Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 24
Found at i:2881870 original size:15 final size:14
Alignment explanation
Indices: 2881850--2881895 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
2881840 AAAAATATAA
2881850 AAAAAAATCAAAAAT
1 AAAAAAAT-AAAAAT
2881865 AAAAAAATAAAAGA-
1 AAAAAAATAAAA-AT
2881879 AATAAAAATAAAAAT
1 AA-AAAAATAAAAAT
2881894 AA
1 AA
2881896 GATTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:2881920 original size:41 final size:39
Alignment explanation
Indices: 2881875--2881972 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 39
2881865 AAAAAAATAA
2881875 AAGAAATAAAAATAAAAATAAGATTAAAAAACAATTAAAAG
1 AAGAAA-AAAAATAAAAATAAGATT-AAAAACAATTAAAAG
*
2881916 AAGAAAAATAAA-ATAAAATAAGATTAACAACAATTAAAAG
1 AAGAAAAA-AAATA-AAAATAAGATTAAAAACAATTAAAAG
*
2881956 AAGGAAAAGAAATAAAA
1 AA-GAAAAAAAATAAAA
2881973 TGGAAAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
40 25 0.49
41 26 0.51
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.15
Consensus pattern (39 bp):
AAGAAAAAAAATAAAAATAAGATTAAAAACAATTAAAAG
Found at i:2881923 original size:37 final size:38
Alignment explanation
Indices: 2881864--2881973 Score: 113
Period size: 40 Copynumber: 2.9 Consensus size: 38
2881854 AAATCAAAAA
*
2881864 TAAAAA-AA-TAAAAGAA-ATAAA-AATAAAAATAAGAT
1 TAAAAACAATTAAAAGAAGAAAAATAAT-AAAATAAGAT
2881899 TAAAAAACAATTAAAAGAAGAAAAATAAAATAAAATAAGAT
1 T-AAAAACAATTAAAAGAAGAAAAAT--AATAAAATAAGAT
*
2881940 TAACAACAATTAAAAGAAGGAAAAGA-AATAAAAT
1 TAAAAACAATTAAAAGAA-GAAAA-ATAATAAAAT
2881974 GGAAAAAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
35 1 0.02
36 5 0.08
37 2 0.03
38 8 0.12
39 12 0.19
40 16 0.25
41 16 0.25
42 4 0.06
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (38 bp):
TAAAAACAATTAAAAGAAGAAAAATAATAAAATAAGAT
Found at i:2881997 original size:17 final size:16
Alignment explanation
Indices: 2881977--2882015 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2881967 ATAAAATGGA
2881977 AAAAATTAAATTAAATT
1 AAAAATTAAATTAAA-T
**
2881994 AAAACGTAAATTAAAT
1 AAAAATTAAATTAAAT
2882010 AAAAAT
1 AAAAAT
2882016 GACTAAATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAAATTAAATTAAAT
Found at i:2883166 original size:30 final size:31
Alignment explanation
Indices: 2883113--2883202 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 31
2883103 TTATTGGACC
* *
2883113 TTATACAAAACATATA-ATGAATATAAATATA
1 TTATACAATACAAATATAT-AATATAAATATA
*
2883144 TGT-T-CAATACATAA-ATATAATATATATA-A
1 T-TATACAATACA-AATATATAATATAAATATA
*
2883173 TTATACAATACAAATATATATTATAAATAT
1 TTATACAATACAAATATATAATATAAATAT
2883203 GTAATATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
28 1 0.02
29 5 0.11
30 35 0.74
31 5 0.11
32 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (31 bp):
TTATACAATACAAATATATAATATAAATATA
Found at i:2886334 original size:35 final size:35
Alignment explanation
Indices: 2886295--2886380 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
2886285 AAAACAGTCA
* * *
2886295 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
2886330 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
2886365 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
2886381 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:2886374 original size:21 final size:21
Alignment explanation
Indices: 2886349--2886391 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2886339 TTCTAAACCC
2886349 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
2886370 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
2886391 T
1 T
2886392 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:2886546 original size:16 final size:18
Alignment explanation
Indices: 2886514--2886547 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2886504 TATTAATGTA
2886514 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
2886532 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
2886548 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:2887248 original size:130 final size:130
Alignment explanation
Indices: 2887015--2887261 Score: 422
Period size: 130 Copynumber: 1.9 Consensus size: 130
2887005 ATTTTCTTCC
* *
2887015 AATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGATC
1 AATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATC
*
2887080 ATGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAAT
66 ATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAAT
* * * *
2887145 AATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGATC
1 AATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATC
*
2887210 CTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 ATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
2887262 TATATAAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
AATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATC
ATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAAT
Found at i:2892008 original size:28 final size:28
Alignment explanation
Indices: 2891976--2892032 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2891966 GACTGGTTGG
2891976 AAGATATAGTCATTGGAGGATTTGTTAT
1 AAGATATAGTCATTGGAGGATTTGTTAT
2892004 AAGATATAGTCATTGGAGGATTTGTTAT
1 AAGATATAGTCATTGGAGGATTTGTTAT
2892032 A
1 A
2892033 CCTCATTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.39
Consensus pattern (28 bp):
AAGATATAGTCATTGGAGGATTTGTTAT
Found at i:2895037 original size:23 final size:23
Alignment explanation
Indices: 2895010--2895058 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2895000 TTTGAATTAT
2895010 TTTATGAAAT-ATCTTTATATTGA
1 TTTATGAAATGATCTTTATA-TGA
* *
2895033 TTTATTAAATGATTTTTATATGA
1 TTTATGAAATGATCTTTATATGA
2895056 TTT
1 TTT
2895059 TGGGTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (23 bp):
TTTATGAAATGATCTTTATATGA
Found at i:2896007 original size:21 final size:21
Alignment explanation
Indices: 2895983--2896022 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2895973 TTTTCAAAGG
2895983 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
2896004 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
2896023 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:2896072 original size:19 final size:19
Alignment explanation
Indices: 2896036--2896105 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
2896026 TAAATTGAAA
2896036 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
*
2896054 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
2896073 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
2896092 CATCGATGCACTCT
1 CATCGATGCACTCT
2896106 GATTTAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 5 0.10
18 5 0.10
19 38 0.79
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.26
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:2896130 original size:83 final size:83
Alignment explanation
Indices: 2896003--2896166 Score: 231
Period size: 83 Copynumber: 2.0 Consensus size: 83
2895993 TGCATCAATA
* **
2896003 CCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACTCT
1 CCATGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCACAAT
2896068 CCATGCATCGATGCACTCT
65 CCATGCATCGATGCACTCT
* * ** *
2896087 CCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCACAAT
1 CCATGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCACAAT
2896151 CCATGCATCGATGCAC
65 CCATGCATCGATGCAC
2896167 CAGGCTATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 54 0.76
84 15 0.21
85 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (83 bp):
CCATGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCACAATC
CATGCATCGATGCACTCT
Found at i:2896184 original size:64 final size:63
Alignment explanation
Indices: 2896059--2896211 Score: 184
Period size: 64 Copynumber: 2.4 Consensus size: 63
2896049 CCATGCACCG
** *
2896059 ATGCACTCTCCATGCATCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTAAAACATCG
1 ATGCACT-T-CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCG
2896124 A
63 A
* * *
2896125 ATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAACATCG
1 ATGCACTTCATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTATTAAAACATCG
2896188 A
63 A
2896189 ATGCACTTCATGCATCGATGCAC
1 ATGCACTTCATGCATCGATGCAC
2896212 TCTTAGTGCA
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
64 62 0.82
65 2 0.03
66 10 0.13
67 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (63 bp):
ATGCACTTCATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTATTAAAACATCGA
Found at i:2896211 original size:17 final size:19
Alignment explanation
Indices: 2896183--2896231 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2896173 ATTTTTCAAA
2896183 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
2896201 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
2896220 CACCGATGCACT
1 CATCGATGCACT
2896232 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2904239 original size:21 final size:21
Alignment explanation
Indices: 2904215--2904254 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2904205 TTTTCAAAGG
2904215 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
2904236 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
2904255 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:2904304 original size:19 final size:19
Alignment explanation
Indices: 2904280--2904318 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2904270 TCGAATGCAT
2904280 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2904299 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2904318 T
1 T
2904319 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2904343 original size:64 final size:66
Alignment explanation
Indices: 2904215--2904360 Score: 183
Period size: 64 Copynumber: 2.2 Consensus size: 66
2904205 TTTTCAAAGG
*
2904215 CATGCACCGATGCA-TCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCA
1 CATGCACCGATGCACTC-ATACCATGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCA
2904279 TTC
64 TTC
* *
2904282 CATGCACCGATGCACTC-T-CCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCAT
1 CATGCACCGATGCACTCATACCATGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCAT
*
2904344 TT
65 TC
* *
2904346 GATGCATCGATGCAC
1 CATGCACCGATGCAC
2904361 CAGGTTATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
64 37 0.52
65 15 0.21
66 3 0.04
67 14 0.20
68 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (66 bp):
CATGCACCGATGCACTCATACCATGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATT
C
Found at i:2904357 original size:45 final size:46
Alignment explanation
Indices: 2904291--2904408 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 46
2904281 CCATGCACCG
2904291 ATGCACTCTCCATGCATCGATGCACTCTGATT-TAATTAAAACATCGA
1 ATGCACT-T-CATGCATCGATGCACTCTGATTATAATTAAAACATCGA
* * * * ** *
2904338 ATGCATTTGATGCATCGATGCAC-CAGGTTATTTTTCAAACATCGA
1 ATGCACTTCATGCATCGATGCACTCTGATTATAATTAAAACATCGA
2904383 ATGCACTTCATGCATCGATGCACTCT
1 ATGCACTTCATGCATCGATGCACTCT
2904409 TAGTGCACCG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
44 4 0.07
45 47 0.80
46 2 0.03
47 6 0.10
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (46 bp):
ATGCACTTCATGCATCGATGCACTCTGATTATAATTAAAACATCGA
Found at i:2904405 original size:17 final size:19
Alignment explanation
Indices: 2904377--2904425 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2904367 ATTTTTCAAA
2904377 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
2904395 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
2904414 CACCGATGCACT
1 CATCGATGCACT
2904426 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2905769 original size:90 final size:82
Alignment explanation
Indices: 2905600--2905758 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
2905590 ATCTAAATTG
** *
2905600 AATTTAAATTTTGATATTTAAATATTAAATTATGATTTTGTGTGATTGTTAGTTTTAAAATAAAG
1 AATTTAAATTTTGATATTTAAATATTAAATTATGATTTTGTACGATTGTTAGATTTAAAATAAAG
*
2905665 AAATGCATTTTTAAAAT
66 AAAAGCATTTTTAAAAT
* * *
2905682 AATTTAATTTTTTATATTTAAATATTAAATTATGATTTTGTACGATTGTTAGATTTAAAATAAAT
1 AATTTAAATTTTGATATTTAAATATTAAATTATGATTTTGTACGATTGTTAGATTTAAAATAAAG
2905747 AAAAGCATTTTT
66 AAAAGCATTTTT
2905759 GATATTTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.48
Consensus pattern (82 bp):
AATTTAAATTTTGATATTTAAATATTAAATTATGATTTTGTACGATTGTTAGATTTAAAATAAAG
AAAAGCATTTTTAAAAT
Found at i:2906319 original size:28 final size:28
Alignment explanation
Indices: 2906279--2906332 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
2906269 CCTTAATGAT
2906279 CGACCATCATCATTGATCAATTTGTTAA
1 CGACCATCATCATTGATCAATTTGTTAA
2906307 CGACCATCATCATTGATCAATTTGTT
1 CGACCATCATCATTGATCAATTTGTT
2906333 GTAGATTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (28 bp):
CGACCATCATCATTGATCAATTTGTTAA
Found at i:2918055 original size:21 final size:22
Alignment explanation
Indices: 2918016--2918056 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2918006 TCGAAAATGT
*
2918016 TAAAAAAAATTAATATTTTATG
1 TAAAAAAAATTAAGATTTTATG
*
2918038 TAAAAAAAA-TAAGCTTTTA
1 TAAAAAAAATTAAGATTTTA
2918057 GATAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAAAAAAATTAAGATTTTATG
Found at i:2919516 original size:4 final size:4
Alignment explanation
Indices: 2919507--2919537 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2919497 AGAAGAAAAA
2919507 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
2919538 GATACATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:2920365 original size:11 final size:11
Alignment explanation
Indices: 2920349--2920374 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2920339 TAGCAAGTTG
2920349 AATTCTACTAT
1 AATTCTACTAT
2920360 AATTCTACTAT
1 AATTCTACTAT
2920371 AATT
1 AATT
2920375 AATTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTACTAT
Found at i:2920409 original size:21 final size:22
Alignment explanation
Indices: 2920375--2920421 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
2920365 TACTATAATT
2920375 AATTTATATATTTTCTTTA-AA
1 AATTTATATATTTTCTTTACAA
*
2920396 AATTTATA-ATTTTTTTTTACAA
1 AATTTATATA-TTTTCTTTACAA
2920418 AATT
1 AATT
2920422 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTATATATTTTCTTTACAA
Found at i:2920844 original size:20 final size:20
Alignment explanation
Indices: 2920802--2920841 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2920792 TAAGTGTTAA
*
2920802 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
2920822 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
2920841 T
1 T
2920842 TGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:2923742 original size:20 final size:20
Alignment explanation
Indices: 2923700--2923739 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2923690 TAAGTGTTAA
*
2923700 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
2923720 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
2923739 T
1 T
2923740 TGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:2923950 original size:20 final size:20
Alignment explanation
Indices: 2923925--2923969 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2923915 AACCAGATTG
2923925 CCCAGAGAGAACAGATTCCC
1 CCCAGAGAGAACAGATTCCC
* *
2923945 CCCAGAGAGTACCGATTCCC
1 CCCAGAGAGAACAGATTCCC
2923965 CCCAG
1 CCCAG
2923970 GTTTTTGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.40, G:0.20, T:0.11
Consensus pattern (20 bp):
CCCAGAGAGAACAGATTCCC
Found at i:2925512 original size:21 final size:22
Alignment explanation
Indices: 2925487--2925527 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2925477 ATAAAGAGTC
2925487 ATATGAGAA-CAAATATAAGTA
1 ATATGAGAATCAAATATAAGTA
* *
2925508 ATATGATAATGAAATATAAG
1 ATATGAGAATCAAATATAAG
2925528 ACTATGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (22 bp):
ATATGAGAATCAAATATAAGTA
Found at i:2926492 original size:21 final size:21
Alignment explanation
Indices: 2926467--2926575 Score: 209
Period size: 21 Copynumber: 5.2 Consensus size: 21
2926457 GTATATGATT
2926467 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2926488 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
*
2926509 CTTAAGGAATGATATGTTGTC
1 CTTAAGGAATGATATGTGGTC
2926530 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2926551 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2926572 CTTA
1 CTTA
2926576 TGGACATTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 86 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:2931862 original size:21 final size:21
Alignment explanation
Indices: 2931837--2931903 Score: 134
Period size: 21 Copynumber: 3.2 Consensus size: 21
2931827 GTATATGATT
2931837 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2931858 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2931879 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
2931900 CTTA
1 CTTA
2931904 TGAACATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:2931962 original size:22 final size:22
Alignment explanation
Indices: 2931920--2931962 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2931910 TTATTATATG
**
2931920 GCACTACGGTGCAATTCTACGT
1 GCACTACGGTGCAATGATACGT
*
2931942 GCACTTCGGTGCAATGATACG
1 GCACTACGGTGCAATGATACG
2931963 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (22 bp):
GCACTACGGTGCAATGATACGT
Found at i:2934592 original size:136 final size:137
Alignment explanation
Indices: 2934352--2934653 Score: 340
Period size: 136 Copynumber: 2.2 Consensus size: 137
2934342 CTTTGCAGCA
* * **
2934352 TTAAGAGTAGGCAGGGGGACAGAGTTCATGGCTAGCGCTTCTAGAGGGGAGTAAGCAAGATGACC
1 TTAAGAGTAGGCA-GGGGACAGAGTTCATAGCGAGCGCTTCTAGAGGAAAGTAAGCAAGATGACC
* ** * * * * *
2934417 TAATCTTATGATGAACGCTCTAACGTATGTAATAGGCAGGGTGTT-TA-TGTTGCACGTCGAGCG
65 TAATCTTAAGACCAACACTCTAACGTATGGAATAAGCAGGGTGTTCTATTGTTCCACGCCGAGCG
2934480 CTTCAACG
130 CTTCAACG
* *
2934488 TTAAGAGTAGGCAGTGGGACAGAGTTCATATCGAGCGCTTCTAGAGGAAAGTAGGCAAGATGACC
1 TTAAGAGTAGGCAG-GGGACAGAGTTCATAGCGAGCGCTTCTAGAGGAAAGTAAGCAAGATGACC
** * *
2934553 TGGTCTTAAG-CCAAGCACTCTAACGTATGGACTAAGCAGGGTGTTCCTATTTTTTCCACGCCGA
65 TAATCTTAAGACCAA-CACTCTAACGTATGGAATAAGCAGGGTGTT-CTA-TTGTTCCACGCCGA
2934617 GCGCTTCAACG
127 GCGCTTCAACG
**
2934628 TTGGGAGTAGGCAAGGGAGACAGAGT
1 TTAAGAGTAGGC-AGGG-GACAGAGT
2934654 CATGCCGAGT
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
135 3 0.02
136 90 0.65
138 2 0.01
140 33 0.24
141 10 0.07
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (137 bp):
TTAAGAGTAGGCAGGGGACAGAGTTCATAGCGAGCGCTTCTAGAGGAAAGTAAGCAAGATGACCT
AATCTTAAGACCAACACTCTAACGTATGGAATAAGCAGGGTGTTCTATTGTTCCACGCCGAGCGC
TTCAACG
Found at i:2934714 original size:140 final size:136
Alignment explanation
Indices: 2934352--2934716 Score: 306
Period size: 136 Copynumber: 2.7 Consensus size: 136
2934342 CTTTGCAGCA
* ** * * * ** * *
2934352 TTAAGAGTAGGCAGGGGGACAGAGTTCATGGCTAGCGCTTCTAGAGGGGAGTAAGCAAGATGACC
1 TTAAGAGTAGGCAGTGGGACAGAGTTCATACCGAGCACTTCTAGAAGAAAGTAGGCAAGATGAAC
* * * ** * * * *
2934417 TAATCTTATGATGAACGCTCTAACGTATGTAATAGGCAGGGTGTTTATGTTGCACGTCGAGCGCT
66 TGATATTAAGCCGAACGCTCTAACGTATGGAATAAGCAGGGTGTTTATGTTCCACGCCGAGCGCT
2934482 TCAACG
131 TCAACG
* * * *
2934488 TTAAGAGTAGGCAGTGGGACAGAGTTCATATCGAGCGCTTCTAGAGGAAAGTAGGCAAGATGACC
1 TTAAGAGTAGGCAGTGGGACAGAGTTCATACCGAGCACTTCTAGAAGAAAGTAGGCAAGATGAAC
* * * * *
2934553 TGGTCTTAAGCC-AAGCACTCTAACGTATGGACTAAGCAGGGTGTTCCTATTTTTTCCACGCCGA
66 TGATATTAAGCCGAA-CGCTCTAACGTATGGAATAAGCAGGGTGTT--TA--TGTTCCACGCCGA
2934617 GCGCTTCAACG
126 GCGCTTCAACG
** * * * *
2934628 TTGGGAGTAGGCAAG-GGAGACAGAG-TCATGCCGAGTACTTCTAGAAAGAAA-TAGGTAGGATG
1 TTAAGAGTAGGC-AGTGG-GACAGAGTTCATACCGAGCACTTCTAG-AAGAAAGTAGGCAAGATG
* *
2934690 AATTGATATTACGCCGAACGCTCTAAC
63 AACTGATATTAAGCCGAACGCTCTAAC
2934717 ATGTAGAGTA
Statistics
Matches: 186, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
135 2 0.01
136 91 0.49
138 2 0.01
140 75 0.40
141 16 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (136 bp):
TTAAGAGTAGGCAGTGGGACAGAGTTCATACCGAGCACTTCTAGAAGAAAGTAGGCAAGATGAAC
TGATATTAAGCCGAACGCTCTAACGTATGGAATAAGCAGGGTGTTTATGTTCCACGCCGAGCGCT
TCAACG
Found at i:2940263 original size:29 final size:30
Alignment explanation
Indices: 2940229--2940288 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
2940219 AATATATATT
*
2940229 TATACAT-ATTTTATAATAATTATTTTAAA
1 TATACATAATATTATAATAATTATTTTAAA
2940258 TATACATAAAATATTATAATAATTATTTTAA
1 TATACAT--AATATTATAATAATTATTTTAA
2940289 TACAGTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
32 20 0.74
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
TATACATAATATTATAATAATTATTTTAAA
Found at i:2940917 original size:79 final size:79
Alignment explanation
Indices: 2940822--2940978 Score: 314
Period size: 79 Copynumber: 2.0 Consensus size: 79
2940812 CAATAAACCC
2940822 ATATTCCGACCACCATGCCGGCCACCACGTCAATCATCACGTCGGCCGCCCTTTTCACCACAGTA
1 ATATTCCGACCACCATGCCGGCCACCACGTCAATCATCACGTCGGCCGCCCTTTTCACCACAGTA
2940887 TGTAATGAATAAAT
66 TGTAATGAATAAAT
2940901 ATATTCCGACCACCATGCCGGCCACCACGTCAATCATCACGTCGGCCGCCCTTTTCACCACAGTA
1 ATATTCCGACCACCATGCCGGCCACCACGTCAATCATCACGTCGGCCGCCCTTTTCACCACAGTA
2940966 TGTAATGAATAAA
66 TGTAATGAATAAA
2940979 AAGATATTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.22
Consensus pattern (79 bp):
ATATTCCGACCACCATGCCGGCCACCACGTCAATCATCACGTCGGCCGCCCTTTTCACCACAGTA
TGTAATGAATAAAT
Found at i:2954593 original size:3 final size:3
Alignment explanation
Indices: 2954587--2954636 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
2954577 TTTTTTACCC
* *
2954587 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2954635 AT
1 AT
2954637 ATACATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2954644 original size:12 final size:12
Alignment explanation
Indices: 2954587--2954651 Score: 78
Period size: 12 Copynumber: 5.4 Consensus size: 12
2954577 TTTTTTACCC
*
2954587 ATTATTATTATT
1 ATTATAATTATT
*
2954599 ATTATTATTATT
1 ATTATAATTATT
*
2954611 ATTATGATTATT
1 ATTATAATTATT
2954623 ATTATAATTATT
1 ATTATAATTATT
2954635 A-TATACATTATT
1 ATTATA-ATTATT
*
2954647 GTTAT
1 ATTAT
2954652 TAAATAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
11 4 0.08
12 41 0.85
13 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (12 bp):
ATTATAATTATT
Found at i:2954676 original size:10 final size:11
Alignment explanation
Indices: 2954663--2954714 Score: 70
Period size: 12 Copynumber: 4.5 Consensus size: 11
2954653 AAATAAATAA
2954663 ATAATA-ATAT
1 ATAATATATAT
2954673 ATAAATATATAT
1 AT-AATATATAT
2954685 ATATATATATAT
1 ATA-ATATATAT
2954697 ATATATATATAT
1 ATA-ATATATAT
2954709 ATAATA
1 ATAATA
2954715 ATAATTACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.05
11 8 0.21
12 29 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:2954676 original size:14 final size:15
Alignment explanation
Indices: 2954654--2954718 Score: 75
Period size: 14 Copynumber: 4.6 Consensus size: 15
2954644 ATTGTTATTA
*
2954654 AATAAATAAATA-AT
1 AATATATAAATATAT
2954668 AATATATAAATATAT
1 AATATATAAATATAT
*
2954683 -ATATATATATATAT
1 AATATATAAATATAT
*
2954697 -ATATATATATATAT
1 AATATATAAATATAT
2954711 AATA-ATAA
1 AATATATAA
2954719 TTACAAGCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
14 41 0.89
15 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATATAAATATAT
Found at i:2954680 original size:8 final size:8
Alignment explanation
Indices: 2954652--2954707 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
2954642 TTATTGTTAT
*
2954652 TAAATAAA
1 TAAATATA
2954660 TAAATA-A
1 TAAATATA
2954667 T-AATATA
1 TAAATATA
2954674 TAAATATA
1 TAAATATA
*
2954682 TATATATA
1 TAAATATA
*
2954690 TATATATA
1 TAAATATA
*
2954698 TATATATA
1 TAAATATA
2954706 TA
1 TA
2954708 TATAATAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 4 0.09
7 4 0.09
8 37 0.82
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:2954682 original size:2 final size:2
Alignment explanation
Indices: 2954669--2954711 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2954659 ATAAATAATA
*
2954669 AT AT AT AA 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
2954711 A
1 A
2954712 ATAATAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2960103 original size:15 final size:15
Alignment explanation
Indices: 2960083--2960114 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2960073 ATCAATACCT
2960083 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2960098 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2960113 TT
1 TT
2960115 ATTCATTTCA
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:2968434 original size:93 final size:93
Alignment explanation
Indices: 2968275--2969200 Score: 1611
Period size: 93 Copynumber: 9.9 Consensus size: 93
2968265 TCGTAGACCC
*
2968275 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968340 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968368 AATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATTTGGTTTGGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968433 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968461 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGTATGAACCATAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968526 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968554 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGTATTAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968619 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968647 AATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATTTGGTTTGGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968712 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968740 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
* *
2968805 ATCATTGAATTTAGAAGATGAATATGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2968833 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTTGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2968898 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
2968926 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
*
2968991 ATCATTAAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
2969019 CATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
2969084 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* * * *
2969112 CATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC-ACAGAACC
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTA-AAAACC
* *
2969176 AATCATTGGATATTGAAAGATGAAT
65 AATCATTGAAT-TTGGAAGATGAAT
2969201 TTGTTCATAG
Statistics
Matches: 801, Mismatches: 30, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
92 1 0.00
93 788 0.98
94 12 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (93 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCA
ATCATTGAATTTGGAAGATGAATGTGCT
Found at i:2970095 original size:20 final size:20
Alignment explanation
Indices: 2970072--2970136 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
2970062 TCTGAAGAAG
*
2970072 GAAGAAGAAGTTCATAATGA
1 GAAGAACAAGTTCATAATGA
** *
2970092 GAAGAACTCG-TCAT-CTGAA
1 GAAGAACAAGTTCATAATG-A
* *
2970111 GAAGAATAAATTCATAATGA
1 GAAGAACAAGTTCATAATGA
2970131 GAAGAA
1 GAAGAA
2970137 TTTGTTCAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.33
20 18 0.55
21 2 0.06
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (20 bp):
GAAGAACAAGTTCATAATGA
Found at i:2970126 original size:39 final size:40
Alignment explanation
Indices: 2970040--2970136 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
2970030 TGCTAGGTCG
2970040 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
2970080 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAA-TA-A
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
2970120 A-TTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
2970137 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
39 16 0.30
40 20 0.38
41 1 0.02
42 4 0.08
43 12 0.23
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
Found at i:2970144 original size:20 final size:20
Alignment explanation
Indices: 2970080--2970144 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
2970070 AGGAAGAAGA
*
2970080 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAATT
* * *
2970100 CG-TCAT-CTGAAGAAGAATA
1 AGTTCATAATG-AGAAGAATT
*
2970119 AATTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
*
2970139 TGTTCA
1 AGTTCA
2970145 ACTTTTTGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAATT
Found at i:2970246 original size:24 final size:23
Alignment explanation
Indices: 2970203--2970247 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2970193 GTTCGTAATG
*
2970203 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2970226 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
2970248 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2970277 original size:113 final size:114
Alignment explanation
Indices: 2970078--2970720 Score: 797
Period size: 113 Copynumber: 5.7 Consensus size: 114
2970068 GAAGGAAGAA
*
2970078 GAAGTTCATAATGAGAAGAACTCGTCATCT---GAA-GAAGAATAAATTCATAATGAGAAGAATT
1 GAAGTTCATAATGAGAAGAACT--TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
* * * * *
2970139 TGTTCAACTTTTTGTTCAAAACCATCACTCGATGGATCAAAC-TTTCCAAAG
64 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATC-AACTTTTCCAGAG
*
2970190 GAAGTTCGTAATGAGAAGAA-TTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 GAAGTTCATAATGAGAAGAACTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
*
2970254 TTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAG
66 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAG
* *
2970303 AAAGTTCATAATGAGAAGAAC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 GAAGTTCATAATGAGAAGAACTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
* * ** * * * **
2970367 TTTAACCTTTTGTTTGAATTCATCATTTGATGGATTAAAATTTCCAG-G
66 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAG
* *
2970415 TAGAGTTCATAATGAGAAGAACTCATCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 GA-AGTTCATAATGAGAAGAACT--TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* * **
2970480 TTGTTCAACCTTCTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTC
63 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG-AG
* * *
2970533 G-AGTTCATAATGAGAAGAA-TTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 GAAGTTCATAATGAGAAGAACTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
* * * *
2970596 TTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAG
66 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAG
* * * * * *
2970645 AAAGTTCATAATAAGAAGAACTT-ATATGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAACTTG
1 GAAGTTCATAATGAGAAGAACTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
2970708 TTCAACCTTTTGC
66 TTCAACCTTTTGC
2970721 ATAATTCTAT
Statistics
Matches: 463, Mismatches: 54, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
109 6 0.01
111 1 0.00
112 68 0.15
113 290 0.63
114 2 0.00
115 1 0.00
116 95 0.21
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (114 bp):
GAAGTTCATAATGAGAAGAACTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAG
Found at i:2970483 original size:229 final size:225
Alignment explanation
Indices: 2970079--2970826 Score: 891
Period size: 229 Copynumber: 3.3 Consensus size: 225
2970069 AAGGAAGAAG
*
2970079 AAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAA-TA-AA-TTCATAATGAGAAGAATTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * ** * * *
2970140 GTTCAACTTTTTGTTCAAAACCATCACTCGATGGATCAAACTTTCCAAAGGAAGTTCGTAATGAG
63 GTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCC--AGGAAGTTCATAATGAG
*
2970205 AAGAA-TTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
126 AAGAACTTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2970269 AAATCCATCATTTGATGGATCAACTTTTCCAGAGA
191 AAATCCATCAATTGATGGATCAACTTTTCCAGAGA
2970304 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
2970369 TAACCTTTTGTTTGAATTCATCATTTGATGGATTAAAATTTCCAGGTAGAGTTCATAATGAGAAG
66 TAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAGG-A-AGTTCATAATGAGAAG
* *
2970434 AACTCATCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCTCA
129 AACT--TCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* * ***
2970499 AATCCATCACTTGATGGATCAGCTTTTCCAGTTC
192 AATCCATCAATTGATGGATCAACTTTTCCAGAGA
* * * *
2970533 GAGTTCATAATGAGAAGAATTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
2970598 TAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAG
66 TAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAG-G-AAGTTCATAATGAGAAG
* * *
2970663 AACTT-ATATGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCAT-AA
129 AACTTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAA
* * * * *
2970725 TTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGA
193 ----ATC-C---ATCA-ATTGA-T-GGATCAACTTTTCCAGAGA
* * *
2970769 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGAAGA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
2970827 CCTTATTCAA
Statistics
Matches: 450, Mismatches: 51, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
222 12 0.03
223 4 0.01
224 4 0.01
225 65 0.14
226 80 0.18
227 2 0.00
229 209 0.46
230 3 0.01
233 3 0.01
234 3 0.01
235 1 0.00
236 64 0.14
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (225 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
TAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAGGAAGTTCATAATGAGAAGAA
CTTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCAATTGATGGATCAACTTTTCCAGAGA
Found at i:2970801 original size:342 final size:332
Alignment explanation
Indices: 2970079--2970804 Score: 859
Period size: 342 Copynumber: 2.1 Consensus size: 332
2970069 AAGGAAGAAG
2970079 AAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAATAAATTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG---AAATTCATAATGAGAAGAATTTGTTC
* * * * *
2970144 AACTTTTTGTTCAAAACCATCACTCGATGGATCAAACTTTCCAAAGGAAGTTCGTAATGAGAAGA
60 AACCTTCTGCTCAAAACCATCACTCGATGGATCAAACTTTCCAAACGAAGTTCATAATGAGAAGA
* *
2970209 ATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
125 ATTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATC
* * * *
2970274 CATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
190 CATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATATGAAGAAGGA
* * * ** *** *
2970339 AGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATTTGATGGATTA
255 AGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTCATCAGCAGATAGATTA
2970404 AAATTTCCAGGTA
320 AAATTTCCAGGTA
*
2970417 GAGTTCATAATGAGAAGAACTCATCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAGTTCATAATGAGAAGAACTCATC---T-------GAAGAAGAAATTCATAATGAGAAGAATTT
* * * **
2970482 GTTCAACCTTCTGCTCAAATCCATCACTTGATGGATC-AGCTTTTCCAGTTCG-AGTTCATAATG
56 GTTCAACCTTCTGCTCAAAACCATCACTCGATGGATCAAAC-TTTCCA-AACGAAGTTCATAATG
* * *
2970545 AGAAGAATTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTT
119 AGAAGAATTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
* *
2970610 CAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATATGAA
184 CAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATATGAA
2970675 G-AGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCAT-AATTCTATCACAGAA
249 GAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC-AT--C---A
2970738 GCAGATAGATTAGCATAAACCTTTCCAGAG-A
308 GCAGATAGATT---A-AAA--TTTCCAG-GTA
2970769 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
2970805 GAAGAAGTTC
Statistics
Matches: 331, Mismatches: 32, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
335 5 0.02
336 1 0.00
338 19 0.06
340 5 0.02
341 46 0.14
342 200 0.60
343 2 0.01
345 7 0.02
346 8 0.02
349 2 0.01
350 3 0.01
352 32 0.10
353 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (332 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
CTGCTCAAAACCATCACTCGATGGATCAAACTTTCCAAACGAAGTTCATAATGAGAAGAATTCAT
CTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCAC
TTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATATGAAGAAGGAAGAAGA
AGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTCATCAGCAGATAGATTAAAATTT
CCAGGTA
Found at i:2970855 original size:124 final size:124
Alignment explanation
Indices: 2970636--2970931 Score: 377
Period size: 124 Copynumber: 2.4 Consensus size: 124
2970626 TGGATCAACA
* * * * * *
2970636 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATATGAAG-AGGAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGA
* * * * *
2970700 AGAACTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATTAACATAAACC
2970759 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGA
* * * * * *
2970824 AGACCTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTTAACATCATCC
66 AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATTAACATAAACC
* *
2970883 ---CCAGCGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAGAAGAA
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
2970932 TTTATTCAAC
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
121 13 0.09
122 33 0.22
123 37 0.24
124 69 0.45
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGA
AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATTAACATAAACC
Found at i:2971158 original size:2 final size:2
Alignment explanation
Indices: 2971146--2971185 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2971136 TAAATAAATA
2971146 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2971186 ATAATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2973823 original size:37 final size:36
Alignment explanation
Indices: 2973752--2973823 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
2973742 TATATTTTTT
*
2973752 ATTTTGTAAAAAAATTATATAAATATTATGAATTTA
1 ATTTTGTAAAAAAATTATATAAATATTATCAATTTA
* *
2973788 ATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAA-AAAATTATATAAATATTAT-CAATTT
2973824 GTAATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (36 bp):
ATTTTGTAAAAAAATTATATAAATATTATCAATTTA
Found at i:2974005 original size:20 final size:20
Alignment explanation
Indices: 2973969--2974006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2973959 ATCCTATTCC
**
2973969 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2973989 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2974007 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2978402 original size:32 final size:32
Alignment explanation
Indices: 2978353--2978456 Score: 108
Period size: 32 Copynumber: 3.3 Consensus size: 32
2978343 CTGCATGGCA
*
2978353 CATGCACGTCCTCAACACCCCAACACAGGTCGC
1 CATGCAC-TCCCCAACACCCCAACACAGGTCGC
* * *
2978386 CATGCATTCCCCAACACCCCAACATAGGTTGC
1 CATGCACTCCCCAACACCCCAACACAGGTCGC
* *
2978418 CATGCACT-CCCAGCGA--CCTACA-AGGTCGC
1 CATGCACTCCCCAAC-ACCCCAACACAGGTCGC
2978447 CATGCACTCC
1 CATGCACTCC
2978457 TAGCGACCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 14 0.23
30 6 0.10
31 5 0.08
32 30 0.49
33 6 0.10
ACGTcount: A:0.26, C:0.43, G:0.15, T:0.15
Consensus pattern (32 bp):
CATGCACTCCCCAACACCCCAACACAGGTCGC
Found at i:2978448 original size:29 final size:29
Alignment explanation
Indices: 2978411--2978493 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
2978401 ACCCCAACAT
*
2978411 AGGTTGCCATGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* ***
2978440 AGGTCGCCATGCACTCCTAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
2978469 AGGTCGCCAAGCAGTCCCGGCGACC
1 AGGTCGCCATGCACTCCCAGCGACC
2978494 AAGCTTTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.20, C:0.37, G:0.25, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:2978973 original size:22 final size:21
Alignment explanation
Indices: 2978948--2978988 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2978938 GTTAATTAGT
*
2978948 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
2978970 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
2978989 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:2979321 original size:16 final size:16
Alignment explanation
Indices: 2979289--2979335 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2979279 TTTAAAAAAT
*
2979289 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
2979305 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
2979321 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
2979336 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:2979330 original size:15 final size:14
Alignment explanation
Indices: 2979310--2979340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2979300 GTTTATTAGT
2979310 TTATTATATTATAAG
1 TTATTATATTA-AAG
2979325 TTATTATATTAAAG
1 TTATTATATTAAAG
2979339 TT
1 TT
2979341 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:2981568 original size:14 final size:14
Alignment explanation
Indices: 2981549--2981596 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
2981539 TTCAAGTCGT
2981549 AAATCATTACTATC
1 AAATCATTACTATC
2981563 AAATCATTAC--T-
1 AAATCATTACTATC
*
2981574 AAATCATTAATATC
1 AAATCATTACTATC
2981588 AAATCATTA
1 AAATCATTA
2981597 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:2981576 original size:25 final size:25
Alignment explanation
Indices: 2981548--2981596 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2981538 GTTCAAGTCG
*
2981548 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
2981573 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
2981597 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:2981646 original size:60 final size:60
Alignment explanation
Indices: 2981564--2981815 Score: 437
Period size: 60 Copynumber: 4.3 Consensus size: 60
2981554 ATTACTATCA
2981564 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
2981624 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA-TACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
2981683 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAA-CATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
2981741 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-ATTTC---ATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
2981797 AATCATTACTAAATCATTA
1 AATCATTACTAAATCATTA
2981816 TTATAATTTC
Statistics
Matches: 186, Mismatches: 3, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
56 25 0.13
57 9 0.05
58 46 0.25
59 51 0.27
60 55 0.30
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:2981694 original size:10 final size:10
Alignment explanation
Indices: 2981679--2981703 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2981669 AATTTCATTA
2981679 TACTAATCAT
1 TACTAATCAT
2981689 TACTAATCAT
1 TACTAATCAT
2981699 TACTA
1 TACTA
2981704 TCAAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
TACTAATCAT
Found at i:2981733 original size:21 final size:21
Alignment explanation
Indices: 2981709--2981794 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
2981699 TACTATCAAA
2981709 TCATTAAATATTAATAACATT
1 TCATTAAATATTAATAACATT
* *
2981730 TCATT-ATTACTAAT--CA-T
1 TCATTAAATATTAATAACATT
* * **
2981747 T-ACTAAATCATTAATATCAAA
1 TCATTAAAT-ATTAATAACATT
*
2981768 TCATTAAATATTAATAATATT
1 TCATTAAATATTAATAACATT
2981789 TCATTA
1 TCATTA
2981795 CTAATCATTA
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
18 7 0.15
20 9 0.19
21 20 0.42
22 6 0.12
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (21 bp):
TCATTAAATATTAATAACATT
Found at i:2981782 original size:117 final size:116
Alignment explanation
Indices: 2981564--2982149 Score: 553
Period size: 117 Copynumber: 5.1 Consensus size: 116
2981554 ATTACTATCA
2981564 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
2981629 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATACT
66 TTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-ATTTCA-T-TACT
* *
2981683 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAA-CATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
2981746 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATATTTCATTACT
66 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATATTTCATTACT
* * ** ** *
2981797 AATCATTACTAAATCATTATTAT-AATTTCATTACGTAACGAA-AAT-ATGGTTAATTGA--ACC
1 AATCATTACTAAATCATTAATATCAA-ATCATTAAAT-ATTAATAATAAT--TTCATT-ATTA-C
* * * * * * * **
2981857 AAAT-ATT-GT---TCATT-GT-TTAAGTC-GTAAATCATTACT-ATCAAATCATTACT
60 TAATCATTACTAAATCATTAATATCAAATCATTAAAT-ATTAATAAT-ATTTCATTACT
* * *
2981907 AA--A-T-C---AT---TAATATCAAATAATTAAATATTAATAATAAATT-ATTATTATTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
* *
2981961 TTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
66 TTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-ATTTC---ATTACT
* * *
2982015 AATCATTACTAAATCATTAATTTTAAATCATTAAATATTAATAATAATTTCATTATTACTAATTA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
*
2982080 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
66 TTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-A-TT--TCATTACT
*
2982135 AATTATTACTAAATC
1 AATCATTACTAAATC
2982150 TTATAAATAC
Statistics
Matches: 380, Mismatches: 46, Indels: 81
0.75 0.09 0.16
Matches are distributed among these distances:
97 1 0.00
98 6 0.02
99 9 0.02
100 15 0.04
101 3 0.01
102 5 0.01
103 3 0.01
104 10 0.03
105 9 0.02
106 1 0.00
107 1 0.00
108 9 0.02
109 7 0.02
110 22 0.06
111 2 0.01
112 6 0.02
114 16 0.04
115 26 0.07
116 13 0.03
117 68 0.18
118 62 0.16
119 27 0.07
120 55 0.14
121 2 0.01
123 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (116 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
TTACTAAATCATTAATATCAAATCATTAAATATTAATAATATTTCATTACT
Found at i:2981843 original size:56 final size:56
Alignment explanation
Indices: 2981564--2981815 Score: 317
Period size: 59 Copynumber: 4.3 Consensus size: 56
2981554 ATTACTATCA
**
2981564 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATACGAATAAT-ATTTC---ATTACT
**
2981624 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATACGAATAAT-ATTTCA-T-TACT
* ** *
2981683 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAACATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATACGAATAATATTTC---ATTACT
**
2981741 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATATTTCATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATACGAATAATATTTCATTACT
2981797 AATCATTACTAAATCATTA
1 AATCATTACTAAATCATTA
2981816 TTATAATTTC
Statistics
Matches: 182, Mismatches: 4, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
56 25 0.14
57 6 0.03
58 47 0.26
59 52 0.29
60 52 0.29
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (56 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATACGAATAATATTTCATTACT
Found at i:2981901 original size:14 final size:14
Alignment explanation
Indices: 2981882--2981929 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2981872 TTTAAGTCGT
2981882 AAATCATTACTATC
1 AAATCATTACTATC
2981896 AAATCATTAC--T-
1 AAATCATTACTATC
*
2981907 AAATCATTAATATC
1 AAATCATTACTATC
*
2981921 AAATAATTA
1 AAATCATTA
2981930 AATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
13 1 0.03
14 18 0.62
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:2981909 original size:25 final size:25
Alignment explanation
Indices: 2981881--2981929 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2981871 GTTTAAGTCG
* *
2981881 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATAATTAC
2981906 TAAATCATTAATATCAAATAATTA
1 TAAATCATTAATATCAAATAATTA
2981930 AATATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATAATTAC
Found at i:2982055 original size:60 final size:60
Alignment explanation
Indices: 2981897--2982149 Score: 393
Period size: 60 Copynumber: 4.2 Consensus size: 60
2981887 ATTACTATCA
* * *
2981897 AATCATTACTAAATCATTAATATCAAATAATTAAATATTAATAATAAATT-ATTATTATT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
2981956 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
2982015 AATCATTACTAAATCATTAATTTTAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* * *
2982075 AATTATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
*
2982135 AATTATTACTAAATC
1 AATCATTACTAAATC
2982150 TTATAAATAC
Statistics
Matches: 178, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
58 35 0.20
59 28 0.16
60 115 0.65
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:2983026 original size:15 final size:16
Alignment explanation
Indices: 2982977--2983035 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
2982967 ATAATATAAA
*
2982977 TTAAACAAAATATTTT
1 TTAAACACAATATTTT
* *
2982993 TAAAACAACACTAAATATTT
1 TTAAAC-ACA--ATAT-TTT
2983013 TTAAACACAATATTTT
1 TTAAACACAATATTTT
2983029 TTAAACA
1 TTAAACA
2983036 GAAATTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.44
17 5 0.15
19 6 0.18
20 8 0.24
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAACACAATATTTT
Found at i:2983358 original size:28 final size:30
Alignment explanation
Indices: 2983309--2983370 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
2983299 ATTTTTTATA
2983309 TAATATAATATATATCATAAACTAACAAAC
1 TAATATAATATATATCATAAACTAACAAAC
*
2983339 TAATATAATATA-A-CTTAAACTAACAAAC
1 TAATATAATATATATCATAAACTAACAAAC
2983367 TAAT
1 TAAT
2983371 TAACTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATATCATAAACTAACAAAC
Found at i:2983825 original size:23 final size:23
Alignment explanation
Indices: 2983795--2983861 Score: 134
Period size: 23 Copynumber: 2.9 Consensus size: 23
2983785 GCTTGGCTAC
2983795 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
2983818 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
2983841 AATCTCCCAGCTATGGATGCA
1 AATCTCCCAGCTATGGATGCA
2983862 ACCCATGCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAGG
Found at i:2983905 original size:22 final size:22
Alignment explanation
Indices: 2983877--2983939 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
2983867 TGCACGAGGG
* *
2983877 AGCAGGGTTAAGTTTGGTCGTC
1 AGCAGGGATAAGTTTGGTCGCC
2983899 AGCAGGGATAAGTTTGGTCGCC
1 AGCAGGGATAAGTTTGGTCGCC
2983921 AGCAGGGATAAGTTTGGTC
1 AGCAGGGATAAGTTTGGTC
2983940 CTAAGCTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (22 bp):
AGCAGGGATAAGTTTGGTCGCC
Found at i:2983981 original size:29 final size:29
Alignment explanation
Indices: 2983948--2984059 Score: 170
Period size: 29 Copynumber: 3.9 Consensus size: 29
2983938 TCCTAAGCTT
* * *
2983948 GGTCGCCGGGACTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
***
2983977 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
2984006 GGTCGCTGGGAGTGCATGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
2984035 GGTCGCTGGGAGTGCATGGCGACCT
1 GGTCGCTGGGAGTGCATGGCGACCT
2984060 GTGTTGGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCATGGCGACCTACAA
Found at i:2984027 original size:58 final size:58
Alignment explanation
Indices: 2983948--2984059 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
2983938 TCCTAAGCTT
*
2983948 GGTCGCCGGGACTGCTTGGCGACCTACAAGGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCCGGGACTGCATGGCGACCTACAAGGTCGCTGGGAGTGCATGGCGACCTTGTA
* *
2984006 GGTCGCTGGGAGTGCATGGCGACCTACAAGGTCGCTGGGAGTGCATGGCGACCT
1 GGTCGCCGGGACTGCATGGCGACCTACAAGGTCGCTGGGAGTGCATGGCGACCT
2984060 GTGTTGGGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (58 bp):
GGTCGCCGGGACTGCATGGCGACCTACAAGGTCGCTGGGAGTGCATGGCGACCTTGTA
Found at i:2984088 original size:33 final size:33
Alignment explanation
Indices: 2984042--2984120 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
2984032 CAAGGTCGCT
2984042 GGGA-GTGCATGGCGACCTGTGTTGGGGTGTTG
1 GGGACGTGCATGGCGACCTGTGTTGGGGTGTTG
*
2984074 GGGACGTGCATGGCGACCTGTGTTGGGGTTTTG
1 GGGACGTGCATGGCGACCTGTGTTGGGGTGTTG
2984107 GGGACGTGCATGGC
1 GGGACGTGCATGGC
2984121 ACATGCAGAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 4 0.09
33 41 0.91
ACGTcount: A:0.10, C:0.15, G:0.48, T:0.27
Consensus pattern (33 bp):
GGGACGTGCATGGCGACCTGTGTTGGGGTGTTG
Found at i:2988465 original size:14 final size:14
Alignment explanation
Indices: 2988446--2988472 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2988436 GTAAAATATG
2988446 GTATGAACAGTACC
1 GTATGAACAGTACC
2988460 GTATGAACAGTAC
1 GTATGAACAGTAC
2988473 TGAACAGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (14 bp):
GTATGAACAGTACC
Found at i:2988493 original size:22 final size:23
Alignment explanation
Indices: 2988449--2988495 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
2988439 AAATATGGTA
*
2988449 TGAACAGTACCGTATGAACAGTAC
1 TGAACAGTACCG-ATAAACAGTAC
2988473 TGAACAGTACC-ATAAACAGTAC
1 TGAACAGTACCGATAAACAGTAC
2988495 T
1 T
2988496 ACAGTGCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (23 bp):
TGAACAGTACCGATAAACAGTAC
Found at i:2989245 original size:32 final size:32
Alignment explanation
Indices: 2989118--2989246 Score: 174
Period size: 32 Copynumber: 4.1 Consensus size: 32
2989108 TCCCGGAGGA
* *
2989118 CCTATCCATATGTTCC-TAAGAACATAGGTAA-
1 CCTATCCATATGTCCCGAAAG-ACATAGGTAAT
*
2989149 -CTGTCCATATGTCCCGAAAGACATAGGTAAT
1 CCTATCCATATGTCCCGAAAGACATAGGTAAT
* *
2989180 CTTGTCCATATGTCCCGAAAGACATAGGTAAT
1 CCTATCCATATGTCCCGAAAGACATAGGTAAT
*
2989212 CCTATCCATATGTCCCGAAAGACATAGATAAT
1 CCTATCCATATGTCCCGAAAGACATAGGTAAT
2989244 CCT
1 CCT
2989247 CGACTCTTAG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
30 23 0.26
31 3 0.03
32 62 0.70
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (32 bp):
CCTATCCATATGTCCCGAAAGACATAGGTAAT
Found at i:2991434 original size:8 final size:8
Alignment explanation
Indices: 2991423--2991447 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2991413 CGGTGAAGGT
2991423 ACTGGTTC
1 ACTGGTTC
2991431 ACTGGTTC
1 ACTGGTTC
2991439 ACTGGTTC
1 ACTGGTTC
2991447 A
1 A
2991448 ACCGGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (8 bp):
ACTGGTTC
Found at i:2999451 original size:87 final size:85
Alignment explanation
Indices: 2999297--2999457 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 85
2999287 TATGTTATAT
* *
2999297 TATTTAACCGAAAATATTATCAAGTACAATAATATTAGGTAACGCTTATATAATGTAATATATAG
1 TATTTAACCGAAAATATTATCAAGTACAATAATATTAGGTAACGCTTATATAATGTAATAGACAG
2999362 CGCTTATATAATAAAATAGG
66 CGCTTATATAATAAAATAGG
* * *
2999382 TATTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAC
1 TATTTAACCGAAAATATTATCAAGTACAAT-A-ATATTAGGTAACGCTTATATAATGTAATAGAC
2999447 AGCGCTTATAT
64 AGCGCTTATAT
2999458 TGACATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
85 28 0.41
86 1 0.01
87 40 0.58
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (85 bp):
TATTTAACCGAAAATATTATCAAGTACAATAATATTAGGTAACGCTTATATAATGTAATAGACAG
CGCTTATATAATAAAATAGG
Found at i:2999900 original size:182 final size:182
Alignment explanation
Indices: 2999593--3000473 Score: 1481
Period size: 182 Copynumber: 4.9 Consensus size: 182
2999583 TGCGTTCACC
** *
2999593 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2999658 TTTATAAAGTATCGACACTTTATTGGCACTATAACTTCTTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
*
2999722 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
2999775 TTTTGTCATTTCGAGACCGATTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2999840 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
2999905 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGCTTTACCTA
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
2999957 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTAGATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
3000022 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
3000087 TACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
3000139 TTTTATCATTTCGAGACCGGTTTTATCATATTTTTTCATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
3000204 TTTATAAAGTATTGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
3000266 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCT-
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
3000318 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACA-T
1 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
3000382 TTT-TAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTTGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
3000445 TACGTATAATAAATTATCGACACTTTCAA
131 TACTTATAATAAATTATCGACACTTTCAA
3000474 TTTTTTTAAT
Statistics
Matches: 659, Mismatches: 35, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
175 2 0.00
176 19 0.03
177 29 0.04
178 36 0.05
179 59 0.09
180 55 0.08
181 2 0.00
182 455 0.69
183 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:3002482 original size:184 final size:183
Alignment explanation
Indices: 3002135--3002482 Score: 608
Period size: 183 Copynumber: 1.9 Consensus size: 183
3002125 GTTTTACTTA
*
3002135 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGATTGTAGACCTATTCTCTCATAAAACCGG
* * *
3002200 TATATTTATACCGGTTATATTAAAAAATACCTATTACATTATAATTGTGGGTTCCGATGTTTTTT
66 TATATCTATACCGATTATATTAAAAAATACCTATTACATTATAATTATGGGTTCCGATGTTTTTT
*
3002265 CAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
131 CAATCGACACTTTTTGAAAAGGTATCAACACTTTTTTCATCCATTCTGGACAT
*
3002318 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGATTGTATACCTATTCTCTCATAAAACCG
1 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGATTGTAGACCTATTCTCTCATAAAACCG
*
3002382 GTATATCTATACCGATTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGATTATATTA-AAAAATACCTATTACATTATAATTATGGGTTCCGATGTTTT
3002447 TTCAATCGACACTTTTTGAAAAGGTATCAACACTTT
129 TTCAATCGACACTTTTTGAAAAGGTATCAACACTTT
3002483 ATGCTGATAT
Statistics
Matches: 156, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
182 1 0.01
183 81 0.52
184 74 0.47
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
AAAGTATGGACACAATATTAAAAAGTGTCGATATAGATTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGATTATATTAAAAAATACCTATTACATTATAATTATGGGTTCCGATGTTTTTT
CAATCGACACTTTTTGAAAAGGTATCAACACTTTTTTCATCCATTCTGGACAT
Found at i:3003771 original size:3 final size:3
Alignment explanation
Indices: 3003763--3003807 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
3003753 AATTGTTTGG
* * * *
3003763 ATC ATC ATC ATC ATC ATC ATC GTC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3003808 GTCAGCTTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:3003816 original size:12 final size:12
Alignment explanation
Indices: 3003767--3003824 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
3003757 GTTTGGATCA
* *
3003767 TCATCATCATCA
1 TCATCGTCATCT
3003779 TCATCGTCATCT
1 TCATCGTCATCT
3003791 TCATCGTCATCT
1 TCATCGTCATCT
*
3003803 TCATCGTCAGCT
1 TCATCGTCATCT
*
3003815 TCATCTTCAT
1 TCATCGTCAT
3003825 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:3003822 original size:6 final size:6
Alignment explanation
Indices: 3003767--3003824 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
3003757 GTTTGGATCA
* * * * * *
3003767 TCATCA TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
3003815 TCATCT TCAT
1 TCATCT TCAT
3003825 TGACCGCTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:3005670 original size:200 final size:200
Alignment explanation
Indices: 3005327--3005914 Score: 1113
Period size: 200 Copynumber: 2.9 Consensus size: 200
3005317 CGATATTTAA
*
3005327 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCTG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
3005392 GTATACTTATACCGGTTATATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
3005457 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTAT
3005522 GGACC
196 GGACC
*
3005527 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACATATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
3005592 GTATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
3005657 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTAT
3005722 GGACC
196 GGACC
*
3005727 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATTCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
3005792 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
3005857 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
3005915 ATTGTAAATT
Statistics
Matches: 378, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 378 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (200 bp):
AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTAT
GGACC
Found at i:3006173 original size:19 final size:19
Alignment explanation
Indices: 3006149--3006197 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3006139 TTACATTCAC
3006149 ATACAAAATTATAAATCGT-
1 ATACAAAATTATAAATC-TA
3006168 ATACAAAATTATAAATCTA
1 ATACAAAATTATAAATCTA
3006187 ATACAAAATTA
1 ATACAAAATTA
3006198 ACCTTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCTA
Found at i:3007775 original size:15 final size:15
Alignment explanation
Indices: 3007755--3007809 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
3007745 TCCTCCTCAT
3007755 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
*
3007770 TTCTT-CATCCTCCCTCTT
1 TTCTTCCAT-CT--CT-TC
3007788 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
3007803 TTCTTCC
1 TTCTTCC
3007810 TCCTCCCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 3 0.09
15 15 0.45
16 2 0.06
17 2 0.06
18 8 0.24
19 3 0.09
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCTTCCATCTCTTC
Found at i:3007795 original size:33 final size:33
Alignment explanation
Indices: 3007745--3007826 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
3007735 TCGACTTCCT
*
3007745 TCCT-CCTCATTTCTTCCATCTCTTCTTCTTCA
1 TCCTCCCTCTTTTCTTCCATCTCTTCTTCTTCA
*
3007777 TCCTCCCTCTTTTCTTCCATCTCTTCTTCTTCC
1 TCCTCCCTCTTTTCTTCCATCTCTTCTTCTTCA
3007810 TCCTCCCTCTTTTCTTC
1 TCCTCCCTCTTTTCTTC
3007827 TTCATATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 4 0.09
33 43 0.91
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (33 bp):
TCCTCCCTCTTTTCTTCCATCTCTTCTTCTTCA
Found at i:3008050 original size:33 final size:33
Alignment explanation
Indices: 3008013--3008078 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3008003 CATCTTAAGA
* *
3008013 TCACCCTTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
**
3008046 TCACCCCTCAACACCTTTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
3008079 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:3008139 original size:21 final size:21
Alignment explanation
Indices: 3008115--3008155 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3008105 CTTATGCCTC
3008115 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* * *
3008136 TCAAGTTTCTCTTTGACTCT
1 TCAAGTGTATCTTCGACTCT
3008156 TGATTGTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:3010370 original size:17 final size:18
Alignment explanation
Indices: 3010348--3010390 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
3010338 ATATATCCGG
3010348 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
3010365 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
3010385 TATCAT
1 TATCAT
3010391 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:3010408 original size:20 final size:19
Alignment explanation
Indices: 3010353--3010399 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3010343 TCCGGTATCA
3010353 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
3010372 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
3010393 TTTTACC
1 TTTTACC
3010400 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:3010630 original size:181 final size:182
Alignment explanation
Indices: 3010320--3010792 Score: 664
Period size: 181 Copynumber: 2.6 Consensus size: 182
3010310 CGTACTTACG
* * * *
3010320 AAAGTATCGACACTTTTAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCAGTTT
* *
3010385 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATAT-TTTTTTTAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATATATTTTTTGAAAGTATCAACACTTTA
** *
3010449 TTGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCTTTATA-T
130 TAAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
3010501 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCAGTTT
3010566 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCAACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCAACACTTTAT
* *
3010631 AAGCGCTAAAACTGCTTCTCTTTTAAATTTACGAAGTGTCGATCCTTATATT
131 AAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * ** *
3010683 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTATCGGTTTTATCATTTCAATA-CTGATT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCAG-TT
* * * * *
3010747 TTGTCATAGTTTTACCTGTTATATCGTTGTGGATCTATACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTT
3010793 AATTTGGATC
Statistics
Matches: 260, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 11 0.04
181 157 0.60
182 92 0.35
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCAGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCAACACTTTAT
AAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:3014677 original size:2 final size:2
Alignment explanation
Indices: 3014670--3014703 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3014660 TTTGTTTGGT
3014670 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3014704 TCAGTCAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3020745 original size:20 final size:20
Alignment explanation
Indices: 3020720--3020772 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3020710 AATGCAATTA
*
3020720 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCATGCT
* *
3020740 GTGCATTGATGCATCATGTT
1 GTGCATCGATGCATCATGCT
*
3020760 GTGCATCCATGCA
1 GTGCATCGATGCA
3020773 CCAAGGCTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCATGCT
Found at i:3020854 original size:21 final size:21
Alignment explanation
Indices: 3020828--3020878 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
3020818 GAAGGGGTAT
3020828 CGATGCACCTTGATAGTGCAC
1 CGATGCACCTTGATAGTGCAC
3020849 CGATGCACCTTGATAGTGCAC
1 CGATGCACCTTGATAGTGCAC
3020870 CGATGCACC
1 CGATGCACC
3020879 ATGTTATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (21 bp):
CGATGCACCTTGATAGTGCAC
Found at i:3021226 original size:32 final size:33
Alignment explanation
Indices: 3021159--3021228 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
3021149 TTTGTGAAAG
* * *
3021159 GGGAAATGTTCTAGCTTATCCCGTGAAAAAGCTA
1 GGGAAAAGTTCTAGCTTAGCCCG-GAAAAAACTA
*
3021193 GGGAAAAGTTCTAGTTTAGCCC-GAAAAAACTA
1 GGGAAAAGTTCTAGCTTAGCCCGGAAAAAACTA
3021225 GGGA
1 GGGA
3021229 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 13 0.41
34 19 0.59
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (33 bp):
GGGAAAAGTTCTAGCTTAGCCCGGAAAAAACTA
Found at i:3024268 original size:20 final size:20
Alignment explanation
Indices: 3024217--3024269 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3024207 AATGCAATTA
* *
3024217 GTGCATCGAAGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
*
3024237 ATGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
3024257 GTGCATCCATGCA
1 GTGCATCGATGCA
3024270 CCAAGACTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:3028560 original size:15 final size:16
Alignment explanation
Indices: 3028533--3028565 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3028523 TTATTTACTT
3028533 TTAAGTAAATAAATTA
1 TTAAGTAAATAAATTA
3028549 TTAAGT-AATAAATTA
1 TTAAGTAAATAAATTA
3028564 TT
1 TT
3028566 TTTTAAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
TTAAGTAAATAAATTA
Found at i:3035340 original size:21 final size:21
Alignment explanation
Indices: 3035298--3035341 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
3035288 ACCCCGGGAG
*
3035298 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* * *
3035319 CTAGTTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
3035340 CT
1 CT
3035342 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:3035655 original size:14 final size:14
Alignment explanation
Indices: 3035636--3035662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3035626 GTTTTGATGT
3035636 TTTTGGATTGTTTG
1 TTTTGGATTGTTTG
3035650 TTTTGGATTGTTT
1 TTTTGGATTGTTT
3035663 TTGTTATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.26, T:0.67
Consensus pattern (14 bp):
TTTTGGATTGTTTG
Found at i:3036053 original size:65 final size:65
Alignment explanation
Indices: 3035984--3036144 Score: 252
Period size: 65 Copynumber: 2.5 Consensus size: 65
3035974 AATTAAATTG
* * *
3035984 AACATCGAATGCATTTCATGCATCGATGCAC-ATACCATGCATCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGACCATGCATCGATGCACTCAGGATTTT-TCA
3036048 A
65 A
* *
3036049 AACATCGAATGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAGGCTTTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGACCATGCATCGATGCACTCAGGATTTTTCAA
*
3036114 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
3036145 TCTTAGTGCA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
65 63 0.71
66 26 0.29
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGACCATGCATCGATGCACTCAGGATTTTTCAA
Found at i:3038257 original size:15 final size:16
Alignment explanation
Indices: 3038230--3038262 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3038220 TTATTTACTT
3038230 TTAAGTAAATAAATTA
1 TTAAGTAAATAAATTA
3038246 TTAAGT-AATAAATTA
1 TTAAGTAAATAAATTA
3038261 TT
1 TT
3038263 TTTTAAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
TTAAGTAAATAAATTA
Found at i:3045328 original size:233 final size:233
Alignment explanation
Indices: 3044919--3045375 Score: 763
Period size: 233 Copynumber: 2.0 Consensus size: 233
3044909 CATTGTACTC
* *
3044919 TGGTACTCCGCTGAGACTCCTCCGATGATATTGTTATTCCATCGCACTTAACGTGACCTATAATC
1 TGGTACTCCGCTGAGACTCCTCCAATGATATCGTTATTCCATCGCACTTAACGTGACCTATAATC
* * *
3044984 TGTGAACGGAAACACATTCCGAACGCTGAGCTCACAAGCCCCGCACCATACGATACCTTTACTAT
66 TGTGAACGGAAACACATTCCGAACGCTGAACTCACAAGCCCCGCACCACACAATACCTTTACTAT
* * *
3045049 ACGACATGTACTCATAACATAAGCATACTAACTAGTATAGTCAAGGAAGCAATACTAACAATGTC
131 ACAACATGTACTCATAACATAAGCATACTAACTAGTATAATCAAGGAAGAAATACTAACAATGTC
3045114 ATAGATGGTACCTAGTCATCTATCTAAAACTATCAAAA
196 ATAGATGGTACCTAGTCATCTATCTAAAACTATCAAAA
* *
3045152 TGGTACTCCGCT-AGGACTCCTCCAATGATATCGTTATTCCATCGCACTTCATGTGACCTATAAT
1 TGGTACTCCGCTGA-GACTCCTCCAATGATATCGTTATTCCATCGCACTTAACGTGACCTATAAT
* * * *
3045216 CTGTGAACTGAAACACATTCCGAACGTTGAACTCACAAGCCCCTCACTACACAATACCTTTACTA
65 CTGTGAACGGAAACACATTCCGAACGCTGAACTCACAAGCCCCGCACCACACAATACCTTTACTA
3045281 TACAACATGTACTCATAACATAAGCATACTAACTAGTATAATCAAGGAAGAAATACTAACAATGT
130 TACAACATGTACTCATAACATAAGCATACTAACTAGTATAATCAAGGAAGAAATACTAACAATGT
*
3045346 CATCGATGGTACCTAGTCATCTATCTAAAA
195 CATAGATGGTACCTAGTCATCTATCTAAAA
3045376 GTATATCCAC
Statistics
Matches: 208, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
232 1 0.00
233 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (233 bp):
TGGTACTCCGCTGAGACTCCTCCAATGATATCGTTATTCCATCGCACTTAACGTGACCTATAATC
TGTGAACGGAAACACATTCCGAACGCTGAACTCACAAGCCCCGCACCACACAATACCTTTACTAT
ACAACATGTACTCATAACATAAGCATACTAACTAGTATAATCAAGGAAGAAATACTAACAATGTC
ATAGATGGTACCTAGTCATCTATCTAAAACTATCAAAA
Found at i:3048338 original size:32 final size:30
Alignment explanation
Indices: 3048265--3048388 Score: 142
Period size: 30 Copynumber: 4.0 Consensus size: 30
3048255 AGAGTCGAGG
* *
3048265 GTTACCTATGTCTTTCGAGACATATGAATA
1 GTTACCTATGTCCTTCGAGACATATGGATA
3048295 GTTTACCTATGTCCTTC-AGGACATATGGATA
1 G-TTACCTATGTCCTTCGA-GACATATGGATA
* * *
3048326 GGATTACCTATGTCCTTTGGGACATATGGACA
1 -G-TTACCTATGTCCTTCGAGACATATGGATA
* *
3048358 GTTACCTATGTTCTTCGAAACATATGGATA
1 GTTACCTATGTCCTTCGAGACATATGGATA
3048388 G
1 G
3048389 GTCATTCGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
30 27 0.34
31 26 0.33
32 26 0.33
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGAGACATATGGATA
Found at i:3048385 original size:62 final size:63
Alignment explanation
Indices: 3048266--3048389 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 63
3048256 GAGTCGAGGG
* *
3048266 TTACCTATGTCTTTCGAGACATATGAATAGTTTACCTATGTCCTTCAGGACATATGGATAGGA
1 TTACCTATGTCTTTCGAGACATATGAACAGTTTACCTATGTCCTTCAGAACATATGGATAGGA
* * *
3048329 TTACCTATGTCCTTT-GGGACATATGGACAG-TTACCTATGTTCTTC-GAAACATATGGATAGG
1 TTACCTATGT-CTTTCGAGACATATGAACAGTTTACCTATGTCCTTCAG-AACATATGGATAGG
3048390 TCATTCGGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 1 0.02
62 27 0.50
63 22 0.41
64 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (63 bp):
TTACCTATGTCTTTCGAGACATATGAACAGTTTACCTATGTCCTTCAGAACATATGGATAGGA
Found at i:3048410 original size:22 final size:22
Alignment explanation
Indices: 3048385--3048445 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
3048375 AAACATATGG
*
3048385 ATAGGTCATTCGGGACACATGC
1 ATAGGTCCTTCGGGACACATGC
*
3048407 ATAGGTCCTTCGAGACACATGC
1 ATAGGTCCTTCGGGACACATGC
3048429 ATAGGTCCTTCGGGACA
1 ATAGGTCCTTCGGGACA
3048446 TATTTCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (22 bp):
ATAGGTCCTTCGGGACACATGC
Found at i:3052797 original size:32 final size:31
Alignment explanation
Indices: 3052710--3052829 Score: 131
Period size: 31 Copynumber: 3.9 Consensus size: 31
3052700 GAGTCGAGGG
*
3052710 TTACCTATGTCTTTCGAGACATATGGACA-A
1 TTACCTATGTCTTTCGGGACATATGGACAGA
* *
3052740 TTTACCTATATCTTTCGGGATATATGGACAGGA
1 -TTACCTATGTCTTTCGGGACATATGGACA-GA
3052773 TTACCTATGTCCTTT-GGGACATATGGACAG-
1 TTACCTATGT-CTTTCGGGACATATGGACAGA
* *
3052803 TTACATATGT-TCTTCGGAACATATGGA
1 TTACCTATGTCT-TTCGGGACATATGGA
3052830 TAGGTCCTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
28 1 0.01
29 2 0.03
30 20 0.26
31 27 0.35
32 22 0.29
33 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:3052825 original size:30 final size:32
Alignment explanation
Indices: 3052710--3052829 Score: 88
Period size: 32 Copynumber: 3.8 Consensus size: 32
3052700 GAGTCGAGGG
* *
3052710 TTACCTATGTCTTTC-GAGACATATGGACA--A
1 TTACATATGTCCTTCGGA-ACATATGGACAGGA
* * * * *
3052740 TTTACCTATATCTTTCGGGATATATGGACAGGA
1 -TTACATATGTCCTTCGGAACATATGGACAGGA
* * *
3052773 TTACCTATGTCCTTTGGGACATATGGACA-G-
1 TTACATATGTCCTTCGGAACATATGGACAGGA
*
3052803 TTACATATGTTCTTCGGAACATATGGA
1 TTACATATGTCCTTCGGAACATATGGA
3052830 TAGGTCCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
30 23 0.31
31 25 0.33
32 26 0.35
33 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (32 bp):
TTACATATGTCCTTCGGAACATATGGACAGGA
Found at i:3052854 original size:22 final size:22
Alignment explanation
Indices: 3052814--3052867 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3052804 TACATATGTT
* * *
3052814 CTTCGGAACATATGGATAGGTC
1 CTTCGGGACACATGCATAGGTC
*
3052836 CTTCGGGACACATGCATAGTTC
1 CTTCGGGACACATGCATAGGTC
*
3052858 CTTCAGGACA
1 CTTCGGGACA
3052868 TATTTCACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
CTTCGGGACACATGCATAGGTC
Found at i:3055190 original size:22 final size:22
Alignment explanation
Indices: 3055151--3055192 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3055141 AGAAATCCTC
** *
3055151 TTAAATCAGTCATGTTTTTTCA
1 TTAAATCAACCATATTTTTTCA
3055173 TTAAATCAACCATATTTTTT
1 TTAAATCAACCATATTTTTT
3055193 TCTTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (22 bp):
TTAAATCAACCATATTTTTTCA
Found at i:3055240 original size:21 final size:21
Alignment explanation
Indices: 3055214--3055257 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3055204 AAATTACATT
3055214 CTTGGTCCTTCTACTTCCATC
1 CTTGGTCCTTCTACTTCCATC
3055235 CTTGGTCCTTCTACTTCCATC
1 CTTGGTCCTTCTACTTCCATC
3055256 CT
1 CT
3055258 AACCTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.09, T:0.43
Consensus pattern (21 bp):
CTTGGTCCTTCTACTTCCATC
Found at i:3064426 original size:30 final size:30
Alignment explanation
Indices: 3064358--3064427 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
3064348 TAGTCATCCA
* *
3064358 ATTTAGTCATTAACGTTAGACACTGTTTGT
1 ATTTAGTCACTAACATTAGACACTGTTTGT
*** *
3064388 ATTTTAGTCACTAACATTAGATTTTGTTTTT
1 A-TTTAGTCACTAACATTAGACACTGTTTGT
3064419 ATTTAGTCA
1 ATTTAGTCA
3064428 TTCACGATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTTAGTCACTAACATTAGACACTGTTTGT
Found at i:3071259 original size:26 final size:27
Alignment explanation
Indices: 3071207--3071266 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 27
3071197 TGAAAGTTGA
3071207 GTGTTCCTTACATGATTTTTGTATTTT
1 GTGTTCCTTACATGATTTTTGTATTTT
3071234 GTGTTCCTTACATGA-TTTTGTATTTT
1 GTGTTCCTTACATGATTTTTGTATTTT
*
3071260 GTATTCC
1 GTGTTCC
3071267 ATACCTAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (27 bp):
GTGTTCCTTACATGATTTTTGTATTTT
Found at i:3076370 original size:26 final size:26
Alignment explanation
Indices: 3076341--3076394 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
3076331 TATAAACAAT
* * *
3076341 TAATCAAATTAATTTCTCAAATCAGC
1 TAATCAAATCAATTGCTCAAACCAGC
*
3076367 TAATCAAATCAATTGGTCAAACCAGC
1 TAATCAAATCAATTGCTCAAACCAGC
3076393 TA
1 TA
3076395 CTGGAATAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (26 bp):
TAATCAAATCAATTGCTCAAACCAGC
Done.