Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148
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: 1464219
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 85296 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:675904 original size:14 final size:12
Alignment explanation
Indices: 675878--675917 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
675868 ATAAAAAAAC
675878 AAAAAAAATAAA
1 AAAAAAAATAAA
*
675890 AACAAAAAAT-GA
1 AA-AAAAAATAAA
675902 AAAAAAAATAAA
1 AAAAAAAATAAA
675914 AAAA
1 AAAA
675918 GAGGGGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.29
12 10 0.42
13 7 0.29
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:675905 original size:15 final size:14
Alignment explanation
Indices: 675870--675917 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
675860 AAAAAACCAT
675870 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
675884 AATAAAAACAAAAAA
1 AA-AAAAACAAAAAA
675899 TGAAAAAAA-AATAAAA
1 --AAAAAAACAA-AAAA
675915 AAA
1 AAA
675918 GAGGGGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.17
15 14 0.47
16 9 0.30
17 2 0.07
ACGTcount: A:0.88, C:0.04, G:0.02, T:0.06
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:675906 original size:10 final size:10
Alignment explanation
Indices: 675854--675917 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
675844 AAAAAAAGCG
*
675854 AAAAACAAAA
1 AAAAATAAAA
**
675864 AACCATAAAA
1 AAAAATAAAA
675874 AAACAA-AAAA
1 AAA-AATAAAA
*
675884 AATAAA-AACA
1 AA-AAATAAAA
675894 AAAAATGAAAA
1 AAAAAT-AAAA
675905 AAAAATAAAA
1 AAAAATAAAA
675915 AAA
1 AAA
675918 GAGGGGCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 3 0.07
10 29 0.67
11 11 0.26
ACGTcount: A:0.84, C:0.08, G:0.02, T:0.06
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:677202 original size:31 final size:28
Alignment explanation
Indices: 677167--677235 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 28
677157 TCTCCCAAAG
*
677167 TCCACAACTCAGTGGCATTTCCTTCCTAAAC
1 TCCACAACTCAGTGGCATCT-CTTCC--AAC
* *
677198 TCCACGACTCAGTGGCATCTCTTCCAAG
1 TCCACAACTCAGTGGCATCTCTTCCAAC
677226 TCCACAACTC
1 TCCACAACTC
677236 TGTGTCACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.32
30 5 0.15
31 18 0.53
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.26
Consensus pattern (28 bp):
TCCACAACTCAGTGGCATCTCTTCCAAC
Found at i:677336 original size:61 final size:62
Alignment explanation
Indices: 677253--677795 Score: 296
Period size: 64 Copynumber: 8.5 Consensus size: 62
677243 CTTTTTTTTT
* *
677253 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTCCCTTTT-AAGTCTACAACTAC-GTGGCAC-C
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCCTTTTAAAGTCCACAACT-CTGTGGCACTC
* * * * * *
677314 CTTTTAAGTTCATAACTCCGTGGCACATTTTTCTTTTTAAAGTCAACAACTCTGTGGCACCTTTT
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTTAAAGTCCACAACTCTGTGGCA-C---T
677379 C
62 C
* * *
677380 CTTTTAAGTCCACAACTCCATGGCAGC-TTTCCCGTTT-AAGTCCACAACTCTGTGGCACTCTTA
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTTAAAGTCCACAACTCTGTGGCA--C-T-
677443 CAC
62 --C
* *
677446 CTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGTCCACAACTCTGTGGCACCCTT
1 CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTCCCTTTTAAAGTCCACAACTCTGTGGCA--C--
677511 TTTC
61 --TC
* *
677515 CTTTTCAAAGTCCACAACTCTGTGGCA-----T-CCTTTTAAAGTCCACAACTTTGTGGCATCTT
1 CTTTT--AAGTCCACAACTCCGTGGCACCTTTTCCCTTTTAAAGTCCACAACTCTGTGGCA-C--
677574 TTC
61 -TC
* ** * * *
677577 CTTTTAAGTCTATGACTCAGTGGCATCCTTTT---TTTTCTAAGTCCACAACTCTCTGGCACCTT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCCTTTT-AAAGTCCACAACTCTGTGGCA-C--
*
677639 TTTTT
61 ---TC
* * * * * *
677644 CTTTTAAGTCCACAACTTCGTGGCATCATTTTTCCTTTT-AAGTCCATAACTCCGTGTCA--C
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACTC
* * * * *
677704 CTTTTAAGTCCACAACTCTGTGGCACCTTTT-CCTTCT-AAGTCCATAACTCCGTGGCGTCTTTT
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTTAAAGTCCACAACTCTGTGGC-AC---T
677767 C
62 C
* *
677768 CTTTTTAGTCCACAACTCCGTGGTACCT
1 CTTTTAAGTCCACAACTCCGTGGCACCT
677796 CCTTTTAAAG
Statistics
Matches: 391, Mismatches: 54, Indels: 71
0.76 0.10 0.14
Matches are distributed among these distances:
58 23 0.06
59 5 0.01
60 50 0.13
61 39 0.10
62 11 0.03
63 3 0.01
64 75 0.19
65 28 0.07
66 48 0.12
67 31 0.08
68 24 0.06
69 28 0.07
70 4 0.01
71 20 0.05
72 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (62 bp):
CTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACTC
Found at i:677395 original size:32 final size:32
Alignment explanation
Indices: 677223--677795 Score: 430
Period size: 34 Copynumber: 17.7 Consensus size: 32
677213 CATCTCTTCC
* * *
677223 AAGTCCACAACTCTGTGTCACTTTTTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCAC---CTTTTCCTTTT
677258 AAGTCCACAACT-TCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCT-GTGGCA-CCTTTT-CCTTTT
*
677292 AAGTCTACAACTAC-GTGGCA-C----CCTTTT
1 AAGTCCACAACT-CTGTGGCACCTTTTCCTTTT
* * * * *
677319 AAGTTCATAACTCCGTGGCACATTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTCCTTTT
*
677352 AAAGTCAACAACTCTGTGGCACCTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
** * * *
677385 AAGTCCACAACTCCATGGCAGCTTTCCCGTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
**
677417 AAGTCCACAACTCTGTGGCACTCTTACACCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTT-TTCCTTTT
677451 AAGTCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-C-TTTTCCTTTT
677485 AAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCA-CC-TTTTCCTTTT
677520 CAAAGTCCACAACTCTGTGGCA-----TCCTTTT
1 --AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* *
677549 AAAGTCCACAACTTTGTGGCATCTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* ** * *
677582 AAGTCTATGACTCAGTGGCATCCTTTT-TTTTCT
1 AAGTCCACAACTCTGTGGCA-CCTTTTCCTTT-T
* *
677615 AAGTCCACAACTCTCTGGCACCTTTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCACC--TTTTCCTTTT
*
677649 AAGTCCACAACT-TCGTGGCATCATTTTTCCTTTT
1 AAGTCCACAACTCT-GTGGCA-C-CTTTTCCTTTT
* * *
677683 AAGTCCATAACTCCGTGTCA------CCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
*
677709 AAGTCCACAACTCTGTGGCACCTTTTCCTTCT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* * **
677741 AAGTCCATAACTCCGTGGCGTCTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* * *
677773 TAGTCCACAACTCCGTGGTACCT
1 AAGTCCACAACTCTGTGGCACCT
677796 CCTTTTAAAG
Statistics
Matches: 436, Mismatches: 63, Indels: 81
0.75 0.11 0.14
Matches are distributed among these distances:
26 24 0.06
27 21 0.05
28 20 0.05
29 7 0.02
32 115 0.26
33 50 0.11
34 121 0.28
35 55 0.13
36 23 0.05
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (32 bp):
AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
Found at i:677504 original size:133 final size:128
Alignment explanation
Indices: 677223--677803 Score: 484
Period size: 127 Copynumber: 4.5 Consensus size: 128
677213 CATCTCTTCC
* * * *
677223 AAGTCCACAACTCTGTGTCACTTTTTTTTTCTTTTAAGTCCACAACTTCGTGGCACCCTTTTCCC
1 AAGTCCACAACTCTGTGGCAC--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C-TTT-CC
* * * * *
677288 TTTTAAGTCTACAACTAC-GTGGCA----C-CCTTTTAAGTTCATAACTCCGTGGCACATTTTTC
60 TTTTAAGTCCACAACT-CTGTGGCATCTTCACCTTTTAAGTCCACAACTCTGTGGCACCTTTTTC
*
677347 TTTTT
124 CTTTT
* * *
677352 AAAGTCAACAACTCTGTGGCACC-TTTTCCTTTTAAGTCCACAACTCCATGGCAGCTTTCCCGTT
1 -AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CTTT-CCTTT
677416 TAAGTCCACAACTCTGTGGCACTCTTACACCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCC
63 TAAGTCCACAACTCTGTGGCA-TCTT-CACCTTTTAAGTCCACAACTCTGTGGCAC-CTTTTTCC
677481 TTTT
125 TTTT
*
677485 AAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTTCAAAGTCCACAACTCTGTGGCA---TCCTT
1 -AAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACTTTCCTT
* ** * ** *
677547 TTAAAGTCCACAACTTTGTGGCATCTTTTCCTTTTAAGTCTATGACTCAGTGGCATCCTTTTT--
62 TT-AAGTCCACAACTCTGTGGCATCTTCACCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCC
677610 TTTCT
125 TTT-T
* * *
677615 AAGTCCACAACTCTCTGGCACCTTTTTTTCTTTTAAGTCCACAACTTCGTGGCATCATTTTTCCT
1 AAGTCCACAACTCTGTGGCACC-TTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C---TTTCCT
* *
677680 TTTAAGTCCATAACTCCGT-G-----TCACCTTTTAAGTCCACAACTCTGTGGCACC-TTTTCCT
61 TTTAAGTCCACAACTCTGTGGCATCTTCACCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
*
677738 TCT
126 TTT
* * ** * * *
677741 AAGTCCATAACTCCGTGGCGTC-TTTTCCTTTTTAGTCCACAACTCCGTGGTAC-CTCCTTTTAA
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTTTCCTTTTAA
677804 AGCCCGCATA
Statistics
Matches: 376, Mismatches: 49, Indels: 63
0.77 0.10 0.13
Matches are distributed among these distances:
119 9 0.02
123 1 0.00
124 27 0.07
125 30 0.08
126 21 0.06
127 70 0.19
128 2 0.01
129 32 0.09
130 20 0.05
131 29 0.08
132 35 0.09
133 63 0.17
134 9 0.02
135 10 0.03
137 18 0.05
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.38
Consensus pattern (128 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTTTCCTTTTAA
GTCCACAACTCTGTGGCATCTTCACCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
Found at i:677511 original size:28 final size:30
Alignment explanation
Indices: 677348--677569 Score: 157
Period size: 32 Copynumber: 6.8 Consensus size: 30
677338 ACATTTTTCT
*
677348 TTTTAAAGTCAACAACTCTGTGGCACCTTTTCC
1 TTTTAAAGTCCACAACTCTGTGGCACC---TCC
** *
677381 TTTT-AAGTCCACAACTCCATGGCAGCTTTCCC
1 TTTTAAAGTCCACAACTCTGTGGCA-C-CT-CC
*
677413 GTTT-AAGTCCACAACTCTGTGGCACTCTTACACC
1 TTTTAAAGTCCACAACTCTGTGGCAC-C-T---CC
677447 TTTT-AAGTCCACAACTCTGTGGCACTCTTTTTCC
1 TTTTAAAGTCCACAACTCTGTGGCAC-C----TCC
677481 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTTCC
1 TTTTAAAGTCCACAACTCTGTGGCA-CC----TCC
677516 TTTTCAAAGTCCACAACTCTGTGGCA--TCC
1 TTTT-AAAGTCCACAACTCTGTGGCACCTCC
*
677545 TTTTAAAGTCCACAACTTTGTGGCA
1 TTTTAAAGTCCACAACTCTGTGGCA
677570 TCTTTTCCTT
Statistics
Matches: 166, Mismatches: 11, Indels: 29
0.81 0.05 0.14
Matches are distributed among these distances:
28 20 0.12
29 7 0.04
31 3 0.02
32 41 0.25
33 5 0.03
34 34 0.20
35 32 0.19
36 22 0.13
37 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.35
Consensus pattern (30 bp):
TTTTAAAGTCCACAACTCTGTGGCACCTCC
Found at i:677570 original size:28 final size:29
Alignment explanation
Indices: 677513--677576 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
677503 GCACCCTTTT
677513 TCCTTTTCAAAGTCCACAACTCTGTGGCA
1 TCCTTTTCAAAGTCCACAACTCTGTGGCA
*
677542 TCCTTTT-AAAGTCCACAACTTTGTGGCA
1 TCCTTTTCAAAGTCCACAACTCTGTGGCA
677570 T-CTTTTC
1 TCCTTTTC
677577 CTTTTAAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 5 0.15
28 21 0.64
29 7 0.21
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (29 bp):
TCCTTTTCAAAGTCCACAACTCTGTGGCA
Found at i:677585 original size:197 final size:196
Alignment explanation
Indices: 677348--677708 Score: 455
Period size: 197 Copynumber: 1.8 Consensus size: 196
677338 ACATTTTTCT
*
677348 TTTTAAAGTCAACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCCA-TGGCA-GCTTTC
1 TTTTAAAGTCAACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACT-CAGTGGCATCCTTT-
*
677411 CCGTT-TAAGTCCACAACTCTGTGGCA-CTCTTACACCTTTTAAGTCCACAAC-TCTGTGGCACT
64 CCGTTCTAAGTCCACAACTCTCTGGCACCT-TTACACCTTTTAAGTCCACAACTTC-GTGGCA-T
*
677473 C-TTTTTCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTTCCTTTTCAAAGTCCACAACTCTG
126 CATTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTTCAAAGTCCACAACTCTG
677537 TGGCATCC
189 TGGCATCC
* * * * ** **
677545 TTTTAAAGTCCACAACTTTGTGGCATCTTTTCCTTTTAAGTCTATGACTCAGTGGCATCCTTTTT
1 TTTTAAAGTCAACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCTTTCC
* ****
677610 TTTCTAAGTCCACAACTCTCTGGCACCTTTTTTTCTTTTAAGTCCACAACTTCGTGGCATCATTT
66 GTTCTAAGTCCACAACTCTCTGGCACCTTTACACCTTTTAAGTCCACAACTTCGTGGCATCATTT
* *
677675 TTCCTTTTAAGTCCATAACTCCGTGTCACCTTTT
131 TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
677709 AAGTCCACAA
Statistics
Matches: 140, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
196 8 0.06
197 69 0.49
198 59 0.42
199 4 0.03
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.39
Consensus pattern (196 bp):
TTTTAAAGTCAACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCTTTCC
GTTCTAAGTCCACAACTCTCTGGCACCTTTACACCTTTTAAGTCCACAACTTCGTGGCATCATTT
TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGTCCACAACTCTGTGGCATC
C
Found at i:677713 original size:26 final size:26
Alignment explanation
Indices: 677677--677734 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
677667 CATCATTTTT
* *
677677 CCTTTTAAGTCCATAACTCCGTGTCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
*
677703 CCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
677729 CCTTTT
1 CCTTTT
677735 CCTTCTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCCGTGGCA
Found at i:677754 original size:58 final size:60
Alignment explanation
Indices: 677644--677757 Score: 180
Period size: 58 Copynumber: 1.9 Consensus size: 60
677634 ACCTTTTTTT
* *
677644 CTTTTAAGTCCACAACTTCGTGGCATCATTTTTCCTTTTAAGTCCATAACTCCGTGTCAC
1 CTTTTAAGTCCACAACTTCGTGGCATCACTTTTCCTTCTAAGTCCATAACTCCGTGTCAC
677704 CTTTTAAGTCCACAAC-TCTGTGGCA-C-CTTTTCCTTCTAAGTCCATAACTCCGTG
1 CTTTTAAGTCCACAACTTC-GTGGCATCACTTTTCCTTCTAAGTCCATAACTCCGTG
677758 GCGTCTTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
58 26 0.51
59 3 0.06
60 22 0.43
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (60 bp):
CTTTTAAGTCCACAACTTCGTGGCATCACTTTTCCTTCTAAGTCCATAACTCCGTGTCAC
Found at i:678005 original size:43 final size:43
Alignment explanation
Indices: 677930--678167 Score: 197
Period size: 43 Copynumber: 5.2 Consensus size: 43
677920 GCACCCTTGT
* ** * *
677930 CACCTTTAAGTCCAATTTCATTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
* * * *
677973 CACCTTTAAGCCCAACGTCGCTAGCCTCGAATCAACACATTGG
1 CACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
*
678016 CACCTCCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 CA----C--CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
* * * * *
678065 CACCTTCAAGTCCAATATCACTAGCCTGGAATCAGCATATTGG
1 CACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
*
678108 CACCTTTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 ---------CACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
678160 CACCTTTA
1 CACCTTTA
678168 TCTTTAAGTT
Statistics
Matches: 154, Mismatches: 26, Indels: 30
0.73 0.12 0.14
Matches are distributed among these distances:
43 78 0.51
45 1 0.01
47 1 0.01
49 37 0.24
52 37 0.24
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (43 bp):
CACCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
Found at i:678052 original size:92 final size:94
Alignment explanation
Indices: 677906--678167 Score: 357
Period size: 92 Copynumber: 2.8 Consensus size: 94
677896 CGCCGGTCTT
** * ** *
677906 GAATCAACATATTGGCACCCTTGTCACCTTTAAGTCCAATTTCATTGGCCTTGAATCAGCATATT
1 GAATCAACATATTGGCA-CCTTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
* *
677971 GGCACCTTTAAGCCCAACGTCGCTAGCCTC
65 GGCACCTTTAAGCCCAACATCACTAGCCTC
* *
678001 GAATCAACACATTGGCACC-T-CCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 GAATCAACATATTGGCACCTTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
* * * *
678064 GCACCTTCAAGTCCAATATCACTAGCCTG
66 GCACCTTTAAGCCCAACATCACTAGCCTC
*
678093 GAATCAGCATATTGGCACCTTTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
1 GAATCAACATATTGGCACC-TTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
678158 GGCACCTTTA
65 GGCACCTTTA
678168 TCTTTAAGTT
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
92 77 0.52
93 1 0.01
94 3 0.02
95 66 0.45
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (94 bp):
GAATCAACATATTGGCACCTTACCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
GCACCTTTAAGCCCAACATCACTAGCCTC
Found at i:678149 original size:52 final size:52
Alignment explanation
Indices: 678065--678433 Score: 243
Period size: 52 Copynumber: 7.0 Consensus size: 52
678055 AGCACATTGG
* * * *
678065 CACCTTCAAGTCCAATATCACTAGCCTGGAATCAGCATATTGGCACCTTTAC
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
* *
678117 CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT--
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
* * * * **
678167 -ATCTTTAAGTTCGATATCGCTAGCCTTGAATCAGCATATTGGCATTTTTA-
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
* * * * * * *
678217 -ACATTCCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTAGCA--TTCTTC
1 CACCTT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAC
* * * * * * * *
678269 TCATCTTCAAGTCTAATGTCGCTGGCCGTGAATCAGCAGATT-G-ACATTCTTC
1 -CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAC
* * * * *
678321 GCATCTTTAAGCCCAATATCGCTGGCCTTGAATCCGCATATTAGCACCTTTAT
1 -CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
*
678374 CATTTTTCTCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 CA-----C-C-T-TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
678434 TCACTCTTCT
Statistics
Matches: 250, Mismatches: 47, Indels: 31
0.76 0.14 0.09
Matches are distributed among these distances:
49 41 0.16
50 6 0.02
51 2 0.01
52 146 0.58
53 2 0.01
54 7 0.03
58 1 0.00
59 1 0.00
60 2 0.01
61 42 0.17
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.33
Consensus pattern (52 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
Found at i:678246 original size:101 final size:99
Alignment explanation
Indices: 678028--678374 Score: 330
Period size: 101 Copynumber: 3.5 Consensus size: 99
678018 CCTCCATCTT
* * * *
678028 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TC--AAGTCCAATATCACTA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTATCTTAAGTTCAATATCGCTA
* ** *
678088 GCCTGGAATCAGCATATTGGCACCTTTACCA-CC
66 GCCTTGAATCAGCATATTGGCATTTTTAACATCC
* * *
678121 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTTCGATATCG
1 --TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTATC-TTAAGTTCAATATCG
678186 CTAGCCTTGAATCAGCATATTGGCATTTTTAACATTCC
63 CTAGCCTTGAATCAGCATATTGGCATTTTTAACA-TCC
* * *
678224 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTAGCATTCTTCTCATCTTCAAG-TCTAATGT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA-CCTT-T-ATCTT-AAGTTC-AATAT
* * * * * ** *
678288 CGCTGGCCGTGAATCAGCAGATTGACATTCTTCGCATCTT
61 CGCTAGCCTTGAATCAGCATATTGGCATTTTTAACATC-C
* * *
678328 TAAGCCCAATATCGCTGGCCTTGAATCCGCATATTAGCACCTTTATC
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTATC
678375 ATTTTTCTCA
Statistics
Matches: 212, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
95 41 0.19
97 1 0.00
98 2 0.01
101 79 0.37
102 4 0.02
103 12 0.06
104 73 0.34
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (99 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTATCTTAAGTTCAATATCGCTA
GCCTTGAATCAGCATATTGGCATTTTTAACATCC
Found at i:678421 original size:61 final size:61
Alignment explanation
Indices: 678313--678449 Score: 220
Period size: 61 Copynumber: 2.2 Consensus size: 61
678303 AGCAGATTGA
* * *
678313 CATTCTTCGCATCTTTAAGCCCAATATCGCTGGCCTTGAATCCGCATATTAGCACCTTTAT
1 CATTCTTCTCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTAT
* *
678374 CATTTTTCTCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CATTCTTCTCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTAT
*
678435 CACTCTTCTCATCTT
1 CATTCTTCTCATCTT
678450 TATCATCTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (61 bp):
CATTCTTCTCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTAT
Found at i:678520 original size:11 final size:11
Alignment explanation
Indices: 678501--678532 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
678491 ACTGGTCACA
678501 CCCTTCCAAAT
1 CCCTTCCAAAT
*
678512 CCGTTCCAAAT
1 CCCTTCCAAAT
678523 CCCTTCCAAA
1 CCCTTCCAAA
678533 ATCTACACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.28, C:0.44, G:0.03, T:0.25
Consensus pattern (11 bp):
CCCTTCCAAAT
Found at i:686363 original size:79 final size:77
Alignment explanation
Indices: 686249--686475 Score: 285
Period size: 78 Copynumber: 2.9 Consensus size: 77
686239 TAGGGATAAC
* * * *
686249 AACGGGGCTGGAGTATCCCCGATTATGAAAAATTGGTGTTCTATAAATAAAATCGAAGTTGGAAT
1 AACGGGGTTGGAGTAT-CCCGATTATGAAAAATTGGTGTTCTAGAAATAAAATCGAGGTTGGAGT
686314 ATCTCCTCGAAAAT
65 ATC-CCTCGAAAAT
* * * * *
686328 AATGGGGTTGGAGTATCCTCAATTATGAAAAATTGGTGTTCTGGAAATAAAA-CTAGGGTTAGAG
1 AACGGGGTTGGAGTATCC-CGATTATGAAAAATTGGTGTTCTAGAAATAAAATCGA-GGTTGGAG
686392 TATCCCTCGAAAAT
64 TATCCCTCGAAAAT
* * * *
686406 AACAGGGTTGGAGTATCCCTGATTGTGAAAAAATGGTGTTTTAGAAATAAAATCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCC-GATTATGAAAAATTGGTGTTCTAGAAATAAAATCGAGGTTGGAGT
686471 ATCCC
65 ATCCC
686476 CGATTGTGAG
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 70 0.56
79 55 0.44
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (77 bp):
AACGGGGTTGGAGTATCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAATCGAGGTTGGAGTA
TCCCTCGAAAAT
Found at i:686499 original size:51 final size:51
Alignment explanation
Indices: 686411--686527 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
686401 AAAATAACAG
* ** * *
686411 GGTTGGAGTATCCCTGATTGTGAAAAAATGGTGTTTTAGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTGTGAAAAAATAATATTTTAGAAATAAAACCGA
* * *
686462 GGTTGGAGTATCCCCGATTGTG-AGAAATCAATATTTTAGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAAT-AATATTTTAGAAATAAAACCGA
*
686513 GGTTGGAATATCCCC
1 GGTTGGAGTATCCCC
686528 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 5 0.09
51 51 0.91
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATAATATTTTAGAAATAAAACCGA
Found at i:689027 original size:50 final size:49
Alignment explanation
Indices: 688910--689041 Score: 185
Period size: 49 Copynumber: 2.7 Consensus size: 49
688900 GGTCAAAAAT
* * *
688910 ACCT-GAATGTATCGATGCATTGAAAAATATATCGATACATCTGGGTAA
1 ACCTAGAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAA
* *
688958 ACCCAGAATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAA
1 ACCTAGAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGT-AA
* *
689008 ACCTAGAATTTATCGATACAATGAACAATGTATC
1 ACCTAGAATGTATCGATACAATGAAAAATGTATC
689042 AATCAAAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 3 0.04
49 38 0.51
50 33 0.45
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (49 bp):
ACCTAGAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAA
Found at i:690720 original size:155 final size:154
Alignment explanation
Indices: 690305--691025 Score: 632
Period size: 155 Copynumber: 4.6 Consensus size: 154
690295 TTGGTGTAAG
* * * ** * * * * *
690305 AGTGATGACCTAGGACTTGATTTTAAAAATTACAAAAATACCCCTATGAGTATACCTTCAACTTG
1 AGTGATAACCTAAGACTTGATTCTAAAAATTATGAAAATACCCCTA-GGGGATACCTTTAACGTA
* * * * * *
690370 AAAGTATCCT-AGTAACCCTAAAGAATTTAAAAAA-ATTATAGATGAAAAGAACCTATCCTAAAT
65 AAAGTAT-CTGA-TACCCCTAAAGGATTTAAAAAAGATTTTAAATGAGATGAACCTATCCTAAAT
* *
690433 ACACACCTTCGACATAAAAGCGGACC-
128 ACCCACCTTCGACATAAAAGCAGACCT
* * * * * * * *
690459 CGATGACAACCTAAGAGTTGGTTCTAAAAAATTATGAAGATGCCTCTTTAGGGGATACCTTTAAT
1 AG-TGATAACCTAAGACTTGATTCT-AAAAATTATGAAAATACC-C-CTAGGGGATACCTTTAAC
* * ** * *
690524 GTAGAAGTA-CTTTATACCCCTAAAGGACCTAAAAAGGATTTTAAATGGGATGAACCTATCCTAA
62 GTAAAAGTATC-TGATACCCCTAAAGGATTTAAAAAAGATTTTAAATGAGATGAACCTATCCTAA
* * *
690588 ATACCCACTTTC-AGTATAAAAGTAGACCT
126 ATACCCACCTTCGA-CATAAAAGCAGACCT
* * *
690617 GGTGATAACCTAAGACTTGATTGTAGATAATTATGAAAATACCCCTAGGGGATA-CTTTCAACGT
1 AGTGATAACCTAAGACTTGATTCTA-AAAATTATGAAAATACCCCTAGGGGATACCTTT-AACGT
* * * * *
690681 AAAAGTATCTGATACCCCTAAAGGACTTAAAAAAGATTTTAAATGGGATTAACCTACCCCAAATA
64 AAAAGTATCTGATACCCCTAAAGGATTTAAAAAAGATTTTAAATGAGATGAACCTATCCTAAATA
* *
690746 CCCACCTTCGACATAAAAGCGGGCCT
129 CCCACCTTCGACATAAAAGCAGACCT
* * *
690772 AGTGATAACCTAAGACTCGATTCTAAAGAATTATGAAAATACCCCTAGGAGATACCATTAACGTA
1 AGTGATAACCTAAGACTTGATTCTAAA-AATTATGAAAATACCCCTAGGGGATACCTTTAACGTA
* * * * *
690837 AAAGTA-CTTAATACCTCTAAATGATTTAAAAAGGATTCTAAATGAGATGAACCTATCCTAAATA
65 AAAGTATC-TGATACCCCTAAAGGATTTAAAAAAGATTTTAAATGAGATGAACCTATCCTAAATA
* * * *
690901 TCCAACTTCGGCATAAAAAC-GAACCT
129 CCCACCTTCGACATAAAAGCAG-ACCT
* * * * * * * *
690927 AGTGACAACCT-AGAACTCGATTTTCAAGAATTATAAAAATACCCCTAGAGAATACCTTTGACGT
1 AGTGATAACCTAAG-ACTTGATTCT-AAAAATTATGAAAATACCCCTAGGGGATACCTTTAACGT
* *
690991 AGAAGTATCTGGTACCCCTAAAGGATTTAAAAAAG
64 AAAAGTATCTGATACCCCTAAAGGATTTAAAAAAG
691026 TGAAGGAATG
Statistics
Matches: 455, Mismatches: 92, Indels: 39
0.78 0.16 0.07
Matches are distributed among these distances:
154 10 0.02
155 305 0.67
156 43 0.09
157 94 0.21
158 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (154 bp):
AGTGATAACCTAAGACTTGATTCTAAAAATTATGAAAATACCCCTAGGGGATACCTTTAACGTAA
AAGTATCTGATACCCCTAAAGGATTTAAAAAAGATTTTAAATGAGATGAACCTATCCTAAATACC
CACCTTCGACATAAAAGCAGACCT
Found at i:690999 original size:310 final size:312
Alignment explanation
Indices: 690332--691025 Score: 744
Period size: 310 Copynumber: 2.2 Consensus size: 312
690322 TGATTTTAAA
* * * * * * * *
690332 AATTACAAAAATACCCCTATGAGTATACCTTCAACTTGAAAGTATCCT-AGTAACCCTAAAGAAT
1 AATTATAAAAATACCCCTA-GAGAATACTTTCAACGTAAAAGTAT-CTGA-TACCCCTAAAGGAC
* * ** ** * * *
690396 TTAAAAAA-ATTATAGATGAAAAGAACCTATCCTAAATACACACCTTCGACATAAAAGCGGACCC
63 TTAAAAAAGATTTTAAATGGGATTAACCTACCCCAAATACACACCTTCGACATAAAAGCGGACCA
* * * * * * * * *
690460 GATGACAACCTAAGAGTTGGTTCTAAAAAATTATGAAGATGCCTCTTTAGGGGATACCTTTAATG
128 GATGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCTCTCTAGGAGATACCATTAACG
* * * *
690525 TAGAAGTACTTTATACCCCTAAAGGACCTAAAAAGGATTTTAAATGGGATGAACCTATCCTAAAT
193 TAAAAGTACTTAATACCCCTAAAGGACCTAAAAAGGATTCTAAATGAGATGAACCTATCCTAAAT
* * * * * *
690590 ACCCACTTTCAGTATAAAAGTAGACCTGGTGATAACCTAAGACTTGATTGTAGAT
258 ACCAACTTTCAGCATAAAAGTAGACCTAGTGACAACCTAAGACTCGATTGTAGAG
* * *
690645 AATTATGAAAATACCCCTAGGGGATACTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTTA
1 AATTATAAAAATACCCCTAGAGAATACTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTTA
* *
690710 AAAAAGATTTTAAATGGGATTAACCTACCCCAAATACCCACCTTCGACATAAAAGCGGGCCTAG-
66 AAAAAGATTTTAAATGGGATTAACCTACCCCAAATACACACCTTCGACATAAAAGCGGACC-AGA
* *
690774 TGATAACCTAAGACTCGATTCTAAAGAATTATGAAAATACC-C-CTAGGAGATACCATTAACGTA
130 TGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCTCTCTAGGAGATACCATTAACGTA
* * **
690837 AAAGTACTTAATACCTCTAAATGATTTAAAAAGGATTCTAAATGAGATGAACCTATCCTAAATAT
195 AAAGTACTTAATACCCCTAAAGGACCTAAAAAGGATTCTAAATGAGATGAACCTATCCTAAATA-
* *
690902 CCAAC-TTCGGCATAAAA--ACGAACCTAGTGACAACCT-AGAACTCGATTTTCA-AG
259 CCAACTTTCAGCATAAAAGTA-G-ACCTAGTGACAACCTAAG-ACTCGATTGT-AGAG
* * * *
690955 AATTATAAAAATACCCCTAGAGAATACCTTT-GACGTAGAAGTATCTGGTACCCCTAAAGGATTT
1 AATTATAAAAATACCCCTAGAGAATA-CTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTT
691019 AAAAAAG
65 AAAAAAG
691026 TGAAGGAATG
Statistics
Matches: 317, Mismatches: 55, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
308 1 0.00
309 3 0.01
310 164 0.52
311 31 0.10
312 100 0.32
313 18 0.06
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (312 bp):
AATTATAAAAATACCCCTAGAGAATACTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTTA
AAAAAGATTTTAAATGGGATTAACCTACCCCAAATACACACCTTCGACATAAAAGCGGACCAGAT
GACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCTCTCTAGGAGATACCATTAACGTAA
AAGTACTTAATACCCCTAAAGGACCTAAAAAGGATTCTAAATGAGATGAACCTATCCTAAATACC
AACTTTCAGCATAAAAGTAGACCTAGTGACAACCTAAGACTCGATTGTAGAG
Found at i:691587 original size:20 final size:20
Alignment explanation
Indices: 691565--691601 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
691555 TTTATTCATT
691565 TTTTA-TTTAATTTATTTAA
1 TTTTACTTTAATTTATTTAA
*
691584 TTTTACTTTAGTTTATTT
1 TTTTACTTTAATTTATTT
691602 TCAAAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTACTTTAATTTATTTAA
Found at i:692475 original size:11 final size:10
Alignment explanation
Indices: 692432--692480 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
692422 AATCTTATTA
*
692432 TTTTTTCTAT
1 TTTTTTCTCT
692442 TTTTTTCTCT
1 TTTTTTCTCT
*
692452 TTTGTTCTTTCT
1 TTT-TT-TCTCT
692464 TTTTTCTCTCT
1 TTTTT-TCTCT
692475 TTTTTT
1 TTTTTT
692481 GCTGAGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 13 0.38
11 14 0.41
12 7 0.21
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:693024 original size:166 final size:165
Alignment explanation
Indices: 692797--693541 Score: 487
Period size: 166 Copynumber: 4.5 Consensus size: 165
692787 CGATATATAC
* * * * * * **
692797 AAAAAATTTAAAATTTATG-AAATAAATTGAATTTTTTAAAATTGAATTAATGGGAGTTAAATAA
1 AAAAAATTAAAAACTCATGAAAATAAA-TGAATTTTTGAAAACTGATTTAATATGAGTTAAATAA
* * * *
692861 CAATATTAGATGAATTTTAAAAATTTTAAATCAAAAAAAATCCCCCCAAAAATATTTACAGAATA
65 TAATATTTGATGAATTTTAAAAA-TTTAAAACAAAAAAAATCCCCCCGAAAATATTTAC-GAATA
* * * * *
692926 GAAAACTCGAT-TTTTCGGAAATAA-GGGCATTTTAAGG
128 GAAAACTCGATATTTT-GAAAAAAATGAGAATTTTAAGA
** *
692963 AAAAAATTAAAAACTCATGAAAATAAATGAAAATTTGAAAACTGATTTAATATGAGTTAAATGAT
1 AAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAGTTAAATAAT
* * * * * ** * * ** *
693028 GATATTTTATGAATATTAAAAATTTCAGACCGAGAAAA-CCTCCTCGAAAACCTTTATGGAATAG
66 AATATTTGATGAATTTTAAAAATTTAAAACAAAAAAAATCC-CCCCGAAAATATTTA-CGAATAG
* *
693092 AAAATTCGATATTTTTAAAAAAATGAGAATTTTAAGA
129 AAAACTCGATATTTTGAAAAAAATGAGAATTTTAAGA
* * * *
693129 AAAAAATAAAAAAACTCATGAAAAAAAATG-ATTTTTGAAACCT-AGTTTAATATGAATTAAATA
1 AAAAAAT-TAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGA-TTTAATATGAGTTAAATA
* * * *
693192 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCTCCGAAAATATTTACGAAGT
64 ATAATATTTGATGAATTTTAAAAATTTAAAAC-AAAAAAAATCCCCCCGAAAATATTTACGAA-T
* * * * * * *
693257 AGAAAATTTTG-TATTTT-AGAAACAGGAAAATTTCAA-A
127 AGAAAA-CTCGATATTTTGAAAAAAATGAGAATTTTAAGA
* * * * * * * *
693294 GAAAAAATGAAAAA-TGAATGAAAATGAATGAATTTTTGAAAACTTACTTAACATGAATTAAATG
1 -AAAAAATTAAAAACT-CATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAGTTAAATA
* ** * ** * * *
693358 ATAATATTTGATGAATTTAAAAAATTTTGGATCAATGAAAATCCTCCC-AAAAAAATTACGAAAT
64 ATAATATTTGATGAATTTTAAAAA-TTTAAAACAAAAAAAATCCCCCCGAAAATATTTACG-AAT
* * * *
693422 AAAAAACTCTATATTTT-AAAAATATGAGGAATTTCAA-A
127 AGAAAACTCGATATTTTGAAAAAAATGA-GAATTTTAAGA
* * * * ** * * * *
693460 AGAAAAGTAACAAGTCAT-AAAATAAAAAAAAATTTTCAAAACTGATTTTATGGTGA-TTAAATA
1 AAAAAATTAAAAACTCATGAAAAT-AAATGAATTTTTGAAAACTGATTTAAT-ATGAGTTAAATA
693523 ATAATATTT-AGTGAATTTT
64 ATAATATTTGA-TGAATTTT
693542 GACGTTCAAA
Statistics
Matches: 448, Mismatches: 108, Indels: 47
0.74 0.18 0.08
Matches are distributed among these distances:
164 10 0.02
165 139 0.31
166 235 0.52
167 60 0.13
168 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (165 bp):
AAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAGTTAAATAAT
AATATTTGATGAATTTTAAAAATTTAAAACAAAAAAAATCCCCCCGAAAATATTTACGAATAGAA
AACTCGATATTTTGAAAAAAATGAGAATTTTAAGA
Found at i:696565 original size:21 final size:21
Alignment explanation
Indices: 696526--696565 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
696516 ATATCAAGAT
* **
696526 ATCAATACATTTATGTAATGC
1 ATCAATACATTGACCTAATGC
696547 ATCAATACATTGACCTAAT
1 ATCAATACATTGACCTAAT
696566 ATATTGATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (21 bp):
ATCAATACATTGACCTAATGC
Found at i:696717 original size:21 final size:21
Alignment explanation
Indices: 696703--696744 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
696693 TGTATTTATG
696703 CTTTGATAGAATGTATCAATA
1 CTTTGATAGAATGTATCAATA
*
696724 CTTTGATATAATGTATCAATA
1 CTTTGATAGAATGTATCAATA
696745 TACATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
CTTTGATAGAATGTATCAATA
Found at i:697353 original size:19 final size:19
Alignment explanation
Indices: 697329--697366 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
697319 TATATTCTTT
*
697329 TTAAAA-ATACTTTTTAAAA
1 TTAAAAGATA-TTATTAAAA
697348 TTAAAAGATATTATTAAAA
1 TTAAAAGATATTATTAAAA
697367 AATTTGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TTAAAAGATATTATTAAAA
Found at i:698235 original size:16 final size:16
Alignment explanation
Indices: 698214--698260 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
698204 TTAATTCATG
698214 TATATTTAATATTTTT
1 TATATTTAATATTTTT
698230 TATATTTAA-A-TTTT
1 TATATTTAATATTTTT
*
698244 AATATTT-ATAATTTTT
1 TATATTTAAT-ATTTTT
698260 T
1 T
698261 TTAAAATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
15 2 0.08
16 13 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTAATATTTTT
Found at i:700526 original size:14 final size:16
Alignment explanation
Indices: 700507--700539 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
700497 AATTTTGTTA
700507 TAATATA-TTATTT-T
1 TAATATATTTATTTAT
700521 TAATATATTTATTTAT
1 TAATATATTTATTTAT
700537 TAA
1 TAA
700540 AATCTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATATATTTATTTAT
Found at i:700549 original size:20 final size:19
Alignment explanation
Indices: 700524--700579 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
700514 TTATTTTTAA
*
700524 TATATTTATTTATTAAAATC
1 TATATTTATATA-TAAAATC
700544 TATATTTATATATAAAAT-
1 TATATTTATATATAAAATC
*
700562 TAT-TTTGTTATATAAAAT
1 TATATTT-ATATATAAAAT
700580 TAATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 3 0.09
18 13 0.39
19 6 0.18
20 11 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TATATTTATATATAAAATC
Found at i:700565 original size:16 final size:18
Alignment explanation
Indices: 700537--700586 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
700527 ATTTATTTAT
700537 TAAAATCTATATTT-ATATA
1 TAAAAT-TAT-TTTGATATA
*
700556 TAAAATTATTTTGTTATA
1 TAAAATTATTTTGATATA
700574 TAAAATTAATTTT
1 TAAAATT-ATTTT
700587 TAAATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 14 0.50
19 11 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAAATTATTTTGATATA
Found at i:700726 original size:22 final size:24
Alignment explanation
Indices: 700677--700727 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
700667 ATGTCGTGTT
*
700677 CATTTTTTTTTAAGTAGTATTTTA
1 CATTATTTTTTAAGTAGTATTTTA
*
700701 -ATTATTTTTT-AGTTGTA-TTTA
1 CATTATTTTTTAAGTAGTATTTTA
700722 CATTAT
1 CATTAT
700728 ATAATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.17
22 11 0.46
23 9 0.38
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (24 bp):
CATTATTTTTTAAGTAGTATTTTA
Found at i:701729 original size:16 final size:16
Alignment explanation
Indices: 701708--701738 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
701698 AGTTCTTTCA
*
701708 AGTTCGGATTATTTTG
1 AGTTCGGACTATTTTG
701724 AGTTCGGACTATTTT
1 AGTTCGGACTATTTT
701739 AAATTTAAAT
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:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (16 bp):
AGTTCGGACTATTTTG
Found at i:702175 original size:2 final size:2
Alignment explanation
Indices: 702163--702200 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
702153 GTTTATTTTC
*
702163 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
702201 GACAGAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:702460 original size:2 final size:2
Alignment explanation
Indices: 702453--702491 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
702443 TTTATAATAG
702453 TA TA 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 T
702492 CCAAAATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:706848 original size:11 final size:11
Alignment explanation
Indices: 706832--706895 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
706822 GAAATATTAA
706832 TATATTTATAT
1 TATATTTATAT
706843 TATATTT-TAAT
1 TATATTTAT-AT
* *
706854 TATTTTTATTT
1 TATATTTATAT
706865 TATATTTATGTAAT
1 TATATTTA--T-AT
706879 TATATTTA-AT
1 TATATTTATAT
706889 TATATTT
1 TATATTT
706896 TGCTAAACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
10 10 0.23
11 23 0.52
12 1 0.02
13 1 0.02
14 9 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TATATTTATAT
Found at i:706890 original size:10 final size:10
Alignment explanation
Indices: 706828--706895 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
706818 TTTTGAAATA
706828 TTAA-TATAT
1 TTAATTATAT
706837 TTATATTATATT
1 TTA-ATTATA-T
706849 TTAA-T-TAT
1 TTAATTATAT
706857 TT--TTAT-T
1 TTAATTATAT
706864 TTATATT-TAT
1 TTA-ATTATAT
*
706874 GTAATTATAT
1 TTAATTATAT
706884 TTAATTATAT
1 TTAATTATAT
706894 TT
1 TT
706896 TGCTAAACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 19
0.69 0.03 0.28
Matches are distributed among these distances:
7 4 0.09
8 4 0.09
9 9 0.19
10 21 0.45
11 5 0.11
12 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (10 bp):
TTAATTATAT
Found at i:707034 original size:88 final size:88
Alignment explanation
Indices: 706941--707113 Score: 283
Period size: 88 Copynumber: 2.0 Consensus size: 88
706931 CCTGCCTTGC
* * * * *
706941 GCCAAGACTCTTATCCTTTTATGATGAAAGGACCGGTATTTGCAACAAAACAAAGTGCTGTTTCT
1 GCCAAGACTCCTATCCTCTCATGATGAAAGGACCGGTAATTGCAACAAAACAAAGTGCTATTTCT
707006 TCTTTGTCTTGGATGAGTTAATT
66 TCTTTGTCTTGGATGAGTTAATT
* *
707029 GCCAAGACTCCTATCCTCTCATGATGAAAGGACTGGTAATTGCAATAAAACAAAGTGCTATTTCT
1 GCCAAGACTCCTATCCTCTCATGATGAAAGGACCGGTAATTGCAACAAAACAAAGTGCTATTTCT
707094 TCTTTGTCTTGGATGAGTTA
66 TCTTTGTCTTGGATGAGTTA
707114 GTTCTCATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (88 bp):
GCCAAGACTCCTATCCTCTCATGATGAAAGGACCGGTAATTGCAACAAAACAAAGTGCTATTTCT
TCTTTGTCTTGGATGAGTTAATT
Found at i:707256 original size:3 final size:3
Alignment explanation
Indices: 707248--707280 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
707238 ATAGGTGAAA
707248 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
707281 CGATTGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:707629 original size:2 final size:2
Alignment explanation
Indices: 707624--707651 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
707614 ATTTGTTCAA
707624 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
707652 TAGAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:708270 original size:16 final size:16
Alignment explanation
Indices: 708250--708293 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
708240 TTTTATCATC
708250 ATTTATCTTTATTGCA
1 ATTTATCTTTATTGCA
* * *
708266 TTTTATTTTTACTGCA
1 ATTTATCTTTATTGCA
708282 ATTTA-CTTTATT
1 ATTTATCTTTATT
708294 TGAAATTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (16 bp):
ATTTATCTTTATTGCA
Found at i:708477 original size:2 final size:2
Alignment explanation
Indices: 708470--708509 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
708460 TTTATTAATA
708470 AT AT 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 AT AT
708510 TGCTCTCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:710999 original size:29 final size:29
Alignment explanation
Indices: 710967--711028 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
710957 CACTTCAAAA
*
710967 TTTTTAAACTATATTTTTTT-A-TTACACT
1 TTTTTAAACTA-ATTTTTTTAATTTAAACT
* *
710995 TTTTTCAGCTAATTTTTTTAATTTAAACT
1 TTTTTAAACTAATTTTTTTAATTTAAACT
711024 TTTTT
1 TTTTT
711029 TTTAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 10 0.34
29 11 0.38
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTTAAACTAATTTTTTTAATTTAAACT
Found at i:712363 original size:16 final size:16
Alignment explanation
Indices: 712338--712382 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
712328 TTTTATCTTT
712338 AATTACTATTAAATTA
1 AATTACTATTAAATTA
*
712354 AATTATTATTAAATTA
1 AATTACTATTAAATTA
*
712370 TATT-CTAATTAAA
1 AATTACT-ATTAAA
712383 GTGCATGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTACTATTAAATTA
Found at i:713883 original size:12 final size:11
Alignment explanation
Indices: 713837--713892 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
713827 AATAGATATT
*
713837 TTAATATTATTT
1 TTAATATT-TTA
*
713849 TTAATAGTTTA
1 TTAATATTTTA
*
713860 AT-ATATTTTTA
1 TTAATA-TTTTA
713871 TTAAGTATTTTA
1 TTAA-TATTTTA
713883 TTAATATTTT
1 TTAATATTTT
713893 TTGAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
10 3 0.08
11 14 0.39
12 17 0.47
13 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (11 bp):
TTAATATTTTA
Found at i:714019 original size:21 final size:21
Alignment explanation
Indices: 713975--714017 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
713965 TTATTTTTAT
*
713975 AATATATAATTATATTATAAA
1 AATATATAATTATATAATAAA
*
713996 AATATA-AATTTTATAATAAA
1 AATATATAATTATATAATAAA
714016 AA
1 AA
714018 ATTTTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATATAATTATATAATAAA
Found at i:717753 original size:48 final size:48
Alignment explanation
Indices: 717658--717762 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
717648 GCTAGCATTT
* * * *
717658 AGAACAACTCTTATTTAAAATAGTTCATGTTCAGAATAGCTTGTGTTC
1 AGAACAACTCTTATTCAAAATAGCTAATGCTCAGAATAGCTTGTGTTC
* * * *
717706 TGAACAACTCTTATTCGAAATTGCTAATGCTCAGAATAG-TTATTGTTC
1 AGAACAACTCTTATTCAAAATAGCTAATGCTCAGAATAGCTT-GTGTTC
*
717754 AAAACAACT
1 AGAACAACT
717763 TAATAAGTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (48 bp):
AGAACAACTCTTATTCAAAATAGCTAATGCTCAGAATAGCTTGTGTTC
Found at i:722562 original size:2 final size:2
Alignment explanation
Indices: 722557--722591 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
722547 ACCCTATCAT
722557 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
722592 TTATTTCCAT
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:724643 original size:3 final size:3
Alignment explanation
Indices: 724635--724668 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
724625 TAAAAAGCGT
724635 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
724669 AGTGTACACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:724803 original size:2 final size:2
Alignment explanation
Indices: 724798--724835 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
724788 GAGAAAAAAG
724798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
724836 CACATTAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:727670 original size:23 final size:23
Alignment explanation
Indices: 727629--727675 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
727619 ATTTTAATTG
* *
727629 GGCTTTTAGTTTAAGTTTAGATA
1 GGCTTTTAATTTAAGTTTAAATA
727652 GGCTTTTAATTT-AGATTTAAATA
1 GGCTTTTAATTTAAG-TTTAAATA
727675 G
1 G
727676 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (23 bp):
GGCTTTTAATTTAAGTTTAAATA
Found at i:729031 original size:2 final size:2
Alignment explanation
Indices: 729026--729060 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
729016 AATGTGTGTG
729026 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
729061 GTAATATTGA
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:738979 original size:18 final size:17
Alignment explanation
Indices: 738899--738980 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
738889 TAAAATTTTA
*
738899 TATTATATTTATATATTT
1 TATTATATTAATA-ATTT
738917 TATTATATCATAATAATATT
1 TATTATAT--TAATAAT-TT
* *
738937 TA-AATTTTATATAAATTT
1 TATTATATTA-AT-AATTT
*
738955 TAATATATTAATAATTT
1 TATTATATTAATAATTT
738972 ATATTATAT
1 -TATTATAT
738981 AAATTTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.14
18 23 0.45
19 13 0.25
20 8 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATATTAATAATTT
Found at i:738984 original size:32 final size:33
Alignment explanation
Indices: 738943--739008 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
738933 TATTTAAATT
* *
738943 TTATATAAATTTTAATAT-ATTA-ATAATTTATA
1 TTATATAAATTTAAAAATAATTATAT-ATTTATA
738975 TTATATAAATTTAAAAATAATTATATATTTATA
1 TTATATAAATTTAAAAATAATTATATATTTATA
739008 T
1 T
739009 CGTATCGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 16 0.53
33 12 0.40
34 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTATATAAATTTAAAAATAATTATATATTTATA
Found at i:746028 original size:52 final size:52
Alignment explanation
Indices: 745943--746067 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
745933 ATATGAAAAG
*
745943 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
745995 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
746047 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
746068 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:746080 original size:52 final size:51
Alignment explanation
Indices: 745943--746087 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
745933 ATATGAAAAG
745943 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
745995 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
746047 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
746088 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:746094 original size:13 final size:13
Alignment explanation
Indices: 746076--746100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746066 CAAAGATCAG
746076 TGTATCGATACAA
1 TGTATCGATACAA
746089 TGTATCGATACA
1 TGTATCGATACA
746101 TTTGAGTAAT
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:746180 original size:13 final size:13
Alignment explanation
Indices: 746162--746186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746152 ACAAAACTTA
746162 TGTATCGATACAT
1 TGTATCGATACAT
746175 TGTATCGATACA
1 TGTATCGATACA
746187 ACACTTTATG
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:746182 original size:32 final size:33
Alignment explanation
Indices: 746141--746206 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
746131 AGTAGCTTAA
746141 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
* *
746173 ATTGTATCGATACAACACTTTATGTATCTATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
746206 A
1 A
746207 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:755755 original size:52 final size:52
Alignment explanation
Indices: 755674--755794 Score: 174
Period size: 52 Copynumber: 2.3 Consensus size: 52
755664 GAAAAGTTGT
* *
755674 CTGCATGTATCGATACATTTAATAGTGTATCGATACAT-CTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATGC-AGGCAAATTTGC
755726 CTGCATGTATCGATACATTATAA-AATGTATCGATACATGCAGGCAAATTTGC
1 CTGCATGTATCGATACATT-TAATAATGTATCGATACATGCAGGCAAATTTGC
* *
755778 CGGCATATATCGATACA
1 CTGCATGTATCGATACA
755795 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
52 59 0.94
53 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATGCAGGCAAATTTGC
Found at i:755807 original size:52 final size:52
Alignment explanation
Indices: 755697--755814 Score: 141
Period size: 52 Copynumber: 2.3 Consensus size: 52
755687 TACATTTAAT
* * * **
755697 AGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATAA
1 AGTGTATCGATACATCTAGGCAAATTTGCCGGCATATATCGATACAAGATAA
* *
755749 AATGTATCGATACATGC-AGGCAAATTTGCCGGCATATATCGATACAAAGAT-C
1 AGTGTATCGATACAT-CTAGGCAAATTTGCCGGCATATATCGATAC-AAGATAA
755801 AGTGTATCGATACA
1 AGTGTATCGATACA
755815 ATGTATCGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 52 0.93
53 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
AGTGTATCGATACATCTAGGCAAATTTGCCGGCATATATCGATACAAGATAA
Found at i:755821 original size:13 final size:13
Alignment explanation
Indices: 755803--755827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
755793 CAAAGATCAG
755803 TGTATCGATACAA
1 TGTATCGATACAA
755816 TGTATCGATACA
1 TGTATCGATACA
755828 TTTGAGTAAT
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:755930 original size:20 final size:19
Alignment explanation
Indices: 755870--755941 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
755860 TAGCTTAAAT
755870 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
755889 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
**
755908 TGTATCGATACAACATGTTA
1 TGTATCGATACAA-AACTTA
755928 TGTATCGATACAAA
1 TGTATCGATACAAA
755942 TCATTGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 33 0.66
20 17 0.34
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:756292 original size:13 final size:13
Alignment explanation
Indices: 756274--756330 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
756264 ACATAAGTGT
756274 TGTATCGATACAA
1 TGTATCGATACAA
756287 TGTATCGATACATAA
1 TGTATCGATAC--AA
756302 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
756319 TGTATCGATACA
1 TGTATCGATACA
756331 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:756297 original size:32 final size:32
Alignment explanation
Indices: 756255--756351 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
756245 CATAAAGTGT
* *
756255 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
756287 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
756319 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
756351 T
1 T
756352 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:756311 original size:19 final size:19
Alignment explanation
Indices: 756233--756349 Score: 114
Period size: 19 Copynumber: 6.7 Consensus size: 19
756223 ATTTCAACGA
756233 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACAT-AAGT
* *
756253 GTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
756272 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
756287 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
756304 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
756319 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
756336 TTTGTATCGATACA
1 TTTGTATCGATACA
756350 ATTTAAGCTA
Statistics
Matches: 82, Mismatches: 3, Indels: 25
0.75 0.03 0.23
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 39 0.48
20 13 0.16
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:756410 original size:13 final size:13
Alignment explanation
Indices: 756392--756416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
756382 ATTACCCAAA
756392 TGTATCGATACAT
1 TGTATCGATACAT
756405 TGTATCGATACA
1 TGTATCGATACA
756417 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:770307 original size:23 final size:22
Alignment explanation
Indices: 770278--770341 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 22
770268 CGTCCTCCAC
770278 AAAAAAAAACAGAAGA-AAAAAAG
1 AAAAAAAAACA-AA-ACAAAAAAG
770301 AAAAAAAAACAAAACAAAAAAG
1 AAAAAAAAACAAAACAAAAAAG
770323 AAAAAAAAAACAACAACAA
1 -AAAAAAAAACAA-AACAA
770342 CAACAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 23 0.61
24 5 0.13
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (22 bp):
AAAAAAAAACAAAACAAAAAAG
Found at i:771829 original size:29 final size:30
Alignment explanation
Indices: 771790--771848 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
771780 TCACCCTTCA
771790 AAAGCCCACAA-GTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAACGTC-GTGGCACTCTTTTTC
*
771819 AAAGCCCACAACTTCGTGGCACTCTTTTTC
1 AAAGCCCACAACGTCGTGGCACTCTTTTTC
771849 CTTCTAAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (30 bp):
AAAGCCCACAACGTCGTGGCACTCTTTTTC
Found at i:771933 original size:34 final size:34
Alignment explanation
Indices: 771880--772008 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 34
771870 GGCACCCGTT
* *
771880 TAAGCCCACGACTCTGTGGCACTCTTTTTCCTTC
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
* *
771914 TAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTAT
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTT-C
*
771947 TAAGCCCACAACTCCGTGGCACTCTTTCTCCTTC
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
* * *
771981 TAAGTCCACAACTCTGTGGCACCCTTTT
1 TAAGCCCACAACTCCGTGGCACTCTTTT
772009 ACGTCCACAG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.04
33 27 0.33
34 48 0.59
35 3 0.04
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (34 bp):
TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
Found at i:771987 original size:67 final size:65
Alignment explanation
Indices: 771820--772008 Score: 260
Period size: 67 Copynumber: 2.9 Consensus size: 65
771810 ATCTTTTTCA
* *
771820 AAGCCCACAACTTCGTGGCACTCTTTTTCCTTCTAAGTCCATAACTCTGTGGCACC----CGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTTTCGTTT
* * * *
771881 AAGCCCACGACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTA
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC-TTTTCGT-
771946 TT
64 TT
*
771948 AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCA-CCTTTT
772009 ACGTCCACAG
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
61 51 0.46
66 2 0.02
67 56 0.50
68 2 0.02
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (65 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTTTCGTTT
Found at i:772077 original size:32 final size:33
Alignment explanation
Indices: 772043--772170 Score: 206
Period size: 32 Copynumber: 3.9 Consensus size: 33
772033 TCTCCTTTTC
772043 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
772075 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * * *
772107 AAAGCCCACACAAGTTGATGGCAACCATTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
772140 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
772171 AAGCTCAATA
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 4 0.05
32 51 0.59
33 31 0.36
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:772080 original size:128 final size:125
Alignment explanation
Indices: 771784--772084 Score: 315
Period size: 128 Copynumber: 2.4 Consensus size: 125
771774 CATTCCTCAC
* * * * * *
771784 CCTTCAAAAGCCCACAAGTCAGTGGCATCT-TTTTCAAAGCCCACAACTTCGTGGCACTCTTTTT
1 CCTTC-AAAGCCCACAACTCCGTGGCACCTCTTCTCAAAGCCCACAACTCCGTGGCACTCTTTCT
* *
771848 CCTTCTAAGTCCATAACTCTGTGGCACCCGTTTAAGCCCACGACTCTGTGGCACTCTTTTT
65 CCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACGACTCTGTGGCACTCTTTCT
* * * *
771909 CCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTATTAAGCCCACAACTCCGTGGCACTCTTT
1 CCTTCAAAGCCCACAACTCCGTGGCACC-TCTTCTCA--AAGCCCACAACTCCGTGGCACTCTTT
* * *
771974 CTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTACGTCCAC-AGCT-TCGTGGCA-TCTTTCT
63 CTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACGA-CTCT-GTGGCACTCTTTCT
* *
772036 CCTTTTCAAAGCCCACACAAGTCGGTGGCAACC-CTTCTCAAAGCCCACA
1 CC--TTCAAAG-CC-CACAACTCCGTGGC-ACCTCTTCTCAAAGCCCACA
772085 CAAGTCGGTG
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
124 18 0.12
125 6 0.04
126 4 0.03
127 10 0.07
128 80 0.55
129 6 0.04
130 6 0.04
131 12 0.08
132 3 0.02
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (125 bp):
CCTTCAAAGCCCACAACTCCGTGGCACCTCTTCTCAAAGCCCACAACTCCGTGGCACTCTTTCTC
CTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACGACTCTGTGGCACTCTTTCT
Found at i:772261 original size:21 final size:21
Alignment explanation
Indices: 772237--772304 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
772227 ATGTAGCTGG
772237 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
772258 CCTTCAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAGCA-CATTGGCA
*
772280 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
772301 CCTT
1 CCTT
772305 CTTCTTCAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.33
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:772281 original size:43 final size:43
Alignment explanation
Indices: 772220--772490 Score: 326
Period size: 43 Copynumber: 6.0 Consensus size: 43
772210 CTTCTTCTTT
*
772220 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * *
772263 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTC
* *
772312 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
* *
772355 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC-T--TC
* * *
772401 TTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCACCTTT
1 ---AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
*
772447 AAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
772490 A
1 A
772491 TCATCTTTAA
Statistics
Matches: 194, Mismatches: 22, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
43 114 0.59
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
49 74 0.38
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
Found at i:772318 original size:92 final size:92
Alignment explanation
Indices: 772176--772534 Score: 549
Period size: 92 Copynumber: 3.9 Consensus size: 92
772166 CTTCTAAGCT
* *
772176 CAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCTT
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTT
*
772241 GAATCAGCACATTGGCACCTTCAAGTC
66 GAATCAGCACATTGGCACCTTTAAGTC
* *
772268 CAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTCAAGTCCAATGTAGCTGGCCTT
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTT
772333 GAATCAGCACATTGGCACCTTTAAGTC
66 GAATCAGCACATTGGCACCTTTAAGTC
*
772360 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTT
*
772425 GAATTAGCACATTGGCACCTTTAAGTC
66 GAATCAGCACATTGGCACCTTTAAGTC
* * **
772452 CAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAACCCAATG-ACGCTG
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-T--TCTTT-AAGTCCAATGTA-GCTG
* *
772516 GTCATGAATCAGCACATTG
61 GCCTTGAATCAGCACATTG
772535 TCATTTTTCG
Statistics
Matches: 245, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
92 211 0.86
95 6 0.02
96 28 0.11
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTT
GAATCAGCACATTGGCACCTTTAAGTC
Found at i:779427 original size:17 final size:17
Alignment explanation
Indices: 779405--779440 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
779395 TTAAAAATTA
*
779405 ATTTAATAAACTTAAAT
1 ATTTAACAAACTTAAAT
*
779422 ATTTAACAAATTTAAAT
1 ATTTAACAAACTTAAAT
779439 AT
1 AT
779441 CAATAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAACAAACTTAAAT
Found at i:780015 original size:32 final size:34
Alignment explanation
Indices: 779954--780037 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 34
779944 AAAAATTAAA
* *
779954 ATATAATATTAATATATAAAATATTTTAAAATTT
1 ATATAATATAAATATATAAAATATATTAAAATTT
* *
779988 ATATAATATAAAT-TAT-TAATATATTAAATTTT
1 ATATAATATAAATATATAAAATATATTAAAATTT
*
780020 ATATAAATAAAAATATAT
1 ATAT-AATATAAATATAT
780038 TTTAAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
32 17 0.40
33 11 0.26
34 15 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
ATATAATATAAATATATAAAATATATTAAAATTT
Found at i:780035 original size:39 final size:37
Alignment explanation
Indices: 779945--780036 Score: 89
Period size: 41 Copynumber: 2.4 Consensus size: 37
779935 TATATACATA
*
779945 AAAATTAAAATAT-AATATTAATATATAAAATATTTT
1 AAAATAAAAATATAAATATTAATATATAAAATATTTT
* *
779981 AAAATTTATATAATATAAATTATTAATATATTAAAT-TTTAT
1 AAAA--TA-AAAATATAAA-TATTAATATATAAAATATTT-T
780022 ATAAATAAAAATATA
1 A-AAATAAAAATATA
780037 TTTTAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
36 4 0.09
38 1 0.02
39 13 0.29
40 7 0.16
41 17 0.38
42 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (37 bp):
AAAATAAAAATATAAATATTAATATATAAAATATTTT
Found at i:780071 original size:23 final size:24
Alignment explanation
Indices: 780019--780073 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
780009 TATTAAATTT
*
780019 TATATAAATAAAAATATATTTTAA
1 TATATAAATAAAAATATATATTAA
*
780043 -AAATAAATAAAAATA-ATATTAA
1 TATATAAATAAAAATATATATTAA
780065 TATATAAAT
1 TATATAAAT
780074 TGTTTATCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TATATAAATAAAAATATATATTAA
Found at i:780175 original size:8 final size:8
Alignment explanation
Indices: 780162--780214 Score: 55
Period size: 7 Copynumber: 7.2 Consensus size: 8
780152 ATATTAAAAA
780162 AATATTTT
1 AATATTTT
780170 AATA-TTT
1 AATATTTT
780177 -ATATTATT
1 AATATT-TT
780185 AA-A-TTT
1 AATATTTT
780191 AATATTTT
1 AATATTTT
780199 AAT-TTTT
1 AATATTTT
780206 -ATATTTT
1 AATATTTT
780213 AA
1 AA
780215 AAATTATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
6 9 0.24
7 14 0.37
8 14 0.37
9 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATATTTT
Found at i:780190 original size:14 final size:14
Alignment explanation
Indices: 780163--780214 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
780153 TATTAAAAAA
780163 ATATTTTAATATTT
1 ATATTTTAATATTT
780177 ATATTATTAA-ATTT
1 ATATT-TTAATATTT
*
780191 AATATTTTAATTTTT
1 -ATATTTTAATATTT
780206 ATATTTTAA
1 ATATTTTAA
780215 AAATTATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTTTAATATTT
Found at i:780221 original size:14 final size:14
Alignment explanation
Indices: 780163--780222 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
780153 TATTAAAAAA
*
780163 ATATTTTAATATTT
1 ATATTTTAAAATTT
780177 ATATTATT-AAATTT
1 ATATT-TTAAAATTT
**
780191 AATATTTTAATTTTT
1 -ATATTTTAAAATTT
*
780206 ATATTTTAAAAATT
1 ATATTTTAAAATTT
780220 ATA
1 ATA
780223 ATAAATAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 26 0.70
15 11 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTAAAATTT
Found at i:780254 original size:19 final size:18
Alignment explanation
Indices: 780232--780282 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
780222 AATAAATAAG
780232 TAAAAAATATTAACGATAT
1 TAAAAAATATTAAC-ATAT
780251 T-AAAAATATTTAA-ATAT
1 TAAAAAATA-TTAACATAT
780268 TAATAAAATATTAAC
1 TAA-AAAATATTAAC
780283 TTACGTAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAATATTAACATAT
Found at i:780416 original size:17 final size:17
Alignment explanation
Indices: 780394--780451 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
780384 TATTTAATTT
780394 TTTTAATATTTAAATAA
1 TTTTAATATTTAAATAA
*
780411 TTTTAATATTATGAAATATT
1 TTTTAATATT-T-AAATA-A
*
780431 TTTTAA-ATTTATTATAA
1 TTTTAATATTTA-AATAA
780448 TTTT
1 TTTT
780452 TAAAGTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 15 0.44
18 5 0.15
19 8 0.24
20 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTAATATTTAAATAA
Found at i:780436 original size:20 final size:18
Alignment explanation
Indices: 780383--780441 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
780373 ATTACATTGT
780383 ATATTT-AAT-TTTTTTA
1 ATATTTAAATATTTTTTA
*
780399 ATATTTAAATA-ATTTTA
1 ATATTTAAATATTTTTTA
780416 ATATTATGAAATATTTTTTA
1 ATATT-T-AAATATTTTTTA
780436 A-ATTTA
1 ATATTTA
780442 TTATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 6 0.17
17 14 0.39
18 2 0.06
19 8 0.22
20 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATTTAAATATTTTTTA
Found at i:780500 original size:7 final size:7
Alignment explanation
Indices: 780450--780500 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
780440 TATTATAATT
*
780450 TTTAAAG
1 TTTAAAA
780457 TTTAAAA
1 TTTAAAA
*
780464 ATTAAAA
1 TTTAAAA
780471 -TTAAAA
1 TTTAAAA
780477 TTTTAATAA
1 -TTTAA-AA
*
780486 TATAAAA
1 TTTAAAA
780493 TTTAAAA
1 TTTAAAA
780500 T
1 T
780501 ACTTATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 6 0.16
7 21 0.57
8 8 0.22
9 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:784249 original size:26 final size:28
Alignment explanation
Indices: 784220--784288 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 28
784210 GATACTTATT
784220 TAATTTTTAAAAAAATTTATC-ATA-AA
1 TAATTTTTAAAAAAATTTATCAATATAA
784246 TAATTTTT---AAAATTTATCAATATAA
1 TAATTTTTAAAAAAATTTATCAATATAA
* *
784271 TATTTTTTAAAAATATTT
1 TAATTTTTAAAAAAATTT
784289 TTATTTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 10 0.28
24 3 0.08
25 9 0.25
26 8 0.22
28 6 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TAATTTTTAAAAAAATTTATCAATATAA
Found at i:784261 original size:23 final size:25
Alignment explanation
Indices: 784231--784282 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
784221 AATTTTTAAA
784231 AAAATTTATC-ATA-AATAATTTTT
1 AAAATTTATCAATATAATAATTTTT
*
784254 AAAATTTATCAATATAATATTTTTT
1 AAAATTTATCAATATAATAATTTTT
784279 AAAA
1 AAAA
784283 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 10 0.38
24 3 0.12
25 13 0.50
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTTATCAATATAATAATTTTT
Found at i:785421 original size:2 final size:2
Alignment explanation
Indices: 785414--785440 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
785404 TTATAACAAT
785414 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 T
785441 TTTAAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:786808 original size:19 final size:19
Alignment explanation
Indices: 786784--786822 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
786774 AGCTGTGTGA
786784 TAAAATTCAATAAAAAAAT
1 TAAAATTCAATAAAAAAAT
* *
786803 TAAAATTTAATAACAAAAT
1 TAAAATTCAATAAAAAAAT
786822 T
1 T
786823 CAATCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTCAATAAAAAAAT
Found at i:798352 original size:80 final size:80
Alignment explanation
Indices: 798231--798419 Score: 193
Period size: 80 Copynumber: 2.4 Consensus size: 80
798221 TTACATTTCT
* * **
798231 AAAAGGATGCTCCAA-CCCTATTTTTACTTCTAAAATACTAAATTTCCCATCTCTGGTTATACTC
1 AAAA-GATACTCCAATCCC-ATTTTTACTTCCAAAATACTAAATTTCCCATCTCTGGAGATACTC
798295 CAACCCCACCATCTCCG
64 CAACCCCACCATCTCCG
* * * * * * ****
798312 AGAGGATATTCTAATTCCGTTTTTACTTCCAAAA-AGCTAAATTTTTTGTCTCTGGAGATACTCC
1 AAAAGATACTCCAATCCCATTTTTACTTCCAAAATA-CTAAATTTCCCATCTCTGGAGATACTCC
* *
798376 AAGCCTACCATCTCCG
65 AACCCCACCATCTCCG
798392 AAAAGATACTCCAATCCCATTTTTACTT
1 AAAAGATACTCCAATCCCATTTTTACTT
798420 TTAAAACATT
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
79 1 0.01
80 79 0.94
81 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (80 bp):
AAAAGATACTCCAATCCCATTTTTACTTCCAAAATACTAAATTTCCCATCTCTGGAGATACTCCA
ACCCCACCATCTCCG
Found at i:798869 original size:20 final size:20
Alignment explanation
Indices: 798840--798877 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
798830 ATACAAACAA
*
798840 TGAATTTATCGATACATGAG
1 TGAATGTATCGATACATGAG
798860 TGAATGTATCGATACATG
1 TGAATGTATCGATACATG
798878 TCTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TGAATGTATCGATACATGAG
Found at i:801461 original size:79 final size:78
Alignment explanation
Indices: 801359--801608 Score: 358
Period size: 79 Copynumber: 3.2 Consensus size: 78
801349 TTTATCATTG
* * * *
801359 GGGATACTCCAACTTCATTATTTTCGAGAGAATACTCTAACCCTATTTTTATTTTCAAAATATCA
1 GGGATACTCCAACCTCATCATTTTCGAGAGGATACTCTAACCCTATTTTTATTTTCAAAATATCG
801424 ATTTTTCACCATC
66 ATTTTTCACCATC
* * *
801437 AGGGATACTCCAACCCCATCATTTTCAAGAGGATACTCTAA-CCTCGTTTTTATTTTCAAAATAT
1 -GGGATACTCCAACCTCATCATTTTCGAGAGGATACTCTAACCCT-ATTTTTATTTTCAAAATAT
801501 CGATTTTTCACCATC
64 CGATTTTTCACCATC
* * * *
801516 GAGGATAATCCAACCTCATCATTTTCGAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATC
1 G-GGATACTCCAACCTCATCATTTTCGAGAGGATACTCTAACCCTATTTTTATTTTCAAAATATC
801581 GATTTTTCACCATC
65 GATTTTTCACCATC
801595 GGGGATACTCCAAC
1 -GGGATACTCCAAC
801609 TCGTTTTTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
78 4 0.03
79 145 0.95
80 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCTCATCATTTTCGAGAGGATACTCTAACCCTATTTTTATTTTCAAAATATCG
ATTTTTCACCATC
Found at i:801618 original size:129 final size:129
Alignment explanation
Indices: 801467--801813 Score: 346
Period size: 129 Copynumber: 2.7 Consensus size: 129
801457 ATTTTCAAGA
* **
801467 GGATACTCTAACCTCGTTTTTATTTTCAAAATA-TCGATTTTTCACCATCGAGGATAATCCAA-C
1 GGATACTCCAA-CTCGTTTTTATTTTCAAAATATTAAATTTTTCACC-TCGAGGATAATCCAACC
* *
801530 CTCATCATTT-TCGAGGGGATACTCCAACCCCATTTTTA-TTTTCAAAATATCGATTTTTCACCA
64 CT-ATCATTTCT-AAGGGGATACTCCAACCCCATTTTTACTTCT-AAAATATCGATTTTTCACCA
*
801593 TCGG
126 CCGG
* * * * *
801597 GGATACTCCAACTCGTTTTTATTTTCAGAATATTAAATTTTTTATCTCGAGGATATTTCAACCCT
1 GGATACTCCAACTCGTTTTTATTTTCAAAATATTAAATTTTTCACCTCGAGGATAATCCAACCCT
* * **
801662 ATCATTTCTAAGGGGATACTCCAACCCCGTTTTTACTTCTAAAATCTCGATTTTTCGTCACCGG
66 ATCATTTCTAAGGGGATACTCCAACCCCATTTTTACTTCTAAAATATCGATTTTTCACCACCGG
* * * * * * * *
801726 GGATACTCCAACCCCGTTATTACTTCCAAAATATTAAA-ATTTCATCT-AAGGGATACTCCAACC
1 GGATACTCCAA-CTCGTTTTTATTTTCAAAATATTAAATTTTTCACCTCGA-GGATAATCCAACC
* * * *
801789 CCACCATCTCTAAAGGGATACTCCA
64 CTATCATTTCTAAGGGGATACTCCA
801814 TCTTGATTTT
Statistics
Matches: 182, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 134 0.74
130 47 0.26
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (129 bp):
GGATACTCCAACTCGTTTTTATTTTCAAAATATTAAATTTTTCACCTCGAGGATAATCCAACCCT
ATCATTTCTAAGGGGATACTCCAACCCCATTTTTACTTCTAAAATATCGATTTTTCACCACCGG
Found at i:801651 original size:50 final size:51
Alignment explanation
Indices: 801546--801660 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 51
801536 ATTTTCGAGG
** *
801546 GGATACTCCAACCCCATTTTTATTTTCAAAATATCGATTTTTCACCATCGG
1 GGATACTCCAACCCCATTTTTATTTTCAAAATATAAATTTTTCACCATCGA
* * * * *
801597 GGATACTCCAA-CTCGTTTTTATTTTCAGAATATTAAATTTTTTATC-TCGA
1 GGATACTCCAACCCCATTTTTATTTTCAAAATA-TAAATTTTTCACCATCGA
* *
801647 GGATATTTCAACCC
1 GGATACTCCAACCC
801661 TATCATTTCT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
50 30 0.59
51 21 0.41
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (51 bp):
GGATACTCCAACCCCATTTTTATTTTCAAAATATAAATTTTTCACCATCGA
Found at i:805548 original size:2 final size:2
Alignment explanation
Indices: 805541--805577 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
805531 ATGACAAGTT
805541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
805578 ACAAGGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:806146 original size:2 final size:2
Alignment explanation
Indices: 806088--806131 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
806078 GAAAACCTAA
806088 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
806130 TC
1 TC
806132 AGTCTTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:808686 original size:16 final size:16
Alignment explanation
Indices: 808665--808705 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
808655 AAAGTCAACA
808665 ACTCAAATCCG-AACT
1 ACTCAAATCCGAAACT
*
808680 GACTCAAACCCGAAACT
1 -ACTCAAATCCGAAACT
808697 ACTCAAATC
1 ACTCAAATC
808706 TAGAATGATC
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:0.41, C:0.34, G:0.07, T:0.17
Consensus pattern (16 bp):
ACTCAAATCCGAAACT
Found at i:808755 original size:29 final size:31
Alignment explanation
Indices: 808686--808759 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
808676 AACTGACTCA
808686 AACCCGAAACT-ACTCAAATCTAGAATGATCCG
1 AACCCGAAA-TGACTCAAATCTAG-ATGATCCG
* *
808718 AACCTGAAATGACTCGAATCTAG-TGAT-CG
1 AACCCGAAATGACTCAAATCTAGATGATCCG
808747 AACCCGAAATGAC
1 AACCCGAAATGAC
808760 CTGAATCCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 14 0.37
30 4 0.11
31 1 0.03
32 19 0.50
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (31 bp):
AACCCGAAATGACTCAAATCTAGATGATCCG
Found at i:808787 original size:32 final size:32
Alignment explanation
Indices: 808751--808813 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
808741 TGATCGAACC
*
808751 CGAAATGACCTGAATCCAGAATAACTCGAATT
1 CGAAATGACCTGAATCCAAAATAACTCGAATT
*
808783 CGAAATGACCTGAATCCAAAATGACTCGAAT
1 CGAAATGACCTGAATCCAAAATAACTCGAAT
808814 AATTAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (32 bp):
CGAAATGACCTGAATCCAAAATAACTCGAATT
Found at i:808813 original size:16 final size:16
Alignment explanation
Indices: 808724--808813 Score: 55
Period size: 16 Copynumber: 5.8 Consensus size: 16
808714 TCCGAACCTG
808724 AAATGACTCGAAT-C-
1 AAATGACTCGAATCCA
* * * *
808738 TAGTGA-TCGAACCCG
1 AAATGACTCGAATCCA
808753 AAATGAC-CTGAATCCA
1 AAATGACTC-GAATCCA
* * * *
808769 GAATAACTCGAATTCG
1 AAATGACTCGAATCCA
808785 AAATGAC-CTGAATCCA
1 AAATGACTC-GAATCCA
808801 AAATGACTCGAAT
1 AAATGACTCGAAT
808814 AATTAACCCA
Statistics
Matches: 54, Mismatches: 15, Indels: 12
0.67 0.19 0.15
Matches are distributed among these distances:
13 5 0.09
14 5 0.09
15 6 0.11
16 36 0.67
17 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (16 bp):
AAATGACTCGAATCCA
Found at i:809650 original size:18 final size:18
Alignment explanation
Indices: 809627--809666 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
809617 TTGACAATTC
809627 AATTTGATAATTTTTAAA
1 AATTTGATAATTTTTAAA
809645 AATTTGATAATTTTTAAA
1 AATTTGATAATTTTTAAA
809663 AATT
1 AATT
809667 CAATATCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AATTTGATAATTTTTAAA
Found at i:809932 original size:16 final size:16
Alignment explanation
Indices: 809881--809955 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
809871 TAAACCCGAT
809881 TGACCCGAACCCGAAA
1 TGACCCGAACCCGAAA
* * *
809897 TAACCCAAATCC-AAA
1 TGACCCGAACCCGAAA
809912 GTGACCCGAACCCGAAA
1 -TGACCCGAACCCGAAA
** *
809929 TGACATGAACCCAAAA
1 TGACCCGAACCCGAAA
*
809945 TGATCCGAACC
1 TGACCCGAACC
809956 TAAAAACAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
15 3 0.07
16 39 0.87
17 3 0.07
ACGTcount: A:0.41, C:0.33, G:0.15, T:0.11
Consensus pattern (16 bp):
TGACCCGAACCCGAAA
Found at i:809943 original size:32 final size:32
Alignment explanation
Indices: 809881--809955 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
809871 TAAACCCGAT
* * *
809881 TGACCCGAACCCGAAATAACCCAAATCCAAAG
1 TGACCCGAACCCGAAATAACACAAACCCAAAA
* **
809913 TGACCCGAACCCGAAATGACATGAACCCAAAA
1 TGACCCGAACCCGAAATAACACAAACCCAAAA
*
809945 TGATCCGAACC
1 TGACCCGAACC
809956 TAAAAACAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.33, G:0.15, T:0.11
Consensus pattern (32 bp):
TGACCCGAACCCGAAATAACACAAACCCAAAA
Found at i:810242 original size:24 final size:22
Alignment explanation
Indices: 810202--810257 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
810192 TATTTTTTGT
* *
810202 TATTTTTTGTGTCATATTTGTGA
1 TATTTTTTATGTCATATTCGT-A
*
810225 TATTTTCTTATGTTATATTCGTA
1 TATTTT-TTATGTCATATTCGTA
810248 TATTTTTTAT
1 TATTTTTTAT
810258 ATATTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 13 0.45
24 12 0.41
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (22 bp):
TATTTTTTATGTCATATTCGTA
Found at i:810271 original size:20 final size:21
Alignment explanation
Indices: 810246--810334 Score: 77
Period size: 20 Copynumber: 4.5 Consensus size: 21
810236 GTTATATTCG
810246 TATATT-TTTTATATATTAT-T
1 TATATTATTTT-TATATTATAT
810266 TATATTATTTTTATATTATAT
1 TATATTATTTTTATATTATAT
* *
810287 TAT-TTAATTTTA-ATTA-GT
1 TATATTATTTTTATATTATAT
810305 TATA-TATTTTTAT-TGTAT-T
1 TATATTATTTTTATAT-TATAT
*
810324 CATATTATTTT
1 TATATTATTTT
810335 ATGTGTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
18 12 0.21
19 10 0.17
20 28 0.48
21 8 0.14
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (21 bp):
TATATTATTTTTATATTATAT
Found at i:810284 original size:16 final size:15
Alignment explanation
Indices: 810261--810291 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
810251 TTTTTATATA
810261 TTATTTATATTATTT
1 TTATTTATATTATTT
810276 TTATATTATATTATTT
1 TTAT-TTATATTATTT
810292 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATATTATTT
Found at i:810712 original size:28 final size:28
Alignment explanation
Indices: 810672--810740 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
810662 AAAGTAGACA
810672 AAAATAATAATATTCT-ATAA-TATATATT
1 AAAATAATAATATTCTAATAATTA-AT-TT
*
810700 AAAATAATAATATTTTAATAATTAATTT
1 AAAATAATAATATTCTAATAATTAATTT
810728 AAAA-AATAATATT
1 AAAATAATAATATT
810741 ATTTTGGTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
27 9 0.24
28 21 0.55
29 6 0.16
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATAATAATATTCTAATAATTAATTT
Found at i:811834 original size:91 final size:91
Alignment explanation
Indices: 811675--811853 Score: 297
Period size: 91 Copynumber: 2.0 Consensus size: 91
811665 ATGTTCTAAG
* * *
811675 TAATTTTCTATTAATGAAAGTTTTTAGAGTTATAAACAAATGTTTTTAAACCTTAATTTAAATGT
1 TAATTTTCTATCAATGAAAGTTTTTAGAGTTATAAACAAATATTTTTAAACCTTAATTTAAATAT
811740 TTTTAAGACAAAAATACTTCAAAATA
66 TTTTAAGACAAAAATACTTCAAAATA
* *
811766 TAATTTTCTATCAATTG-AAGTTTTTAGAGTTATAAATAAATATTTTTGAACCTTAATTTAAATA
1 TAATTTTCTATCAA-TGAAAGTTTTTAGAGTTATAAACAAATATTTTTAAACCTTAATTTAAATA
811830 TTTTTAAGACAAAAATACTTCAAA
65 TTTTTAAGACAAAAATACTTCAAA
811854 GTATCGATAC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 80 0.98
92 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (91 bp):
TAATTTTCTATCAATGAAAGTTTTTAGAGTTATAAACAAATATTTTTAAACCTTAATTTAAATAT
TTTTAAGACAAAAATACTTCAAAATA
Found at i:812047 original size:13 final size:13
Alignment explanation
Indices: 812029--812055 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
812019 CTACCACTGT
812029 TTGTATCGATACA
1 TTGTATCGATACA
812042 TTGTATCGATACA
1 TTGTATCGATACA
812055 T
1 T
812056 GATGAATTGT
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:818381 original size:19 final size:18
Alignment explanation
Indices: 818357--818451 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
818347 AAACCGTAAA
818357 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
818376 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
818389 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
818408 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
818421 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
818440 TGTATCGATACA
1 TGTATCGATACA
818452 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 34 0.53
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:818394 original size:13 final size:13
Alignment explanation
Indices: 818376--818465 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
818366 ACATAAGTGT
818376 TGTATCGATACAA
1 TGTATCGATACAA
818389 TGTATCGATACATAA
1 TGTATCGATAC--AA
818404 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
818421 TGTATCGATACATAA
1 TGTATCGATAC--AA
818436 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
818453 TGTATCGCTACAA
1 TGTATCGATACAA
818466 AGCTATTGCT
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:818396 original size:32 final size:32
Alignment explanation
Indices: 818355--818464 Score: 202
Period size: 32 Copynumber: 3.4 Consensus size: 32
818345 ACAAACCGTA
818355 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
818387 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
818419 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
818451 AATGTATCGCTACA
1 AATGTATCGATACA
818465 AAGCTATTGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 76 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:818508 original size:64 final size:62
Alignment explanation
Indices: 818354--818528 Score: 187
Period size: 64 Copynumber: 2.8 Consensus size: 62
818344 TACAAACCGT
* * *
818354 AAATGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGAT
1 AAATGTATCGATACATAAG-GTTGTATCGATACAATGTATCGATACATAAGTATTGTATAGAG
* *
818417 ACAATGTATCGATACATAAGTTTTGTATCGATACAATGTATCGCTACA-AAGCTATTGCTA-AG-
1 A-AATGTATCGATACATAAG-GTTGTATCGATACAATGTATCGATACATAAG-TATTG-TATAGA
818479 G
62 G
* *
818480 AAATGTATCGATACATTAAGGAAATGTATC-ATACATTGTATCGATACAT
1 AAATGTATCGATACA-TAAGG--TTGTATCGATACAATGTATCGATACAT
818529 CGATCTTTGT
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
62 14 0.15
63 25 0.26
64 55 0.57
65 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (62 bp):
AAATGTATCGATACATAAGGTTGTATCGATACAATGTATCGATACATAAGTATTGTATAGAG
Found at i:818515 original size:20 final size:21
Alignment explanation
Indices: 818475--818516 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
818465 AAGCTATTGC
818475 TAAGGAAATGTATCGATACAT
1 TAAGGAAATGTATCGATACAT
818496 TAAGGAAATGTATC-ATACAT
1 TAAGGAAATGTATCGATACAT
818516 T
1 T
818517 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
TAAGGAAATGTATCGATACAT
Found at i:818889 original size:13 final size:13
Alignment explanation
Indices: 818871--818895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
818861 ATAAAAATGT
818871 TGTATCGATACAA
1 TGTATCGATACAA
818884 TGTATCGATACA
1 TGTATCGATACA
818896 TAAGTGTTGT
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:818889 original size:32 final size:32
Alignment explanation
Indices: 818852--818959 Score: 128
Period size: 32 Copynumber: 3.2 Consensus size: 32
818842 TTGAACGATT
* * *
818852 TGTATCGATATAAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
818884 TGTATCGATACATAAGTGTTGTATCGATACATAA
1 TGTATCGATACATAAGTGTTGTATCGATAC--AA
818918 GTGTTGTATCGATACATAAGT-TTGTATCGATACAA
1 ----TGTATCGATACATAAGTGTTGTATCGATACAA
818953 TGTATCG
1 TGTATCG
818960 CTACGAAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
31 7 0.10
32 27 0.40
34 2 0.03
35 2 0.03
37 12 0.18
38 17 0.25
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Done.