Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004996.1 Hibiscus syriacus cultivar Beakdansim tig00011217_pilon, whole genome shotgun sequence
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: 207225
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:188 original size:32 final size:32
Alignment explanation
Indices: 126--188 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
116 AAAGGTAACA
*
126 GACCTTAAGGGATTGTCATAAAACATTAGTAT
1 GACCTTAAGGGATTGTCATAAAACAGTAGTAT
* * *
158 GACCTTAAGGGATTTTCATGAGACAGTAGTA
1 GACCTTAAGGGATTGTCATAAAACAGTAGTA
189 ATAACGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (32 bp):
GACCTTAAGGGATTGTCATAAAACAGTAGTAT
Found at i:505 original size:28 final size:27
Alignment explanation
Indices: 455--507 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
445 GGAATAAGTG
*
455 TTATGATAAGGAAACGATTATAATAAC
1 TTATGATAAGGAAACGATCATAATAAC
* *
482 TTATGAATAAGTAAATGATCATAATA
1 TTATG-ATAAGGAAACGATCATAATA
508 CCCTATTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (27 bp):
TTATGATAAGGAAACGATCATAATAAC
Found at i:6178 original size:31 final size:31
Alignment explanation
Indices: 6141--6211 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
6131 TTCAAAGCCT
6141 GAGAGCAAAGGATCCAAGAGCTGGAAGAAAA
1 GAGAGCAAAGGATCCAAGAGCTGGAAGAAAA
6172 GAGAGCAAAGGATCCAAGAGCTGGAAGAAAA
1 GAGAGCAAAGGATCCAAGAGCTGGAAGAAAA
6203 GAGAGCAAA
1 GAGAGCAAA
6212 AGAATGATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.49, C:0.13, G:0.32, T:0.06
Consensus pattern (31 bp):
GAGAGCAAAGGATCCAAGAGCTGGAAGAAAA
Found at i:15342 original size:17 final size:17
Alignment explanation
Indices: 15320--15353 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15310 GATTTAAGTG
15320 CTTCACAATTGGTGCAA
1 CTTCACAATTGGTGCAA
15337 CTTCACAATTGGTGCAA
1 CTTCACAATTGGTGCAA
15354 GTGTACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
CTTCACAATTGGTGCAA
Found at i:16254 original size:26 final size:24
Alignment explanation
Indices: 16222--16280 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
16212 TTAATTGGAC
*
16222 TAAAAGAGATAATAAATTTCTTCTAA
1 TAAAAGAGA-AA-AAATATCTTCTAA
* *
16248 TAAAAGAGGAAACAATATCTTTTAA
1 TAAAAGA-GAAAAAATATCTTCTAA
16273 TAAAAGAG
1 TAAAAGAG
16281 GAATTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 17 0.59
26 9 0.31
27 2 0.07
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.29
Consensus pattern (24 bp):
TAAAAGAGAAAAAATATCTTCTAA
Found at i:16827 original size:80 final size:80
Alignment explanation
Indices: 16689--16939 Score: 353
Period size: 80 Copynumber: 3.1 Consensus size: 80
16679 AGAACTTATT
* * *
16689 GGAGTTGGATCAACATTCTCAATAAAAGAAGTTCATAATGAAAAT-AACTTGTTCAACCTTTGCT
1 GGAGTTGGATCAGCATTCTCAATAGAAGAAGTTCATAATG-AGATGAACTTGTTCAACCTTTGCT
* *
16753 CGATTCCATCATAGAA
65 CGATTCCATCACAAAA
* * *
16769 GGAGTTGGATCAGCATTCCCAAGAGAAGAAGTTCATAATGAGATGAACTTGTTAAACCTTTGCTC
1 GGAGTTGGATCAGCATTCTCAATAGAAGAAGTTCATAATGAGATGAACTTGTTCAACCTTTGCTC
16834 GATTCCATCACAAAA
66 GATTCCATCACAAAA
* * * *
16849 GGAGTTGGATTAGCGTTTTC-ATAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTC
1 GGAGTTGGATCAGCATTCTCAATAGAAGAAGTTCATAATGAGATGAACTTGTTCAACCTTTGCTC
*
16913 GGTTCCATCACAAAA
66 GATTCCATCACAAAA
*
16928 GGAATTGGATCA
1 GGAGTTGGATCA
16940 ATATTTCCAT
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 68 0.45
80 84 0.55
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (80 bp):
GGAGTTGGATCAGCATTCTCAATAGAAGAAGTTCATAATGAGATGAACTTGTTCAACCTTTGCTC
GATTCCATCACAAAA
Found at i:17093 original size:3 final size:3
Alignment explanation
Indices: 17087--17124 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
17077 ATCATCATCA
* *
17087 TAT TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17125 CAATAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17114 original size:21 final size:21
Alignment explanation
Indices: 17088--17130 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17078 TCATCATCAT
*
17088 ATTATTATTATTATTATAATA
1 ATTATTATTATTATTACAATA
17109 ATTATTATTATTATTACAATA
1 ATTATTATTATTATTACAATA
17130 A
1 A
17131 ATAAAAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTATTATTATTACAATA
Found at i:19471 original size:17 final size:16
Alignment explanation
Indices: 19422--19472 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
19412 AACTGAATCG
* * *
19422 AAAACAACCCGAACTA
1 AAAATAACCCAAACAA
19438 AAAATAACCCAAACAA
1 AAAATAACCCAAACAA
19454 AAAATAACCCAAACCAA
1 AAAATAACCCAAA-CAA
19471 AA
1 AA
19473 CCAACTCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.65, C:0.27, G:0.02, T:0.06
Consensus pattern (16 bp):
AAAATAACCCAAACAA
Found at i:20837 original size:3 final size:3
Alignment explanation
Indices: 20829--20855 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20819 GTTTTCAAAT
20829 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
20856 CGTTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:27993 original size:14 final size:15
Alignment explanation
Indices: 27974--28002 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27964 GGAGTGATTG
27974 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
27988 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
28003 ACTAATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:38140 original size:3 final size:3
Alignment explanation
Indices: 38134--38185 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
38124 TTTAAAAAAA
* *
38134 TAT TAT TAAT TAT TAT TAT TAA TAT TAT TAA TAT TAT TAT TAAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
38181 TAT TA
1 TAT TA
38186 CCTAACCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:38254 original size:23 final size:23
Alignment explanation
Indices: 38211--38255 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38201 TAAACCACTA
*
38211 AATAAACTAAATAAACCCTACCC
1 AATAAACTAAATAAAACCTACCC
*
38234 AATAAACCTAAA-AAAATCTACC
1 AATAAA-CTAAATAAAACCTACC
38256 TAAACTACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
AATAAACTAAATAAAACCTACCC
Found at i:43298 original size:18 final size:18
Alignment explanation
Indices: 43275--43313 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
43265 CTCAAGGCGA
43275 GAAGGGTTATCTGTCAAT
1 GAAGGGTTATCTGTCAAT
*
43293 GAAGGGTTATCTGTTAAT
1 GAAGGGTTATCTGTCAAT
43311 GAA
1 GAA
43314 AACTTTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (18 bp):
GAAGGGTTATCTGTCAAT
Found at i:43764 original size:46 final size:44
Alignment explanation
Indices: 43661--43780 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 44
43651 ACCGACCAAT
*
43661 CGTCCTCATCGTGTAGGAACCGTG--TCACCCCAGATAACCAGC
1 CGTCCTCATCGCGTAGGAACCGTGTATCACCCCAGATAACCAGC
* * **
43703 CGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTA-C
1 CGTCCTCATCGCGTAGGAACCGTG-TATCACCC-CAGATAACC-AGC
*
43749 CGTCCTCATCGCGTAGGAACTGTGTCATCACC
1 CGTCCTCATCGCGTAGGAACCGTGT-ATCACC
43781 TAACCATATT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 22 0.34
45 7 0.11
46 35 0.54
47 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (44 bp):
CGTCCTCATCGCGTAGGAACCGTGTATCACCCCAGATAACCAGC
Found at i:44052 original size:128 final size:127
Alignment explanation
Indices: 43643--44894 Score: 1281
Period size: 128 Copynumber: 9.7 Consensus size: 127
43633 CACAACAATT
** *
43643 TGTCATCCACCGACCA-ATCGTCCTCATCGTGTAGGAACC-GTGTCACCCCAGATAACCAGCCGT
1 TGTCAT-CACCGACCAGATC-TCCTCATTATGTAGG-ACCTGTGTCAACCCAGATAACCAGCCGT
* * *
43706 CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTACCGTCCTCATCGCGTAGGAACTG
63 CCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
* * * ** *
43771 TGTCATCACCTAACCATATTTCCTCATTATGTAGGAAATGTGTTAACCCTAGATAACCAGCCGTC
1 TGTCATCACC-GACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCC-AGATAACCAGCCGTC
* * * * * *
43836 CTCATCACGTAGGAACCATGTTATCA-CCTTAAGATGGCCAGAAC-TCTTCATCACGTATGAGCC
64 CTCATCACGTAGGAACCGTGTTATCACCCTT-AGATGGCCTG-CCGTCCTCATCACGTAGGAACC
43899 G
127 G
* * * * * **
43900 GGTCATCAACTGACCATATCTCCTCATTATGTAGGACCTGTGTCAACCCAGGTAACTAGTTGTCC
1 TGTCATC-ACCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCC
*
43965 TCATCACGTAGGAACCGTGTTATTACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
65 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
* * * * * * * *
44028 TTTCATAATCCAACCAGATTTCCTCATTATGTAGGATCTGTGTCAATCCATATAACCAGTC-TCC
1 TGTCATCA-CCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCC
* * * * * * *
44092 TCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAAC-TCTTCATCACGTATGAGCCG
65 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTG-CCGTCCTCATCACGTAGGAACCG
* * * *
44155 TGTCATCAACTGACCAGATCTCCTCATTATGTAGGAGCC-GTGTCAACCCAGATAATCAACCATC
1 TGTCATC-ACCGACCAGATCTCCTCATTATGTAGGA-CCTGTGTCAACCCAGATAACCAGCCGTC
* * *
44219 TTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCGTCCTCATCACATAGGAACCG
64 CTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
* * * * **
44283 TGTCATCACCCGACCAGATCTTCTCATTATATAAGAGCTGTGTCAACCCAGATAACCAGCTATCC
1 TGTCATCA-CCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCC
* * *
44348 TAATCACGTAGGAACTGTGTTATCACCCTTAGATGGCATGCCGTCCTCATCACGTAGGAACCG
65 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
* * * *
44411 TGTCATCACCCGACCAGATCTCCTCATTATGTATGAGCTATGTCAACCCAGATAACCAGCCATCC
1 TGTCATCA-CCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCC
* *
44476 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCATGCCGTCCTCATCACGTAGGAACTG
65 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
** * * *
44539 TGTCATCACCCGACCAGATCTCCTCATTATGTAGGAGTTGTGTCAACCCAAATAACTAGCAGTCC
1 TGTCATCA-CCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCC
* * * * *
44604 TCATCGCGTAGGAACCGTGTTATCACATTCCCTAAAGATGG-CTAGAAC-TCTTCATCACGTATG
65 TCATCACGTAGGAACCGTGTTAT--CA--CCCT-TAGATGGCCT-G-CCGTCCTCATCACGTAGG
**
44667 AGTCG
123 AACCG
* * * * *** * *
44672 TGTCATTCCCCAATCAG-CCATCCTCATCGCGTAGGAACC-GTGTC-ACCCTTGATAACCAGTCG
1 TGTCA-TCACCGACCAGATC-TCCTCATTATGTAGG-ACCTGTGTCAACCC-AGATAACCAGCCG
* * * *
44734 TCCTCATCACGTAGGAACCGTGTTATCA-ACTATAGATGGCATGTCGTCCTCATCGCGTAGGAAC
62 TCCTCATCACGTAGGAACCGTGTTATCACCCT-TAGATGGCCTGCCGTCCTCATCACGTAGGAAC
44798 CG
126 CG
* * * * * *
44800 TGTCATCAACCGACCAGATCTCCTCATCACGTTGGAGCTGTGTC-ACCTCAGATAACCAACCTTC
1 TGTCATC-ACCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACC-CAGATAACCAGCCGTC
* *
44864 CTCATCGCGTAGGAACCGAGTTATCACCCTT
64 CTCATCACGTAGGAACCGTGTTATCACCCTT
44895 CCTAAAGATG
Statistics
Matches: 937, Mismatches: 152, Indels: 70
0.81 0.13 0.06
Matches are distributed among these distances:
127 117 0.12
128 603 0.64
129 113 0.12
130 5 0.01
131 2 0.00
132 10 0.01
133 83 0.09
134 4 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (127 bp):
TGTCATCACCGACCAGATCTCCTCATTATGTAGGACCTGTGTCAACCCAGATAACCAGCCGTCCT
CATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCG
Found at i:44402 original size:46 final size:43
Alignment explanation
Indices: 44220--44549 Score: 180
Period size: 46 Copynumber: 7.7 Consensus size: 43
44210 TCAACCATCT
* * * *
44220 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCGTCC
1 TCATCACGTAGGAACTGTGTCATCACCC--AGAT-GCCAGCCGTCC
* * * *
44266 TCATCACATAGGAACCGTGTCATCACCC-GA--CCAGATC-TTC
1 TCATCACGTAGGAACTGTGTCATCACCCAGATGCCAG-CCGTCC
* ** * * * **
44306 TCATTATATAAGAGCTGTGTCA--ACCCAGATAACCAGCTATCC
1 TCATCACGTAGGAACTGTGTCATCACCCAGAT-GCCAGCCGTCC
* * *
44348 TAATCACGTAGGAACTGTGTTATCACCCTTAGATGGCATGCCGTCC
1 TCATCACGTAGGAACTGTGTCATCACCC--AGATGCCA-GCCGTCC
* *
44394 TCATCACGTAGGAACCGTGTCATCACCC-GA--CCAGATC-TCC
1 TCATCACGTAGGAACTGTGTCATCACCCAGATGCCAG-CCGTCC
* * * * * * *
44434 TCATTATGTATGAGCTATGTCA--ACCCAGATAACCAGCCATCC
1 TCATCACGTAGGAACTGTGTCATCACCCAGAT-GCCAGCCGTCC
* * *
44476 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCATGCCGTCC
1 TCATCACGTAGGAACTGTGTCATCACCC--AGATGCCA-GCCGTCC
44522 TCATCACGTAGGAACTGTGTCATCACCC
1 TCATCACGTAGGAACTGTGTCATCACCC
44550 GACCAGATCT
Statistics
Matches: 215, Mismatches: 47, Indels: 44
0.70 0.15 0.14
Matches are distributed among these distances:
38 8 0.04
39 4 0.02
40 42 0.20
41 6 0.03
42 43 0.20
43 4 0.02
44 8 0.04
45 4 0.02
46 96 0.45
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (43 bp):
TCATCACGTAGGAACTGTGTCATCACCCAGATGCCAGCCGTCC
Found at i:44482 original size:256 final size:256
Alignment explanation
Indices: 43643--44970 Score: 1455
Period size: 256 Copynumber: 5.1 Consensus size: 256
43633 CACAACAATT
* ** * *
43643 TGTCATCCACCGACCA-ATCGTCCTCATCGTGTAGGAACCGTGTCACCCCAGATAACCAGCCGTC
1 TGTCATCAACCGACCAGATC-TCCTCATTATGTAGGAGCCGTGTCAACCCAGATAACCAGCCGTC
* * *
43707 CTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTACCGTCCTCATCGCGTAGGAACTGT
65 CTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGT
** * ** * **
43772 GTCATCACCTAACCATAT-TTCCTCATTATGTAGGAAATGTGTTAACCCTAGATAACCAGCCGTC
130 GTCATCACCCGACCAGATCTT-CTCATTATGTAGGAGCTGTGTCAACCC-AGATAACCAGCTATC
*
43836 CTCATCACGTAGGAACCATGTTATCA-CCTTAAGATGGCCAGAACTCTTCATCACGTATGAGCCG
193 CTCATCACGTAGGAACCGTGTTATCACCCTT-AGATGGCCAGAACTCTTCATCACGTATGAGCCG
* * * * * **
43900 GGTCATCAACTGACCATATCTCCTCATTATGTAGGA-CCTGTGTCAACCCAGGTAACTAGTTGTC
1 TGTCATCAACCGACCAGATCTCCTCATTATGTAGGAGCC-GTGTCAACCCAGATAACCAGCCGTC
*
43964 CTCATCACGTAGGAACCGTGTTATTACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGT
65 CTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGT
* * * * * * * *
44029 TTCATAATCCAACCAGAT-TTCCTCATTATGTAGGATCTGTGTCAATCCATATAACCAG-TCTCC
130 GTCATCACCCGACCAGATCTT-CTCATTATGTAGGAGCTGTGTCAACCCAGATAACCAGCTATCC
* *
44092 TCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCG
194 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCAGAACTCTTCATCACGTATGAGCCG
* * * * *
44155 TGTCATCAACTGACCAGATCTCCTCATTATGTAGGAGCCGTGTCAACCCAGATAATCAACCATCT
1 TGTCATCAACCGACCAGATCTCCTCATTATGTAGGAGCCGTGTCAACCCAGATAACCAGCCGTCC
* *
44220 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCGTCCTCATCACATAGGAACCGTG
66 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGTG
* * *
44285 TCATCACCCGACCAGATCTTCTCATTATATAAGAGCTGTGTCAACCCAGATAACCAGCTATCCTA
131 TCATCACCCGACCAGATCTTCTCATTATGTAGGAGCTGTGTCAACCCAGATAACCAGCTATCCTC
* * * * *
44350 ATCACGTAGGAACTGTGTTATCACCCTTAGATGG-CATG-CCGTCCTCATCACGTAGGAACCG
196 ATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCA-GAAC-TCTTCATCACGTATGAGCCG
* * ** *
44411 TGTCATCACCCGACCAGATCTCCTCATTATGTATGAGCTATGTCAACCCAGATAACCAGCCATCC
1 TGTCATCAACCGACCAGATCTCCTCATTATGTAGGAGCCGTGTCAACCCAGATAACCAGCCGTCC
* *
44476 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCATGCCGTCCTCATCACGTAGGAACTGTG
66 TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGTG
* * * *
44541 TCATCACCCGACCAGATCTCCTCATTATGTAGGAGTTGTGTCAACCCAAATAACTAGC-AGTCCT
131 TCATCACCCGACCAGATCTTCTCATTATGTAGGAGCTGTGTCAACCCAGATAACCAGCTA-TCCT
* * * *
44605 CATCGCGTAGGAACCGTGTTATCACATTCCCTAAAGATGGCTAGAACTCTTCATCACGTATGAGT
195 CATCACGTAGGAACCGTGTTAT--CA--CCCT-TAGATGGCCAGAACTCTTCATCACGTATGAGC
44670 CG
255 CG
* * * * *** * * *
44672 TGTCATTC-CCCAATCAG-CCATCCTCATCGCGTAGGAACCGTGTC-ACCCTTGATAACCAGTCG
1 TGTCA-TCAACCGACCAGATC-TCCTCATTATGTAGGAGCCGTGTCAACCC-AGATAACCAGCCG
* * * *
44734 TCCTCATCACGTAGGAACCGTGTTATCA-ACTATAGATGGCATGTCGTCCTCATCGCGTAGGAAC
63 TCCTCATCACGTAGGAACCGTGTTATCACCCT-TAGATGGCCTGCCGTCCTCATCACGTAGGAAC
* * * * * *
44798 CGTGTCATCAACCGACCAGATCTCCTCATCACGTTGGAGCTGTGTC-ACCTCAGATAACCAACCT
127 CGTGTCATCACCCGACCAGATCTTCTCATTATGTAGGAGCTGTGTCAACC-CAGATAACC-AGCT
* * * *
44862 -TCCTCATCGCGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATTACAT
190 ATCCTCATCACGTAGGAACCGTGTTATCACCC-T--T--AGATGGCC-AGAACTCTTCATCACGT
*
44926 ATGAGCAG
249 ATGAGCCG
* * * *
44934 TGTTATC-CCCTGACCAGATCTCCTCATCACGTAGGAG
1 TGTCATCAACC-GACCAGATCTCCTCATTATGTAGGAG
44971 TTGTGTAAAC
Statistics
Matches: 916, Mismatches: 125, Indels: 55
0.84 0.11 0.05
Matches are distributed among these distances:
255 224 0.24
256 265 0.29
257 150 0.16
258 6 0.01
259 2 0.00
260 14 0.02
261 204 0.22
262 50 0.05
263 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (256 bp):
TGTCATCAACCGACCAGATCTCCTCATTATGTAGGAGCCGTGTCAACCCAGATAACCAGCCGTCC
TCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCTGCCGTCCTCATCACGTAGGAACCGTG
TCATCACCCGACCAGATCTTCTCATTATGTAGGAGCTGTGTCAACCCAGATAACCAGCTATCCTC
ATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCAGAACTCTTCATCACGTATGAGCCG
Found at i:44740 original size:42 final size:46
Alignment explanation
Indices: 44692--44809 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 46
44682 CAATCAGCCA
*
44692 TCCTCATCGCGTAGGAACCGTGTCA-C-CCT-T-GATAACCA-GTCG
1 TCCTCATCGCGTAGGAACCGTGTCATCAACTATAGAT-ACCATGTCG
* * **
44734 TCCTCATCACGTAGGAACCGTGTTATCAACTATAGATGGCATGTCG
1 TCCTCATCGCGTAGGAACCGTGTCATCAACTATAGATACCATGTCG
44780 TCCTCATCGCGTAGGAACCGTGTCATCAAC
1 TCCTCATCGCGTAGGAACCGTGTCATCAAC
44810 CGACCAGATC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 23 0.36
43 1 0.02
44 2 0.03
45 3 0.05
46 35 0.55
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (46 bp):
TCCTCATCGCGTAGGAACCGTGTCATCAACTATAGATACCATGTCG
Found at i:45189 original size:3 final size:3
Alignment explanation
Indices: 45175--45229 Score: 83
Period size: 3 Copynumber: 17.7 Consensus size: 3
45165 TTTTAAAAAA
*
45175 TAT TAT TAAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
45222 TAT TAT TA
1 TAT TAT TA
45230 CCTAACCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45816 original size:29 final size:29
Alignment explanation
Indices: 45784--45897 Score: 97
Period size: 30 Copynumber: 3.9 Consensus size: 29
45774 GTTATTTTAT
*
45784 TTTAGTCACTTAAGTTTCTGTTTTTGCTA
1 TTTAGTCACTTAAGTTTCTGTTTTTACTA
* *
45813 TTTATGTC-CATTAAATTTCTGTTTTAACTA
1 TTTA-GTCAC-TTAAGTTTCTGTTTTTACTA
** * * * *
45843 TTTTAGTCTTTTATGTTTATGTTCTTACCA
1 -TTTAGTCACTTAAGTTTCTGTTTTTACTA
45873 TTTAGTCACTTAAG-TTCATGTTTTT
1 TTTAGTCACTTAAGTTTC-TGTTTTT
45898 TTTCTCTTTA
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
28 2 0.03
29 22 0.34
30 37 0.57
31 4 0.06
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (29 bp):
TTTAGTCACTTAAGTTTCTGTTTTTACTA
Found at i:49975 original size:26 final size:28
Alignment explanation
Indices: 49896--49986 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
49886 AAATTAAAAA
* * *
49896 TTCAT-ATATTTAATTTATAATTCTTTCTT
1 TTCATAATATTT-ATATATAATT-ATTATT
* *
49925 TTCAAAATTTTTATATATAATTATTATT
1 TTCATAATATTTATATATAATTATTATT
*
49953 TTCATAATATTTATATGT-A-TATTATT
1 TTCATAATATTTATATATAATTATTATT
*
49979 TTAATAAT
1 TTCATAAT
49987 GTTTCATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
26 14 0.27
27 1 0.02
28 19 0.37
29 13 0.25
30 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (28 bp):
TTCATAATATTTATATATAATTATTATT
Found at i:53275 original size:15 final size:15
Alignment explanation
Indices: 53255--53286 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53245 GATCAATACC
53255 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
53270 TTTTGCATACATTCA
1 TTTTGCATACATGCA
53285 TT
1 TT
53287 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:57083 original size:9 final size:9
Alignment explanation
Indices: 57069--57100 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
57059 AAATGGAAAT
57069 CATTCTTTA
1 CATTCTTTA
57078 CATTCTTTA
1 CATTCTTTA
*
57087 CATTTTTTA
1 CATTCTTTA
57096 CATTC
1 CATTC
57101 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
CATTCTTTA
Found at i:59894 original size:3 final size:3
Alignment explanation
Indices: 59888--59949 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
59878 ATTTTTGTTT
** * *
59888 TTA TTA TTA TTA TTA AAA CTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
59934 -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
59950 TACAAACAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:59914 original size:21 final size:19
Alignment explanation
Indices: 59888--59949 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 19
59878 ATTTTTGTTT
59888 TTATTATTATTATTAAAACTA
1 TTATTATTATTATT-AAA-TA
59909 TTATTATTATTATTAAATA
1 TTATTATTATTATTAAATA
*
59928 TTATTA-TATTA-TAATTA
1 TTATTATTATTATTAAATA
59945 TTATT
1 TTATT
59950 TACAAACAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 10 0.25
18 5 0.12
19 8 0.20
20 3 0.08
21 14 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTATTATTATTAAATA
Found at i:59920 original size:24 final size:24
Alignment explanation
Indices: 59888--59947 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
59878 ATTTTTGTTT
59888 TTATTATTATTATTAAAACTATTA
1 TTATTATTATTATTAAAACTATTA
* *
59912 TTATTATTATTA--AATATTATTA
1 TTATTATTATTATTAAAACTATTA
*
59934 -TATTATAATTATTA
1 TTATTATTATTATTA
59948 TTTACAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.32
22 8 0.26
23 1 0.03
24 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTATTATTATTAAAACTATTA
Found at i:61251 original size:15 final size:15
Alignment explanation
Indices: 61231--61280 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
61221 ATCCATTAGT
61231 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
61246 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
61260 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
61276 TTTTA
1 TTTTA
61281 TTTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 1 0.04
17 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:61365 original size:14 final size:15
Alignment explanation
Indices: 61348--61380 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61338 TATTATTAAG
61348 TTATATAA-ATATAT
1 TTATATAATATATAT
*
61362 TTATATAATATTTAT
1 TTATATAATATATAT
61377 TTAT
1 TTAT
61381 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:64285 original size:14 final size:14
Alignment explanation
Indices: 64249--64287 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
64239 TTCATATATG
64249 CATTTT-CATTTTA
1 CATTTTGCATTTTA
*
64262 CATCTTTGCATTTTT
1 CAT-TTTGCATTTTA
64277 CATTTTGCATT
1 CATTTTGCATT
64288 CATACTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (14 bp):
CATTTTGCATTTTA
Found at i:67148 original size:29 final size:25
Alignment explanation
Indices: 67094--67147 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 25
67084 TCTTATACTC
*
67094 ATCCAACAAAGAAAAAAAAAGAAAA
1 ATCCAACAAAGAAAAAAAAAAAAAA
67119 ATCCAACAAAGAAAGAAGAAACAAAAAA
1 ATCCAACAAAGAAA-AA-AAA-AAAAAA
67147 A
1 A
67148 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 14 0.56
26 2 0.08
27 3 0.12
28 6 0.24
ACGTcount: A:0.74, C:0.13, G:0.09, T:0.04
Consensus pattern (25 bp):
ATCCAACAAAGAAAAAAAAAAAAAA
Found at i:69488 original size:114 final size:114
Alignment explanation
Indices: 69288--69737 Score: 783
Period size: 114 Copynumber: 3.9 Consensus size: 114
69278 CACGTTCTCG
* * * *
69288 TAGTAAAAATAACGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
*
69353 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
69402 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
69467 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
*
69516 TAGTAGAAATAAGGAGATCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
69581 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
* * *
69630 TAGTATAAATAAGGAGATCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGATTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* * * *
69695 GGTATAAACCCTAAAACCAATCATTGTAATTAAAAGATGAATT
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATT
69738 GCATGATCGT
Statistics
Matches: 322, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 322 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
Found at i:71988 original size:54 final size:54
Alignment explanation
Indices: 71930--72059 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
71920 AAGGCACAGA
*
71930 AAAGGATGAATGTGTTTTCAAACGCTTTACGAACGTCTGAGCAGAAACCACAAG
1 AAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTGAGCAGAAACCACAAG
* * *
71984 AAAGGCTGAATGTGTTGTCAAATGTTTTACGAACGTCTGAGCAGAAACCACAAG
1 AAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTGAGCAGAAACCACAAG
* *
72038 AAAGGATGAATGCGCTGTCAAA
1 AAAGGATGAATGTGTTGTCAAA
72060 ATGTTTTACG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTGAGCAGAAACCACAAG
Found at i:72468 original size:22 final size:22
Alignment explanation
Indices: 72439--72493 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
72429 ATCTACACTC
*
72439 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
72461 TTTAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
72483 TTCAAAGATGA
1 TTCAAAGATGA
72494 AAGCTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:73310 original size:164 final size:166
Alignment explanation
Indices: 73008--73332 Score: 494
Period size: 166 Copynumber: 2.0 Consensus size: 166
72998 AAAATGAGCA
*
73008 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAAACAGAATGAGAAAAC
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAAAACAGAATGAGAAAAC
* ** * *
73073 GATTTTCATAGTTTCTCATTTTATTTTTTCTAAAATGAAATTGTTGAAATGTAAGAAAATGATTT
65 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
* *
73138 TCTTAG-TTTTTACTTAGTAAACTATTTCCAACAGCC
130 CCTTAGTTTTTTACTTAATAAACTATTTCCAACAGCC
* ** *
73174 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAACG
73237 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
73302 CCTTAGTTTTTTTACTTAATAAACTATTTCC
130 CCTTAG-TTTTTTACTTAATAAACTATTTCC
73333 CACATCTGTA
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
163 39 0.27
164 42 0.29
166 63 0.44
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (166 bp):
TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAATGATTTC
CTTAGTTTTTTACTTAATAAACTATTTCCAACAGCC
Found at i:73434 original size:76 final size:76
Alignment explanation
Indices: 73335--74392 Score: 1938
Period size: 76 Copynumber: 13.9 Consensus size: 76
73325 CTATTTCCCA
73335 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
73400 AACCTTAGGGT
66 AGCCTTAGGGT
73411 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
73476 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
73487 CATCT-TCAAGTCCTGCGGTGCATGATGTTTCCAAAAATCGTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGT-AAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
73551 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* *
73563 CATCTGTAAGTTCTGCAGTGCATTATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
73628 AACCTTAGGGT
66 AGCCTTAGGGT
*
73639 CATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
73704 AACCTTAGTGT
66 AGCCTTAGGGT
*
73715 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
73780 AGCCTTAGGGT
66 AGCCTTAGGGT
73791 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
73856 AAGCCTTAGGGT
65 AAGCCTTAGGGT
73868 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
73933 AGCCTTAGGGT
66 AGCCTTAGGGT
*
73944 CATATGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74009 AGCCTTAGGGT
66 AGCCTTAGGGT
74020 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74085 AGCCTTAGGGT
66 AGCCTTAGGGT
*
74096 CATCTTTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74161 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
74172 CATCTGTAAGTCCTGCAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74237 AGCCTTAGGGT
66 AGCCTTAGGGT
*
74248 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74313 AGCCTTAGGGT
66 AGCCTTAGGGT
*
74324 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74389 AGCC
66 AGCC
74393 CTTCAGTGCA
Statistics
Matches: 951, Mismatches: 28, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
75 1 0.00
76 873 0.92
77 77 0.08
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:73738 original size:228 final size:228
Alignment explanation
Indices: 73335--74562 Score: 2100
Period size: 228 Copynumber: 5.5 Consensus size: 228
73325 CTATTTCCCA
73335 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
73400 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
73465 GATGTTTTCAAAGCCTTAGGGTCATCT-TCAAGTCCTGCGGTGCATGATGTTTCCAAAAATCGTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGT-AAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
73529 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
73563 CATCTGTAAGTTCTGCAGTGCATTATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
73628 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
73693 GATGTTTTCAAAACCTTAGTGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
*
73758 GGGAGATTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
73791 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
73856 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
73921 TGATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
73986 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
74020 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
74085 AGCCTTAGGGTCATCTTTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
74150 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAATGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
*
74215 GGGAGCTTTTTGATATTTTCAAAGCCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
74248 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74313 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
74378 GATGTTTT-AAA-----A--G----C-------CCTTCAGTGCATGATGTTTACAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
* *
74424 AGGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
74457 CATCTGTAAGTCCTGCTGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74522 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
74563 TTAAGACCTC
Statistics
Matches: 966, Mismatches: 32, Indels: 23
0.95 0.03 0.02
Matches are distributed among these distances:
209 162 0.17
216 1 0.00
220 1 0.00
222 1 0.00
227 3 0.00
228 575 0.60
229 223 0.23
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:74384 original size:31 final size:29
Alignment explanation
Indices: 74346--74447 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 29
74336 CTGCAGTGCA
74346 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTT-CAAAAAGCCTTC-GGAGCTTTT
* ***
74377 TGATGTTT-TAAAAGCCCTTC--AG-TGCA
1 TGATGTTTCAAAAAG-CCTTCGGAGCTTTT
74403 TGATGTTTACAAAAAGCCTTCAGGAGCTTTT
1 TGATGTTT-CAAAAAGCCTTC-GGAGCTTTT
74434 TGATGTTTTCAAAA
1 TGATG-TTTCAAAA
74448 CCTTAGGGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
26 9 0.16
27 7 0.13
28 5 0.09
29 5 0.09
30 7 0.13
31 19 0.35
32 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (29 bp):
TGATGTTTCAAAAAGCCTTCGGAGCTTTT
Found at i:74429 original size:57 final size:58
Alignment explanation
Indices: 74339--74447 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 58
74329 GTAAGTCCTG
* *
74339 CAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AAAAGCCCTT
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAAGCCCTT
74396 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAA
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAA
74448 CCTTAGGGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
57 45 0.92
58 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (58 bp):
CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAAGCCCTT
Found at i:74501 original size:133 final size:133
Alignment explanation
Indices: 74263--74525 Score: 472
Period size: 133 Copynumber: 2.0 Consensus size: 133
74253 GTAAGTCCTG
* * *
74263 CAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTAGGGTCATC
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTAGGGTCATC
74328 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAAGCC
66 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAAGCC
74393 CTT
131 CTT
*
74396 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATC
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTAGGGTCATC
* *
74461 TGTAAGTCCTGCTGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCC
66 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAAGCC
74526 TTAGGGTCAT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (133 bp):
CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTAGGGTCATC
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAAGCC
CTT
Found at i:74528 original size:76 final size:76
Alignment explanation
Indices: 74396--74562 Score: 289
Period size: 76 Copynumber: 2.2 Consensus size: 76
74386 AAAAGCCCTT
74396 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATC
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATC
74461 TGTAAGTCCTG
66 TGTAAGTCCTG
* * * * *
74472 CTGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTAGGGTCATC
1 CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATC
74537 TGTAAGTCCTG
66 TGTAAGTCCTG
74548 CAGTGCATGATGTTT
1 CAGTGCATGATGTTT
74563 TTAAGACCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (76 bp):
CAGTGCATGATGTTTACAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATC
TGTAAGTCCTG
Found at i:74732 original size:3 final size:3
Alignment explanation
Indices: 74726--74778 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
74716 TTTGTTTTTT
** * *
74726 TTA TTA TTA AAA TTA TTA TTA TTA TTAA ATA TTA TTA -TA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
74771 TTA TTA TT
1 TTA TTA TT
74779 TACAAACAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:74821 original size:26 final size:26
Alignment explanation
Indices: 74785--74838 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
74775 TATTTACAAA
* *
74785 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
74811 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
74837 CA
1 CA
74839 TACTAACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.31, G:0.17, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:76081 original size:15 final size:15
Alignment explanation
Indices: 76061--76110 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
76051 ATCCATTAGT
76061 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
76076 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
76090 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
76106 TTTTA
1 TTTTA
76111 TTTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 1 0.04
17 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:76195 original size:14 final size:15
Alignment explanation
Indices: 76178--76210 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76168 TATTATTAAG
76178 TTATATAA-ATATAT
1 TTATATAATATATAT
*
76192 TTATATAATATTTAT
1 TTATATAATATATAT
76207 TTAT
1 TTAT
76211 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:77612 original size:11 final size:11
Alignment explanation
Indices: 77576--77622 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
77566 TGCTTGAAGA
77576 AAAAAAGAAA-
1 AAAAAAGAAAG
* *
77586 ACAAATG-AAG
1 AAAAAAGAAAG
77596 -AAAAAGAAAG
1 AAAAAAGAAAG
77606 AAAAAAGAAAG
1 AAAAAAGAAAG
77617 AAAAAA
1 AAAAAA
77623 ATGTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 6 0.20
10 8 0.27
11 16 0.53
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:77643 original size:11 final size:11
Alignment explanation
Indices: 77596--77652 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
77586 ACAAATGAAG
*
77596 AAAAAGAAAGA
1 AAAAAGAAAAA
77607 AAAAAGAAAGAA
1 AAAAAGAAA-AA
**
77619 AAAAATGTTTAAA
1 AAAAA-G-AAAAA
77632 AAAAAGAAAAA
1 AAAAAGAAAAA
*
77643 AAATAGAAAA
1 AAAAAGAAAA
77653 TGAGGGTCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 21 0.57
12 7 0.19
13 8 0.22
14 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:79964 original size:138 final size:139
Alignment explanation
Indices: 79642--79983 Score: 424
Period size: 139 Copynumber: 2.5 Consensus size: 139
79632 ATTTCCAGGT
* * * *
79642 GAAGTTCATAATGAGAAGGACTCATCTGAAGAGGAAGAAAAAATTCATAATGAGAAGAACTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * * *
79707 CAACCTTGCATTGATTCATCTCCTATGGAATTGAATGAAAGAAGAACCTCATTTGAGGATCAATA
66 CAACCTTACATTAATTCATCTCATATGGAATTGAATCAAAGAAGAACCTCATTTGAAGATCAACA
79772 TTTTCAAAG
131 TTTTCAAAG
* *
79781 GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAAAAGAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * ** *
79846 CAACCTTACCTTAATTCATCAT-ATATGGAGTTGAATCAACA-AA-TCCCTCTTTTGAAGATCAA
66 CAACCTTACATTAATTCATC-TCATATGGAATTGAATCAA-AGAAGAACCTCATTTGAAGATCAA
79908 CA-TTTCTAGAAG
129 CATTTTC-A-AAG
* * * *
79920 G-AGTTCATAATGAGAAGAACTCATCTAAAAAAGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
79984 TAACTTTTTG
Statistics
Matches: 176, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
137 4 0.02
138 74 0.42
139 96 0.55
140 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (139 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTACATTAATTCATCTCATATGGAATTGAATCAAAGAAGAACCTCATTTGAAGATCAACA
TTTTCAAAG
Found at i:80030 original size:138 final size:137
Alignment explanation
Indices: 79753--80021 Score: 301
Period size: 138 Copynumber: 1.9 Consensus size: 137
79743 GAAAGAAGAA
* * * * *
79753 CCTCATTTGAGGATCAATATTTTCAAAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
1 CCTCATTTGAAGATCAACATTTTCAAAGGAAGTTCATAATGAGAAGAACTCATCTAAAAAAGAAG
* * * * *
79818 AAGAAGTTCATAATAAAAAGAATTTGTTCAACCTTACCTTAATTCATCATATATGGAGTTGAATC
66 AAGAAGTTCATAATAAAAAGAATTTGTTCAACCTTACCTTAATTCATCATAGAAGAAGATAAATC
79883 AACAAATC
131 AAC-AATC
*
79891 CCTCTTTTGAAGATCAACA-TTTCTAGAAGG-AGTTCATAATGAGAAGAACTCATCTAAAAAAGA
1 CCTCATTTGAAGATCAACATTTTC-A-AAGGAAGTTCATAATGAGAAGAACTCATCTAAAAAAGA
* * * * * **
79954 AGAAGAAGTTCATAATGAGAATAATTTGTTTAACTTTTTGC-TAGATTACATCATAGAAGAAGAT
64 AGAAGAAGTTCATAATAAAAAGAATTTGTTCAAC-CTTACCTTA-ATT-CATCATAGAAGAAGAT
80018 AAAT
126 AAAT
80022 TGTCATCCCC
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
137 4 0.04
138 79 0.73
139 10 0.09
140 15 0.14
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (137 bp):
CCTCATTTGAAGATCAACATTTTCAAAGGAAGTTCATAATGAGAAGAACTCATCTAAAAAAGAAG
AAGAAGTTCATAATAAAAAGAATTTGTTCAACCTTACCTTAATTCATCATAGAAGAAGATAAATC
AACAATC
Found at i:80282 original size:39 final size:39
Alignment explanation
Indices: 80238--80312 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
80228 CTCCATCCAG
*
80238 CAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCGAA
1 CAGCCCCTCCACGCATCAGTTCCAGCAGCTTCCAGCGAA
*
80277 CAGCCCCTCCACGCATCAGTTGCAGCAGCTTCCAGC
1 CAGCCCCTCCACGCATCAGTTCCAGCAGCTTCCAGC
80313 ACTGCCAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.21, C:0.44, G:0.17, T:0.17
Consensus pattern (39 bp):
CAGCCCCTCCACGCATCAGTTCCAGCAGCTTCCAGCGAA
Found at i:81552 original size:16 final size:16
Alignment explanation
Indices: 81509--81544 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
81499 TTTAATTTTA
81509 TATGTTTAATATTTATTT
1 TATGTTT-AT-TTTATTT
81527 TATGTTTATTTTATTT
1 TATGTTTATTTTATTT
81543 TA
1 TA
81545 CTTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TATGTTTATTTTATTT
Found at i:81904 original size:31 final size:28
Alignment explanation
Indices: 81866--81937 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 28
81856 CTGATATTTC
*
81866 TATATAAATAAATATGTTATTTATATAAAT
1 TATATAAATAAATATATT-TTTATA-AAAT
* *
81896 ATATATAAATTAATATATTTTTTTAAAAT
1 -TATATAAATAAATATATTTTTATAAAAT
*
81925 TATATTAATAAAT
1 TATATAAATAAAT
81938 TTGAAATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.31
29 4 0.11
30 5 0.14
31 16 0.44
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TATATAAATAAATATATTTTTATAAAAT
Found at i:85405 original size:180 final size:180
Alignment explanation
Indices: 85103--85463 Score: 722
Period size: 180 Copynumber: 2.0 Consensus size: 180
85093 AGAGAATCTT
85103 GTGCCTGTAGAGCTAACAGGTTCTGAAAGTTATCTGCAAATTCTCTGTATATCTCCACACAATTT
1 GTGCCTGTAGAGCTAACAGGTTCTGAAAGTTATCTGCAAATTCTCTGTATATCTCCACACAATTT
85168 CTGAAGCCAGTGCCGGTGATATTTTCTGGAAGCACAACCGGGTTCTGGTAGCCATGAAGAACAGG
66 CTGAAGCCAGTGCCGGTGATATTTTCTGGAAGCACAACCGGGTTCTGGTAGCCATGAAGAACAGG
85233 AAAGGCGGAGTCTTGATGATAACCCTGTATGCAGGGAAACATTGAATTTG
131 AAAGGCGGAGTCTTGATGATAACCCTGTATGCAGGGAAACATTGAATTTG
85283 GTGCCTGTAGAGCTAACAGGTTCTGAAAGTTATCTGCAAATTCTCTGTATATCTCCACACAATTT
1 GTGCCTGTAGAGCTAACAGGTTCTGAAAGTTATCTGCAAATTCTCTGTATATCTCCACACAATTT
85348 CTGAAGCCAGTGCCGGTGATATTTTCTGGAAGCACAACCGGGTTCTGGTAGCCATGAAGAACAGG
66 CTGAAGCCAGTGCCGGTGATATTTTCTGGAAGCACAACCGGGTTCTGGTAGCCATGAAGAACAGG
85413 AAAGGCGGAGTCTTGATGATAACCCTGTATGCAGGGAAACATTGAATTTG
131 AAAGGCGGAGTCTTGATGATAACCCTGTATGCAGGGAAACATTGAATTTG
85463 G
1 G
85464 CTGCATTTCA
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 181 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (180 bp):
GTGCCTGTAGAGCTAACAGGTTCTGAAAGTTATCTGCAAATTCTCTGTATATCTCCACACAATTT
CTGAAGCCAGTGCCGGTGATATTTTCTGGAAGCACAACCGGGTTCTGGTAGCCATGAAGAACAGG
AAAGGCGGAGTCTTGATGATAACCCTGTATGCAGGGAAACATTGAATTTG
Found at i:90278 original size:17 final size:17
Alignment explanation
Indices: 90258--90290 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
90248 TTCATCCATT
90258 TATTTTTATTATTATTA
1 TATTTTTATTATTATTA
90275 TATTTTTATTATTATT
1 TATTTTTATTATTATT
90291 GTTAAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTATTATTATTA
Found at i:91124 original size:3 final size:3
Alignment explanation
Indices: 91110--91195 Score: 88
Period size: 3 Copynumber: 29.0 Consensus size: 3
91100 TTTCATCCAT
* *
91110 TTA TTT TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
91155 TTA ATA -TA TTA TTA TTA TTGA -TA TTA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
91196 AATAAATAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
2 5 0.07
3 63 0.88
4 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:92689 original size:133 final size:137
Alignment explanation
Indices: 92543--92788 Score: 331
Period size: 137 Copynumber: 1.8 Consensus size: 137
92533 AAGAATCATA
* ** *
92543 TTTTAATATATATTTA-T-T-TTTCAATATTAA-AAAAGGGCAGTCTTAAAGCAACTGGATGTCC
1 TTTTAATATATATTTATTATATTTCAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAAAAGTCC
* * *
92604 ATTTTATGATATTTTTAAATAAATAAATATTTTATTTATATATATAAATATATTAATCTATTTTT
66 A-TTTATGAAATTTCTAAATAAATAAATATCTTATTTATATATATAAATATATTAATCTATTTTT
92669 AATAAATG
130 AATAAATG
* * * * *
92677 TTTTATTA-ATATTTATTTATATTTTAATATTAAGAGAAGAGCTGTCTTAAAGCACCTAAAAGTC
1 TTTTAATATATATTTA-TTATATTTCAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAAAAGTC
92741 CATTTATGAAATTTCTAAATAAATAAATATCTTATTTATATATATAAA
65 CATTTATGAAATTTCTAAATAAATAAATATCTTATTTATATATATAAA
92789 ATTAATAGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
133 7 0.07
134 7 0.07
135 1 0.01
136 1 0.01
137 54 0.57
138 25 0.26
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (137 bp):
TTTTAATATATATTTATTATATTTCAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAAAAGTCC
ATTTATGAAATTTCTAAATAAATAAATATCTTATTTATATATATAAATATATTAATCTATTTTTA
ATAAATG
Found at i:93322 original size:28 final size:26
Alignment explanation
Indices: 93291--93348 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
93281 TAATTCTTTC
*
93291 TTTTCAAAATTTTTATATATACTTATT
1 TTTTCAAAATATTTATATATA-TTATT
*
93318 ATTTTCATAATATTTATATATATTATT
1 -TTTTCAAAATATTTATATATATTATT
93345 TTTT
1 TTTT
93349 AATGTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTCAAAATATTTATATATATTATT
Found at i:100466 original size:9 final size:9
Alignment explanation
Indices: 100449--100479 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
100439 AAATGGCAAT
*
100449 CATTCTTTA
1 CATTTTTTA
100458 CATTTTTTA
1 CATTTTTTA
100467 CATTTTTTA
1 CATTTTTTA
100476 CATT
1 CATT
100480 CATTATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (9 bp):
CATTTTTTA
Found at i:106406 original size:54 final size:54
Alignment explanation
Indices: 106342--106523 Score: 292
Period size: 54 Copynumber: 3.4 Consensus size: 54
106332 GATGGATGTA
* *
106342 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAGTGATGAATATG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
* * * *
106396 TTGTCAAATGTTTTATGAACATCAAAATAGAATCCACAGGAAATGATGAATCTG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
*
106450 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATGTG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
*
106504 TTGTCAAGTGTTTTACGAAC
1 TTGTCAAATGTTTTACGAAC
106524 CAGTAATTAT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (54 bp):
TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
Found at i:106899 original size:21 final size:22
Alignment explanation
Indices: 106846--106907 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
106836 ACATCTACAG
106846 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
106868 TCTTCAAAGATGATAG-TT-TC
1 TCTTCAAAGATGATAGATTCTC
* *
106888 TCATTTAAAGATGAAAGATT
1 TC-TTCAAAGATGATAGATT
106908 TATTGGATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.11
21 14 0.39
22 18 0.50
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:107473 original size:121 final size:121
Alignment explanation
Indices: 107195--107750 Score: 588
Period size: 113 Copynumber: 4.7 Consensus size: 121
107185 CACTCAATGG
* *
107195 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * * *
107259 AATGATAAGAATTTGTTCAACCTTTCGCTCGAATTC-AT--C----A-TTCGAT--GC
66 AATGAGAAGAACTTGTTCAACCTTT-GTTTG-ATTCTATCACAAAAAGATAGATCAAC
* *
107307 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
107371 AATGAGAAGAGCTTGTTCAATCTTTGTTTGATTCTATCACAGAAGAAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACA-AA-AAGATAGATCAAC
** * *
107429 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGCACTCATCTGAAGAAGGAA-AAGAAATTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* ** *
107492 AATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTC-ATCAC---TCGATGGATC-A-
66 AATGAGAAGAACTTGTTC-AACC-TTTGTTTG-ATTCTATCACAAAAAGATAGATCAAC
* *
107545 AT----TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
107605 AATGAGAAGACCTTGTTCAACCTTTGTTTGATTATATCACATAAAGAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACA-AAA-AGATAGATCAAC
** * *
107663 ATCAACATTTCCAGA-AGTGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAACTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
107727 AATGAGAAGAACTTGTTCAACCTT
66 AATGAGAAGAACTTGTTCAACCTT
107751 GCCTTAATTC
Statistics
Matches: 368, Mismatches: 44, Indels: 54
0.79 0.09 0.12
Matches are distributed among these distances:
110 7 0.02
111 18 0.05
112 68 0.18
113 83 0.23
116 9 0.02
117 2 0.01
118 9 0.02
119 1 0.00
120 4 0.01
121 80 0.22
122 70 0.19
123 13 0.04
124 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (121 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACAAAAAGATAGATCAAC
Found at i:107604 original size:234 final size:234
Alignment explanation
Indices: 107195--107750 Score: 936
Period size: 234 Copynumber: 2.4 Consensus size: 234
107185 CACTCAATGG
*
107195 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* *
107260 ATGATAAGAATTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGCATCAACTTTTCCAGAGAA
66 ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
*
107325 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
131 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTCA
* *
107390 ATCTTTGTTTGATTCTATCACAG-AAGAAGATAGATCAAC
196 ACCTTTGTTTGATTATATCACAGAAAG-AGATAGATCAAC
*
107429 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGCACTCATCTGAAGAAGGAA-AAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* * * * *
107493 ATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACTCGATGGATCAATTTTTCCAGAGA
66 ATGAGAAGAATTTGTTC-AACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGA
107558 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTC
130 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTC
*
107623 AACCTTTGTTTGATTATATCACATAAAGAGATAGATCAAC
195 AACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAAC
* *
107663 ATCAACATTTCCAGAAGTGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAACTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
*
107728 ATGAGAAGAACTTGTTCAACCTT
66 ATGAGAAGAATTTGTTCAACCTT
107751 GCCTTAATTC
Statistics
Matches: 302, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
233 28 0.09
234 244 0.81
235 30 0.10
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (234 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTCA
ACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAAC
Found at i:108134 original size:3 final size:3
Alignment explanation
Indices: 108109--108185 Score: 70
Period size: 3 Copynumber: 26.0 Consensus size: 3
108099 TTTCATCCAT
* * *
108109 TTA TTT TTA TT- TTA TTA TATA TTA TT- TTA TTA ATA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* *
108153 TTA ATA TATA TTA GTA TTA TTA -TA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
108186 ATAAATAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
2 6 0.10
3 47 0.80
4 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:109455 original size:14 final size:15
Alignment explanation
Indices: 109433--109485 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
109423 TCCCTAAACA
*
109433 ATTTGATATTTTT-C
1 ATTTAATATTTTTGC
109447 ATTTAATATATTTTGC
1 ATTTAATAT-TTTTGC
*
109463 ATTTTAATATTATTGC
1 A-TTTAATATTTTTGC
*
109479 TTTTAAT
1 ATTTAAT
109486 TTCTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 8 0.24
15 10 0.30
16 7 0.21
17 8 0.24
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTTAATATTTTTGC
Found at i:109470 original size:17 final size:17
Alignment explanation
Indices: 109438--109485 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
109428 AAACAATTTG
*
109438 ATATTTTTCA-TTTAAT
1 ATATTTTGCATTTTAAT
109454 ATATTTTGCATTTTAAT
1 ATATTTTGCATTTTAAT
*
109471 AT-TATTGC-TTTTAAT
1 ATATTTTGCATTTTAAT
109486 TTCTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 14 0.48
17 8 0.28
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (17 bp):
ATATTTTGCATTTTAAT
Found at i:109503 original size:9 final size:9
Alignment explanation
Indices: 109499--109561 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 9
109489 TTTTATTTTA
109499 ATTATTATT
1 ATTATTATT
109508 ATTATTATTT
1 ATTATTA-TT
109518 ATTATTATT
1 ATTATTATT
*
109527 TTTGATATATGT
1 ATT-AT-TAT-T
*
109539 -TTA-AATT
1 ATTATTATT
109546 ATTATT-TT
1 ATTATTATT
109554 ATTATTAT
1 ATTATTAT
109562 CTTAAGTCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
7 1 0.02
8 13 0.30
9 12 0.27
10 12 0.27
11 5 0.11
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
ATTATTATT
Found at i:109507 original size:3 final size:3
Alignment explanation
Indices: 109499--109561 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
109489 TTTTATTTTA
* *
109499 ATT ATT ATT ATT ATT ATTT ATT ATT ATT TTT GATAT ATGT -TT A-A ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT
109546 ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
109562 CTTAAGTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.08
3 37 0.76
4 7 0.14
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:109521 original size:16 final size:15
Alignment explanation
Indices: 109463--109528 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
109453 TATATTTTGC
109463 ATTTTAA-TATTATT
1 ATTTTAATTATTATT
* *
109477 GCTTTTAATT-TCTTTT
1 -ATTTTAATTAT-TATT
109493 ATTTTAATTATTATT
1 ATTTTAATTATTATT
*
109508 ATTATTATTTATTATT
1 ATT-TTAATTATTATT
109524 ATTTT
1 ATTTT
109529 TGATATATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 23 0.55
16 19 0.45
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (15 bp):
ATTTTAATTATTATT
Found at i:109827 original size:135 final size:134
Alignment explanation
Indices: 109664--109912 Score: 353
Period size: 135 Copynumber: 1.9 Consensus size: 134
109654 TAATCATATT
*
109664 TTAATATATATTTATTTTTCAATATTAAGA-AAGGGCAGTCTTAAAGCAACT-GAATGTCCATTT
1 TTAATATATATTTATTTTTCAATATTAAGAGAAGAGCAGTCTTAAAGCAACTAGAA-GTCC-TTT
*
109727 TCTGATATTTTTAAATAAATAAATAT-TTATATATATATATAAATATATTAATCTATTTTAATAA
64 TCTGATATTTCTAAATAAATAAATATCTTATATATATATATAAA-A-ATTAATCTATTTTAATAA
109791 ATGTTTTA
127 ATGTTTTA
* * ** *
109799 TTAATATTTATTTATATTTT-AATATTAAGAGAATAGTTGTCTTAAAGCACCTAGAAGTCCTTTT
1 TTAATATATATTTAT-TTTTCAATATTAAGAGAAGAGCAGTCTTAAAGCAACTAGAAGTCCTTTT
*
109863 CTGATATTTCTAAATAAATAAATATCTTATTTATATATATAAAAATTAAT
65 CTGATATTTCTAAATAAATAAATATCTTATATATATATATAAAAATTAAT
109913 AGATTTTCTT
Statistics
Matches: 102, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
134 6 0.06
135 53 0.52
136 40 0.39
137 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (134 bp):
TTAATATATATTTATTTTTCAATATTAAGAGAAGAGCAGTCTTAAAGCAACTAGAAGTCCTTTTC
TGATATTTCTAAATAAATAAATATCTTATATATATATATAAAAATTAATCTATTTTAATAAATGT
TTTA
Found at i:113262 original size:54 final size:54
Alignment explanation
Indices: 113198--113379 Score: 292
Period size: 54 Copynumber: 3.4 Consensus size: 54
113188 GATGGATGTA
* *
113198 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAGTGATGAATATG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
* * * *
113252 TTGTCAAATGTTTTATGAACATCAAAATAGAATCCACAGGAAATGATGAATCTG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
*
113306 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATGTG
1 TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
*
113360 TTGTCAAGTGTTTTACGAAC
1 TTGTCAAATGTTTTACGAAC
113380 CAGTAATTAT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (54 bp):
TTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAGGAAATGATGAATATG
Found at i:113755 original size:21 final size:22
Alignment explanation
Indices: 113702--113763 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
113692 ACATCTACAG
113702 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
113724 TCTTCAAAGATGATAG-TT-TC
1 TCTTCAAAGATGATAGATTCTC
* *
113744 TCATTTAAAGATGAAAGATT
1 TC-TTCAAAGATGATAGATT
113764 TATTGGATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.11
21 14 0.39
22 18 0.50
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:114330 original size:121 final size:121
Alignment explanation
Indices: 114052--114607 Score: 588
Period size: 113 Copynumber: 4.7 Consensus size: 121
114042 CACTCAATGG
* *
114052 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * * *
114116 AATGATAAGAATTTGTTCAACCTTTCGCTCGAATTC-AT--C----A-TTCGAT--GC
66 AATGAGAAGAACTTGTTCAACCTTT-GTTTG-ATTCTATCACAAAAAGATAGATCAAC
* *
114164 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
114228 AATGAGAAGAGCTTGTTCAATCTTTGTTTGATTCTATCACAGAAGAAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACA-AA-AAGATAGATCAAC
** * *
114286 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGCACTCATCTGAAGAAGGAA-AAGAAATTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* ** *
114349 AATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTC-ATCAC---TCGATGGATC-A-
66 AATGAGAAGAACTTGTTC-AACC-TTTGTTTG-ATTCTATCACAAAAAGATAGATCAAC
* *
114402 AT----TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
114462 AATGAGAAGACCTTGTTCAACCTTTGTTTGATTATATCACATAAAGAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACA-AAA-AGATAGATCAAC
** * *
114520 ATCAACATTTCCAGA-AGTGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAACTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
114584 AATGAGAAGAACTTGTTCAACCTT
66 AATGAGAAGAACTTGTTCAACCTT
114608 GCCTTAATTC
Statistics
Matches: 368, Mismatches: 44, Indels: 54
0.79 0.09 0.12
Matches are distributed among these distances:
110 7 0.02
111 18 0.05
112 68 0.18
113 83 0.23
116 9 0.02
117 2 0.01
118 9 0.02
119 1 0.00
120 4 0.01
121 80 0.22
122 70 0.19
123 13 0.04
124 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (121 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGTTTGATTCTATCACAAAAAGATAGATCAAC
Found at i:114461 original size:234 final size:234
Alignment explanation
Indices: 114052--114607 Score: 936
Period size: 234 Copynumber: 2.4 Consensus size: 234
114042 CACTCAATGG
*
114052 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* *
114117 ATGATAAGAATTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGCATCAACTTTTCCAGAGAA
66 ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
*
114182 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
131 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTCA
* *
114247 ATCTTTGTTTGATTCTATCACAG-AAGAAGATAGATCAAC
196 ACCTTTGTTTGATTATATCACAGAAAG-AGATAGATCAAC
*
114286 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGCACTCATCTGAAGAAGGAA-AAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* * * * *
114350 ATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACTCGATGGATCAATTTTTCCAGAGA
66 ATGAGAAGAATTTGTTC-AACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGA
114415 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTC
130 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTC
*
114480 AACCTTTGTTTGATTATATCACATAAAGAGATAGATCAAC
195 AACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAAC
* *
114520 ATCAACATTTCCAGAAGTGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAACTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
*
114585 ATGAGAAGAACTTGTTCAACCTT
66 ATGAGAAGAATTTGTTCAACCTT
114608 GCCTTAATTC
Statistics
Matches: 302, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
233 28 0.09
234 244 0.81
235 30 0.10
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (234 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGACCTTGTTCA
ACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAAC
Found at i:114992 original size:3 final size:3
Alignment explanation
Indices: 114966--115048 Score: 76
Period size: 3 Copynumber: 27.0 Consensus size: 3
114956 TTTCATCCAT
* * * * *
114966 TTA TTT TTA TTT TTA TTA TATA TTA TTT TTA TTA ATA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
115012 TTA ATA TATA TTA GTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
115049 AATAAATAAT
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
3 56 0.90
4 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:115032 original size:34 final size:34
Alignment explanation
Indices: 114982--115049 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
114972 TTATTTTTAT
* *
114982 TATATATTATTTTTATTAATATTATTATCATTAA
1 TATATATTAGTATTATTAATATTATTATCATTAA
*
115016 TATATATTAGTATTATTAATATTATTATTATTAA
1 TATATATTAGTATTATTAATATTATTATCATTAA
115050 ATAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATATTAGTATTATTAATATTATTATCATTAA
Found at i:116314 original size:14 final size:14
Alignment explanation
Indices: 116291--116328 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
116281 TCCCTAAACA
116291 ATTT-ATATTTTTC
1 ATTTAATATTTTTC
116304 ATTTAATATTTTTC
1 ATTTAATATTTTTC
116318 ATTTTAATATT
1 A-TTTAATATT
116329 ATTGCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 10 0.43
15 9 0.39
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTAATATTTTTC
Found at i:116323 original size:15 final size:16
Alignment explanation
Indices: 116295--116362 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 16
116285 TAAACAATTT
116295 ATATT-TTTCA-TTTA
1 ATATTATTTCATTTTA
116309 ATATT-TTTCATTTTA
1 ATATTATTTCATTTTA
*
116324 ATATTATTGC-TTTTA
1 ATATTATTTCATTTTA
* *
116339 AT-TTCTTTTATTTTA
1 ATATTATTTCATTTTA
116354 ATTATTATT
1 A-TATTATT
116363 ATTATTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.32
15 22 0.50
16 4 0.09
17 4 0.09
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.66
Consensus pattern (16 bp):
ATATTATTTCATTTTA
Found at i:116339 original size:30 final size:31
Alignment explanation
Indices: 116305--116362 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
116295 ATATTTTTCA
116305 TTTAATATT-TTTCATTTTAA-TATTATTGCT
1 TTTAAT-TTCTTTCATTTTAATTATTATTGCT
*
116335 TTTAATTTCTTTTATTTTAATTATTATT
1 TTTAATTTCTTTCATTTTAATTATTATT
116363 ATTATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 2 0.08
30 16 0.64
31 7 0.28
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (31 bp):
TTTAATTTCTTTCATTTTAATTATTATTGCT
Found at i:116362 original size:3 final size:3
Alignment explanation
Indices: 116354--116417 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
116344 TTTTATTTTA
* *
116354 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT TTT GATAT ATGT -TT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT
116399 ATT ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
116418 CTTAAGTCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
2 6 0.12
3 39 0.78
4 4 0.08
5 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:116364 original size:15 final size:15
Alignment explanation
Indices: 116305--116384 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 15
116295 ATATTTTTCA
*
116305 TTTAA-TATTTTTCAT
1 TTTAATTATTATT-AT
*
116320 TTTAA-TATTATTGCT
1 TTTAATTATTATT-AT
*
116335 TTTAATT-TCTTTTAT
1 TTTAATTAT-TATTAT
116350 TTTAATTATTATTAT
1 TTTAATTATTATTAT
*
116365 TATTATTTTATTATTAT
1 T-TTA-ATTATTATTAT
116382 TTT
1 TTT
116385 TGATATATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
15 32 0.60
16 10 0.19
17 11 0.21
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTAATTATTATTAT
Found at i:116377 original size:11 final size:11
Alignment explanation
Indices: 116346--116417 Score: 69
Period size: 11 Copynumber: 6.4 Consensus size: 11
116336 TTAATTTCTT
116346 TTATTTTA--A
1 TTATTTTATTA
116355 TTATTATTATTA
1 TTATT-TTATTA
116367 TTATTTTATTA
1 TTATTTTATTA
*
116378 TTATTTT-TGA
1 TTATTTTATTA
116388 TATATGTTTAAATTA
1 T-TAT-TTT--ATTA
116403 TTATTTTATTA
1 TTATTTTATTA
116414 TTAT
1 TTAT
116418 CTTAAGTCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
9 5 0.09
10 6 0.11
11 24 0.45
12 9 0.17
13 3 0.06
14 3 0.06
15 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:123504 original size:113 final size:114
Alignment explanation
Indices: 123344--123875 Score: 639
Period size: 113 Copynumber: 4.6 Consensus size: 114
123334 TACCAGGAAG
*
123344 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
123409 AACCTTTTGCTTGAATTCATC-GTTCGATGGATTAACTTTTCCAGAGGA
66 AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
* * *
123457 AGCTCATAATGAGAAGAAATCATCTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
123522 AACCTTTTTCTCGAATTCATCACTT-GATGGATCAACATTGCCAG-GTGG
66 AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAG-GA
* * * * *
123570 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATATTGAGAAGCATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
123635 AACCTTTTGCTTGAATTCATCA-CTCGATGGATCAAATTTTCCAGAGGA
66 AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
* * * *
123683 AGTTCATAATGAGAAAAACTCATATGAAG-AGGAAGAAGAATTTCATAATGAGAATAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** *
123747 AACC-TTTGTTTG-ATTCTATCACAGAAGGAGACAGATCAGCATCAACTTTTTCCAGAGGA
66 AACCTTTTGCTTGAATTC-AT--C---A-G-TTC-GAT--GGATCAAC-TTTTCCAGAGGA
* *
123806 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTTATAATGAGAATAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
123870 AACCTT
66 AACCTT
123876 CGTTTGATTC
Statistics
Matches: 358, Mismatches: 43, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
110 4 0.01
111 9 0.03
112 36 0.10
113 218 0.61
114 3 0.01
116 1 0.00
119 1 0.00
120 3 0.01
122 6 0.02
123 76 0.21
124 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (114 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
Found at i:123813 original size:123 final size:122
Alignment explanation
Indices: 123665--123946 Score: 426
Period size: 123 Copynumber: 2.3 Consensus size: 122
123655 CACTCGATGG
*
123665 ATCAAATTTTCCAGAGGAAGTTCATAATGAGAAAAACTCATATGAAGAGGAAGAAGAA-TTTCAT
1 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAAAACTCATATGAAGAGGAAGAAGAAGTTT-AT
* *
123729 AATGAGAATAACTTGTTCAACCTTTGTTTGATTCTATCACAGAAGGAGACAGATCAGC
65 AATGAGAATAACTTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGACAGATCAGC
* *
123787 ATCAACTTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTTAT
1 ATCAAC-TTTTCCAGAGGAAGTTCATAATGAGAAAAACTCATATGAAGAGGAAGAAGAAGTTTAT
* *
123852 AATGAGAATAACTTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGATAGATTAGC
65 AATGAGAATAACTTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGACAGATCAGC
* * *
123910 ATCAACATTTCCAGAAG-TGTTCATAATGA-AAAGAACT
1 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAA-AACT
123947 TGTTCAACCT
Statistics
Matches: 146, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
120 2 0.01
121 15 0.10
122 14 0.10
123 112 0.77
124 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAAAACTCATATGAAGAGGAAGAAGAAGTTTATA
ATGAGAATAACTTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGACAGATCAGC
Found at i:127540 original size:22 final size:23
Alignment explanation
Indices: 127494--127556 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
127484 TCCCCTAGGA
*
127494 GGAATCAGTTCCCCTTCAAAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
127517 GGAATCGGTTCCCCTTC-AAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
* *
127539 GGTATCGATTCCCTCTTC
1 GGAATCGGTTCCC-CTTC
127557 CCTATAATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (23 bp):
GGAATCGGTTCCCCTTCAAAGGG
Found at i:133500 original size:11 final size:11
Alignment explanation
Indices: 133484--133508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
133474 AAATACTTTG
133484 TAAAATTGTTT
1 TAAAATTGTTT
133495 TAAAATTGTTT
1 TAAAATTGTTT
133506 TAA
1 TAA
133509 TATTAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
TAAAATTGTTT
Found at i:133899 original size:3 final size:3
Alignment explanation
Indices: 133893--133979 Score: 102
Period size: 3 Copynumber: 29.0 Consensus size: 3
133883 TTTTCATTTG
* * * * * * * *
133893 ATT ATT ATT ATT ATT ATC ATC ATC ATC ATC ATC ATC ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
133941 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
133980 TACAAACAGA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:135100 original size:23 final size:23
Alignment explanation
Indices: 135074--135117 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
135064 AACATGTTTT
* *
135074 AATTTATTTTAATTTGATTTTCA
1 AATTTAATATAATTTGATTTTCA
*
135097 AATTTAATATAATTTTATTTT
1 AATTTAATATAATTTGATTTT
135118 AGTCCCAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
AATTTAATATAATTTGATTTTCA
Found at i:135291 original size:21 final size:22
Alignment explanation
Indices: 135245--135297 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
135235 AATTACAAAT
*
135245 TTTATTATTG-TTTATATTTCA
1 TTTATTATAGTTTTATATTTCA
*
135266 -ATATTATAGTTTTA-ATTTCA
1 TTTATTATAGTTTTATATTTCA
*
135286 TTTATTTTAGTT
1 TTTATTATAGTT
135298 ATTGTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTATTATAGTTTTATATTTCA
Found at i:135349 original size:3 final size:3
Alignment explanation
Indices: 135341--135376 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
135331 AATATATTTA
135341 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
135377 TAGTCATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:136250 original size:19 final size:19
Alignment explanation
Indices: 136226--136265 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
136216 ATCATGTGAC
136226 ACCTATAACCTGCATTGAT
1 ACCTATAACCTGCATTGAT
136245 ACCTATAACCTGCATTGAT
1 ACCTATAACCTGCATTGAT
136264 AC
1 AC
136266 AAGTATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.30
Consensus pattern (19 bp):
ACCTATAACCTGCATTGAT
Found at i:136432 original size:4 final size:4
Alignment explanation
Indices: 136423--136559 Score: 229
Period size: 4 Copynumber: 34.2 Consensus size: 4
136413 TGGAGATGGG
*
136423 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
136471 ATGC ATGT ATGT ATGC ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
136519 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ACGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
136560 CGTGTGTACG
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 123 1.00
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:136567 original size:16 final size:16
Alignment explanation
Indices: 136500--136897 Score: 102
Period size: 16 Copynumber: 24.8 Consensus size: 16
136490 TATGCATGTA
* * *
136500 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136516 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136532 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
136548 TGTACGTATGTACGTG
1 TGTACGTATGTACGTG
*
136564 TGTACGTGTGTACGTG
1 TGTACGTATGTACGTG
*
136580 TGTACGTGTGTACGTG
1 TGTACGTATGTACGTG
* ** *
136596 CGTACGTGCGTGCGTG
1 TGTACGTATGTACGTG
* * **
136612 CGTGCGTGCGTACGTG
1 TGTACGTATGTACGTG
* * ** *
136628 CGTGCGTGCGTGCGTG
1 TGTACGTATGTACGTG
*
136644 CGTACGTACGTGCGTACGTG
1 TGTACGTA--T--GTACGTG
* * *
136664 CGTGCGTACGTACGTG
1 TGTACGTATGTACGTG
* ** *
136680 CGTACGTGCGTGCGTG
1 TGTACGTATGTACGTG
* **
136696 CGTACGTGCGTACGTG
1 TGTACGTATGTACGTG
* **
136712 CGTACGTGCGTACGTG
1 TGTACGTATGTACGTG
*
136728 TGTACGTACGTACGTACG
1 TGTACGTATGTACGT--G
* *
136746 TGT--GTGTGTATGTG
1 TGTACGTATGTACGTG
** * *
136760 TGTGTGTGTGTATGTG
1 TGTACGTATGTACGTG
* *
136776 TGTATGTGTGT--GTG
1 TGTACGTATGTACGTG
* ** * *
136790 TATGTGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136806 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136822 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136838 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136854 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
* * *
136870 TGTATGTATGTATGTA
1 TGTACGTATGTACGTG
*
136886 TGTATGTATGTA
1 TGTACGTATGTA
136898 TGCATGTATG
Statistics
Matches: 340, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
14 15 0.04
16 308 0.91
18 4 0.01
20 13 0.04
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (16 bp):
TGTACGTATGTACGTG
Found at i:136746 original size:8 final size:8
Alignment explanation
Indices: 136557--136742 Score: 227
Period size: 8 Copynumber: 23.8 Consensus size: 8
136547 ATGTACGTAT
*
136557 GTACGTGT
1 GTACGTGC
*
136565 GTACGTGT
1 GTACGTGC
*
136573 GTACGTGT
1 GTACGTGC
*
136581 GTACGTGT
1 GTACGTGC
136589 GTACGTGC
1 GTACGTGC
136597 GTACGTGC
1 GTACGTGC
*
136605 GTGCGTGC
1 GTACGTGC
*
136613 GTGCGTGC
1 GTACGTGC
136621 GTACGTGC
1 GTACGTGC
*
136629 GTGCGTGC
1 GTACGTGC
*
136637 GTGCGTGC
1 GTACGTGC
136645 GTA----C
1 GTACGTGC
136649 GTACGTGC
1 GTACGTGC
136657 GTACGTGC
1 GTACGTGC
* *
136665 GTGCGTAC
1 GTACGTGC
136673 GTACGTGC
1 GTACGTGC
136681 GTACGTGC
1 GTACGTGC
*
136689 GTGCGTGC
1 GTACGTGC
136697 GTACGTGC
1 GTACGTGC
136705 GTACGTGC
1 GTACGTGC
136713 GTACGTGC
1 GTACGTGC
*
136721 GTACGTGT
1 GTACGTGC
*
136729 GTACGTAC
1 GTACGTGC
136737 GTACGT
1 GTACGT
136743 ACGTGTGTGT
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
4 4 0.03
8 156 0.98
ACGTcount: A:0.11, C:0.22, G:0.39, T:0.28
Consensus pattern (8 bp):
GTACGTGC
Found at i:136752 original size:2 final size:2
Alignment explanation
Indices: 136745--136796 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
136735 ACGTACGTAC
* * *
136745 GT GT GT GT GT AT GT GT GT GT GT GT GT AT GT GT GT AT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
136787 GT GT AT GT GT
1 GT GT GT GT GT
136797 ATGTATGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.50
Consensus pattern (2 bp):
GT
Found at i:136761 original size:10 final size:10
Alignment explanation
Indices: 136745--136804 Score: 66
Period size: 10 Copynumber: 6.0 Consensus size: 10
136735 ACGTACGTAC
*
136745 GTGTGTGTGT
1 GTGTGTATGT
* *
136755 ATGTGTGTGT
1 GTGTGTATGT
136765 GTGTGTATGT
1 GTGTGTATGT
* *
136775 GTGTATGTGT
1 GTGTGTATGT
136785 GTGTGTATGT
1 GTGTGTATGT
*
136795 GTATGTATGT
1 GTGTGTATGT
136805 ATGTATGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (10 bp):
GTGTGTATGT
Found at i:136801 original size:4 final size:4
Alignment explanation
Indices: 136752--136907 Score: 235
Period size: 4 Copynumber: 39.5 Consensus size: 4
136742 TACGTGTGTG
* * * * * *
136752 TGTA TGTG TGTG TGTG TGTA TGTG TGTA TGTG TGTG TGTA TG-- TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
136798 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
136846 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
136894 TGTA TGCA TGTA TG
1 TGTA TGTA TGTA TG
136908 CATGCATGCA
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.01
4 140 0.99
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:140324 original size:35 final size:35
Alignment explanation
Indices: 140266--140436 Score: 204
Period size: 35 Copynumber: 4.9 Consensus size: 35
140256 TGAATAAGAA
*
140266 GAACGAAAGGAAGCATC-AGCACTTTGGATTCAAGT
1 GAACGAAAGGAAGCATCGA-CACTTTCGATTCAAGT
*
140301 GAAC-AGAAGGAAGTATCGACACTTTCGATTCAAGT
1 GAACGA-AAGGAAGCATCGACACTTTCGATTCAAGT
* * *
140336 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAGAA
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAG-T
*
140372 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
* **
140407 GAACGGAATAAAGCATCCG-CACTTTCGATT
1 GAACGAAAGGAAGCAT-CGACACTTTCGATT
140437 TAATTATTCA
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
34 1 0.01
35 82 0.68
36 37 0.31
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:140421 original size:71 final size:70
Alignment explanation
Indices: 140266--140436 Score: 218
Period size: 71 Copynumber: 2.4 Consensus size: 70
140256 TGAATAAGAA
* * * *
140266 GAACGAAAGGAAGCATCAGCACTTTGGATTCAAGTGAACAGAAGGAAGTATCGACACTTTCGATT
1 GAACGAAAGAAAGCATCAGCACTTTCGATTCAAGAGAACAGAAGGAAGCATCGACACTTTCGATT
140331 CAAGT
66 CAAGT
* * * *
140336 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAGAAGAAC-GAAAGGAAGCATCGGCACTTTCGA
1 GAACGAAAGAAAGCATCAGCACTTTCGATTCAAG-AGAACAG-AAGGAAGCATCGACACTTTCGA
140400 TTCAAGT
64 TTCAAGT
* * *
140407 GAACGGAATAAAGCATCCGCACTTTCGATT
1 GAACGAAAGAAAGCATCAGCACTTTCGATT
140437 TAATTATTCA
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 33 0.37
71 56 0.63
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (70 bp):
GAACGAAAGAAAGCATCAGCACTTTCGATTCAAGAGAACAGAAGGAAGCATCGACACTTTCGATT
CAAGT
Found at i:144599 original size:28 final size:28
Alignment explanation
Indices: 144558--144664 Score: 169
Period size: 28 Copynumber: 3.8 Consensus size: 28
144548 AGAGTCGAGG
144558 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
144586 ATTCTACGTGGTCCTTCGGGATATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
144614 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* * *
144642 GTTGTATGTGGTCCTTCAGGACA
1 GTTCTACGTGGTCCTTCGGGACA
144665 AATTATATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.36
Consensus pattern (28 bp):
GTTCTACGTGGTCCTTCGGGACATATGT
Found at i:155694 original size:21 final size:21
Alignment explanation
Indices: 155668--155760 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
155658 AAATCTTCTT
155668 AAGGACCACATATATATTCCA
1 AAGGACCACATATATATTCCA
155689 AAGGACCA-A-ATATATGTCTCA
1 AAGGACCACATATATAT-TC-CA
* * * *
155710 AAGAACCGCATATATGTTCCC
1 AAGGACCACATATATATTCCA
** * * *
155731 AAGGATTACATATATGTCCCG
1 AAGGACCACATATATATTCCA
155752 AAGGACCAC
1 AAGGACCAC
155761 GTAGAACCCT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
19 6 0.11
20 3 0.05
21 39 0.70
22 3 0.05
23 5 0.09
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.23
Consensus pattern (21 bp):
AAGGACCACATATATATTCCA
Found at i:157292 original size:30 final size:30
Alignment explanation
Indices: 157226--157293 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
157216 CAACCCTACC
* *
157226 TAAAATATTCTAATTAAGTCCCTAAACTTT
1 TAAAATTTTCTAATTAAGTCACTAAACTTT
* *
157256 T-TAATTTATCTAATTTAGTCACTAAA-TTT
1 TAAAATTT-TCTAATTAAGTCACTAAACTTT
157285 TAAAATTTT
1 TAAAATTTT
157294 ACAATTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATTTTCTAATTAAGTCACTAAACTTT
Found at i:168923 original size:2 final size:2
Alignment explanation
Indices: 168916--168995 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
168906 CCAACAGTAT
168916 TA TA 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 TA TA
168958 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
168996 ATGAAGCACC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:171377 original size:13 final size:14
Alignment explanation
Indices: 171348--171386 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
171338 TTTTGTTTTC
*
171348 CTTTTTTTTCGTGT
1 CTTTTTTTTCGTCT
171362 CTTTTTTTTC-TCT
1 CTTTTTTTTCGTCT
171375 CTTTTTCTTTCG
1 CTTTTT-TTTCG
171387 AACTGCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.72
Consensus pattern (14 bp):
CTTTTTTTTCGTCT
Found at i:171427 original size:28 final size:27
Alignment explanation
Indices: 171338--171435 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 27
171328 ACATTTGTTG
* * *
171338 TTTTGTTTTCCTTTTTTTTCG-TGT-C
1 TTTTTTTTTTCTTTTTTTTCGATTTGC
**
171363 TTTTTTTTCTCTCTTTTTCTTTCGAACTGCC
1 TTTTTTTT-T-TCTTTTT-TTTCGATTTG-C
*
171394 TATTTTTTTTCTTTTTTTTCGATTTGC
1 TTTTTTTTTTCTTTTTTTTCGATTTGC
171421 TGTTTTTTTTTCTTT
1 T-TTTTTTTTTCTTT
171436 CATTCATTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
25 7 0.12
26 1 0.02
27 8 0.14
28 25 0.43
29 8 0.14
30 1 0.02
31 8 0.14
ACGTcount: A:0.04, C:0.16, G:0.08, T:0.71
Consensus pattern (27 bp):
TTTTTTTTTTCTTTTTTTTCGATTTGC
Found at i:180884 original size:17 final size:18
Alignment explanation
Indices: 180851--180884 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
180841 CCGCTATTAG
180851 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
180869 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
180885 GACCGGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:183354 original size:24 final size:23
Alignment explanation
Indices: 183303--183370 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
183293 TTTAAGGTAT
*
183303 ATTTTATTATATTTAATATTTTA
1 ATTTTATTATATTTAATATTTAA
*
183326 TTTTTAATT-TATTTAAGTATTTAA
1 ATTTT-ATTATATTTAA-TATTTAA
183350 ATTTT-TTAATATTT--TATTTAA
1 ATTTTATT-ATATTTAATATTTAA
183371 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 11 0.29
24 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTTAA
Found at i:183364 original size:8 final size:8
Alignment explanation
Indices: 183301--183365 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
183291 TGTTTAAGGT
183301 ATATTTTA
1 ATATTTTA
*
183309 TTATATTTA
1 ATAT-TTTA
183318 ATATTTT-
1 ATATTTTA
183325 AT-TTTTA
1 ATATTTTA
*
183332 ATTTATTTA
1 ATAT-TTTA
*
183341 AGTATTTAA
1 A-TATTTTA
*
183350 ATTTTTTA
1 ATATTTTA
183358 ATATTTTA
1 ATATTTTA
183366 TTTAATTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.09
7 4 0.09
8 19 0.42
9 16 0.36
10 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
ATATTTTA
Found at i:183365 original size:17 final size:19
Alignment explanation
Indices: 183324--183365 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
183314 TTTAATATTT
*
183324 TATTTTTAATTTATTTAAG
1 TATTTTAAATTTATTTAAG
183343 TA-TTTAAATTT-TTTAA-
1 TATTTTAAATTTATTTAAG
183359 TATTTTA
1 TATTTTA
183366 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 8 0.38
19 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATTTATTTAAG
Found at i:194799 original size:17 final size:17
Alignment explanation
Indices: 194769--194802 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
194759 TATAATAAAA
194769 ATATTAATTAATAAATT
1 ATATTAATTAATAAATT
* *
194786 ATATTTATTGATAAATT
1 ATATTAATTAATAAATT
194803 TAAAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATTAATTAATAAATT
Found at i:194896 original size:27 final size:27
Alignment explanation
Indices: 194864--194937 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
194854 ATTGTATTTC
*
194864 AATAATATTTAATAAATTATTT-A-TAA
1 AATAATA-TTATTAAATTATTTCATTAA
* *
194890 AATTAATATTATTTAATAATTTCATTAA
1 AA-TAATATTATTAAATTATTTCATTAA
194918 AATAATATTATTAAATTATT
1 AATAATATTATTAAATTATT
194938 GAATATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 13 0.32
27 22 0.55
28 5 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
AATAATATTATTAAATTATTTCATTAA
Found at i:194923 original size:14 final size:14
Alignment explanation
Indices: 194887--194932 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
194877 AAATTATTTA
194887 TAAAATTAATATTAT
1 TAAAA-TAATATTAT
*
194902 T-TAATAAT-TTCAT
1 TAAAATAATATT-AT
194915 TAAAATAATATTAT
1 TAAAATAATATTAT
194929 TAAA
1 TAAA
194933 TTATTGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.08
13 7 0.27
14 14 0.54
15 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATAATATTAT
Found at i:194993 original size:8 final size:8
Alignment explanation
Indices: 194980--195008 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
194970 ATAATATTAT
194980 TATTTTAA
1 TATTTTAA
194988 TATTTTAA
1 TATTTTAA
194996 TA-TTTAA
1 TATTTTAA
195003 TATTTT
1 TATTTT
195009 TATAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTTTAA
Found at i:195003 original size:15 final size:13
Alignment explanation
Indices: 194971--195029 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 13
194961 AAATATAATA
194971 TAATATTATTATTT
1 TAATATT-TTATTT
194985 TAATATTTTAATATT
1 TAATATTTT-AT-TT
*
195000 TAATA-TTT-TTA
1 TAATATTTTATTT
*
195011 TAATATTATTATGT
1 TAATATT-TTATTT
195025 TAATA
1 TAATA
195030 AATAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 6 0.16
12 2 0.05
13 4 0.11
14 18 0.49
15 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TAATATTTTATTT
Found at i:195069 original size:33 final size:33
Alignment explanation
Indices: 195009--195073 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
194999 TTAATATTTT
195009 TATAATATTATTATGTTAATAAATAATTAATAA
1 TATAATATTATTATGTTAATAAATAATTAATAA
* * * *
195042 TATATTATTCTTATTTTAATAACTAATTAATA
1 TATAATATTATTATGTTAATAAATAATTAATA
195074 TAATTTATAA
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:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (33 bp):
TATAATATTATTATGTTAATAAATAATTAATAA
Found at i:196548 original size:30 final size:29
Alignment explanation
Indices: 196514--196576 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 29
196504 CTTTCATCCA
196514 CATCTTTACTTAGC-ATATATTATGCATATG
1 CATCTTTACTTAGCTA-ATA-TATGCATATG
196544 CATCTTTACTTAGCTAATCATATGCATATG
1 CATCTTTACTTAGCTAAT-ATATGCATATG
196574 CAT
1 CAT
196577 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (29 bp):
CATCTTTACTTAGCTAATATATGCATATG
Found at i:207152 original size:227 final size:229
Alignment explanation
Indices: 206711--207170 Score: 788
Period size: 227 Copynumber: 2.0 Consensus size: 229
206701 TTTTATCATA
*
206711 AAATACGGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
1 AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
206776 CTCCCTACAAATAATTTCATCCCTTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
66 CTCCCTACAAATAATTTCATCCCTTGAATTACCTTAGCT-AACAACTGCAGAAACTGAGCTCTCA
*
206841 TCGACTCTTTCGTCTCCCAAGTTGCTCCTTAGTATTGGTTATGCCACACACTTTTACCAATGGAA
130 TCGACTCTTTCATCTCCCAAGTTGCTCCTTAGTATTGGTTATGCCACACACTTTTACCAATGGAA
206906 TAGACTTGTTTCAAAGAACTTTCACATCGCTAGCC
195 TAGACTTGTTTCAAAGAACTTTCACATCGCTAGCC
206941 AAATACAGAAATTTACTTG-AATC-ACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
1 AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
*
207004 CTCCCTA-TAATAATTTCATCCC-TGAATTACCTTAGCT-A-AACTGCAGAAACTGAGCTCTCAT
66 CTCCCTACAAATAATTTCATCCCTTGAATTACCTTAGCTAACAACTGCAGAAACTGAGCTCTCAT
207065 CGACTCTTTCATCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAATG
131 CGACTCTTTCATCTCCCAAGTTG-CTCCTTAGTA-T-TGGTTATGCCAC-ACACTTTTACCAATG
* *
207130 GAATAGACTTGTTTCGAAGAACTTTCACATCGGTAGCC
192 GAATAGACTTGTTTCAAAGAACTTTCACATCGCTAGCC
207168 AAA
1 AAA
207171 ATATTAATCG
Statistics
Matches: 221, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
223 45 0.20
224 11 0.05
225 1 0.00
226 27 0.12
227 68 0.31
228 47 0.21
229 4 0.02
230 18 0.08
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (229 bp):
AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
CTCCCTACAAATAATTTCATCCCTTGAATTACCTTAGCTAACAACTGCAGAAACTGAGCTCTCAT
CGACTCTTTCATCTCCCAAGTTGCTCCTTAGTATTGGTTATGCCACACACTTTTACCAATGGAAT
AGACTTGTTTCAAAGAACTTTCACATCGCTAGCC
Done.