Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001319.1 Hibiscus syriacus cultivar Beakdansim tig00002572_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: 94254
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2055 original size:64 final size:62
Alignment explanation
Indices: 1977--2110 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 62
1967 CAATGTGTAC
* * *
1977 CGATGCACTCTT-AAATA-AGGAACATCGAATGTCATTAATGCATCGATGCATAAGG-AGTGCAT
1 CGATGCACTCTTAAAATACA--AACATCAAATGGCATTAATGCATCGATACAT-AGGTAGTGCAT
* *
2039 CGATGCACTCGTTTAAAATACAAACATCAAATGGGATTTATGCATCGATACATAGGTAGTGCAT
1 CGATGCACTC--TTAAAATACAAACATCAAATGGCATTAATGCATCGATACATAGGTAGTGCAT
2103 CGATGCAC
1 CGATGCAC
2111 CTGTTAAGGG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
62 10 0.16
63 3 0.05
64 43 0.69
65 5 0.08
66 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (62 bp):
CGATGCACTCTTAAAATACAAACATCAAATGGCATTAATGCATCGATACATAGGTAGTGCAT
Found at i:2711 original size:20 final size:19
Alignment explanation
Indices: 2662--2717 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
2652 AGGGATTATC
2662 AGTGGTCCTTCGGGAC-AT
1 AGTGGTCCTTCGGGACAAT
** *
2680 AGTGGTTATTCGGAACAATT
1 AGTGGTCCTTCGGGACAA-T
2700 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
2718 ATATTCAGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 16 0.53
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACAAT
Found at i:9497 original size:20 final size:19
Alignment explanation
Indices: 9448--9503 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
9438 AGGGATTATC
9448 AGTGGTCCTTCGGGAC-AT
1 AGTGGTCCTTCGGGACAAT
** *
9466 AGTGGTTATTCGGAACAATT
1 AGTGGTCCTTCGGGACAA-T
9486 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
9504 ATATTCAGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 16 0.53
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACAAT
Found at i:11023 original size:24 final size:23
Alignment explanation
Indices: 10992--11036 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
10982 TTCATTTCAT
*
10992 ATTTAATTGGAGTTTGAATTTAA
1 ATTTAATTGAAGTTTGAATTTAA
*
11015 ATTTCAATTTAAGTTTGAATTT
1 ATTT-AATTGAAGTTTGAATTT
11037 CAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTAATTGAAGTTTGAATTTAA
Found at i:11047 original size:24 final size:24
Alignment explanation
Indices: 11002--11048 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10992 ATTTAATTGG
* *
11002 AGTTTGAATTTAAATTTCAATTTA
1 AGTTTGAATTTAAATATAAATTTA
*
11026 AGTTTGAATTTCAATATAAATTT
1 AGTTTGAATTTAAATATAAATTT
11049 CGGCTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
AGTTTGAATTTAAATATAAATTTA
Found at i:12355 original size:273 final size:273
Alignment explanation
Indices: 11868--12414 Score: 1058
Period size: 273 Copynumber: 2.0 Consensus size: 273
11858 TCCTAAATGC
11868 TTCTGATGCTTTAAATGTTTGAGAACCAAATGGATTGCCTTCGAGATTTTAAATATGCAGCTGCT
1 TTCTGATGCTTTAAATGTTTGAGAACCAAATGGATTGCCTTCGAGATTTTAAATATGCAGCTGCT
11933 TTTACATCAGCTATGTTTCTCTCAGATGATTTCAGTTTACGGTTTTCCTATCTTCATGAGCTTGA
66 TTTACATCAGCTATGTTTCTCTCAGATGATTTCAGTTTACGGTTTTCCTATCTTCATGAGCTTGA
11998 TGAAATGGATAATATCCGGAAGGCATTCTTCGCATCTCCAATCATCCTGCTTGTTAATCAAAATT
131 TGAAATGGATAATATCCGGAAGGCATTCTTCGCATCTCCAATCATCCTGCTTGTTAATCAAAATT
*
12063 ATGATGGTCGGGATTTCCCTTGGGTTTCATTTAGGTTGATTGCTCCGAATATATAACGACATTTG
196 ATGATGGTCGGGATTTCCCTCGGGTTTCATTTAGGTTGATTGCTCCGAATATATAACGACATTTG
12128 ATCTCCGAATCGT
261 ATCTCCGAATCGT
*
12141 TTCTGATGCTTTAAATGTTTGAGAACCAAATGGATTGCCTTCGAGATTTTAAATATGTAGCTGCT
1 TTCTGATGCTTTAAATGTTTGAGAACCAAATGGATTGCCTTCGAGATTTTAAATATGCAGCTGCT
* *
12206 TTTACATCAGCTATGTTTCTCTCAGATGGTTTCGGTTTACGGTTTTCCTATCTTCATGAGCTTGA
66 TTTACATCAGCTATGTTTCTCTCAGATGATTTCAGTTTACGGTTTTCCTATCTTCATGAGCTTGA
12271 TGAAATGGATAATATCCGGAAGGCATTCTTCGCATCTCCAATCATCCTGCTTGTTAATCAAAATT
131 TGAAATGGATAATATCCGGAAGGCATTCTTCGCATCTCCAATCATCCTGCTTGTTAATCAAAATT
12336 ATGATGGTCGGGATTTCCCTCGGGTTTCATTTAGGTTGATTGCTCCGAATATATAACGACATTTG
196 ATGATGGTCGGGATTTCCCTCGGGTTTCATTTAGGTTGATTGCTCCGAATATATAACGACATTTG
12401 ATCTCCGAATCGT
261 ATCTCCGAATCGT
12414 T
1 T
12415 GTTGGTTGAT
Statistics
Matches: 270, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
273 270 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (273 bp):
TTCTGATGCTTTAAATGTTTGAGAACCAAATGGATTGCCTTCGAGATTTTAAATATGCAGCTGCT
TTTACATCAGCTATGTTTCTCTCAGATGATTTCAGTTTACGGTTTTCCTATCTTCATGAGCTTGA
TGAAATGGATAATATCCGGAAGGCATTCTTCGCATCTCCAATCATCCTGCTTGTTAATCAAAATT
ATGATGGTCGGGATTTCCCTCGGGTTTCATTTAGGTTGATTGCTCCGAATATATAACGACATTTG
ATCTCCGAATCGT
Found at i:13697 original size:200 final size:199
Alignment explanation
Indices: 13052--14056 Score: 1622
Period size: 199 Copynumber: 5.0 Consensus size: 199
13042 TTTTAAATTT
13052 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* *
13117 ATAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTTAAATTGT
66 GTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATAC-TTTTTAATTTGT
* * *
13182 GTCAATACTTTTTGTCCACAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
130 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
13247 TGTAA
195 TGTAA
13252 GTATCGATCCCAAAAACATCGAAA-CGAATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
1 GTATCGATCCCAAAAACATCGAAACCG-ATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
* * *
13316 GGTAAGAATATGCCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATAC-CTTTACATTTG
65 GGTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTA-ATTTG
* *
13380 TGTCGATACTTTTGGTCCAGAATGAATTCCCAATGAGGTGCACACATAAAGTGTCGATACATTTA
129 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA
13445 TTGTAA
194 TTGTAA
* *
13451 GTATCGATCCCAAAAATATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGCAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * *
13516 GTAAGAATATATCGGTTTTATAACAGAGTAGGTCAACATAATGTATCGATACTTTTTTTAAATTG
66 GTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATAC--TTTTTAATTTG
* *
13581 TGTCGATACTTTTTGTCCAGAATGAATGTCCAACGA-GTGCACACATAAAGTGTCGATACATTTA
129 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA
13645 TTGTAA
194 TTGTAA
* *
13651 GTATCGATCCCAAAAACACCGAAACCGATAATTATAAAGTAATAGGTAAATTTACCATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * *
13716 GTAAGAATATACCGATTTTATGGCAGAATAGGTCAACATAATGTATCGATAC-CTTTACATTTGT
66 GTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTA-ATTTGT
* *
13780 GTCGATACTTTTGGTTCAGAATGAATGCCCAATGAGGTGCACACATAAAGTGTCGATACATTTAT
130 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
13845 TGTAA
195 TGTAA
* *
13850 GAATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * * * *
13915 ATAAAAATATACTGGTTTTATGACAGAGTAGGTCAACATAATGTATCGATACTTTTTAATTTATG
66 GTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTAATTTGTG
* *
13980 TCGATACTTTTGGTCCAGAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATTTATT
131 TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTATT
14045 GTAA
196 GTAA
14049 GTATCGAT
1 GTATCGAT
14057 ACATAATGAT
Statistics
Matches: 741, Mismatches: 55, Indels: 19
0.91 0.07 0.02
Matches are distributed among these distances:
197 4 0.01
198 40 0.05
199 398 0.54
200 259 0.35
201 36 0.05
202 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
GTAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTAATTTGTG
TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTATT
GTAA
Found at i:13790 original size:399 final size:397
Alignment explanation
Indices: 13052--14056 Score: 1721
Period size: 399 Copynumber: 2.5 Consensus size: 397
13042 TTTTAAATTT
13052 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
*
13117 ATAAGAATATACCGGTTTTATGACAGAATAGGTCAACATAATGTATCGATACTTTTTTAAATTGT
66 ATAAGAATATA-CGGTTTTATGACAGAGTAGGTCAACATAATGTATCGATACTTTTTTAAATTGT
* *
13182 GTCAATACTTTTTGTCCACAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
130 GTCGATACTTTTTGTCCAGAATGAATG-CCAACGAGGTGCACACATAAAGTGTCGATACATTTAT
*
13247 TGTAAGTATCGATCCCAAAAACATCGAAACGAATAATTATAAAGTAATAGGTAAATTTACAATGT
194 TGTAAGTATCGATCCCAAAAACACCGAAACGAATAATTATAAAGTAATAGGTAAATTTACAATGT
*
13312 AACCGGTAAGAATATGCCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACCTTTACAT
259 AACCGGTAAGAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACCTTTACAT
*
13377 TTGTGTCGATACTTTTGGTCCAGAATGAATTCCCAATGAGGTGCACACATAAAGTGTCGATACAT
324 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAATGAGGTGCACACATAAAGTGTCGATACAT
13442 TTATTGTAA
389 TTATTGTAA
* *
13451 GTATCGATCCCAAAAATATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGCAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* *
13516 GTAAGAATATATCGGTTTTATAACAGAGTAGGTCAACATAATGTATCGATACTTTTTTTAAATTG
66 ATAAGAATATA-CGGTTTTATGACAGAGTAGGTCAACATAATGTATCGATAC-TTTTTTAAATTG
13581 TGTCGATACTTTTTGTCCAGAATGAATGTCCAACGA-GTGCACACATAAAGTGTCGATACATTTA
129 TGTCGATACTTTTTGTCCAGAATGAATG-CCAACGAGGTGCACACATAAAGTGTCGATACATTTA
*
13645 TTGTAAGTATCGATCCCAAAAACACCGAAACCG-ATAATTATAAAGTAATAGGTAAATTTACCAT
193 TTGTAAGTATCGATCCCAAAAACACCGAAA-CGAATAATTATAAAGTAATAGGTAAATTTACAAT
*
13709 GTAACCGGTAAGAATATACC-GATTTTATGGCAGAATAGGTCAACATAATGTATCGATACCTTTA
257 GTAACCGGTAAGAATATACCAG-TTTTATGACAGAATAGGTCAACATAATGTATCGATACCTTTA
*
13773 CATTTGTGTCGATACTTTTGGTTCAGAATGAATGCCCAATGAGGTGCACACATAAAGTGTCGATA
321 CATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAATGAGGTGCACACATAAAGTGTCGATA
13838 CATTTATTGTAA
386 CATTTATTGTAA
* *
13850 GAATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
* * *
13915 ATAAAAATATACTGGTTTTATGACAGAGTAGGTCAACATAATGTATCGATAC-TTTTTAATTTAT
66 ATAAGAATATAC-GGTTTTATGACAGAGTAGGTCAACATAATGTATCGATACTTTTTTAAATTGT
* *
13979 GTCGATACTTTTGGTCCAGAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATTTAT
130 GTCGATACTTTTTGTCCAGAATGAATGCC-AACGAGGTGCACACATAAAGTGTCGATACATTTAT
14044 TGTAAGTATCGAT
194 TGTAAGTATCGAT
14057 ACATAATGAT
Statistics
Matches: 574, Mismatches: 26, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
396 2 0.00
397 41 0.07
398 43 0.07
399 441 0.77
400 47 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (397 bp):
GTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAACCG
ATAAGAATATACGGTTTTATGACAGAGTAGGTCAACATAATGTATCGATACTTTTTTAAATTGTG
TCGATACTTTTTGTCCAGAATGAATGCCAACGAGGTGCACACATAAAGTGTCGATACATTTATTG
TAAGTATCGATCCCAAAAACACCGAAACGAATAATTATAAAGTAATAGGTAAATTTACAATGTAA
CCGGTAAGAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGATACCTTTACATTT
GTGTCGATACTTTTGGTCCAGAATGAATGCCCAATGAGGTGCACACATAAAGTGTCGATACATTT
ATTGTAA
Found at i:15873 original size:20 final size:21
Alignment explanation
Indices: 15850--15889 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15840 TAAACTTTTA
15850 TATAT-GTATCAATACTTTGT
1 TATATCGTATCAATACTTTGT
*
15870 TATATCGGTCTCAATACTTT
1 TATATC-GTATCAATACTTT
15890 AATTCCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (21 bp):
TATATCGTATCAATACTTTGT
Found at i:16603 original size:23 final size:23
Alignment explanation
Indices: 16552--16603 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
16542 TAATCAATTT
* *
16552 TATTATATAAGTTCTACCTATTA
1 TATTATATAAGTGCTACCTAATA
**
16575 CGTTATATAAGTGCTACCTAATA
1 TATTATATAAGTGCTACCTAATA
16598 TATTAT
1 TATTAT
16604 TGTGCTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (23 bp):
TATTATATAAGTGCTACCTAATA
Found at i:16741 original size:136 final size:136
Alignment explanation
Indices: 16497--16771 Score: 383
Period size: 136 Copynumber: 2.0 Consensus size: 136
16487 CCTTGGTAAC
* * *
16497 ATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAATCAATTTTATTATATAA
1 ATTTTAGGCGTTTACCTAATATGTTATAATAACAAATTAAGTAATTAACCAATTTTATTATATAA
* * * * * *
16562 GTTCTACCTATTACGTTATATAAGTGCTACCTAATATATTATTGTGCTTGATAATGTTTCTAG-T
66 G-TCTACCTACTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTTCCAGTT
*
16626 AATTAAT
130 AAATAAT
*
16633 ATTTTAGGCGTTTACCTAATATGTTATAATAACAAATTAAGTAATTAACCTATTTTATTATATGA
1 ATTTTAGGCGTTTACCTAATATGTTATAATAACAAATTAAGTAATTAACCAATTTTATTATAT-A
* * *
16698 ACG-CTACTTACTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCAGT
65 A-GTCTACCTACTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTTCCAGT
16762 TAAATAAT
129 TAAATAAT
16770 AT
1 AT
16772 AACATAACCG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
136 110 0.90
137 11 0.09
138 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (136 bp):
ATTTTAGGCGTTTACCTAATATGTTATAATAACAAATTAAGTAATTAACCAATTTTATTATATAA
GTCTACCTACTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTTCCAGTTA
AATAAT
Found at i:16809 original size:16 final size:16
Alignment explanation
Indices: 16790--16841 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
16780 CGATTTAGAT
*
16790 TTTAACCGATCACTTA
1 TTTAACCAATCACTTA
*
16806 TTTAACTAATCACTTA
1 TTTAACCAATCACTTA
16822 TTTAACCAATCACATTA
1 TTTAACCAATCAC-TTA
16839 TTT
1 TTT
16842 TTTAACCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (16 bp):
TTTAACCAATCACTTA
Found at i:19510 original size:76 final size:76
Alignment explanation
Indices: 19384--19536 Score: 245
Period size: 76 Copynumber: 2.0 Consensus size: 76
19374 ACAGAAATAT
*
19384 TAAAAATTACTTGTATATCAGTTATGAAAGCAAGGATGTGATTAAATTGTTCGCGTATAAGTAAA
1 TAAAAATTACTTGTATATCAGTTACGAAAGCAAGGATGTGATTAAATTGTTCGCGTATAAGTAAA
*
19449 TGAATAGCACC
66 CGAATAGCACC
* * *
19460 TAAAAATTACTTGTATA-CAAGTTACGGAAGCAAGGATGTGATTATATTGTTCGCGTATAAGTAC
1 TAAAAATTACTTGTATATC-AGTTACGAAAGCAAGGATGTGATTAAATTGTTCGCGTATAAGTAA
19524 ACGAATAGCACC
65 ACGAATAGCACC
19536 T
1 T
19537 TTTATAGGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 1 0.01
76 70 0.99
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (76 bp):
TAAAAATTACTTGTATATCAGTTACGAAAGCAAGGATGTGATTAAATTGTTCGCGTATAAGTAAA
CGAATAGCACC
Found at i:21882 original size:20 final size:20
Alignment explanation
Indices: 21857--21894 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21847 TTCCCTTTGA
21857 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
*
21877 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
21895 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:21989 original size:64 final size:64
Alignment explanation
Indices: 21902--22062 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 64
21892 TCTTTAACAT
* * * *
21902 GTGCATCAATGCACTACTCATGCATCGATACACCAA-T-CACCTTCGATGTTTTCA-TTTTAAGG
1 GTGCATCGATGCACTCCTTATGCATCGATACACCAACTGCA--TTCGATGTTTCCATTTTTAA-G
21964 GG
63 GG
* * *
21966 GTGCATCGATGCACTCCTTATGCATCGATGCACTAACTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCCTTATGCATCGATACACCAACTGCATTCGATGTTTCCATTTTTAAGGG
*
22030 GTGCATCGATGCACTTCC-TGTGCATCGATACAC
1 GTGCATCGATGCAC-TCCTTATGCATCGATACAC
22063 ACTGAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
64 72 0.86
65 10 0.12
66 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTCCTTATGCATCGATACACCAACTGCATTCGATGTTTCCATTTTTAAGGG
Found at i:23332 original size:20 final size:20
Alignment explanation
Indices: 23307--23346 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23297 ACTCAATTTT
* *
23307 TTTTTCATTTCTTTATTCCA
1 TTTTTCATTTATTCATTCCA
*
23327 TTTTTCTTTTATTCATTCCA
1 TTTTTCATTTATTCATTCCA
23347 AATCAAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTCATTTATTCATTCCA
Found at i:25816 original size:64 final size:63
Alignment explanation
Indices: 25707--25844 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 63
25697 ATTCTACAGT
* *
25707 GTGCATCGATGCACTACTCATGCATCGATACACCAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCA-CTTCGATGTTTCCATTTTTAA-GGG
* * * *
25771 GTGCATCGATGCACTCCTTATGCATCGATGCACTAAATGCA-TTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTACTCATGCATCGATACAC-AAAT-CACTTCGATGTTTCCATTTTTAAGGG
25835 GTGCATCGAT
1 GTGCATCGAT
25845 ACACACTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 54 0.83
65 9 0.14
66 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACTCATGCATCGATACACAAATCACTTCGATGTTTCCATTTTTAAGGG
Found at i:37533 original size:21 final size:21
Alignment explanation
Indices: 37494--37533 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37484 AATATTTTCA
* *
37494 ATTATTAAATTTTTTAAAAGT
1 ATTATTAAATTTATGAAAAGT
37515 ATTATTAAATTTATGAAAA
1 ATTATTAAATTTATGAAAA
37534 TGTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTATTAAATTTATGAAAAGT
Found at i:37619 original size:32 final size:32
Alignment explanation
Indices: 37576--37666 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
37566 ATTGATAAGT
* *
37576 TTTAGTAAATTTTAA-AAATATTTTATAACAA
1 TTTAATAAAATTTAATAAATATTTTATAACAA
* **
37607 TTTAATAAAATTTAATAATTATTTTATATTAA
1 TTTAATAAAATTTAATAAATATTTTATAACAA
** * *
37639 TTTAATGGAATTTAATGACTATTTTATA
1 TTTAATAAAATTTAATAAATATTTTATA
37667 GTAACTTGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 13 0.26
32 37 0.74
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (32 bp):
TTTAATAAAATTTAATAAATATTTTATAACAA
Found at i:40335 original size:34 final size:34
Alignment explanation
Indices: 40276--40342 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
40266 TTCTTGAGAG
*
40276 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTCA
40310 TTGTTTTCTCCTTATTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
40343 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTCA
Found at i:43236 original size:2 final size:2
Alignment explanation
Indices: 43224--43253 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43214 TGGATTTTTA
*
43224 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43254 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:46835 original size:33 final size:33
Alignment explanation
Indices: 46774--46846 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
46764 TAATTTCCGT
** *
46774 TCGGGTT-AAATTCGGTTCAAGTTGCTTTCGGA
1 TCGGGTTAAAATTCGACTCAAATTGCTTTCGGA
* *
46806 TCGGGTTAAAATTCGACTCAAATTTCTTTCGGT
1 TCGGGTTAAAATTCGACTCAAATTGCTTTCGGA
*
46839 TCGAGTTA
1 TCGGGTTA
46847 CTTTCGGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (33 bp):
TCGGGTTAAAATTCGACTCAAATTGCTTTCGGA
Found at i:47513 original size:16 final size:15
Alignment explanation
Indices: 47469--47516 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
47459 TATGAATAAC
*
47469 AATATTATTTTTTAA
1 AATAATATTTTTTAA
47484 AATAA-ATTATTTTAA
1 AATAATATT-TTTTAA
*
47499 ATTAATATTTCTTTAA
1 AATAATATTT-TTTAA
47515 AA
1 AA
47517 GTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 3 0.11
15 15 0.56
16 9 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
AATAATATTTTTTAA
Found at i:57193 original size:2 final size:2
Alignment explanation
Indices: 57186--57231 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
57176 CTTACAAGTG
57186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57228 AT AT
1 AT AT
57232 GATCCAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58396 original size:34 final size:36
Alignment explanation
Indices: 58352--58453 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
58342 TTTCGTCCTA
*
58352 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
* *
58387 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
58422 GCTAGGATTCAAACTCCTAAAAATAAGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAAGATAGA
58454 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 28 0.47
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
Found at i:58881 original size:18 final size:17
Alignment explanation
Indices: 58842--58884 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
58832 ATTATATGGA
58842 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
58858 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
58876 TATTATTAT
1 TATTATTAT
58885 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:58945 original size:2 final size:2
Alignment explanation
Indices: 58938--58966 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58928 ATTTTATTAT
58938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58967 TTCTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59365 original size:38 final size:40
Alignment explanation
Indices: 59314--59393 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
59304 AGTGAGAGGG
*
59314 TAGCTTTTCTATTTT-TAAATA-TTTGGTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
59352 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
59392 TA
1 TA
59394 TATATTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:59466 original size:31 final size:31
Alignment explanation
Indices: 59430--59489 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
59420 TATATAATTA
*
59430 TTATTTTATTTTTTTCC-TTTATCTTATTTAT
1 TTATTTTA-TTTTTCCCTTTTATCTTATTTAT
59461 TTATTTTATTTTTCCCTTTTATCTTATTT
1 TTATTTTATTTTTCCCTTTTATCTTATTT
59490 GTTTTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (31 bp):
TTATTTTATTTTTCCCTTTTATCTTATTTAT
Found at i:62541 original size:20 final size:19
Alignment explanation
Indices: 62484--62542 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
62474 TCCAATCAAG
*
62484 AAGAAAAAAGAAAAGAAACA
1 AAGAAAAAAGAAAA-AAATA
62504 AA-AAAAAA-ACAAAAAATA
1 AAGAAAAAAGA-AAAAAATA
*
62522 AAGAAAAAAGAGAAACAATA
1 AAGAAAAAAGA-AAAAAATA
62542 A
1 A
62543 CAAAAGGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.21
19 15 0.45
20 11 0.33
ACGTcount: A:0.81, C:0.05, G:0.10, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAGAAAAAAATA
Found at i:64211 original size:36 final size:36
Alignment explanation
Indices: 64168--64237 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
64158 ACTAGAATAG
*
64168 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
1 TTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAA
* *
64204 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAATTTCCCTTGAAACA
64238 TAAACATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAA
Found at i:64300 original size:36 final size:36
Alignment explanation
Indices: 64253--64479 Score: 218
Period size: 36 Copynumber: 6.4 Consensus size: 36
64243 ATTGAAAACA
* * *
64253 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
64289 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAA
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
64326 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* * * *
64355 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * *
64391 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
64428 TTTCTCTTGAAACAAATTTTGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
64464 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
64480 ATCTTTGAAT
Statistics
Matches: 155, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
30 2 0.01
35 1 0.01
36 66 0.43
37 66 0.43
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:64315 original size:37 final size:37
Alignment explanation
Indices: 64253--64348 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
64243 ATTGAAAACA
* * *
64253 TTTCCCTTGAAA-TAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
*
64289 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAA
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
64326 TTTCCCTTGAAACAAAATATTTG
1 TTTCCCTTGAAACAAAAT-TTTG
64349 AATATGTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 12 0.22
37 38 0.70
38 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
Found at i:64350 original size:102 final size:100
Alignment explanation
Indices: 64172--64443 Score: 355
Period size: 102 Copynumber: 2.7 Consensus size: 100
64162 GAATAGTTTT
* *
64172 GTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
*
64237 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTC
66 A-AAACATTGAAAACATTTCCCTTGAAACAAATTTC
* * *
64273 GTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
* * ** * *
64338 CAAAATATTTGAATATGTTTTCTTTGAAACAAATTTC
65 CAAAACA-TTGAAAACATTTCCCTTGAAACAAATTTC
* ** * *
64375 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
64440 CAAA
65 CAAA
64444 TTTTGTCTAT
Statistics
Matches: 148, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
101 31 0.21
102 117 0.79
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (100 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
AAAACATTGAAAACATTTCCCTTGAAACAAATTTC
Found at i:64445 original size:138 final size:139
Alignment explanation
Indices: 64273--64526 Score: 393
Period size: 138 Copynumber: 1.8 Consensus size: 139
64263 AATAAATTTC
* *
64273 GTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTATCTTGAGACAATTTCCCTTGAAA
* * ** *
64338 CAAAATATTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
66 CAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
64403 CTAAGTTTT
131 CTAAGTTTT
* *
64412 GTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTATCTTGAGACAATTTCCCTTGAAA
* * *
64476 CAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGAC
66 CAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGAC
64527 TGTTACTCTT
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
138 76 0.74
139 27 0.26
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (139 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTATCTTGAGACAATTTCCCTTGAAA
CAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
CTAAGTTTT
Found at i:65447 original size:105 final size:105
Alignment explanation
Indices: 65246--65875 Score: 867
Period size: 105 Copynumber: 6.0 Consensus size: 105
65236 ATATCGTGGC
* * * ** * *
65246 ACTCGAGACAACACAAGTCCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
* *
65311 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATGTTGG
65 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65352 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
65417 ATTCCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 ATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
65457 ACTTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
65522 A-TCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTC-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
65562 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
65627 ATCCCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 ATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
65667 ACTCCAGACAAAGCAAATTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
**
65728 ATT-CAGATTCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * * * *
65767 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
** * * *
65832 GGTTCCAGAGCCAATTTCAACTTCACGAGGGAGGATATTGG
65 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65873 ACT
1 ACT
65876 TGGAACAATG
Statistics
Matches: 474, Mismatches: 42, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
100 78 0.16
101 4 0.01
102 3 0.01
103 4 0.01
104 5 0.01
105 298 0.63
106 82 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:66467 original size:34 final size:36
Alignment explanation
Indices: 66423--66524 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
66413 TTTCGTCCTA
66423 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
66458 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
66493 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
66525 GTTCTACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:66939 original size:17 final size:18
Alignment explanation
Indices: 66913--66952 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
66903 ATTATATGGA
66913 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
66929 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
66947 TATTAT
1 TATTAT
66953 ATATGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:71344 original size:37 final size:36
Alignment explanation
Indices: 71303--71380 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
71293 GGATAAAGAT
*
71303 AAAAACAAAATAG-ATAAATAAATGAGTAAAATATATA
1 AAAAACAAAA-AGCATAAATAAATAAGTAAAATA-ATA
** * *
71340 AAAAAGTAAAAGCATATATATATAAGTAAAATAATA
1 AAAAACAAAAAGCATAAATAAATAAGTAAAATAATA
71376 AAAAA
1 AAAAA
71381 AAAGAAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (36 bp):
AAAAACAAAAAGCATAAATAAATAAGTAAAATAATA
Found at i:71358 original size:20 final size:20
Alignment explanation
Indices: 71333--71370 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71323 AATGAGTAAA
71333 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
71353 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
71371 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:71901 original size:37 final size:37
Alignment explanation
Indices: 71860--71963 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
71850 GTGCTTATGG
* * *
71860 ATCCTATCTTTAAGAGTTTAAATCATAGTAGAAA-TCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGTAGAAATTCT
**
71897 ATCCTATTTTAGGAGTTTGAATCCTAACA-AAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGTAGAAATTCT
*
71933 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGTAG
71964 GACGAAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.05
36 25 0.45
37 28 0.50
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGTAGAAATTCT
Found at i:72841 original size:106 final size:106
Alignment explanation
Indices: 72657--74031 Score: 2164
Period size: 106 Copynumber: 13.0 Consensus size: 106
72647 GCATTGTTCC
* * ** *
72657 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
72721 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
72763 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
72828 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
72869 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTG-TTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
72933 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
72974 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
73039 CCAACGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
73080 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
73145 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
73186 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
73251 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
73292 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
73357 CCAGCGGTCCCTTCGTAGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
73398 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
73462 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
73503 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
73568 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
73609 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
73674 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
73715 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
73780 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
73821 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * * * * *
73886 TCAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTATCTT
66 CCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
*
73927 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
73992 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
74032 AGAGAGAAAC
Statistics
Matches: 1176, Mismatches: 88, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
105 198 0.17
106 976 0.83
107 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:73655 original size:529 final size:528
Alignment explanation
Indices: 72657--74031 Score: 2275
Period size: 529 Copynumber: 2.6 Consensus size: 528
72647 GCATTGTTCC
* * **
72657 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
72721 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGA
* *
72786 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGT-GTGAAG
*
72851 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAG
194 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
72916 GAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
259 GAAATTATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
* *
72981 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAACGG
324 ATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAACGG
73046 TCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCACTGTGAAGTTGAAA
389 TCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCACTGTGAAGTTGAAA
* *
73111 TTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
454 TTGGCTCCGAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
73176 GCGTTGTCTG
519 GCGTTGTCTG
*
73186 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
73251 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
73316 GTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTAGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGT-GTGAAGT
* *
73381 TGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
195 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * *
73446 AAATTATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAA
260 AAATTATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAA
* *
73511 TATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGT
325 TATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAACGGT
* *
73576 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
390 CCCTTCATCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
*
73641 TGGCTCCGAAATTGGAAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
455 TGGCTCCGAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
73706 CGTTGTCTG
520 CGTTGTCTG
* *
73715 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
73780 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCGAGTCTAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
* * ** * *
73845 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCG-TGTGAAGT
* * * * *
73910 TGAGCTTGTGCTATCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
195 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
73975 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCT
260 AAATTA-TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
74032 AGAGAGAAAC
Statistics
Matches: 787, Mismatches: 56, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
529 739 0.94
530 48 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (528 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTGTGAAGTT
GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
AATTATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAAT
ATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAACGGTC
CCTTCATCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCACTGTGAAGTTGAAATT
GGCTCCGAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTG
Found at i:74087 original size:36 final size:36
Alignment explanation
Indices: 74040--74173 Score: 144
Period size: 37 Copynumber: 3.7 Consensus size: 36
74030 CTAGAGAGAA
*
74040 ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAG
1 ACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGAAG
* * * *
74076 ACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAA
1 ACTGTCTCAAGCGAGACAAAATTTGTTTC-AAGGAAG
* * * *
74113 ACTATCTCAAGCGAGATAAAATCTTGTTTTAAATG-AG
1 ACTGTCTCAAGCGAGACAAAAT-TTG-TTTCAAGGAAG
*
74150 ACTGCCTCAAGCGAGACAAAATTT
1 ACTGTCTCAAGCGAGACAAAATTT
74174 ATATTGGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
36 30 0.37
37 43 0.53
38 5 0.06
39 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (36 bp):
ACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGAAG
Found at i:74944 original size:22 final size:22
Alignment explanation
Indices: 74918--74994 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
74908 TTGTGTTTGG
74918 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
74940 TCAAATGTTTGGTATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
* *
74962 TCAAATGTTTGTCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
74984 TCAAAGGTTTG
1 TCAAAGGTTTG
74995 ATGGGGTAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:75602 original size:19 final size:18
Alignment explanation
Indices: 75576--75623 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
75566 CTTTTGTCCC
75576 TTTTTCTTTTTGATTTTG
1 TTTTTCTTTTTGATTTTG
**
75594 TTCTTTCTTTTTTCTTTTG
1 TT-TTTCTTTTTGATTTTG
*
75613 TTTCTCTTTTT
1 TTTTTCTTTTT
75624 TCTTTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTGATTTTG
Found at i:75629 original size:17 final size:18
Alignment explanation
Indices: 75589--75632 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
75579 TTCTTTTTGA
*
75589 TTTTGTTCTTTCTTTTTTC
1 TTTTGTT-TCTCTTTTTTC
75608 TTTTGTTTCTCTTTTTTC
1 TTTTGTTTCTCTTTTTTC
75626 -TTTGTTT
1 TTTTGTTT
75633 TTGATTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.29
18 10 0.42
19 7 0.29
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTGTTTCTCTTTTTTC
Found at i:78951 original size:8 final size:8
Alignment explanation
Indices: 78938--78992 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
78928 GTAAAATAGG
78938 AAATATAT
1 AAATATAT
78946 AAATATAT
1 AAATATAT
*
78954 ATATATAT
1 AAATATAT
78962 ATAATA-AT
1 A-AATATAT
78970 AAA-A-A-
1 AAATATAT
78975 AAATATAT
1 AAATATAT
*
78983 ACATATAT
1 AAATATAT
78991 AA
1 AA
78993 TAAAATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.08
6 3 0.08
7 3 0.08
8 27 0.69
9 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:78982 original size:19 final size:22
Alignment explanation
Indices: 78958--78997 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
78948 ATATATATAT
78958 ATATATA-ATA-ATAA-AAAAA
1 ATATATACATATATAATAAAAA
78977 ATATATACATATATAATAAAA
1 ATATATACATATATAATAAAA
78998 TTAATAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 4 0.22
22 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATATACATATATAATAAAAA
Found at i:79408 original size:37 final size:36
Alignment explanation
Indices: 79367--79470 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 36
79357 GTGCTTGTGG
* *
79367 ATCCTATCTTTAAGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGTAGAACTCT
* ** * *
79404 ATCCTATTTTAGGAGTTTGAATCTTAACAAAATTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGTAGAACTCT
*
79440 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCATAGTAG
79471 GACGAAAAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 28 0.51
37 27 0.49
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGTAGAACTCT
Found at i:81903 original size:64 final size:64
Alignment explanation
Indices: 81813--81952 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 64
81803 ATCCCTTGAC
* *
81813 GGGTACATCGATGCACAATCTATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTTAAAG
1 GGGTGCATCGATGCACAATCTATGCATCGATACACT-AATCCCATTCGATGTTTGTATTTTAAAG
* * ** *
81877 GGGTGCATCGATGCACTA-CTTGTGCATCGATACACTAATGGCATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACAATC-TATGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAAG
*
81941 GAGTGCATCGAT
1 GGGTGCATCGAT
81953 ACACCTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
63 1 0.02
64 64 0.97
65 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (64 bp):
GGGTGCATCGATGCACAATCTATGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAAG
Found at i:85372 original size:15 final size:15
Alignment explanation
Indices: 85354--85388 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
85344 CGAGGGTTCT
85354 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
85369 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
85384 GTAGT
1 GTAGT
85389 GGTCCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:92106 original size:14 final size:15
Alignment explanation
Indices: 92087--92131 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
92077 CGAGGGTTCT
92087 GTAGTCCTTCGGG-C
1 GTAGTCCTTCGGGAC
92101 GTAGT-C--CGGGAC
1 GTAGTCCTTCGGGAC
92113 GTAG-CCTTCGGGAC
1 GTAGTCCTTCGGGAC
92127 GTAGT
1 GTAGT
92132 GGTACGGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 4 0.15
12 6 0.23
13 1 0.04
14 15 0.58
ACGTcount: A:0.13, C:0.24, G:0.38, T:0.24
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Done.