAAACAAAACTCATGAAAATAAA-AGAAATTTTA
* * *
775614 AAAACTGATTTAATTTGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA
1 AAAACTGATTTAATATGAATTAAATGATAATATTTGATGAATTTTAAAAATTAAAAAC-AAAAAA
* *
775679 AATCTCTCCCAAAACATTTACGGAGTAAAAAACCTCATATTTT-AGAAACAAGGAG-AATTT-AA
65 AATCCCTCCCAAAACATTTACGGAATAAAAAACCTCAT-TTTTCA-AAA-AAGGAGAAATTTCAA
*
775741 -AAAAA-AAACAATAACTCAT-AAAATAAAAGAAATTTTTC
127 GAAAAAGAAACAA-AACTCATGAAAATAAAAGAAA-TTTTA
* * * *
775779 AAAACTGATTTAATGGTG-ATTAAATGATAATATTTAAAGAATTTT-GAAATTAAAA
1 AAAACTGATTTAAT-ATGAATTAAATGATAATATTTGATGAATTTTAAAAATTAAAA
775834 GCTCGGGAAA
Statistics
Matches: 318, Mismatches: 51, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
163 2 0.01
164 44 0.14
165 151 0.47
166 45 0.14
167 12 0.04
168 8 0.03
170 9 0.03
171 46 0.14
172 1 0.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (165 bp):
AAAACTGATTTAATATGAATTAAATGATAATATTTGATGAATTTTAAAAATTAAAAACAAAAAAA
ATCCCTCCCAAAACATTTACGGAATAAAAAACCTCATTTTTCAAAAAAGGAGAAATTTCAAGAAA
AAGAAACAAAACTCATGAAAATAAAAGAAATTTTA
Found at i:783752 original size:16 final size:17
Alignment explanation
Indices: 783728--783768 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
783718 AAGTTAAATA
* *
783728 ATTAATTATTGATTT-T
1 ATTATTTATTAATTTAT
783744 ATTATTTATTAATTTAT
1 ATTATTTATTAATTTAT
783761 ATT-TTTAT
1 ATTATTTAT
783769 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTATTTATTAATTTAT
Found at i:783821 original size:12 final size:12
Alignment explanation
Indices: 783790--783845 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
783780 GATAATAATT
* *
783790 TTTTTATTTTTG
1 TTTTTATTATTA
*
783802 TTTGTATTATTA
1 TTTTTATTATTA
*
783814 TTTTTATTA-AA
1 TTTTTATTATTA
783825 TTTATTATTATTA
1 TTT-TTATTATTA
*
783838 TTATTATT
1 TTTTTATT
783846 TGTATCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
11 4 0.11
12 28 0.80
13 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:786401 original size:19 final size:19
Alignment explanation
Indices: 786379--786415 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
786369 TATATTATTT
786379 AAAAATAAAATAAAAAATA
1 AAAAATAAAATAAAAAATA
*
786398 AAAAATAAAATTAAAAAT
1 AAAAATAAAATAAAAAAT
786416 TATATCGATG
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAATAAAATAAAAAATA
Found at i:786522 original size:10 final size:10
Alignment explanation
Indices: 786476--786524 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
786466 GGTATAATTT
786476 AATTATAAAA
1 AATTATAAAA
*
786486 AATAAT-AAA
1 AATTATAAAA
*
786495 AATTA-AATAT
1 AATTATAA-AA
786505 AATT-TAAAA
1 AATTATAAAA
786514 AATTATAAAA
1 AATTATAAAA
786524 A
1 A
786525 GAATAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
9 13 0.42
10 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATTATAAAA
Found at i:787119 original size:11 final size:11
Alignment explanation
Indices: 787105--787153 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
787095 AATTAATGTG
787105 AAATATAAAAT
1 AAATATAAAAT
787116 AAATATATAAAT
1 AAATATA-AAAT
*
787128 ATAT-TAAAAT
1 AAATATAAAAT
* *
787138 ATATTTAAAAT
1 AAATATAAAAT
787149 AAATA
1 AAATA
787154 CACAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 8 0.24
11 18 0.55
12 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:787337 original size:25 final size:24
Alignment explanation
Indices: 787292--787353 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
787282 TGGAACTCAT
787292 AAATAATAAAATATAAAATTT-TAA
1 AAATAA-AAAATATAAAATTTATAA
*
787316 AAATAAAAAATATATATTATTTATAA
1 AAATAAAAAATATA-A-AATTTATAA
*
787342 ATTATAAAAAAT
1 A-AATAAAAAAT
787354 TCAATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 8 0.25
24 7 0.22
25 4 0.12
26 4 0.12
27 9 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATAAAAAATATAAAATTTATAA
Found at i:788504 original size:2 final size:2
Alignment explanation
Indices: 788497--788527 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
788487 AATAAATGTG
788497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
788528 TACCTTCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:791442 original size:28 final size:25
Alignment explanation
Indices: 791411--791482 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
791401 ATTTTTTATG
*
791411 ATTTAAATTTAATTTTAAATTATTATTT
1 ATTTAAATTTAATTATAAA--ATT-TTT
** *
791439 ATTT-AATAAAATAATAAAATTTTT
1 ATTTAAATTTAATTATAAAATTTTT
791463 ATTTAAATTTAATTATAAAA
1 ATTTAAATTTAATTATAAAA
791483 ATATATAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.19
25 15 0.42
27 10 0.28
28 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTAAATTTAATTATAAAATTTTT
Found at i:791926 original size:16 final size:16
Alignment explanation
Indices: 791888--791969 Score: 96
Period size: 16 Copynumber: 5.2 Consensus size: 16
791878 TTTTGAATTC
791888 AAATTA-TTTAA-TTT
1 AAATTATTTTAAGTTT
791902 AAATTATTTTAAGTTT
1 AAATTATTTTAAGTTT
* * * *
791918 AAGTAATTTTGAGATT
1 AAATTATTTTAAGTTT
*
791934 AAATTATTTTAAATTT
1 AAATTATTTTAAGTTT
*
791950 AAATTATTTTAAGTAT
1 AAATTATTTTAAGTTT
791966 AAAT
1 AAAT
791970 CAATCAGATT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 6 0.11
15 5 0.09
16 44 0.80
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
AAATTATTTTAAGTTT
Found at i:791969 original size:32 final size:32
Alignment explanation
Indices: 791873--791969 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
791863 GTTGAGTTTG
* * * *
791873 AATTGTTTTGAATTCAAATTA-TTTAA-TTTA
1 AATTATTTTAAATTTAAATTATTTTAAGTATA
* * * *
791903 AATTATTTTAAGTTTAAGTAATTTTGAG-ATTA
1 AATTATTTTAAATTTAAATTATTTTAAGTA-TA
791935 AATTATTTTAAATTTAAATTATTTTAAGTATA
1 AATTATTTTAAATTTAAATTATTTTAAGTATA
791967 AAT
1 AAT
791970 CAATCAGATT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
30 15 0.29
31 4 0.08
32 31 0.61
33 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (32 bp):
AATTATTTTAAATTTAAATTATTTTAAGTATA
Found at i:791986 original size:48 final size:44
Alignment explanation
Indices: 791888--791979 Score: 105
Period size: 48 Copynumber: 2.0 Consensus size: 44
791878 TTTTGAATTC
* * *
791888 AAATTATTTAATTTAAATTATTTTAAGTTTAAGTAATTTTGAGATT
1 AAATTATTTAATTTAAATTATTTTAAGTATAAATAA--TTCAGATT
791934 AAATTATTTTAAATTTAAATTATTTTAAGTATAAATCAA-TCAGATT
1 AAATTA-TTT-AATTTAAATTATTTTAAGTATAAAT-AATTCAGATT
791980 TAAAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 12 0.30
47 3 0.08
48 23 0.57
49 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (44 bp):
AAATTATTTAATTTAAATTATTTTAAGTATAAATAATTCAGATT
Found at i:798547 original size:20 final size:18
Alignment explanation
Indices: 798507--798639 Score: 78
Period size: 20 Copynumber: 7.1 Consensus size: 18
798497 ATTTGTTTGC
*
798507 TGCAT-CATTTCATAC-T
1 TGCATCCATTTCATGCTT
798523 TGCATCCATGTTACATGCTT
1 TGCATCCAT-TT-CATGCTT
798543 TGCATCATCATTTCATGCTT
1 TGCATC--CATTTCATGCTT
* *
798563 T-CA-CAACCTTCATGCTT
1 TGCATCCA-TTTCATGCTT
*
798580 TGCATCATCATTTCATAC-T
1 TGCATC--CATTTCATGCTT
* *
798599 TGCATCCACGTTACGTGCTT
1 TGCATCCA--TTTCATGCTT
798619 TGCATCATCATTTCATGCTT
1 TGCATC--CATTTCATGCTT
798639 T
1 T
798640 CACAACTTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
16 6 0.07
17 15 0.17
18 5 0.06
19 19 0.21
20 37 0.41
21 3 0.03
22 5 0.06
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (18 bp):
TGCATCCATTTCATGCTT
Found at i:798552 original size:39 final size:39
Alignment explanation
Indices: 798509--798634 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
798499 TTGTTTGCTG
*
798509 CATCATTTCATACTTGCATCCATGTTACATGCTTTGCAT
1 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCAT
* * * *
798548 CATCATTTCATGCTTTCA-CAACCTT-CATGCTTTGCAT
1 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCAT
*
798585 CATCATTTCATACTTGCATCCACGTTACGTGCTTTGCAT
1 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCAT
798624 CATCATTTCAT
1 CATCATTTCAT
798635 GCTTTCACAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
37 28 0.37
38 9 0.12
39 38 0.51
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (39 bp):
CATCATTTCATACTTGCATCCACGTTACATGCTTTGCAT
Found at i:798584 original size:37 final size:37
Alignment explanation
Indices: 798536--798651 Score: 160
Period size: 37 Copynumber: 3.1 Consensus size: 37
798526 ATCCATGTTA
798536 CATGCTTTGCATCATCATTTCATGCTTTCACAACCTT
1 CATGCTTTGCATCATCATTTCATGCTTTCACAACCTT
* * * *
798573 CATGCTTTGCATCATCATTTCATACTTGCATCCACGTT
1 CATGCTTTGCATCATCATTTCATGCTTTCA-CAACCTT
* *
798611 ACGTGCTTTGCATCATCATTTCATGCTTTCACAACTTT
1 -CATGCTTTGCATCATCATTTCATGCTTTCACAACCTT
798649 CAT
1 CAT
798652 TCATTCATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
37 30 0.45
38 10 0.15
39 27 0.40
ACGTcount: A:0.22, C:0.28, G:0.09, T:0.41
Consensus pattern (37 bp):
CATGCTTTGCATCATCATTTCATGCTTTCACAACCTT
Found at i:798628 original size:76 final size:76
Alignment explanation
Indices: 798509--798651 Score: 259
Period size: 76 Copynumber: 1.9 Consensus size: 76
798499 TTGTTTGCTG
*
798509 CATCATTTCATACTTGCATCCATGTTACATGCTTTGCATCATCATTTCATGCTTTCACAACCTTC
1 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCATCATCATTTCATGCTTTCACAACCTTC
798574 ATGCTTTGCAT
66 ATGCTTTGCAT
* *
798585 CATCATTTCATACTTGCATCCACGTTACGTGCTTTGCATCATCATTTCATGCTTTCACAACTTTC
1 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCATCATCATTTCATGCTTTCACAACCTTC
798650 AT
66 AT
798652 TCATTCATCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.09, T:0.41
Consensus pattern (76 bp):
CATCATTTCATACTTGCATCCACGTTACATGCTTTGCATCATCATTTCATGCTTTCACAACCTTC
ATGCTTTGCAT
Found at i:798687 original size:9 final size:9
Alignment explanation
Indices: 798663--798731 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
798653 CATTCATCAT
798663 TTTTTTTGA
1 TTTTTTTGA
**
798672 TAATTTTGA
1 TTTTTTTGA
798681 TTTTTTTGA
1 TTTTTTTGA
*
798690 TTGATTTTTTA
1 TT--TTTTTGA
798701 TTTTTTT-A
1 TTTTTTTGA
* *
798709 ATTTCTTGA
1 TTTTTTTGA
*
798718 TTTTTTTTA
1 TTTTTTTGA
798727 TTTTT
1 TTTTT
798732 ATCAGTATGT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
8 6 0.13
9 33 0.70
11 8 0.17
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:798693 original size:22 final size:20
Alignment explanation
Indices: 798663--798707 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
798653 CATTCATCAT
*
798663 TTTTTTTGA-T-AATTTTGA
1 TTTTTTTGATTGATTTTTGA
*
798681 TTTTTTTGATTGATTTTTTA
1 TTTTTTTGATTGATTTTTGA
798701 TTTTTTT
1 TTTTTTT
798708 AATTTCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (20 bp):
TTTTTTTGATTGATTTTTGA
Found at i:802553 original size:296 final size:296
Alignment explanation
Indices: 802019--802611 Score: 972
Period size: 296 Copynumber: 2.0 Consensus size: 296
802009 AATGCATAAG
* *
802019 TATAGGCTGCTAAGATGATGGAGATGAACATGGTATTTTAGACACACAAATGACATAAAAACATC
1 TATAGGCGGCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATAAAAACATC
* *
802084 AAAATAATTCTAAAGCTACCACATCCAATGCCACAATAGTGCATGGTAATCCTAAGAAGGTCATG
66 AAAATAATTCTAAAGCTACCACATCCAAGGCCACAATAGTGCATGGTAATCCTAAAAAGGTCATG
* * *
802149 GAAGCATGCTAGGATTGCTAAAATGATGATGAACACATAAACAAAAACTAAAATAATAAAGTTCA
131 GAAGCATGCTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCA
* * * * *
802214 AAAAATATACTAATACAAGCAAGTTTGCTCGATTTGTTTGCTGGAACAATAATGCAGGTTTGTTT
196 AAAAATATACTAACACAAGCAAGTTAGCTCAATTTATTTGCTGGAACAATAATGCAGGCTTGTTT
**
802279 ACTTCTTTTTTAAGGTTGCAAACAAGCTGAAAAGGA
261 ACTTCCATTTTAAGGTTGCAAACAAGCTGAAAAGGA
* * * *
802315 TATAGGCGGCTAAGATGATTGAGATGAATATGGCATTTTAGATACACAAATGACATGAAAACATC
1 TATAGGCGGCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATAAAAACATC
* *
802380 AAAATAA-TCTTAAAGCTACCACATCTAAGGCCACAATAGTGCATGGTGATCCTAAAAAGGTCAT
66 AAAATAATTC-TAAAGCTACCACATCCAAGGCCACAATAGTGCATGGTAATCCTAAAAAGGTCAT
*
802444 GGAAGCATGTTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCC
130 GGAAGCATGCTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCC
802509 AAAAAATATACTAACACAAGCAAGTTAGCTCAATTTATTTGCTGGAACAATAATGCAGGCTTGTT
195 AAAAAATATACTAACACAAGCAAGTTAGCTCAATTTATTTGCTGGAACAATAATGCAGGCTTGTT
*
802574 TACTTCCATTTTAGGGTTGCAAACAAGCTGAAAAGGA
260 TACTTCCATTTTAAGGTTGCAAACAAGCTGAAAAGGA
802611 T
1 T
802612 GAAAAAAAAA
Statistics
Matches: 274, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
295 2 0.01
296 272 0.99
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (296 bp):
TATAGGCGGCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATAAAAACATC
AAAATAATTCTAAAGCTACCACATCCAAGGCCACAATAGTGCATGGTAATCCTAAAAAGGTCATG
GAAGCATGCTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCA
AAAAATATACTAACACAAGCAAGTTAGCTCAATTTATTTGCTGGAACAATAATGCAGGCTTGTTT
ACTTCCATTTTAAGGTTGCAAACAAGCTGAAAAGGA
Found at i:803375 original size:19 final size:21
Alignment explanation
Indices: 803351--803394 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
803341 GACATATATT
*
803351 GATACA-TCACTTA-TGTATC
1 GATACATTCACTAATTGTATC
803370 GATACATTCACTAATTGTATC
1 GATACATTCACTAATTGTATC
803391 GATA
1 GATA
803395 TAATCGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
GATACATTCACTAATTGTATC
Found at i:809390 original size:29 final size:31
Alignment explanation
Indices: 809348--809405 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
809338 AATTCAAAAA
809348 AATTAATTAAAATT-TT-AAATTAAAAATTT
1 AATTAATTAAAATTATTCAAATTAAAAATTT
* * *
809377 AATTTATTTAAATTATTCGAATTAAAAAT
1 AATTAATTAAAATTATTCAAATTAAAAAT
809406 CAATTCGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.50
30 2 0.08
31 10 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
AATTAATTAAAATTATTCAAATTAAAAATTT
Found at i:811516 original size:48 final size:48
Alignment explanation
Indices: 811464--811594 Score: 158
Period size: 48 Copynumber: 2.7 Consensus size: 48
811454 CAATTAAATC
* * *
811464 AAATTTATATCATTATCAAATATAAAATAATAAAATACAAATATAACT-
1 AAATTTATATTATTATTAAATATAAAATAATAAAACACAAATATAA-TA
* * * *
811512 AAATTTA-AGTTAATATTAAATATAAGATAATAAAACATAAATATTATA
1 AAATTTATA-TTATTATTAAATATAAAATAATAAAACACAAATATAATA
*
811560 AAATTTATTTTATTATTAAATATAAAATAATAAAA
1 AAATTTATATTATTATTAAATATAAAATAATAAAA
811595 GAAAATTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 68 0.97
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (48 bp):
AAATTTATATTATTATTAAATATAAAATAATAAAACACAAATATAATA
Found at i:813018 original size:16 final size:16
Alignment explanation
Indices: 812999--813029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
812989 AGATTTAAAT
*
812999 TTAAATTTATTTTGAG
1 TTAAAATTATTTTGAG
813015 TTAAAATTATTTTGA
1 TTAAAATTATTTTGA
813030 ATTGTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTAAAATTATTTTGAG
Found at i:814625 original size:25 final size:25
Alignment explanation
Indices: 814569--814618 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
814559 GCAAGACAAA
* *
814569 TTTATATATTTACCTAATTTATTTT
1 TTTATGTAATTACCTAATTTATTTT
814594 TTTATGTAATTACCT-ATTT-TTTT
1 TTTATGTAATTACCTAATTTATTTT
814617 TT
1 TT
814619 ACTATGTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 13 0.57
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTATGTAATTACCTAATTTATTTT
Found at i:815995 original size:80 final size:79
Alignment explanation
Indices: 815891--816245 Score: 437
Period size: 80 Copynumber: 4.4 Consensus size: 79
815881 TAAGAAATTT
* * *
815891 AATATTTTGGAGATAGTAA-CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCC
1 AATATTTTGGAAATA-AAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
*
815955 CGATTGTGAAAAAATC
65 CGATTATG-AAAAATC
* *
815971 AATGA-TTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCC
1 AAT-ATTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
* *
816035 CGATTATGAGAAATT
65 CGATTATGAAAAATC
* *
816050 AATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTTGGAGTATCCC
1 AATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGG-TTGGAGTATCCC
816115 CGATTATGAAAAATC
65 CGATTATGAAAAATC
* * *
816130 AATATTTTAGG-AATAAAGCCGGGGGTTGGAGTATCCTCTCGACAATAACGGGGTTGGAGTATCC
1 AATATTTT-GGAAATAAAACC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
* * *
816194 CCGATTGTAAAAAATT
64 CCGATTATGAAAAATC
* * * * *
816210 AGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCC
1 AAT-ATTTTGGAAATAAAACCGGGGTTGGAGTATCC
816246 TCGATTAAAG
Statistics
Matches: 241, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.00
79 53 0.22
80 144 0.60
81 43 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
AATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
GATTATGAAAAATC
Found at i:816385 original size:51 final size:51
Alignment explanation
Indices: 816178--816417 Score: 295
Period size: 52 Copynumber: 4.6 Consensus size: 51
816168 TCGACAATAA
* * * * *
816178 CGGGGTTGGAGTATCCCCGATTGTAAAAAATTAGTGTTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGGTG-TTTTGAAAATAAAAC
* * *
816230 CGGAGTTGGAGTAT-CCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCT-GATT-ATGAAAAATTGGTGTTTTGAAAATAAAAC
* * *
816282 CGGGGGTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCTGATT-ATGAAAAATTGGTGTTTTGAAAATAAAAC
* *
816334 CAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGA-AAATAAAAC
*
816385 CGGGGTTGGAGCATCCCTGATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCTGATTATGAAAAATTG
816418 AGAAACTTAA
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 56 0.34
52 97 0.58
53 12 0.07
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGAAAATAAAAC
Found at i:818787 original size:34 final size:33
Alignment explanation
Indices: 818744--818808 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
818734 AACTTCATAG
*
818744 ATGTATCGATACAAAGAATAGATGTATCGATATA
1 ATGTATCGATACAAAGAA-AAATGTATCGATATA
*
818778 ATGTATCGATACACAGAAAAATGTATCGATA
1 ATGTATCGATACAAAGAAAAATGTATCGATA
818809 CATTTCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATATA
Found at i:818852 original size:13 final size:13
Alignment explanation
Indices: 818834--818917 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
818824 AGCTTTCCAG
818834 CGATACATTGTAT
1 CGATACATTGTAT
818847 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
818866 CGATACATTGTAT
1 CGATACATTGTAT
818879 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
818898 CGATACATTGTAT
1 CGATACATTGTAT
818911 CGATACA
1 CGATACA
818918 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:818866 original size:19 final size:18
Alignment explanation
Indices: 818842--818936 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
818832 AGCGATACAT
818842 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
818861 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
818874 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
818893 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
818906 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
818925 TGTATCGATACA
1 TGTATCGATACA
818937 TTTTCTGAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:818875 original size:32 final size:32
Alignment explanation
Indices: 818834--818938 Score: 201
Period size: 32 Copynumber: 3.3 Consensus size: 32
818824 AGCTTTCCAG
*
818834 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
818866 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
818898 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
818930 CGATACATT
1 CGATACATT
818939 TTCTGAATGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:819865 original size:55 final size:55
Alignment explanation
Indices: 819781--821482 Score: 1579
Period size: 55 Copynumber: 30.5 Consensus size: 55
819771 ATAAAGTGCA
* **
819781 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
819836 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
819891 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCG
* * *
819952 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** * *
820007 TCCTGCTCTTTGAGGATTGGGAA-GTGCCACCAAATTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * * *
820068 TCCTGCTTTTTGAGGACT-GAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
820121 TCCTACTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
820175 TCCTGCTGTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
820230 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* *
820291 TCCTGATCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** * * *
820346 TCCTGCTCTTTTAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
820401 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
820456 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
820511 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
820566 TTCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCG
* *
820627 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * ** *** * **
820682 TCCTGCTCTTTGAGGACTGAAGGGTG-AAGGGAGAAGGCGTCCTGCTCTTTG--AGGAC-
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCA---CCAACTTGT-GTGGGCTTTGAAAGG-CG
* **** ** * *** **** *** * *
820738 T--AG-GAAGTG-CCACCAACTTGTG---TGGGCTT-TAAAAGG----AAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT-GTGGGCTTTGAAAGGCG
* * * * *
820782 TCCTGCTTTTTAAGGACT-GAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * **
820835 TTCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
820889 TCCTGCTGTTTGAGGACTAAAAGGTGCCACCAACTCT-TGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACT-TGTGTGGGCTTTGAAAGGCG
* *
820944 TCCTGCTCTCTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
*
821005 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * * *
821060 TCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** * * *
821115 TCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
821170 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
821225 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
821280 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
821341 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGACG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
821402 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
821457 TCCTGCTCTTTGAGGACAAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTG
821483 AAAGGAAGGA
Statistics
Matches: 1384, Mismatches: 168, Indels: 190
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.00
44 4 0.00
46 5 0.00
47 2 0.00
48 2 0.00
49 4 0.00
50 1 0.00
52 6 0.00
53 52 0.04
54 109 0.08
55 807 0.58
56 30 0.02
57 11 0.01
58 9 0.01
59 30 0.02
60 13 0.01
61 289 0.21
62 4 0.00
65 1 0.00
66 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Done.