Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold314
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: 443445
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 3
Found at i:330913 original size:49 final size:49
Alignment explanation
Indices: 330840--331076 Score: 252
Period size: 49 Copynumber: 4.9 Consensus size: 49
330830 ATGAGAAGAA
* * * ** * *
330840 TGCCAATGTGCTAATTCAAAGCCAGCGACATTGGGTTTAGAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
330889 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGG
* * *
330941 TGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
330990 TACCAATATGCTGATTCAAGGCCAGCAACATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
*
331033 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
331077 AAATGCCACC
Statistics
Matches: 158, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
43 39 0.25
45 1 0.01
48 1 0.01
49 74 0.47
52 43 0.27
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
Found at i:330974 original size:101 final size:101
Alignment explanation
Indices: 330813--331031 Score: 260
Period size: 101 Copynumber: 2.2 Consensus size: 101
330803 TCACAATCAA
** * * * * **
330813 CAACATTATACTTGAAGATGAGAAGAATGCCAATGTGCTAATTCAAAGCCAGCGACATTGGGTTT
1 CAACATTGGACTTAAAGATGAAAAGAATGCCAATATGCTAATTCAAAGCCAACGACATTGGACTT
* * * * *
330878 AGAGGTGAAGGTGCTAATGTGCTGATTCAAGGCCAG
66 AAAGATGAAGGTACCAATATGCTGATTCAAGGCCAG
* * * * *
330914 CGACATTGGACTTAAAGATGACAAAG-ATGCCAATATGTTGATTCAAGGCCAACGATATTGGACT
1 CAACATTGGACTTAAAGATGA-AAAGAATGCCAATATGCTAATTCAAAGCCAACGACATTGGACT
330978 TAAAGATGAAGGTACCAATATGCTGATTCAAGGCCAG
65 TAAAGATGAAGGTACCAATATGCTGATTCAAGGCCAG
331015 CAACATTGGACTTAAAG
1 CAACATTGGACTTAAAG
331032 GTGCCAATAT
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
101 95 0.97
102 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
CAACATTGGACTTAAAGATGAAAAGAATGCCAATATGCTAATTCAAAGCCAACGACATTGGACTT
AAAGATGAAGGTACCAATATGCTGATTCAAGGCCAG
Found at i:331047 original size:43 final size:43
Alignment explanation
Indices: 330936--331071 Score: 164
Period size: 43 Copynumber: 3.0 Consensus size: 43
330926 TAAAGATGAC
* * *
330936 AAAGATGCCAATATGTTGATTCAAGGCCAACGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
330979 AAAGATGAAGGTACCAATATGCTGATTCAAGGCCAGCAACATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
331028 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
331071 A
1 A
331072 GAAGAAAATG
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
43 40 0.51
45 1 0.01
47 1 0.01
49 36 0.46
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:331152 original size:28 final size:28
Alignment explanation
Indices: 331080--331225 Score: 143
Period size: 29 Copynumber: 5.1 Consensus size: 28
331070 TAGAAGAAAA
331080 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAAC-T-TGTGGGCTTTTG-AA-GGT
*
331112 TG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAGGT
* * **
331139 TGCCACTACCTTGTGGGC-TTTGAAAAT
1 TGCCACCAACTTGTGGGCTTTTGAAGGT
* *
331166 ATGCCACCAACTTGTGGGCTTTTGAAAAGA
1 -TGCCACCAACTTGTGGGCTTTTG-AAGGT
**
331196 TGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAGGT
331224 TG
1 TG
331226 TCATTGACTT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
27 12 0.12
28 35 0.36
29 36 0.38
30 4 0.04
31 7 0.07
32 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (28 bp):
TGCCACCAACTTGTGGGCTTTTGAAGGT
Found at i:331209 original size:57 final size:57
Alignment explanation
Indices: 331093--331328 Score: 214
Period size: 56 Copynumber: 4.2 Consensus size: 57
331083 CACCAACTTG
* * *
331093 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACT-ACCT
1 TGTGGGCTTTTGAAA--GTTGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGA-CT
*
331150 TGTGGGC-TTTGAAAATATGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGT-TGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * *** * *
331207 TGTGGGCTTTTGAAGGTTGTCATTGACTTATGGGTTTTTGAAAAGATGCCACTGAC-
1 TGTGGGCTTTTGAAAGTTGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * * ** * *
331263 TGTGGGCTTTTGAACGTTACTACTGACTTGTGGGC-TTTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTTGAAAGTTGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* *
331319 TATGGTCTTT
1 TGTGGGCTTT
331329 GGAAGGTGAA
Statistics
Matches: 150, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
54 1 0.01
55 20 0.13
56 62 0.41
57 59 0.39
58 8 0.05
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.36
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGTTGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:331218 original size:85 final size:86
Alignment explanation
Indices: 331079--331329 Score: 248
Period size: 85 Copynumber: 2.9 Consensus size: 86
331069 TTAGAAGAAA
* ** *
331079 ATGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCC
1 ATGCCACCAAC-T-TGTGGGCTTTTGAAA-AGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCC
* *
331143 ACT-ACCTTGTGGG-CTTTGAAAAT
63 ACTGA-CTTATGGGTCTTTGAAAAG
* * *
331166 ATGCCACCAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGTCATT
1 ATGCCACCAACTTGTGGGCTTTTGAAAAGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACT
*
331231 GACTTATGGGTTTTTGAAAAG
66 GACTTATGGGTCTTTGAAAAG
** * * *
331252 ATGCCACTGAC-TGTGGGCTTTTG-AACGTTACTACTGACTTGTGGGC-TTTGAAAAGG-TGCCA
1 ATGCCACCAACTTGTGGGCTTTTGAAAAGTTGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCA
*
331313 TTGACTTAT-GGTCTTTG
64 CTGACTTATGGGTCTTTG
331330 GAAGGTGAAG
Statistics
Matches: 141, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
83 11 0.08
84 35 0.25
85 65 0.46
86 19 0.13
87 11 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (86 bp):
ATGCCACCAACTTGTGGGCTTTTGAAAAGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACT
GACTTATGGGTCTTTGAAAAG
Found at i:331268 original size:28 final size:29
Alignment explanation
Indices: 331093--331328 Score: 182
Period size: 28 Copynumber: 8.3 Consensus size: 29
331083 CACCAACTTG
* * **
331093 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-AGATGCCACTGACT
* * *
331122 TGTGTGCTTTTG-AAGGTTGCCACT-ACCT
1 TGTGGGCTTTTGAAAAGATGCCACTGA-CT
* **
331150 TGTGGGC-TTTGAAAATATGCCACCAACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
331178 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * * *
331207 TGTGGGCTTTTG-AAGGTTGTCATTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
331235 TATGGGTTTTTGAAAAGATGCCACTGAC-
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * * *
331263 TGTGGGCTTTTG-AACGTTACTACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
331291 TGTGGGC-TTTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
331319 TATGGTCTTT
1 TGTGGGCTTT
331329 GGAAGGTGAA
Statistics
Matches: 165, Mismatches: 33, Indels: 18
0.76 0.15 0.08
Matches are distributed among these distances:
27 25 0.15
28 85 0.52
29 55 0.33
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.36
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:331721 original size:37 final size:37
Alignment explanation
Indices: 331679--331763 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
331669 AAAGATGAAG
*
331679 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAACGT
331716 CACAAATGCATCATGCAAAATGAAATGTTATGAACGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAACGT
331753 CACAAATGCAT
1 CACAAATGCAT
331764 GATTGTGGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAACGT
Found at i:335941 original size:30 final size:30
Alignment explanation
Indices: 335905--336150 Score: 284
Period size: 30 Copynumber: 8.0 Consensus size: 30
335895 CTCTTTTCTT
335905 CAAAGTCCACGACTCAGTGGCATCTCTTTC
1 CAAAGTCCACGACTCAGTGGCATCTCTTTC
* *
335935 CAAAGTCTACGACTTAGTGGCATCT-TTTC
1 CAAAGTCCACGACTCAGTGGCATCTCTTTC
* *
335964 TTCAAAGTCCACGACTTAGTGGCATCTCTTTT
1 --CAAAGTCCACGACTCAGTGGCATCTCTTTC
335996 CAAAGTCCACGACTCAGTGGCATCTCTTTC
1 CAAAGTCCACGACTCAGTGGCATCTCTTTC
336026 CAAAGTCCACGACTCAGTGGCATCT-TTTC
1 CAAAGTCCACGACTCAGTGGCATCTCTTTC
* *
336055 TTCAAAGTCCACGACTCAATGGCATCTTTTTTC
1 --CAAAGTCCACGACTCAGTGGCATC-TCTTTC
* * * *
336088 TTCAAAAATCCACGACTTAGTGGCATTTCTTCC
1 --C-AAAGTCCACGACTCAGTGGCATCTCTTTC
*
336121 CAAAGTCCACAACTCCA-TGGCATCT-TTTC
1 CAAAGTCCACGACT-CAGTGGCATCTCTTTC
336150 C
1 C
336151 TTTTAAGTCC
Statistics
Matches: 189, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.06
30 94 0.50
31 49 0.26
32 4 0.02
33 11 0.06
34 19 0.10
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (30 bp):
CAAAGTCCACGACTCAGTGGCATCTCTTTC
Found at i:335991 original size:61 final size:61
Alignment explanation
Indices: 335896--336167 Score: 336
Period size: 61 Copynumber: 4.4 Consensus size: 61
335886 TCTTCAAATC
* *
335896 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCTACGACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCA
* *
335957 TCTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCA
*
336018 TCTCTTTC--CAAAGTCCACGACTCAGTGGCATCT-TTTCTTCAAAGTCCACGACTCAATGGCA
1 TCT-TTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTC--CAAAGTCCACGACTCAGTGGCA
* * * * *
336079 TCTTTTTTCTTCAAAAATCCACGACTTAGTGGCATTTCTTCCCAAAGTCCACAACTCCA-TGGCA
1 TC--TTTTCTTC-AAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACT-CAGTGGCA
**
336143 TCTTTTCCTTTTAAGTCCACGACTC
1 TCTTTT-CTTCAAAGTCCACGACTC
336168 CATGGCACCT
Statistics
Matches: 184, Mismatches: 16, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
59 3 0.02
60 24 0.13
61 83 0.45
62 23 0.12
63 4 0.02
64 21 0.11
65 23 0.12
66 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (61 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCA
Found at i:336058 original size:91 final size:93
Alignment explanation
Indices: 335896--336207 Score: 380
Period size: 91 Copynumber: 3.3 Consensus size: 93
335886 TCTTCAAATC
* *
335896 TCTT-TTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCTACGACTTAGTGGCATCT
1 TCTTCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCT
* *
335960 TTTCTTCAAAGTCCACGACTTAGTGGCA
66 TTTCTTCAAAGTCCACGACTCAATGGCA
335988 TC-TCTT-TTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCT
1 TCTTCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCT
336051 TTTCTTCAAAGTCCACGACTCAATGGCA
66 TTTCTTCAAAGTCCACGACTCAATGGCA
* * * * * *
336079 TCTTTTTTCTTCAAAAATCCACGACTTAGTGGCATTTCTTCCCAAAGTCCACAACTCCA-TGGCA
1 TC-TTCTTCTTC-AAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACT-CAGTGGCA
** *
336143 TCTTTTCCTTTTAAGTCCACGACTCCATGGCA
63 TCTTTT-CTTCAAAGTCCACGACTCAATGGCA
* * ** * *
336175 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 TCTTCTT-CTTCAAAGTCCACGACTCAGTGGCA
336208 CCTTTTTAAG
Statistics
Matches: 191, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
91 84 0.44
92 4 0.02
93 3 0.02
94 3 0.02
95 69 0.36
96 28 0.15
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (93 bp):
TCTTCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCT
TTTCTTCAAAGTCCACGACTCAATGGCA
Found at i:336189 original size:33 final size:32
Alignment explanation
Indices: 336123--336581 Score: 428
Period size: 33 Copynumber: 14.8 Consensus size: 32
336113 TTTCTTCCCA
* *
336123 AAGTCCACAACTCCATGGCATCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
336155 AAGTCCACGACTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
336188 AAGTCCACAACTCCGTGGCACC---T--TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
336215 AAGTCCATAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
336242 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
*
336275 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
336308 AAGCCCACAACTCCGTGGCA-C----CCTTTG
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
336335 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
336368 AAGCCCACAACTCCGTGGCA-C----CCTTTG
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
336395 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
**
336428 AAGTCCACAACTCTATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
336461 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
**
336494 AAGTCCACAACTTTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** *
336521 AAGTCCATAACTCAATGGCATCTTTCTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TCCTTTT
* * *
336554 AAGCCCACAAGTCAGTGGCACCCTTTTC
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
336582 AAAAGCCCAC
Statistics
Matches: 358, Mismatches: 39, Indels: 59
0.79 0.09 0.13
Matches are distributed among these distances:
26 1 0.00
27 112 0.31
28 2 0.01
29 1 0.00
32 29 0.08
33 209 0.58
34 4 0.01
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.33
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:336333 original size:60 final size:60
Alignment explanation
Indices: 336149--336580 Score: 471
Period size: 60 Copynumber: 7.1 Consensus size: 60
336139 GGCATCTTTT
* * *
336149 CCTTTTAAGTCCACGACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
336209 CTTTTTAAGTCCATAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C
* *
336264 TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTCTTTTAAGCCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
336329 CCTTTGAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * * **
336389 CCTTTGAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C
* **
336450 TTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTTGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* ** * * * * *
336515 CCTTTTAAGTCCATAACTCAATGGCATCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
336575 CCTTTT
1 CCTTTT
336581 CAAAAGCCCA
Statistics
Matches: 319, Mismatches: 35, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
54 25 0.08
55 1 0.00
59 1 0.00
60 212 0.66
61 2 0.01
65 2 0.01
66 76 0.24
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.33
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:336354 original size:93 final size:91
Alignment explanation
Indices: 336149--336581 Score: 513
Period size: 93 Copynumber: 4.7 Consensus size: 91
336139 GGCATCTTTT
* *
336149 CCTTTTAAGTCCACGACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC---T
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
336211 -TTTTAAGTCCATAACTCCGTGGCAC
66 CTTTTAAGTCCACAACTCCGTGGCAC
*
336236 CCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC--TT
*
336301 TTCTTTTAAGCCCACAACTCCGTGGCAC
64 TTCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
336329 CCTTTGAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACC----
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
336390 CTTTGAAGTCCACAACTCCATGGCATC
66 CTTTTAAGTCCACAACTCCGTGGCA-C
* *
336417 TTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
**
336482 CTTGTTCCTTTTAAGTCCACAACTTTGTGGCAC
61 CTT-TT-CTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * *
336515 CCTTTTAAGTCCATAACTCAATGGCATCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTT
336580 TC
65 TC
336582 AAAAGCCCAC
Statistics
Matches: 298, Mismatches: 29, Indels: 33
0.83 0.08 0.09
Matches are distributed among these distances:
87 80 0.27
88 1 0.00
92 2 0.01
93 189 0.63
94 4 0.01
98 1 0.00
99 21 0.07
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (91 bp):
CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
CTTTTAAGTCCACAACTCCGTGGCAC
Found at i:336589 original size:30 final size:29
Alignment explanation
Indices: 336554--336649 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 29
336544 TTCTCCTTTT
336554 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCC-TTTCAA
*
336584 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAA
* **
336612 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCAA
336641 AAGCCCACA
1 AAGCCCACA
336650 CAAGTTGGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 21 0.36
29 13 0.22
30 22 0.38
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:336653 original size:31 final size:30
Alignment explanation
Indices: 336573--336659 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 30
336563 AGTCAGTGGC
**
336573 ACCCTTTTCAAAAGCC-CACAAGTCAGTGGCA
1 ACCC-TTTCAAAAGCCACACAAGTTGGT-GCA
336604 A-CC-TTCAAAAG-CACACAAGTTGGTGCA
1 ACCCTTTCAAAAGCCACACAAGTTGGTGCA
336631 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1 ACCCTTTCAAAAG-CCACACAAGTTGGTG
336660 GTGTCTTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
27 5 0.10
28 19 0.39
29 8 0.16
30 2 0.04
31 15 0.31
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (30 bp):
ACCCTTTCAAAAGCCACACAAGTTGGTGCA
Found at i:336730 original size:39 final size:39
Alignment explanation
Indices: 336676--336826 Score: 187
Period size: 39 Copynumber: 3.8 Consensus size: 39
336666 TCTTTTAAGA
* *
336676 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCACAAGT
* ** *
336715 CCAATATCGCTGGCCTTGAATCAACATC-TTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAACA-CATTGGC-ACAAGT
*
336755 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCACAAGT
* * *
336794 CCAATATCACTGGCCTTGAATCAGCATATTGGC
1 CCAATATCGCTGGCCTTGAATCAACACATTGGC
336827 GCCTTTGTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 61 0.65
40 33 0.35
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAACACATTGGCACAAGT
Found at i:336758 original size:79 final size:84
Alignment explanation
Indices: 336669--336879 Score: 297
Period size: 79 Copynumber: 2.5 Consensus size: 84
336659 GGTGTCTTCT
*
336669 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCACTGGCCTTGA
336734 ATCA-ACA-T-C-TTG-TC
66 ATCACACATTGCTTTGATC
*
336748 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGTCCAATATCACTGGCCTTGA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCACTGGCCTTGA
*
336813 ATCAGCATATTGGCGCCTTTGTCATC
66 ATCA-CACATT---G-CTTTG--ATC
336839 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
336880 TCTTCATCTT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
79 67 0.58
81 2 0.02
82 1 0.01
87 1 0.01
88 3 0.03
91 42 0.36
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (84 bp):
TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCACTGGCCTTGA
ATCACACATTGCTTTGATC
Found at i:336877 original size:52 final size:51
Alignment explanation
Indices: 336794--337305 Score: 360
Period size: 52 Copynumber: 10.6 Consensus size: 51
336784 TGGCACAAGT
* * * * *
336794 CCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCT-TCATCTTTAAGA
336846 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
*
336895 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
* * *
336934 CCAATATCGCTGGCCTTGAATCAGCATATT-G-GCACCTT-ATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
* * *
336982 CCAAAGTCGCTAGCCTTGAATCAGCACATT-G-G------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
* * * * *
337021 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGC-GCATCTTCATCTTTAAGA
* * * *
337073 CCAATATCGCTGGCCTTGAATCAGCATATT-G-GCA-CGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
* * *
337121 CCAACGTCGCTGGCCTTGATTCAGCACATTGGTGC--CTTCATCTTTAA-A
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
** * * * * *
337169 TCCAATACCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 -CCAATGTCGCTGGCCTTGAATCAGCACATTGGCG-CATCTTCATCTTTAAGA
* * *
337222 CCCAATGTCGTTGGCCTTGAATCAGCACATT-G-GCATTCTTCTCATCTTCAAGT
1 -CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCA-TC-T-TCATCTTTAAGA
* * *
337275 CTAATGTCGCTGACCGTGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
337306 ACATCTTTTT
Statistics
Matches: 373, Mismatches: 52, Indels: 69
0.76 0.11 0.14
Matches are distributed among these distances:
39 64 0.17
40 1 0.00
42 1 0.00
43 3 0.01
44 1 0.00
48 72 0.19
49 85 0.23
50 8 0.02
51 5 0.01
52 98 0.26
53 35 0.09
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (51 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCATCTTCATCTTTAAGA
Found at i:336923 original size:140 final size:136
Alignment explanation
Indices: 336746--337016 Score: 443
Period size: 140 Copynumber: 2.0 Consensus size: 136
336736 CAACATCTTG
*
336746 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGTCCAATATCACTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATCACTGGCCTT
* * *
336811 GAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
66 GAATCAGCATATTGGCACC--T-T-ATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAGCACATT
336876 GGCATCTTCA
127 GGCATCTTCA
* * *
336886 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATCACTGGCCTT
336951 GAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAGCACATTGGCA
66 GAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAGCACATTGGCA
337016 T
131 T
337017 AAGCCCAATA
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
136 43 0.35
137 1 0.01
138 1 0.01
140 79 0.64
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (136 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATCACTGGCCTT
GAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAGCACATTGGCA
TCTTCA
Found at i:336949 original size:39 final size:39
Alignment explanation
Indices: 336890--337054 Score: 179
Period size: 39 Copynumber: 4.0 Consensus size: 39
336880 TCTTCATCTT
*
336890 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
336929 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A
*
336973 TCTTTAAGACCAA-AGTCGCTAGCCTTGAATCAGCACATTGGCA
1 ----TAAGACCAATA-TCGCTGGCCTTGAATCAGCACATTGGCA
* *
337016 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
337055 GCTTCGTCAT
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
39 68 0.64
40 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 32 0.30
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:337005 original size:87 final size:87
Alignment explanation
Indices: 336841--337106 Score: 390
Period size: 87 Copynumber: 3.0 Consensus size: 87
336831 TTGTCATCTT
* * * * *
336841 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAAAGTCGCT
336906 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
*
336929 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTG
336994 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
337016 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTCGTCATCTTTAAAACCAATA-T
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TTATCTTTAAGACCAA-AGT
*
337080 CGCTGGCCTTGAATCAGCATATTGGCA
61 CGCTGGCCTTGAATCAGCACATTGGCA
337107 CGTCATCTTT
Statistics
Matches: 163, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
87 81 0.50
88 40 0.25
90 1 0.01
91 40 0.25
92 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:337013 original size:48 final size:48
Alignment explanation
Indices: 336929--337256 Score: 273
Period size: 48 Copynumber: 6.8 Consensus size: 48
336919 CACATTGGCA
*
336929 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* *
336977 TAAGACCAA-AGTCGCTAGCCTTGAATCAGCACATTGG---C--A----
1 TAAGACCAATA-TCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* *
337016 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTCGTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TTATCTT
* * *
337068 TAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACGTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* ** * * **
337116 TAAGTCCAACGTCGCTGGCCTTGATTCAGCACATTGGTGCCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* * *
337165 TAA-ATCCAATACCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATCTT
1 TAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--T-ATCTT
* * * *
337217 TAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 TAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
337257 TTCTTCTCAT
Statistics
Matches: 225, Mismatches: 34, Indels: 37
0.76 0.11 0.12
Matches are distributed among these distances:
39 32 0.14
40 1 0.00
43 1 0.00
45 2 0.01
47 1 0.00
48 73 0.32
49 37 0.16
50 1 0.00
51 1 0.00
52 47 0.21
53 29 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
Found at i:337066 original size:227 final size:218
Alignment explanation
Indices: 336669--337152 Score: 709
Period size: 227 Copynumber: 2.2 Consensus size: 218
336659 GGTGTCTTCT
*
336669 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
* * * * *
336734 ATCAACATCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGTCCAAT
66 ATCAACACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAACACATTGGCACAAGCCCAAT
* * *
336799 ATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTG
131 ATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATATCGCTGGCCTTG
*
336864 AATCAGCACATTGGCATCTTCATC
196 AATCAGCACATTGGCA-CGTCATC
*
336888 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
* *
336953 ATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAGCACATTGGCATA
66 AT---CA-A----CACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAACACATTGGCACA
*
337018 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAG-CTTCGTCATCTTTAAAACCAATATCG
123 AGCCCAATATCACTGGCCTTGAATCAGCATATTGGC-GCCTTCGTCATCTTTAAAACCAATATCG
*
337082 CTGGCCTTGAATCAGCATATTGGCACGTCATC
187 CTGGCCTTGAATCAGCACATTGGCACGTCATC
* * *
337114 TTTAAGTCCAACGTCGCTGGCCTTGATTCAGCACATTGG
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
337153 TGCCTTCATC
Statistics
Matches: 238, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
219 65 0.27
222 2 0.01
223 1 0.00
226 42 0.18
227 127 0.53
228 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (218 bp):
TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
ATCAACACCTTATCTTTAAGACCAAAGTCGCTAGCCTTGAATCAACACATTGGCACAAGCCCAAT
ATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATATCGCTGGCCTTG
AATCAGCACATTGGCACGTCATC
Found at i:337118 original size:139 final size:144
Alignment explanation
Indices: 336933--337305 Score: 427
Period size: 139 Copynumber: 2.6 Consensus size: 144
336923 TTGGCATAAG
*
336933 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAAAGTCGCTAGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAAAGTCGCTAGCCT
* *
336998 TGAATCAGCACATT-G-G-CA-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAG-CT
66 TGAATCAGCACATTGGTGCCATTAAACCCAATACCGCTGGCCTTGAATCAGCATATTGGC-GCCT
337058 TCGTCATCTTTAAAA
130 TCGTCATCTTTAAAA
* * * *
337073 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCACGTCATCTTTAAGTCCAACGTCGCTGGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAAAGTCGCTAGCCT
* * *
337137 TGATTCAGCACATTGGTGCCTTCATCTTTAAATCCAATACCGCTGGCCTTGAATTAGCATATTGG
66 TGAATCAGCACATTGGTG-C--CA---TTAAACCCAATACCGCTGGCCTTGAATCAGCATATTGG
337202 CGCCTTCGTCATCTTTAAAA
125 CGCCTTCGTCATCTTTAAAA
* * * * * * *
337222 CCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCT-
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--C--CTCATCTTTAAGACCAAAGTCGCTA
*
337286 GACCGTGAATCAGCACATTG
62 G-CCTTGAATCAGCACATTG
337306 ACATCTTTTT
Statistics
Matches: 197, Mismatches: 19, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
139 72 0.37
140 1 0.01
141 1 0.01
145 2 0.01
148 1 0.01
149 51 0.26
150 31 0.16
152 1 0.01
153 1 0.01
154 36 0.18
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (144 bp):
CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAAAGTCGCTAGCCT
TGAATCAGCACATTGGTGCCATTAAACCCAATACCGCTGGCCTTGAATCAGCATATTGGCGCCTT
CGTCATCTTTAAAA
Found at i:337183 original size:97 final size:104
Alignment explanation
Indices: 337027--337256 Score: 294
Period size: 97 Copynumber: 2.3 Consensus size: 104
337017 AAGCCCAATA
* *
337027 TCGCTGGCCTTGAATCAGCATATTGGCAGCTTCGTCATCTTTAAAACCAATATCGCTGGCCTTGA
1 TCGCTGGCCTTGAATCAGCACATTGGCAGC-TCGTCATCTTTAAAACCAATACCGCTGGCCTTGA
**
337092 ATCAGCATATT-G-G-C-ACGTCATCTTT-AAGTCCAACG
65 ATCAGCATATTGGCGCCTACGTCATCTTTAAAACCCAACG
* * * *
337127 TCGCTGGCCTTGATTCAGCACATTGG-TGC-CTTCATCTTTAAATCCAATACCGCTGGCCTTGAA
1 TCGCTGGCCTTGAATCAGCACATTGGCAGCTCGTCATCTTTAAAACCAATACCGCTGGCCTTGAA
* * *
337190 TTAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATG
66 TCAGCATATTGGCGCCTACGTCATCTTTAAAACCCAACG
*
337229 TCGTTGGCCTTGAATCAGCACATTGGCA
1 TCGCTGGCCTTGAATCAGCACATTGGCA
337257 TTCTTCTCAT
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
97 40 0.36
98 1 0.01
99 3 0.03
100 25 0.23
101 10 0.09
102 31 0.28
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (104 bp):
TCGCTGGCCTTGAATCAGCACATTGGCAGCTCGTCATCTTTAAAACCAATACCGCTGGCCTTGAA
TCAGCATATTGGCGCCTACGTCATCTTTAAAACCCAACG
Found at i:338117 original size:20 final size:20
Alignment explanation
Indices: 338092--338146 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
338082 CTGCCAAGGA
338092 AATGTATCGATACATT-ACTC
1 AATGTATCGATACATTGA-TC
338112 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
338132 TTTGTATCGATACAT
1 AATGTATCGATACAT
338147 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:353541 original size:13 final size:13
Alignment explanation
Indices: 353523--353548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
353513 AAGGTAGCTT
353523 TGTATCGATACAA
1 TGTATCGATACAA
353536 TGTATCGATACAA
1 TGTATCGATACAA
353549 CACTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:356664 original size:16 final size:17
Alignment explanation
Indices: 356632--356668 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
356622 TGATTATGCA
356632 TATATTTTTAATATTTTT
1 TATATTTTT-ATATTTTT
356650 TATATTTTT-TATTTTT
1 TATATTTTTATATTTTT
356666 TAT
1 TAT
356669 TATTAATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATATTTTTATATTTTT
Found at i:357272 original size:13 final size:13
Alignment explanation
Indices: 357254--357281 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
357244 ATTACTCAAA
357254 TGTATCGATACAT
1 TGTATCGATACAT
357267 TGTATCGATACAT
1 TGTATCGATACAT
357280 TG
1 TG
357282 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:357331 original size:52 final size:50
Alignment explanation
Indices: 357267--357415 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 50
357257 ATCGATACAT
*
357267 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
357319 TGTATCGATACATTATAAAATGTATCGATACATGCAGTCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
357371 TGTATCGATACACTATTACATGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATTATT--ATGTATCGATACATGCAGGCAAATTT
357416 TCATATTTCG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:367563 original size:13 final size:13
Alignment explanation
Indices: 367545--367605 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
367535 ATACAAAGAT
367545 CAATGTATCGATA
1 CAATGTATCGATA
*
367558 CAATGTATTGATA
1 CAATGTATCGATA
367571 C-A--T-T-GA-A
1 CAATGTATCGATA
*
367578 TAATGTATCGATA
1 CAATGTATCGATA
*
367591 CAATATATCGATA
1 CAATGTATCGATA
367604 CA
1 CA
367606 TTGAATAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 1 0.03
10 2 0.05
11 1 0.03
12 3 0.08
13 27 0.71
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:367571 original size:33 final size:33
Alignment explanation
Indices: 367527--367625 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
367517 AAATTCCCAG
367527 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
* **
367560 ATGTATTGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
* ** *
367593 ATATATCGATACATTGAATAATGTATTGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
367626 TTATCTTGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 57 0.97
34 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:367584 original size:20 final size:20
Alignment explanation
Indices: 367559--367627 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
367549 GTATCGATAC
*
367559 AATGTATTGATACATTGAAT
1 AATGTATCGATACATTGAAT
367579 AATGTATCGATAC----AAT
1 AATGTATCGATACATTGAAT
367595 -A--TATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
*
367612 AATGTATTGATACATT
1 AATGTATCGATACATT
367628 ATCTTGACGT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 9 0.22
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 23 0.57
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:369686 original size:80 final size:78
Alignment explanation
Indices: 369583--369793 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 78
369573 TATTTTAGAG
* * * * *
369583 ATAAAAATGAGGTTGGAGTATCCCCTCGAAAACAATGGGGTTAGAGTATCCATGATGGTGAAAAA
1 ATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTATCC-CGATGGTAAAAAA
* *
369648 TTGATATTTTGAAA
65 TTAATACTTTGAAA
* * * * *
369662 ATAAAACCGGGGTTAGGAGCATCCCCTTGGAAATAATGGGGTTGGAGTATCTCCGATGGTAAAAA
1 ATAAAAACGGGGTT-GGAGTATCCCCTCGAAAATAATGGGGTTAGAGTATC-CCGATGGTAAAAA
*
369727 ATTAATACTTTGGAA
64 ATTAATACTTTGAAA
* * *
369742 ATAAAAATGGGGTTGGAGTATCCCCTCGAAAATAACGGAGTTAGAGTATCCC
1 ATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTATCCC
369794 CTTGAAAATA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
78 2 0.02
79 41 0.38
80 65 0.60
81 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (78 bp):
ATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTATCCCGATGGTAAAAAAT
TAATACTTTGAAA
Found at i:369790 original size:28 final size:28
Alignment explanation
Indices: 369757--369848 Score: 148
Period size: 28 Copynumber: 3.3 Consensus size: 28
369747 AATGGGGTTG
*
369757 GAGTATCCCCTCGAAAATAACGGAGTTA
1 GAGTATCCCCTTGAAAATAACGGAGTTA
*
369785 GAGTATCCCCTTGAAAATAACGGGGTTA
1 GAGTATCCCCTTGAAAATAACGGAGTTA
* *
369813 GAGTATCCCCTTGAAAATAACAGAGTTT
1 GAGTATCCCCTTGAAAATAACGGAGTTA
369841 GAGTATCC
1 GAGTATCC
369849 TCGATGGTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (28 bp):
GAGTATCCCCTTGAAAATAACGGAGTTA
Found at i:369906 original size:79 final size:79
Alignment explanation
Indices: 369807--370278 Score: 405
Period size: 79 Copynumber: 6.0 Consensus size: 79
369797 GAAAATAACG
* * * * *
369807 GGGTTAGAGTATCCCCTTGAAAATAACAGA-GTTTGAGTATCCTCGATGGTGAAAATTTGATATT
1 GGGTTGGAGTAT-CCCTCGAAAATAACAGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATT
*
369871 TTGGAAATAAAATCA
65 TTGAAAATAAAATCA
* * * * * * *
369886 GGATTTGAGTATCCCTTTG-AAATAACCG-GCTTGGAGTATCCTCGATGGTAAAAAATCAATATT
1 GGGTTGGAGTATCCC-TCGAAAATAACAGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATT
*
369949 TTCAAAATAAAAAT-A
65 TTGAAAAT-AAAATCA
* *
369964 GGGTTGGAGTATCCCTTC-AGAAATAAC-GGGGTTGGAGTATTCC-CGATGGTGAAAAATAGATA
1 GGGTTGGAGTATCCC-TCGA-AAATAACAGAGGTTGGAGTA-TCCTCGATGGTGAAAAATCGATA
* * *
370026 TTTTGGATATAAAAAT-G
63 TTTTGAAAAT-AAAATCA
* * * *
370043 GGGTTGGAGTATCCCCTCGAAAATAAC-GAGGTTGGAGTATCCCCAATGATAAAAAATCGATATT
1 GGGTTGGAGTAT-CCCTCGAAAATAACAGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATT
* * *
370107 ATGAAAATAAAACCG
65 TTGAAAATAAAATCA
* * *
370122 GGGTTAGAGTATTCCCTCGAAAATAACA-AGGTTGGAGTACCCTCGATGGTGAAAATTCGATATT
1 GGGTTGGAGTA-TCCCTCGAAAATAACAGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATT
370186 TT-AAACATAAAATCA
65 TTGAAA-ATAAAATCA
* * * * *
370201 GAGTTGAAGTATCTCTTCGGAAATAACA-AGGTTGGAGTGT-CTCCGATGGTGAAGAAAATC-AT
1 GGGTTGGAGTATC-CCTCGAAAATAACAGAGGTTGGAGTATCCT-CGATGGTG-A-AAAATCGAT
370263 ATTTTGAAAATTAAAA
62 ATTTTGAAAA-TAAAA
370279 AAAACAATTA
Statistics
Matches: 324, Mismatches: 49, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
78 76 0.23
79 218 0.67
80 17 0.05
81 13 0.04
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTCGAAAATAACAGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATATTT
TGAAAATAAAATCA
Found at i:369971 original size:213 final size:215
Alignment explanation
Indices: 369593--370003 Score: 526
Period size: 213 Copynumber: 1.9 Consensus size: 215
369583 ATAAAAATGA
* ** *
369593 GGTTGGAGTATCCCCTCGAAAACAATGGGGTTAGAGTATCCATGATGGTGAAAAATTGATATTTT
1 GGTTAGAGTATCCCCTCGAAAACAACAGAGTTAGAGTATCCATGATGGTGAAAAATTGATATTTT
* * ** *
369658 GAAAATAAAACCGGGGTTAGGAGCATCCCCTTGGAAATAATGGGGTTGGAGTATCTCCGATGGTA
66 GAAAATAAAACCAGGATTAGGAGCATCCCCTTGGAAATAACCGGCTTGGAGTATCTCCGATGGTA
* ** *
369723 AAAAATTAATACTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTC-GAAAATAACGGAGTTAGA
131 AAAAATCAATACTTTCAAAATAAAAATAGGGTTGGAGTATCCCCTCAG-AAATAACGGAGTTAGA
369787 GTATCCCCTTGAAAATAACGG
195 GTATCCCCTTGAAAATAACGG
* * * *
369808 GGTTAGAGTATCCCCTTGAAAATAACAGAGTTTGAGTATCC-TCGATGGTGAAAATTTGATATTT
1 GGTTAGAGTATCCCCTCGAAAACAACAGAGTTAGAGTATCCAT-GATGGTGAAAAATTGATATTT
* * * * *
369872 TGGAAATAAAATCAGGATT-TGAGTAT-CCCTTTGAAATAACCGGCTTGGAGTATC-CTCGATGG
65 TGAAAATAAAACCAGGATTAGGAGCATCCCCTTGGAAATAACCGGCTTGGAGTATCTC-CGATGG
* * * *
369934 TAAAAAATCAATATTTTCAAAATAAAAATAGGGTTGGAGTATCCCTTCAGAAATAACGGGGTTGG
129 TAAAAAATCAATACTTTCAAAATAAAAATAGGGTTGGAGTATCCCCTCAGAAATAACGGAGTTAG
369999 AGTAT
194 AGTAT
370004 TCCCGATGGT
Statistics
Matches: 167, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
212 1 0.01
213 90 0.54
214 7 0.04
215 69 0.41
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (215 bp):
GGTTAGAGTATCCCCTCGAAAACAACAGAGTTAGAGTATCCATGATGGTGAAAAATTGATATTTT
GAAAATAAAACCAGGATTAGGAGCATCCCCTTGGAAATAACCGGCTTGGAGTATCTCCGATGGTA
AAAAATCAATACTTTCAAAATAAAAATAGGGTTGGAGTATCCCCTCAGAAATAACGGAGTTAGAG
TATCCCCTTGAAAATAACGG
Found at i:370226 original size:237 final size:236
Alignment explanation
Indices: 369806--370253 Score: 539
Period size: 237 Copynumber: 1.9 Consensus size: 236
369796 TGAAAATAAC
* * * * * * * *
369806 GGGGTTAGAGTATCCCCTTGAAAATAACAGAGTTTGAGTATCCTCGATGGTGAAAATTTGATATT
1 GGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTGGAGTATCCCCAATGATAAAAAATCGATATT
* * * * * * *
369871 TTGGAAATAAAATCAGGATTTGAGTATCCCTTTGAAATAACCGGCTTGGAGTATCCTCGATGGTA
66 ATGAAAATAAAACCAGGATTAGAGTATCCCTTCGAAATAACAGGCTTGGAGTACCCTCGATGGTA
* * **
369936 AAAAATCAATATTTTCAAAATAAAAATAGGGTTGGAGTATCCCTTCAGAAATAACGGGGTTGGAG
131 AAAAATCAATATTTTCAAAATAAAAATAGAGTTGAAGTATCCCTTCAGAAATAACAAGGTTGGAG
*
370001 TAT-TCCCGATGGTGAAAAATAGATATTTTGGATATAAAAAT
196 TGTCT-CCGATGGTGAAAAATAGATATTTTGGATATAAAAAT
*
370042 GGGGTTGGAGTATCCCCTCGAAAATAAC-GAGGTTGGAGTATCCCCAATGATAAAAAATCGATAT
1 GGGGTTAGAGTATCCCCTCGAAAATAACAGA-GTTGGAGTATCCCCAATGATAAAAAATCGATAT
* *
370106 TATGAAAATAAAACCGGGGTTAGAGTATTCCC-TCGAAAATAACAAGG-TTGGAGTACCCTCGAT
65 TATGAAAATAAAACCAGGATTAGAGTA-TCCCTTCG-AAATAAC-AGGCTTGGAGTACCCTCGAT
* * * * *
370169 GGTGAAAATTCGATATTTT-AAACAT-AAAATCAGAGTTGAAGTATCTCTTCGGAAATAACAAGG
127 GGTAAAAAATCAATATTTTCAAA-ATAAAAAT-AGAGTTGAAGTATCCCTTCAGAAATAACAAGG
370232 TTGGAGTGTCTCCGATGGTGAA
190 TTGGAGTGTCTCCGATGGTGAA
370254 GAAAATCATA
Statistics
Matches: 177, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
235 2 0.01
236 83 0.47
237 89 0.50
238 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (236 bp):
GGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTGGAGTATCCCCAATGATAAAAAATCGATATT
ATGAAAATAAAACCAGGATTAGAGTATCCCTTCGAAATAACAGGCTTGGAGTACCCTCGATGGTA
AAAAATCAATATTTTCAAAATAAAAATAGAGTTGAAGTATCCCTTCAGAAATAACAAGGTTGGAG
TGTCTCCGATGGTGAAAAATAGATATTTTGGATATAAAAAT
Found at i:370233 original size:158 final size:153
Alignment explanation
Indices: 369803--370279 Score: 469
Period size: 158 Copynumber: 3.0 Consensus size: 153
369793 CCTTGAAAAT
* * * *
369803 AACGGGGTTAGAGTATCCCCTTGAAAATAACAGAGTTTGAGTATCCTCGATGGTGAAAATTTGAT
1 AACGGGGTTAGAGTATTCCCTCGAAAATAACAG-GTTGGAGTATCCTCGATGGTGAAAATTAGAT
* * * *
369868 ATTTTGGAAATAAAATCAGGATTTGAGTATCCCTT-TGAAATAACCGGCTTGGAGTATCCTCGAT
65 ATTTT-GAAATAAAATCA-GAGTTGAGTATCCCTTCGGAAATAACAGG-TTGGAGTATCCCCGAT
*
369932 GGTAAAAAATCAATATTTTCAAAATAAA
127 GGTAAAAAATC-ATATTTTGAAAATAAA
** * * *
369960 AATAGGGTTGGAGTA-TCCCTTC-AGAAATAACGGGGTTGGAGTATTCC-CGATGGTGAAAAATA
1 AACGGGGTTAGAGTATTCCC-TCGA-AAATAAC-AGGTTGGAGTA-TCCTCGATGGTGAAAATTA
* * * * *
370022 GATATTTTGGATATAAAAAT-GGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCC
62 GATATTTT-GAAAT-AAAATCAGAGTT-GAGTATCCCTTCGGAAATAAC-AGGTTGGAGTATCCC
* * *
370086 CAATGATAAAAAATCGATATTATGAAAATAAA
123 CGATGGTAAAAAATC-ATATTTTGAAAATAAA
* * *
370118 ACCGGGGTTAGAGTATTCCCTCGAAAATAACAAGGTTGGAGTACCCTCGATGGTGAAAATTCGAT
1 AACGGGGTTAGAGTATTCCCTCGAAAATAAC-AGGTTGGAGTATCCTCGATGGTGAAAATTAGAT
* * * *
370183 ATTTTAAACATAAAATCAGAGTTGAAGTATCTCTTCGGAAATAACAAGGTTGGAGTGTCTCCGAT
65 ATTTTGAA-ATAAAATCAGAGTTG-AGTATCCCTTCGGAAATAAC-AGGTTGGAGTATCCCCGAT
370248 GGTGAAGAAAATCATATTTTGAAAATTAAA
127 GGT-AA-AAAATCATATTTTGAAAA-TAAA
370278 AA
1 AA
370280 AAACAATTAA
Statistics
Matches: 257, Mismatches: 46, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
156 7 0.03
157 73 0.28
158 146 0.57
159 20 0.08
160 11 0.04
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (153 bp):
AACGGGGTTAGAGTATTCCCTCGAAAATAACAGGTTGGAGTATCCTCGATGGTGAAAATTAGATA
TTTTGAAATAAAATCAGAGTTGAGTATCCCTTCGGAAATAACAGGTTGGAGTATCCCCGATGGTA
AAAAATCATATTTTGAAAATAAA
Found at i:372664 original size:20 final size:20
Alignment explanation
Indices: 372639--372714 Score: 116
Period size: 20 Copynumber: 3.7 Consensus size: 20
372629 AAAAACCACG
372639 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
372659 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
* *
372679 AATGTATCGATACAATTATA
1 AATGTATCGATACAATGAGA
372699 AGTATGTATCGATACA
1 A--ATGTATCGATACA
372715 TTTACTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 39 0.75
22 13 0.25
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:372726 original size:20 final size:20
Alignment explanation
Indices: 372680--372737 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
372670 ACAATGAGAA
372680 ATGTATCGATACAATTATAAGT
1 ATGTATCGATAC-ATT-TAAGT
**
372702 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTAAGT
372722 ATGTATCGATACATTT
1 ATGTATCGATACATTT
372738 CCTTGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.56
21 3 0.09
22 12 0.35
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTAAGT
Found at i:372726 original size:42 final size:40
Alignment explanation
Indices: 372639--372734 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 40
372629 AAAAACCACG
*
372639 AATGTATCGATACAATGAGAAATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGACA
* * * * *
372679 AATGTATCGATACAATTATAAGTATGTATCGATACATTTACT
1 AATGTATCGATACAATGAGAA--ATGTATCGATACAATGACA
*
372721 TATGTATCGATACA
1 AATGTATCGATACA
372735 TTTCCTTGGC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 19 0.40
42 28 0.60
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (40 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGACA
Found at i:374778 original size:20 final size:19
Alignment explanation
Indices: 374738--374780 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
374728 AATGCTTGCA
*
374738 AAAACACTAAAATTCATCT
1 AAAACACTAAAAATCATCT
374757 AAAACACATAAAAAT-ATCCT
1 AAAACAC-TAAAAATCAT-CT
374777 AAAA
1 AAAA
374781 TTAGCTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAACACTAAAAATCATCT
Found at i:375317 original size:19 final size:21
Alignment explanation
Indices: 375278--375319 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
375268 ATTACAATGG
375278 AAATCAACATAAATACAACAA
1 AAATCAACATAAATACAACAA
*
375299 AAATCAA-ATATAT-CAACAA
1 AAATCAACATAAATACAACAA
375318 AA
1 AA
375320 TCCATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 7 0.35
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (21 bp):
AAATCAACATAAATACAACAA
Found at i:375775 original size:13 final size:13
Alignment explanation
Indices: 375757--375782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375747 TACAGCAAGC
375757 ATGTATCGATACA
1 ATGTATCGATACA
375770 ATGTATCGATACA
1 ATGTATCGATACA
375783 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:377164 original size:21 final size:20
Alignment explanation
Indices: 377135--377173 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
377125 TCAAAAACTG
377135 ATTTAATATGAATTTAAAAAT
1 ATTTAATAT-AATTTAAAAAT
* *
377156 ATTTGATATATTTTAAAA
1 ATTTAATATAATTTAAAA
377174 TTATAAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTAATATAATTTAAAAAT
Found at i:380710 original size:2 final size:2
Alignment explanation
Indices: 380701--380740 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
380691 TTAGATTTTT
380701 TA TA -A 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 TA TA TA T
380741 GGGGTTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:381419 original size:13 final size:13
Alignment explanation
Indices: 381401--381427 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
381391 ACATTATGCT
381401 TTGTATCGATACA
1 TTGTATCGATACA
381414 TTGTATCGATACA
1 TTGTATCGATACA
381427 T
1 T
381428 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:381442 original size:32 final size:33
Alignment explanation
Indices: 381384--381446 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
381374 CACCCAGATA
*
381384 TATCGATACATTATGCTTTGTATCGATACATTG
1 TATCGATACATTATGCATTGTATCGATACATTG
381417 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
381447 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTG
Found at i:381514 original size:33 final size:32
Alignment explanation
Indices: 381477--381541 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
381467 TACTACTGTT
381477 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGTG-A-ATTGTATCGATACAA
381510 TGTATCGATACATGTTGAATTGTATCGATACA
1 TGTATCGATACATG-TGAATTGTATCGATACA
381542 TTGCTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGTGAATTGTATCGATACAA
Found at i:381515 original size:13 final size:13
Alignment explanation
Indices: 381497--381521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
381487 CATGGCACAT
381497 TGTATCGATACAA
1 TGTATCGATACAA
381510 TGTATCGATACA
1 TGTATCGATACA
381522 TGTTGAATTG
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:382750 original size:2 final size:2
Alignment explanation
Indices: 382743--382778 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
382733 TGGGTGCAAC
382743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
382779 CCTCAACCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:386824 original size:13 final size:13
Alignment explanation
Indices: 386806--386831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
386796 CATTTTTCTG
386806 TGTATCGATACAT
1 TGTATCGATACAT
386819 TGTATCGATACAT
1 TGTATCGATACAT
386832 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:386828 original size:33 final size:33
Alignment explanation
Indices: 386786--386852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
386776 GCCAAGGAAA
***
386786 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
386819 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
386852 T
1 T
386853 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:389256 original size:51 final size:53
Alignment explanation
Indices: 389200--389533 Score: 210
Period size: 52 Copynumber: 6.3 Consensus size: 53
389190 AATTCTCCAC
* * *
389200 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TT-TTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTC-AT
*
389251 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTCTTCAT
* * * *** * * ***
389305 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTT-AT
1 AATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAATTTC-TTCAT
** * * * *
389358 TTTCGAGGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTT-TTCCAC
1 AATC--GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTCTT-CAT
* * * *
389412 AATCAGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATTTTCCTT--T
1 AATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-TTT-CTTCAT
* *
389464 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT-TTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCAT
*
389516 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
389534 CTCGTTATTT
Statistics
Matches: 216, Mismatches: 44, Indels: 45
0.71 0.14 0.15
Matches are distributed among these distances:
50 2 0.01
51 33 0.15
52 79 0.37
53 38 0.18
54 39 0.18
55 22 0.10
57 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (53 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCAT
Found at i:389553 original size:28 final size:28
Alignment explanation
Indices: 389517--389592 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
389507 ATTTTTCACA
* * * *
389517 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
389545 ATCGGGGATACTCCAACCCCATTACTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
***
389573 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
389593 GGCTTTATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTACTTC
Found at i:389562 original size:212 final size:212
Alignment explanation
Indices: 389195--389600 Score: 611
Period size: 212 Copynumber: 1.9 Consensus size: 212
389185 TTATCAATTC
* * *
389195 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
389260 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCATAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * * *
389325 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
389390 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
389407 TCCACAATCAGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCAGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
389471 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
389534 CTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTT
389599 AT
193 AT
389601 TCCCAAAATA
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 30 0.17
212 109 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:389660 original size:107 final size:107
Alignment explanation
Indices: 389255--389667 Score: 270
Period size: 107 Copynumber: 3.9 Consensus size: 107
389245 TTCTATAATC
* * * * * *
389255 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCATAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * * * *
389320 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCATTACTTCCGA
* * * * * * *
389364 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATC-AGGGATACTC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGA-GGATACTC
* * * ***** * * ** * *
389426 CAATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
63 CAACCCCGTTATTTATCGGGGATACTCCAA--CCCCATTACTTCCGA
* * *
389468 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
389533 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCATTACTTCCGA
* * *** * * *
389576 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
389640 CCCCGTTATTT-TCGAAGGGATACTCCAA
66 CCCCGTTATTTATCG--GGGATACTCCAA
389668 TCCCGATTTT
Statistics
Matches: 232, Mismatches: 56, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
104 44 0.19
105 25 0.11
106 25 0.11
107 91 0.39
108 30 0.13
109 17 0.07
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCATTACTTCCGA
Found at i:389778 original size:80 final size:80
Alignment explanation
Indices: 389547--389781 Score: 190
Period size: 79 Copynumber: 3.0 Consensus size: 80
389537 GTTATTTCAT
* * * * * * ** *
389547 CGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCT-TTAT-TCCCAAAAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTATTATCT-CCAAAAC
** * *
389610 ATTGATTTCTCATAAT
65 ATAAATTTCTCACAAC
* * * * * * * *
389626 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTTCTAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTATTATCTCCAAAACA
**
389691 TCGATTTCTCACAAC
66 TAAATTTCTCACAAC
* *
389706 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAA-CCCTATTATTATCTCCAAAAC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ACACTCCAATCCCGATTATTATCTCCAAAAC
389769 ATTAAATTTCTCA
65 A-TAAATTTCTCA
389782 TCGGGAAATA
Statistics
Matches: 124, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
79 62 0.50
80 61 0.49
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGACACTCCAATCCCGATTATTATCTCCAAAACA
TAAATTTCTCACAAC
Found at i:394739 original size:14 final size:14
Alignment explanation
Indices: 394703--394740 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
394693 GGCCACAGCT
*
394703 AAAATGAAAATAGA
1 AAAATGAAGATAGA
394717 AAAATGAAGATAGA
1 AAAATGAAGATAGA
394731 AAAATGAAGA
1 AAAATGAAGA
394741 ACAAGCACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (14 bp):
AAAATGAAGATAGA
Found at i:394963 original size:50 final size:50
Alignment explanation
Indices: 394904--395039 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
394894 TATATTTAGA
*
394904 GTCAACAATTATGGTCACCTCCCTTTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTTTATTGTCAAAGGTTGGTGAAGAATC
*
394954 GTCAACAATTATGGCCACCT-CCTTATATTGTCAAAGGTTTGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTT-TATTGTCAAAGGTTGGTGAAGAATC
* * *
395004 GTCAACAATTATGACCACCTCTCTCTATTGTCAAAG
1 GTCAACAATTATGGCCACCTCCCTTTATTGTCAAAG
395040 ATACTTTCCA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
49 4 0.05
50 73 0.92
51 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTTTATTGTCAAAGGTTGGTGAAGAATC
Found at i:395139 original size:22 final size:23
Alignment explanation
Indices: 395113--395169 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
395103 GACTTATGAT
* *
395113 AATTATCAATAACAT-ATAAATC
1 AATTATCAACAACATAATAAATA
*
395135 AATTATGAACAACATAATAAATA
1 AATTATCAACAACATAATAAATA
395158 AATTGAT-AACAA
1 AATT-ATCAACAA
395170 ATTAGTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.43
23 15 0.50
24 2 0.07
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.28
Consensus pattern (23 bp):
AATTATCAACAACATAATAAATA
Found at i:398771 original size:2 final size:2
Alignment explanation
Indices: 398764--398796 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
398754 TTTCCACATA
398764 AT AT AT AT AT AT AT AT 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 AT A
398797 GAAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:399309 original size:4 final size:4
Alignment explanation
Indices: 399300--399326 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
399290 AAGAGCCTAG
399300 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
399327 CTAAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:400742 original size:26 final size:27
Alignment explanation
Indices: 400689--400753 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
400679 AGTTATTCTT
* *
400689 TATATGATATATATGATAAAAGTTATA
1 TATATTATATAAATGATAAAAGTTATA
400716 TA-ATGTATATAAAT-ATAAAA-TTAATA
1 TATAT-TATATAAATGATAAAAGTT-ATA
400742 TATATTATATAA
1 TATATTATATAA
400754 TTAAAAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 2 0.06
26 20 0.61
27 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
TATATTATATAAATGATAAAAGTTATA
Found at i:401036 original size:16 final size:16
Alignment explanation
Indices: 401017--401062 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
401007 GGTTACTCCA
401017 GGTTCGAATCATTTCG
1 GGTTCGAATCATTTCG
* *
401033 GGTTTGGATCATTTCG
1 GGTTCGAATCATTTCG
*
401049 GGTTCGAGTCATTT
1 GGTTCGAATCATTT
401063 TGGATTCGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.41
Consensus pattern (16 bp):
GGTTCGAATCATTTCG
Found at i:403714 original size:6 final size:6
Alignment explanation
Indices: 403703--403741 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
403693 GTGTCTAGTC
*
403703 GCAGTA GCAGTA GCAGTA GCAGTA GCAGTA GCAGCA GCA
1 GCAGTA GCAGTA GCAGTA GCAGTA GCAGTA GCAGTA GCA
403742 AACTGGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (6 bp):
GCAGTA
Found at i:403889 original size:2 final size:2
Alignment explanation
Indices: 403884--403908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
403874 TATATATATG
403884 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
403909 TGGTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:405269 original size:3 final size:3
Alignment explanation
Indices: 405261--405313 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
405251 TTTCTTTCGT
405261 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
405309 TTA TT
1 TTA TT
405314 TAATAAGGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:408187 original size:2 final size:2
Alignment explanation
Indices: 408180--408216 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
408170 CTGGTTTTAC
*
408180 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
408217 CATCATCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:408802 original size:3 final size:3
Alignment explanation
Indices: 408794--408837 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
408784 TTGTTTCTTG
* *
408794 TAA TAA TAA TAA TAA TAA AAA TAAA TAAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA
408838 ATATTAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 29 0.81
4 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:408826 original size:20 final size:20
Alignment explanation
Indices: 408801--408840 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
408791 TTGTAATAAT
408801 AATAATAATAAAAATAAATA
1 AATAATAATAAAAATAAATA
* *
408821 AATAATGATAATAATAAATA
1 AATAATAATAAAAATAAATA
408841 TTAATTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATAATAATAAAAATAAATA
Found at i:408849 original size:14 final size:14
Alignment explanation
Indices: 408832--408892 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
408822 ATAATGATAA
408832 TAATAAATATTAAT
1 TAATAAATATTAAT
**
408846 TAATGCATATTAAT
1 TAATAAATATTAAT
*
408860 TAA-AAATA-AAATT
1 TAATAAATATTAA-T
*
408873 TAAAAAATATATAAT
1 TAATAAATAT-TAAT
408888 TAATA
1 TAATA
408893 TTTTTTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 2 0.06
13 7 0.19
14 20 0.56
15 5 0.14
16 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
TAATAAATATTAAT
Found at i:409425 original size:9 final size:9
Alignment explanation
Indices: 409411--409457 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
409401 GTAAAAATTT
409411 AAAATATAA
1 AAAATATAA
409420 AAAATAT-A
1 AAAATATAA
409428 AAAA-ATAA
1 AAAATATAA
* *
409436 TAAATATTTA
1 AAAATA-TAA
409446 AAAATATAA
1 AAAATATAA
409455 AAA
1 AAA
409458 TAATAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 2 0.06
8 9 0.29
9 13 0.42
10 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATATAA
Found at i:409463 original size:9 final size:8
Alignment explanation
Indices: 409402--409465 Score: 60
Period size: 8 Copynumber: 7.6 Consensus size: 8
409392 AAAAATTTTG
409402 TAAAAAT-
1 TAAAAATA
*
409409 TTAAAATA
1 TAAAAATA
409417 TAAAAAATA
1 T-AAAAATA
409426 TAAAAA-A
1 TAAAAATA
409433 TAATAAATA
1 TAA-AAATA
409442 TTTAAAAATA
1 --TAAAAATA
409452 TAAAAATAA
1 TAAAAAT-A
409461 TAAAA
1 TAAAA
409466 TTATTTAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
7 10 0.21
8 16 0.33
9 14 0.29
10 5 0.10
11 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:409490 original size:17 final size:18
Alignment explanation
Indices: 409462--409502 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
409452 TAAAAATAAT
409462 AAAATTATTT-AATT-TA
1 AAAATTATTTAAATTATA
409478 AAAATTAATTTAAATTATA
1 AAAATT-ATTTAAATTATA
409497 AAAATT
1 AAAATT
409503 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 4 0.18
19 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTATTTAAATTATA
Found at i:414478 original size:68 final size:68
Alignment explanation
Indices: 414399--414553 Score: 256
Period size: 68 Copynumber: 2.3 Consensus size: 68
414389 GTGTAATAAA
* *
414399 TTAAGGGGGAGAAAAGTTGTTTTTATAAAAGAGGGATAATTTGTTAATGGGAAGTACTAAATATT
1 TTAAGGGGGAGAAAAGTTGTTTTTATAAAAGAGGGACAATTTGTTAAGGGGAAGTACTAAATATT
414464 TTG
66 TTG
* * *
414467 TTAAGGGGGAGAAAAGTTATTTTTATAAAAGTGGGACAATTTGTTAAGGGGGAGTACTAAATATT
1 TTAAGGGGGAGAAAAGTTGTTTTTATAAAAGAGGGACAATTTGTTAAGGGGAAGTACTAAATATT
414532 TTG
66 TTG
*
414535 TTAAAGGGGAGAAAAGTTG
1 TTAAGGGGGAGAAAAGTTG
414554 CTAAAGGGGA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 80 1.00
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (68 bp):
TTAAGGGGGAGAAAAGTTGTTTTTATAAAAGAGGGACAATTTGTTAAGGGGAAGTACTAAATATT
TTG
Found at i:415287 original size:20 final size:20
Alignment explanation
Indices: 415262--415418 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
415252 TTTTCACAAT
415262 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
415282 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
415302 TTGTATCGATACA---TT-A
1 TTGTATCGATACATTGTTCA
415318 ---TATCGATACATTCTAGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
* *
415343 GATGTATCGATATATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
415364 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
415384 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
415404 ATGTATCGATACATT
1 TTGTATCGATACATT
415419 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 9, Indels: 36
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.09
16 1 0.01
17 1 0.01
19 1 0.01
20 78 0.71
21 5 0.05
23 2 0.02
25 1 0.01
27 1 0.01
28 1 0.01
29 9 0.08
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:415316 original size:13 final size:13
Alignment explanation
Indices: 415300--415329 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
415290 ATACATTGCT
*
415300 CATTGTATCGATA
1 CATTATATCGATA
415313 CATTATATCGATA
1 CATTATATCGATA
415326 CATT
1 CATT
415330 CTAGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:417816 original size:51 final size:51
Alignment explanation
Indices: 417737--417880 Score: 170
Period size: 51 Copynumber: 2.8 Consensus size: 51
417727 TCCCGGTTCC
* **
417737 ATTTCCAAAACA-TCAATTTTTCTTAATTGGGGATACTCCAACTCTGATTTT
1 ATTTTCAAAACACT-AATTTTTCACAATTGGGGATACTCCAACTCTGATTTT
* * *
417788 -TTTTTAAAAGCA-TCGATTTATT-GCAATTGGGGATACTCCAACTCTGATTTT
1 ATTTTCAAAA-CACT-AATTT-TTCACAATTGGGGATACTCCAACTCTGATTTT
417839 ATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAAC
1 ATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAAC
417881 CCCGTTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
50 9 0.11
51 60 0.75
52 11 0.14
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (51 bp):
ATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAACTCTGATTTT
Found at i:418067 original size:51 final size:52
Alignment explanation
Indices: 418005--418120 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 52
417995 TATTTTCGAG
*
418005 GGGATACTCCAACCT-CGATTTTA-TTTCTAAAATACCAAATTTTC-ATAATC-
1 GGGATACTCCAACCTCCGATTTTATTTTC-AAAACACC-AATTTTCTATAATCA
418055 GGAGATACTCCAA-CTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCA
1 GG-GATACTCCAACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCA
*
418107 GGGATACTCTAACC
1 GGGATACTCCAACC
418121 CTGTTATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
50 11 0.19
51 40 0.69
52 7 0.12
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (52 bp):
GGGATACTCCAACCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCA
Found at i:418218 original size:131 final size:130
Alignment explanation
Indices: 417977--418218 Score: 303
Period size: 131 Copynumber: 1.9 Consensus size: 130
417967 TATGTCATCG
* * * *
417977 GGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATACCA
1 GGGATACTCCAATCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTACTTCCAAAACACCA
* * * *
418042 AATTTTCATAATCGGAGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCA
66 AATTTTCATAATAGGAGATACTCCAACCCCGATTTTATCTCCAAAACACCAATTTTCTATAATCA
* *
418107 GGGATACTCTAA-CCCTGTTATTTTCCGAAGGGATACTCCAACCTCGATTTTACTTCCAAAACAT
1 GGGATACTCCAATCCC-GTTATTTT-CGAAGGGATACTCCAACCTCGATTTTACTTCCAAAACAC
* *
418171 C-GATTTTCCATAATTAGG-GATACTCCAGCCCCG-TTGTTATCTCCAAAA
64 CAAATTTT-CATAA-TAGGAGATACTCCAACCCCGATT-TTATCTCCAAAA
418219 TATTAGATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
129 3 0.03
130 26 0.27
131 63 0.66
132 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (130 bp):
GGGATACTCCAATCCCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTACTTCCAAAACACCA
AATTTTCATAATAGGAGATACTCCAACCCCGATTTTATCTCCAAAACACCAATTTTCTATAATCA
Found at i:419438 original size:46 final size:46
Alignment explanation
Indices: 419371--419462 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
419361 ATGAAACTGG
419371 AAGTAGCTAAAACTCCCTTTTTATCGATACAAAGTATCGATACATA
1 AAGTAGCTAAAACTCCCTTTTTATCGATACAAAGTATCGATACATA
419417 AAGTAGCTAAAACTCCCTTTTTATCGATACAAAGTATCGATACATA
1 AAGTAGCTAAAACTCCCTTTTTATCGATACAAAGTATCGATACATA
419463 CTTAAAATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (46 bp):
AAGTAGCTAAAACTCCCTTTTTATCGATACAAAGTATCGATACATA
Found at i:420820 original size:13 final size:13
Alignment explanation
Indices: 420802--420826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420792 TAATTTATCA
420802 TGTATCGATACAT
1 TGTATCGATACAT
420815 TGTATCGATACA
1 TGTATCGATACA
420827 ATGTGCCATG
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:421565 original size:44 final size:44
Alignment explanation
Indices: 421517--421603 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
421507 GCTCTTGTTA
*
421517 AAAAATTTTCTCCCATTTGATAAAAATTTATTTTCAAAAATTTT
1 AAAAATTTTCTCCCACTTGATAAAAATTTATTTTCAAAAATTTT
*
421561 AAAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAATTT
1 AAAAATTTTCTCCCACTTGATAAAAATTTATTTTCAAAAATTT
421604 CTCCCCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (44 bp):
AAAAATTTTCTCCCACTTGATAAAAATTTATTTTCAAAAATTTT
Found at i:423724 original size:33 final size:33
Alignment explanation
Indices: 423687--423753 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
423677 TTCAACGATT
423687 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
423720 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
423753 T
1 T
423754 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:423725 original size:13 final size:13
Alignment explanation
Indices: 423707--423731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423697 CATAAAATGT
423707 TGTATCGATACAA
1 TGTATCGATACAA
423720 TGTATCGATACA
1 TGTATCGATACA
423732 TATTTTTTTG
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:423812 original size:13 final size:13
Alignment explanation
Indices: 423794--423818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423784 ATTACTCAAA
423794 TGTATCGATACAT
1 TGTATCGATACAT
423807 TGTATCGATACA
1 TGTATCGATACA
423819 CTGATCTTTG
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:423920 original size:52 final size:52
Alignment explanation
Indices: 423827--423956 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
423817 CACTGATCTT
* *
423827 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
423878 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
423930 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
423957 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:427661 original size:400 final size:400
Alignment explanation
Indices: 426921--427724 Score: 1590
Period size: 400 Copynumber: 2.0 Consensus size: 400
426911 CCCTTTAATC
426921 AACATATTTTCAATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCA
1 AACATATTTTCAATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCA
426986 TTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACATGTATCAATAGAAAATGAGGATTGGGGG
66 TTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACATGTATCAATAGAAAATGAGGATTGGGGG
427051 TTCGAACTATTCAAATAGTAACCCATGTATCGATACATTGTATCAATACATCTAGGTTTTTCCAG
131 TTCGAACTATTCAAATAGTAACCCATGTATCGATACATTGTATCAATACATCTAGGTTTTTCCAG
427116 ATGTATCGATACATCTTTCAATATATCGATACATTTTGAAAAATTTCTAAAAATATGGCAAAAAT
196 ATGTATCGATACATCTTTCAATATATCGATACATTTTGAAAAATTTCTAAAAATATGGCAAAAAT
427181 TAGTATCAAACCTTACCCTATTGACCCTAATTCACCTCAAACCAGTGTAATTGAATAACACAACA
261 TAGTATCAAACCTTACCCTATTGACCCTAATTCACCTCAAACCAGTGTAATTGAATAACACAACA
427246 TAATTAAACATCAAATTCATCCAATAACAAAGCAAAATCATTAAAAATCACAAGATCACAATGTT
326 TAATTAAACATCAAATTCATCCAATAACAAAGCAAAATCATTAAAAATCACAAGATCACAATGTT
427311 AACCAAATAA
391 AACCAAATAA
427321 AACATATTTTCAATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCA
1 AACATATTTTCAATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCA
*
427386 TTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGATATGTATCAATAGAAAATGAGGATTGGGGG
66 TTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACATGTATCAATAGAAAATGAGGATTGGGGG
*
427451 TTCGAACTATTCAAATAGTAACGCATGTATCGATACATTGTATCAATACATCTAGGTTTTTCCAG
131 TTCGAACTATTCAAATAGTAACCCATGTATCGATACATTGTATCAATACATCTAGGTTTTTCCAG
427516 ATGTATCGATACATCTTTCAATATATCGATACATTTTGAAAAATTTCTAAAAATATGGCAAAAAT
196 ATGTATCGATACATCTTTCAATATATCGATACATTTTGAAAAATTTCTAAAAATATGGCAAAAAT
427581 TAGTATCAAACCTTACCCTATTGACCCTAATTCACCTCAAACCAGTGTAATTGAATAACACAACA
261 TAGTATCAAACCTTACCCTATTGACCCTAATTCACCTCAAACCAGTGTAATTGAATAACACAACA
427646 TAATTAAACATCAAATTCATCCAATAACAAAGCAAAATCATTAAAAATCACAAGATCACAATGTT
326 TAATTAAACATCAAATTCATCCAATAACAAAGCAAAATCATTAAAAATCACAAGATCACAATGTT
427711 AACCAAATAA
391 AACCAAATAA
427721 AACA
1 AACA
427725 CCAACAGTGC
Statistics
Matches: 402, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
400 402 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (400 bp):
AACATATTTTCAATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCA
TTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACATGTATCAATAGAAAATGAGGATTGGGGG
TTCGAACTATTCAAATAGTAACCCATGTATCGATACATTGTATCAATACATCTAGGTTTTTCCAG
ATGTATCGATACATCTTTCAATATATCGATACATTTTGAAAAATTTCTAAAAATATGGCAAAAAT
TAGTATCAAACCTTACCCTATTGACCCTAATTCACCTCAAACCAGTGTAATTGAATAACACAACA
TAATTAAACATCAAATTCATCCAATAACAAAGCAAAATCATTAAAAATCACAAGATCACAATGTT
AACCAAATAA
Found at i:433670 original size:33 final size:33
Alignment explanation
Indices: 433633--433695 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
433623 TGAAGCAATG
* *
433633 TATCGATACAATTTATCATGTATCGATACATTA
1 TATCGATACAATGTACCATGTATCGATACATTA
*
433666 TATCGATACAATGTGCCATGTATCGATACA
1 TATCGATACAATGTACCATGTATCGATACA
433696 AATAGTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGTACCATGTATCGATACATTA
Found at i:433750 original size:20 final size:19
Alignment explanation
Indices: 433725--433780 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
433715 CTGTCATTTT
* *
433725 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGA-A
433745 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
433764 CATATATCGATACAATG
1 CATGTATCGATACAATG
433781 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:433773 original size:19 final size:20
Alignment explanation
Indices: 433729--433780 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
433719 CATTTTCATG
* * *
433729 TATCGATACAATTATGCATG
1 TATCGATACAATGATACATA
433749 TATCGATACAATGA-ACATA
1 TATCGATACAATGATACATA
433768 TATCGATACAATG
1 TATCGATACAATG
433781 TATCGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
TATCGATACAATGATACATA
Found at i:434510 original size:33 final size:33
Alignment explanation
Indices: 434473--434537 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
434463 TTTGAAGCAA
* * *
434473 TGTATTGATACAATTTATCATGTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
434506 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
434538 AACAATGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:434511 original size:13 final size:13
Alignment explanation
Indices: 434493--434517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
434483 CAATTTATCA
434493 TGTATCGATACAT
1 TGTATCGATACAT
434506 TGTATCGATACA
1 TGTATCGATACA
434518 ATGTGCCATG
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:440906 original size:21 final size:21
Alignment explanation
Indices: 440874--440918 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
440864 AGGCCAAATT
*
440874 TTTTAAAATTTAAAATTTA-G
1 TTTTAAAATTTAAAAATTACG
440894 TTTTAAAATTTTAAAAATTACG
1 TTTTAAAA-TTTAAAAATTACG
440916 TTT
1 TTT
440919 CGTACCCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTAAAATTTAAAAATTACG
Found at i:442197 original size:14 final size:14
Alignment explanation
Indices: 442173--442207 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
442163 CGTCTTGCTA
442173 TTTTGTTTTTTTTTC
1 TTTT-TTTTTTTTTC
442188 TTTTTTTTTTTTTC
1 TTTTTTTTTTTTTC
442202 TGTTTT
1 T-TTTT
442208 GATTATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTTTC
Done.