Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008625.1 Hibiscus syriacus cultivar Beakdansim tig00111588_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: 166303
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
File 1 of 2
Found at i:2004 original size:18 final size:18
Alignment explanation
Indices: 1981--2015 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1971 TTCCATCCGG
*
1981 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1999 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2016 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:3130 original size:8 final size:8
Alignment explanation
Indices: 3114--3148 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
3104 GTCAACAGTA
3114 GTCAACGG
1 GTCAACGG
*
3122 GTTAACGG
1 GTCAACGG
3130 GTCAACGG
1 GTCAACGG
3138 GTCAACGG
1 GTCAACGG
3146 GTC
1 GTC
3149 GGGTCAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (8 bp):
GTCAACGG
Found at i:3180 original size:13 final size:13
Alignment explanation
Indices: 3164--3193 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
3154 AACGAGTCGA
3164 GTCGGGTAAACGG
1 GTCGGGTAAACGG
3177 GTC-GGTAAACGG
1 GTCGGGTAAACGG
3189 GTCGG
1 GTCGG
3194 TCGGGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.20, C:0.17, G:0.47, T:0.17
Consensus pattern (13 bp):
GTCGGGTAAACGG
Found at i:3185 original size:12 final size:12
Alignment explanation
Indices: 3168--3194 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3158 AGTCGAGTCG
3168 GGTAAACGGGTC
1 GGTAAACGGGTC
3180 GGTAAACGGGTC
1 GGTAAACGGGTC
3192 GGT
1 GGT
3195 CGGGTAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.44, T:0.19
Consensus pattern (12 bp):
GGTAAACGGGTC
Found at i:3197 original size:16 final size:17
Alignment explanation
Indices: 3145--3217 Score: 66
Period size: 18 Copynumber: 4.5 Consensus size: 17
3135 CGGGTCAACG
* *
3145 GGTCGGGTCAACGAGTC
1 GGTCGGGTAAACGGGTC
3162 GAGTCGGGTAAAC--G--
1 G-GTCGGGTAAACGGGTC
3176 GGTC-GGTAAACGGGTC
1 GGTCGGGTAAACGGGTC
*
3192 GGTCGGGTAAACGGGTTG
1 GGTCGGGTAAACGGG-TC
3210 GGTCGGGT
1 GGTCGGGT
3218 TGTGACCGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
12 7 0.15
13 3 0.06
14 2 0.04
16 5 0.11
17 11 0.23
18 19 0.40
ACGTcount: A:0.18, C:0.16, G:0.47, T:0.19
Consensus pattern (17 bp):
GGTCGGGTAAACGGGTC
Found at i:10175 original size:18 final size:17
Alignment explanation
Indices: 10154--10191 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10144 AATTATAAAG
*
10154 TTATCCTAATATATATAA
1 TTATACTAATAT-TATAA
10172 TTATACTAATATTATAA
1 TTATACTAATATTATAA
10189 TTA
1 TTA
10192 GTCTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATACTAATATTATAA
Found at i:11190 original size:19 final size:19
Alignment explanation
Indices: 11166--11211 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
11156 GGCGGAATAG
*
11166 CCCTAGTGTGTAATGAAAA
1 CCCTAGGGTGTAATGAAAA
11185 CCCTAGGGTGTAATGAAAA
1 CCCTAGGGTGTAATGAAAA
11204 CCCTAGGG
1 CCCTAGGG
11212 ATCCTGCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (19 bp):
CCCTAGGGTGTAATGAAAA
Found at i:12903 original size:22 final size:22
Alignment explanation
Indices: 12878--12926 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
12868 ATATCATATC
12878 AATGTCCATTTGTTTATTTTCT
1 AATGTCCATTTGTTTATTTTCT
12900 AATGTCCATTTGTTTATTTTCT
1 AATGTCCATTTGTTTATTTTCT
12922 AATGT
1 AATGT
12927 ATTCATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (22 bp):
AATGTCCATTTGTTTATTTTCT
Found at i:15508 original size:29 final size:29
Alignment explanation
Indices: 15474--15532 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
15464 CTTAAATTAA
15474 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
15503 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
15532 T
1 T
15533 AGGTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:20135 original size:29 final size:29
Alignment explanation
Indices: 20101--20159 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
20091 CCTAAATTAA
* *
20101 TTTGATGTTATTGCTTACATCAATTTAGT
1 TTTGATGTCATTACTTACATCAATTTAGT
20130 TTTGATGTCATTACTTACATCAATTTAGT
1 TTTGATGTCATTACTTACATCAATTTAGT
20159 T
1 T
20160 AGGTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTACTTACATCAATTTAGT
Found at i:21373 original size:23 final size:23
Alignment explanation
Indices: 21324--21411 Score: 160
Period size: 23 Copynumber: 3.9 Consensus size: 23
21314 TTACCAAATT
21324 TTCTCCCTTCATTTTCTCT-TTC
1 TTCTCCCTTCATTTTCTCTCTTC
21346 TTCTCCCTTCATTTTCTCTCTTC
1 TTCTCCCTTCATTTTCTCTCTTC
*
21369 TTCTCCCTTTATTTTCTCTCTTC
1 TTCTCCCTTCATTTTCTCTCTTC
21392 TTCTCCCTTCATTTTCTCTC
1 TTCTCCCTTCATTTTCTCTC
21412 CAAGAGTCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
22 19 0.30
23 44 0.70
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.58
Consensus pattern (23 bp):
TTCTCCCTTCATTTTCTCTCTTC
Found at i:28823 original size:2 final size:2
Alignment explanation
Indices: 28810--28842 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
28800 AATAAATCAA
*
28810 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28843 ATTCACTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:31590 original size:8 final size:8
Alignment explanation
Indices: 31577--31615 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
31567 GCATAGGCCA
31577 TAATTCAC
1 TAATTCAC
31585 TAATTCAC
1 TAATTCAC
31593 TAATTCAC
1 TAATTCAC
31601 TAATTCAC
1 TAATTCAC
31609 TAATTCA
1 TAATTCA
31616 ATCATAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATTCAC
Found at i:34111 original size:2 final size:2
Alignment explanation
Indices: 34104--34130 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34094 CTCATCATTG
34104 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
34131 CAGGTTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:45337 original size:64 final size:64
Alignment explanation
Indices: 45269--45442 Score: 185
Period size: 64 Copynumber: 2.7 Consensus size: 64
45259 TTGTTTGAAT
* * ** *
45269 GTGCACCGATGCATTGGTAGTGCATCGATACA-CTCTTTTAA-AATAAAGACTTCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATACATC-CCATTAATAATAAA-ACATCGAATGCAA-T
45332 C-
63 CG
* * *
45333 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATACATCCCATTAATAATAAAACATCGAATGCAATCG
* **
45397 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATACATCCCATTAATAATA
45443 CTAAATCGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 84 0.89
65 8 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATACATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:45453 original size:64 final size:64
Alignment explanation
Indices: 45320--45441 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
45310 AATAAAGACT
* **
45320 TCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACA
1 TCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATGAAACA
45384 TCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT
1 TCGAATGCAATTC-GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT
45442 ACTAAATCGA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.04
64 52 0.96
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (64 bp):
TCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATGAAACA
Found at i:46224 original size:31 final size:31
Alignment explanation
Indices: 46003--46216 Score: 365
Period size: 31 Copynumber: 6.9 Consensus size: 31
45993 AGAGTTGAGG
46003 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46034 GTTTGCATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46065 GTTTACATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46096 GTTTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
46127 GTTTATATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
46158 GTTTATATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
46189 GTTTACATATGTTTAAAGGCACATATGA
1 GTTTACATATGTTTAAAGGCACATATGA
46217 GTAGTTTATA
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 173 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:49420 original size:64 final size:63
Alignment explanation
Indices: 49352--49525 Score: 192
Period size: 64 Copynumber: 2.7 Consensus size: 63
49342 TTGTTTGAAT
* * ** *
49352 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACTTCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
49415 C
63 C
* *
49416 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATC
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATC
* **
49479 GATGCATCGATGCATAAGG-AGTGCATCGATGTATCCCAGCAATAATA
1 G-TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATA
49526 CTAAATCGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 3 0.03
64 83 0.88
65 8 0.09
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATC
Found at i:50110 original size:16 final size:16
Alignment explanation
Indices: 50089--50142 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
50079 TCGAGGGTTT
50089 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
50105 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
50120 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
50136 ACATATG
1 ACATATG
50143 AACAATTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:50123 original size:31 final size:31
Alignment explanation
Indices: 50085--50242 Score: 275
Period size: 31 Copynumber: 5.2 Consensus size: 31
50075 AGAGTCGAGG
50085 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
50116 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
50147 ATTTACATATGTTTAAAGG--CATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
50176 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
50207 GTTTACATATGTTTAAAGGCACATATGAGCA
1 GTTTACATATGTTTAAAGGCACATATGAACA
50238 GTTTA
1 GTTTA
50243 TATTGTGACC
Statistics
Matches: 120, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
29 27 0.22
31 93 0.77
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:50186 original size:60 final size:60
Alignment explanation
Indices: 50086--50227 Score: 248
Period size: 60 Copynumber: 2.3 Consensus size: 60
50076 GAGTCGAGGG
*
50086 TTTACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACAA
1 TTTACATATGTTTAAAGG--CATATAAACAGTTTACATATGTTTAAAGGCACATATGAACAA
*
50148 TTTACATATGTTTAAAGGCATATAAACAGTTTACATATGTTTAAAGGCACATATGAACAG
1 TTTACATATGTTTAAAGGCATATAAACAGTTTACATATGTTTAAAGGCACATATGAACAA
50208 TTTACATATGTTTAAAGGCA
1 TTTACATATGTTTAAAGGCA
50228 CATATGAGCA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
60 60 0.77
62 18 0.23
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (60 bp):
TTTACATATGTTTAAAGGCATATAAACAGTTTACATATGTTTAAAGGCACATATGAACAA
Found at i:50201 original size:16 final size:16
Alignment explanation
Indices: 50180--50233 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
50170 TAAACAGTTT
50180 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
50196 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
50211 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
50227 ACATATG
1 ACATATG
50234 AGCAGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:51513 original size:138 final size:137
Alignment explanation
Indices: 51265--51540 Score: 543
Period size: 138 Copynumber: 2.0 Consensus size: 137
51255 GCACCAAATC
51265 AGTTGGAAGTCCACCTTACAGTCAACAGTGGCTTTGTCTACTACAGAGGCAGAGTATATGGCAGT
1 AGTTGGAAGTCCACCTTACAGTCAACAGTGGCTTTGTCTACTACAGAGGCAGAGTATATGGCAGT
51330 TACAGAGGCTGTGAAGGAGGCAATTTGGCTTCAAGGGTTGTTTGGTGAATTGGGAATGGAACACA
66 TACAGAGGCTGTGAAGGAGGCAATTTGGCTTCAAGGGTTGTTTGGTGAATTGGGAATGGAACA-A
51395 AAGCACAT
130 AAGCACAT
51403 AGTTGGAAGTCCACCTTACAGTCAACAGTGGCTTTGTCTACTACAGAGGCAGAGTATATGGCAGT
1 AGTTGGAAGTCCACCTTACAGTCAACAGTGGCTTTGTCTACTACAGAGGCAGAGTATATGGCAGT
51468 TACAGAGGCTGTGAAGGAGGCAATTTGGCTTCAAGGGTTGTTTGGTGAATTGGGAATGGAACAAA
66 TACAGAGGCTGTGAAGGAGGCAATTTGGCTTCAAGGGTTGTTTGGTGAATTGGGAATGGAACAAA
51533 AGCACAT
131 AGCACAT
51540 A
1 A
51541 AAGGGAATGG
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 10 0.07
138 128 0.93
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (137 bp):
AGTTGGAAGTCCACCTTACAGTCAACAGTGGCTTTGTCTACTACAGAGGCAGAGTATATGGCAGT
TACAGAGGCTGTGAAGGAGGCAATTTGGCTTCAAGGGTTGTTTGGTGAATTGGGAATGGAACAAA
AGCACAT
Found at i:51551 original size:24 final size:24
Alignment explanation
Indices: 51519--51566 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
51509 TTGGTGAATT
51519 GGGAATGGAACAAAAGCACATAAA
1 GGGAATGGAACAAAAGCACATAAA
51543 GGGAATGGAACAAAAGCACATAAA
1 GGGAATGGAACAAAAGCACATAAA
51567 AGTGCACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.25, T:0.08
Consensus pattern (24 bp):
GGGAATGGAACAAAAGCACATAAA
Found at i:60282 original size:51 final size:50
Alignment explanation
Indices: 60206--60333 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 50
60196 TTAGCAGTAA
* ** *
60206 AGCGCGCCCTCTGCACCGCGCTATACGATGATTTAGTGACACGTGAGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGACACGTG-GGTAT
* * *
60257 AGCGCGCCCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGACACGTGGGTAT
* * * *
60307 AGCACGGCCCCTGCAGCACGCTATACG
1 AGCGCGCCCCCTGCACCGCGCTATACG
60334 CCACGTAGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 28 0.42
51 38 0.58
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.18
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGACACGTGGGTAT
Found at i:66386 original size:16 final size:15
Alignment explanation
Indices: 66367--66413 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
66357 GAATTATATT
66367 AGTAAAATATTAATAA
1 AGTAAAATATT-ATAA
66383 AGTAAAA-A-TATAA
1 AGTAAAATATTATAA
66396 TAGTAAAAATATTATAA
1 -AGT-AAAATATTATAA
66413 A
1 A
66414 ATATACCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.15
14 4 0.15
15 5 0.19
16 9 0.33
17 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AGTAAAATATTATAA
Found at i:66390 original size:17 final size:17
Alignment explanation
Indices: 66370--66413 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 17
66360 TTATATTAGT
66370 AAAATATTAATAAAGTA
1 AAAATATTAATAAAGTA
66387 AAAATA-TAAT--AGTA
1 AAAATATTAATAAAGTA
66401 AAAATATT-ATAAA
1 AAAATATTAATAAA
66414 ATATACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 12 0.50
15 1 0.04
16 5 0.21
17 6 0.25
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAATATTAATAAAGTA
Found at i:66402 original size:14 final size:14
Alignment explanation
Indices: 66361--66407 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
66351 GCAAAAGAAT
*
66361 TATATTAGT-AAAA
1 TATAATAGTAAAAA
66374 TATTAATAAAGTAAAAA
1 TA-TAAT--AGTAAAAA
66391 TATAATAGTAAAAA
1 TATAATAGTAAAAA
66405 TAT
1 TAT
66408 TATAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 2 0.07
14 14 0.48
16 7 0.24
17 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
TATAATAGTAAAAA
Found at i:66442 original size:12 final size:10
Alignment explanation
Indices: 66428--66468 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
66418 ACCTTAAAAA
*
66428 GAGAGTATTT
1 GAGAGAATTT
66438 GAGAGAAATTT
1 GAGAG-AATTT
66449 -AGAGAATTT
1 GAGAGAATTT
66458 GAGAGAATTT
1 GAGAGAATTT
66468 G
1 G
66469 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:66647 original size:51 final size:50
Alignment explanation
Indices: 66548--66654 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 50
66538 CCCCCAGCAC
* *
66548 CGCGCTATACCCCACGTGTCAGATATACATGTATAGCGCGGTGCAGGGGG
1 CGCGCTATACCCCACGTGGCAGAAATACATGTATAGCGCGGTGCAGGGGG
*
66598 CGCGCTATACCCCACGTGGC-GCCAAAT-CATCGTATAGCGCGGTGTAGGGGG
1 CGCGCTATACCCCACGTGGCAG--AAATACAT-GTATAGCGCGGTGCAGGGGG
66649 CGCGCT
1 CGCGCT
66655 TTACTGCTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
49 1 0.02
50 22 0.43
51 28 0.55
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.19
Consensus pattern (50 bp):
CGCGCTATACCCCACGTGGCAGAAATACATGTATAGCGCGGTGCAGGGGG
Found at i:67496 original size:18 final size:19
Alignment explanation
Indices: 67470--67521 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
67460 ACATTCTTAG
*
67470 TAATTTTATTTTCGTC-AA
1 TAATCTTATTTTCGTCTAA
* *
67488 TAATCTTA-TTTCCTCTGA
1 TAATCTTATTTTCGTCTAA
67506 TAATCTTATATTTCGT
1 TAATCTTAT-TTTCGT
67522 GAGCCAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
20 5 0.19
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (19 bp):
TAATCTTATTTTCGTCTAA
Found at i:71678 original size:26 final size:27
Alignment explanation
Indices: 71608--71694 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 27
71598 TAAGCACTTG
* *
71608 AAGTATTTTT-ATCAAAATAAGTATCTA
1 AAGT-TTTTTGATCAAAATAAATACCTA
*
71635 AAGTTATTTTTTGATCAAAATAAATACGTA
1 AAG---TTTTTTGATCAAAATAAATACCTA
*
71665 AAGTTTTTTG-TCAAAATATATACCTA
1 AAGTTTTTTGATCAAAATAAATACCTA
71691 AAGT
1 AAGT
71695 ATTCAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 18 0.35
27 10 0.20
29 5 0.10
30 18 0.35
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (27 bp):
AAGTTTTTTGATCAAAATAAATACCTA
Found at i:74809 original size:11 final size:11
Alignment explanation
Indices: 74795--74820 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
74785 AAGAGTAGAT
74795 AATTATTTTAA
1 AATTATTTTAA
74806 AATTATTTTAA
1 AATTATTTTAA
74817 AATT
1 AATT
74821 GATAAATATG
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTATTTTAA
Found at i:76929 original size:22 final size:22
Alignment explanation
Indices: 76894--76942 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
76884 CCACTATGTT
*
76894 CCGAAAGACCACTGTATATATC
1 CCGAAAGACAACTGTATATATC
* *
76916 CCGAAGGACAACTGTATATGTC
1 CCGAAAGACAACTGTATATATC
76938 CCGAA
1 CCGAA
76943 TGACCGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (22 bp):
CCGAAAGACAACTGTATATATC
Found at i:79784 original size:16 final size:16
Alignment explanation
Indices: 79763--79793 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
79753 CATATTCTAT
79763 ATTTATAACAAAACAA
1 ATTTATAACAAAACAA
79779 ATTTATAACAAAACA
1 ATTTATAACAAAACA
79794 TTTTTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTTATAACAAAACAA
Found at i:81242 original size:21 final size:21
Alignment explanation
Indices: 81216--81260 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
81206 GATTTCTGGG
* *
81216 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
81237 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
81258 CAA
1 CAA
81261 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:82608 original size:32 final size:31
Alignment explanation
Indices: 82566--82693 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
82556 AGAGTCGAGG
82566 GTTTACCTATGTTCTATGGAACATATGGACA
1 GTTTACCTATGTTCTATGGAACATATGGACA
* *
82597 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTATGGA-ACATATGGACA
* *
82629 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTATGGAACATATGGACA
* * *
82660 GTTTACCTAGGTTCT-TCGGGACCTATGGACA
1 GTTTACCTATGTTCTAT-GGAACATATGGACA
82691 GTT
1 GTT
82694 ACCGAGGATC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
31 55 0.67
32 27 0.33
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTATGGAACATATGGACA
Found at i:83563 original size:15 final size:15
Alignment explanation
Indices: 83540--83569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83530 TATTAAGTCA
83540 TTTAGAATTTAAATT
1 TTTAGAATTTAAATT
*
83555 TTTATAATTTAAATT
1 TTTAGAATTTAAATT
83570 AATGATGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTTAGAATTTAAATT
Found at i:85613 original size:19 final size:19
Alignment explanation
Indices: 85591--85638 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
85581 ACTGTAGACT
85591 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
85610 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
85629 ATCGCAACGA
1 ATCGCAACGA
85639 CAACTGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:85657 original size:22 final size:19
Alignment explanation
Indices: 85583--85659 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
85573 CAACAACAAC
85583 TGTAGACTATCGCAACGAA
1 TGTAGACTATCGCAACGAA
* * **
85602 TTTGGAAAATCGCAACGAA
1 TGTAGACTATCGCAACGAA
* * **
85621 TTTGGAAAATCGCAACGACAA
1 TGTAGACTATCGCAACG--AA
85642 CTGTAGACTATCGCAACG
1 -TGTAGACTATCGCAACG
85660 CGAAATGGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 32 0.68
21 2 0.04
22 13 0.28
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
TGTAGACTATCGCAACGAA
Found at i:85674 original size:42 final size:41
Alignment explanation
Indices: 85623--85707 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 41
85613 GCAACGAATT
85623 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAA
* * *
85665 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
85706 TG
1 TG
85708 CAACGCGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 23 0.59
42 16 0.41
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
Found at i:85711 original size:21 final size:21
Alignment explanation
Indices: 85648--85711 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
85638 ACAACTGTAG
*
85648 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
85669 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
85689 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
85710 AC
1 AC
85712 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:86931 original size:2 final size:2
Alignment explanation
Indices: 86924--86967 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
86914 CCGACCCAAT
86924 TA TA TA TA TA TA TA -A TA TA TA -A TA TA TA TA TA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86962 TA TA TA
1 TA TA TA
86968 ATGCAAACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:86952 original size:22 final size:23
Alignment explanation
Indices: 86924--86969 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
86914 CCGACCCAAT
86924 TATATATATATATAA-TATATAA
1 TATATATATATATAATTATATAA
86946 TATATATATATATAATTATATAA
1 TATATATATATATAATTATATAA
86969 T
1 T
86970 GCAAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATATATAATTATATAA
Found at i:88366 original size:24 final size:24
Alignment explanation
Indices: 88326--88411 Score: 97
Period size: 24 Copynumber: 3.6 Consensus size: 24
88316 CATAGGTCTC
* *
88326 GTTCGTTCAT-TTACGTTCGTGAAT
1 GTTCGTTTATGTT-CGTTCGTGTAT
*
88350 GTTCGGTTATGTTCGTTCGAT-TAT
1 GTTCGTTTATGTTCGTTCG-TGTAT
88374 GTTCGTTTATGTTCGTTCG-GTTAT
1 GTTCGTTTATGTTCGTTCGTG-TAT
88398 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
88412 ATTCATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
24 51 0.94
25 3 0.06
ACGTcount: A:0.12, C:0.14, G:0.23, T:0.51
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGTGTAT
Found at i:88373 original size:14 final size:14
Alignment explanation
Indices: 88350--88404 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
88340 GTTCGTGAAT
88350 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
*
88364 GTTCGATTATGTTC
1 GTTCGGTTATGTTC
88378 G-T---TTATGTTC
1 GTTCGGTTATGTTC
88388 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
88402 GTT
1 GTT
88405 TATGTTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.09, C:0.13, G:0.25, T:0.53
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:88421 original size:24 final size:23
Alignment explanation
Indices: 88348--88424 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 23
88338 ACGTTCGTGA
*
88348 ATGTTCGGTTATGTTCGTTCGATT
1 ATGTTCGTTTATGTTCGTTC-ATT
*
88372 ATGTTCGTTTATGTTCGTTCGGTT
1 ATGTTCGTTTATGTTCGTTC-ATT
*
88396 ATGTTCGTTTATGTTCATTCATTT
1 ATGTTCGTTTATGTTCGTTCA-TT
88420 ATGTT
1 ATGTT
88425 TAATCCAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.13, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
ATGTTCGTTTATGTTCGTTCATT
Found at i:89357 original size:16 final size:16
Alignment explanation
Indices: 89336--89402 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
89326 GTCTCTAACG
89336 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
89352 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
89368 TTTATGTTCGTATTCG
1 TTTATGTTCGTGTTCA
89384 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
89398 TTTAT
1 TTTAT
89403 TAAATGAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 41 0.85
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:89375 original size:32 final size:32
Alignment explanation
Indices: 89334--89394 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
89324 GGGTCTCTAA
*
89334 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTATTCATTTATGTTCGTGTT
*
89366 CGTTTATGTTCGTATTCGTTTATGTTCGT
1 CGTTTATGTTCGTATTCATTTATGTTCGT
89395 TTATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTATTCATTTATGTTCGTGTT
Found at i:89792 original size:13 final size:13
Alignment explanation
Indices: 89774--89800 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89764 TGTCATCACC
89774 AATCAACCAACAA
1 AATCAACCAACAA
89787 AATCAACCAACAA
1 AATCAACCAACAA
89800 A
1 A
89801 TGCTCTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (13 bp):
AATCAACCAACAA
Found at i:90716 original size:41 final size:41
Alignment explanation
Indices: 90670--90762 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 41
90660 AAAAATTGGT
* *
90670 TTTTGAAAAAATATATATATAATATTTAGTTTTTGAAAACA
1 TTTTGAAAAAATATATATATAATATATAGTTCTTGAAAACA
*
90711 TTTTGAATATATATATATATATAATATATAGTTCTTGAAAACA
1 TTTTGAA-A-AAATATATATATAATATATAGTTCTTGAAAACA
90754 TTTTGAAAA
1 TTTTGAAAA
90763 CTTATATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
41 8 0.17
42 2 0.04
43 37 0.79
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (41 bp):
TTTTGAAAAAATATATATATAATATATAGTTCTTGAAAACA
Found at i:90724 original size:37 final size:37
Alignment explanation
Indices: 90682--90854 Score: 163
Period size: 37 Copynumber: 4.5 Consensus size: 37
90672 TTGAAAAAAT
*
90682 ATATATATAATATTTAGTTTTTGAAAACATTTTGAATATATA
1 ATATATATAATATATAGTTTTTGAAAACATTTTG---A-A-A
*
90724 TATATATATAATATATAGTTCTTGAAAACATTTTGAAA
1 -ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
* **
90762 ACT-TATATAATATATAATTTTAAAAAAAACATTTTGAAA
1 A-TATATATAATATATAGTTTT--TGAAAACATTTTGAAA
* *
90801 A-CT-TATAATATATAGTTTTTGAAAATATTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACA-TTTTGAAA
*
90837 ACATATATAATATATAGT
1 ATATATATAATATATAGT
90855 GTTAAAAATG
Statistics
Matches: 112, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
35 5 0.04
36 9 0.08
37 33 0.29
38 16 0.14
39 16 0.14
40 1 0.01
43 32 0.29
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:90743 original size:43 final size:43
Alignment explanation
Indices: 90680--90779 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
90670 TTTTGAAAAA
* * *
90680 ATATATATATAATATTTAGTTTTTGAAAACATTTTGAATA-TAT
1 ATATATATATAATATATAGTTCTTGAAAACATTTTGAAAACT-T
90723 ATATATATATAATATATAGTTCTTGAAAACATTTTGAAAACTT
1 ATATATATATAATATATAGTTCTTGAAAACATTTTGAAAACTT
90766 ATATAATATATAAT
1 ATAT-ATATATAAT
90780 TTTAAAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 42 0.81
44 10 0.19
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (43 bp):
ATATATATATAATATATAGTTCTTGAAAACATTTTGAAAACTT
Found at i:91053 original size:12 final size:12
Alignment explanation
Indices: 91036--91093 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
91026 TAATATATAG
91036 TTTTTGAAAATA
1 TTTTTGAAAATA
91048 TTTTTG-AAA-A
1 TTTTTGAAAATA
* *
91058 CTTAT-AATATATA
1 TTTTTGAA-A-ATA
91071 GTTTTTGAAAATA
1 -TTTTTGAAAATA
91084 TTTTTGAAAA
1 TTTTTGAAAA
91094 CATATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 17 0.47
13 4 0.11
14 4 0.11
15 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (12 bp):
TTTTTGAAAATA
Found at i:91070 original size:38 final size:36
Alignment explanation
Indices: 90964--91110 Score: 197
Period size: 36 Copynumber: 4.0 Consensus size: 36
90954 TGCAATCCAA
* *
90964 TTTGAAAACA-TTTTGAAAACTTATATAATATATATTT
1 TTTGAAAATATTTTTGAAAAC-T-TATAATATATAGTT
* * *
91001 TTTAAAAAAACATTTTGAAAACTTATAATATATAGTT
1 TTTGAAAATA-TTTTTGAAAACTTATAATATATAGTT
91038 TTTGAAAATATTTTTGAAAACTTATAATATATAGTT
1 TTTGAAAATATTTTTGAAAACTTATAATATATAGTT
91074 TTTGAAAATATTTTTGAAAACATATATAATATATAGT
1 TTTGAAAATATTTTTGAAAAC-T-TATAATATATAGT
91111 GTTAAAAATA
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
36 46 0.46
37 30 0.30
38 14 0.14
39 10 0.10
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTGAAAATATTTTTGAAAACTTATAATATATAGTT
Found at i:91072 original size:256 final size:265
Alignment explanation
Indices: 90748--91232 Score: 808
Period size: 256 Copynumber: 1.9 Consensus size: 265
90738 ATAGTTCTTG
90748 AAAACATTTTGAAAACTTATATAATATATAATTTTAAAAAAAACATTTTGAAAACTTATAATATA
1 AAAACATTTTGAAAACTTATATAATATATAATTTTAAAAAAAACATTTTGAAAACTTATAATATA
*
90813 TAGTTTTTGAAAATATTTTTGAAAACATATATAATATATAGTGTTAAAAATGATTTTTTATATAT
66 TAGTTTTTGAAAATATTTTTGAAAACATATATAATATATAGTGTTAAAAATAATTTTTTATATAT
90878 TATATTAATATTAATA-T-TTTA-TT-TTTA-T-TTATTATTTATTATTCATTTTTTCGTTTTAG
131 TATATTAATATTAATATTATTTATTTATTTATTATTATTATTTATTATTCATTTTTTCGTTTTAG
90937 GTCCAATATGAGTCCAATGCAATCCAATTTGAAAACATTTTGAAAACTTATATAATATATATTTT
196 GTCCAATATGAGTCCAATGCAATCCAATTTGAAAACATTTTGAAAACTTATATAATATATATTTT
91002 TTAAA
261 TTAAA
* ** * *
91007 AAAACATTTTGAAAAC-T-TATAATATATAGTTTTTGAAAATA-TTTTTGAAAACTTATAATATA
1 AAAACATTTTGAAAACTTATATAATATATAATTTTAAAAAAAACATTTTGAAAACTTATAATATA
91069 TAGTTTTTGAAAATATTTTTGAAAACATATATAATATATAGTGTTAAAAATAATTTTTTATATAT
66 TAGTTTTTGAAAATATTTTTGAAAACATATATAATATATAGTGTTAAAAATAATTTTTTATATAT
*
91134 TATATTAATATTAATATTTTATTTATTTATTTATTTATTATTATTTATTATTCTTTTTTTCGTTT
131 TATATTAATATTAATA--TTATTTATTTATTTA-TTATTATTATTTATTATTCATTTTTTCGTTT
*
91199 TAGGTCCAATATGAGTCCAGTGCAATCCAATTTG
193 TAGGTCCAATATGAGTCCAATGCAATCCAATTTG
91233 GAGGAAAATA
Statistics
Matches: 209, Mismatches: 8, Indels: 12
0.91 0.03 0.05
Matches are distributed among these distances:
256 100 0.48
257 20 0.10
258 1 0.00
259 17 0.08
260 4 0.02
261 2 0.01
262 4 0.02
264 1 0.00
265 60 0.29
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (265 bp):
AAAACATTTTGAAAACTTATATAATATATAATTTTAAAAAAAACATTTTGAAAACTTATAATATA
TAGTTTTTGAAAATATTTTTGAAAACATATATAATATATAGTGTTAAAAATAATTTTTTATATAT
TATATTAATATTAATATTATTTATTTATTTATTATTATTATTTATTATTCATTTTTTCGTTTTAG
GTCCAATATGAGTCCAATGCAATCCAATTTGAAAACATTTTGAAAACTTATATAATATATATTTT
TTAAA
Found at i:91125 original size:38 final size:36
Alignment explanation
Indices: 90974--91126 Score: 191
Period size: 36 Copynumber: 4.1 Consensus size: 36
90964 TTTGAAAACA
* * *
90974 TTTTGAAAACTTATATAATATATATTTTTTAAAAAAACA
1 TTTTGAAAAC-T-TATAATATATAGTTTTTAAAAATA-T
*
91013 TTTTGAAAACTTATAATATATAGTTTTTGAAAATAT
1 TTTTGAAAACTTATAATATATAGTTTTTAAAAATAT
*
91049 TTTTGAAAACTTATAATATATAGTTTTTGAAAATAT
1 TTTTGAAAACTTATAATATATAGTTTTTAAAAATAT
*
91085 TTTTGAAAACATATATAATATATAG-TGTTAAAAATAAT
1 TTTTGAAAAC-T-TATAATATATAGTTTTTAAAAAT-AT
91123 TTTT
1 TTTT
91127 TATATATTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
36 46 0.44
37 30 0.29
38 19 0.18
39 10 0.10
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAACTTATAATATATAGTTTTTAAAAATAT
Found at i:91141 original size:26 final size:25
Alignment explanation
Indices: 91112--91164 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
91102 ATATATAGTG
*
91112 TTAAAAATAATTTTTTATATATTATA
1 TTAAAAATAATATTTTATATATT-TA
* * *
91138 TTAATATTAATATTTTATTTATTTA
1 TTAAAAATAATATTTTATATATTTA
91163 TT
1 TT
91165 TATTTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAAAATAATATTTTATATATTTA
Found at i:91160 original size:4 final size:4
Alignment explanation
Indices: 91151--91182 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
91141 ATATTAATAT
91151 TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
91183 ATTCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:92414 original size:41 final size:44
Alignment explanation
Indices: 92366--92448 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
92356 ATATATATAT
92366 ATTTTA-TTTT-TTTCTCTCTT-TTT-ATTTATTTAATATTTTTC
1 ATTTTATTTTTCTTTCT-TCTTCTTTGATTTATTTAATATTTTTC
*
92407 ATTTTATTTTTCTTTCTTTTTCCTTTGATTTATTTAATATTT
1 ATTTTATTTTTCTTTCTTCTT-CTTTGATTTATTTAATATTT
92449 GTTTATTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 6 0.17
42 7 0.19
43 5 0.14
44 3 0.08
45 15 0.42
ACGTcount: A:0.17, C:0.10, G:0.01, T:0.72
Consensus pattern (44 bp):
ATTTTATTTTTCTTTCTTCTTCTTTGATTTATTTAATATTTTTC
Found at i:99280 original size:23 final size:22
Alignment explanation
Indices: 99225--99285 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 22
99215 CACATGTATA
*
99225 TATATATATATTAAAATAAATT
1 TATATATATATTAAATTAAATT
*
99247 TA-ATA-A-A-TAAATTATATT
1 TATATATATATTAAATTAAATT
99265 TCATATATATATTAAATTAAA
1 T-ATATATATATTAAATTAAA
99286 GTTAATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
18 10 0.32
19 2 0.06
20 4 0.13
21 4 0.13
22 3 0.10
23 8 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATATATATTAAATTAAATT
Found at i:99408 original size:16 final size:17
Alignment explanation
Indices: 99377--99409 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99367 CTCTAAATAA
*
99377 TTTTAATATAGTTTTAT
1 TTTTAATATAGATTTAT
99394 TTTTAATATA-ATTTAT
1 TTTTAATATAGATTTAT
99410 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTAATATAGATTTAT
Found at i:100512 original size:19 final size:19
Alignment explanation
Indices: 100488--100529 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
100478 CTTGTTGTCA
100488 ATTTTCTCTT-AGTGTTTGC
1 ATTTTCTCTTCA-TGTTTGC
*
100507 ATTTTCTTTTCATGTTTGC
1 ATTTTCTCTTCATGTTTGC
100526 ATTT
1 ATTT
100530 ATTTTGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.62
Consensus pattern (19 bp):
ATTTTCTCTTCATGTTTGC
Found at i:102331 original size:118 final size:119
Alignment explanation
Indices: 102182--102419 Score: 451
Period size: 119 Copynumber: 2.0 Consensus size: 119
102172 ACTAGTATAT
*
102182 TATGCGGAGTATTGGTTGATCATGTTGCTTGACCCTTGACTTTTTTTAGTATGCTGATG-TTTTT
1 TATGCGGAGTATTGGTTGATCATGTTGCTTGACCCATGACTTTTTTTAGTATGCTGATGTTTTTT
102246 TGTAGATTTTTTGTTGATCTTTTCATAGATTATAAATATATTTCATGCTCTAAA
66 TGTAGATTTTTTGTTGATCTTTTCATAGATTATAAATATATTTCATGCTCTAAA
*
102300 TATGCGGAGTATTGGTTGATCATGTTGCTTGACCCATGACTTTTTTTAGTATGGTGATGTTTTTT
1 TATGCGGAGTATTGGTTGATCATGTTGCTTGACCCATGACTTTTTTTAGTATGCTGATGTTTTTT
102365 TGTAGATTTTTTGTTGATCTTTTCATAGATTATAAATATATTTCATGCTCTAAA
66 TGTAGATTTTTTGTTGATCTTTTCATAGATTATAAATATATTTCATGCTCTAAA
102419 T
1 T
102420 TATATGCTAA
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
118 57 0.49
119 60 0.51
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.49
Consensus pattern (119 bp):
TATGCGGAGTATTGGTTGATCATGTTGCTTGACCCATGACTTTTTTTAGTATGCTGATGTTTTTT
TGTAGATTTTTTGTTGATCTTTTCATAGATTATAAATATATTTCATGCTCTAAA
Found at i:102824 original size:19 final size:20
Alignment explanation
Indices: 102796--102838 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
102786 CTTGTGTTCT
*
102796 ATTTTCCTCTTAGTGTTTGC
1 ATTTTCCTCTTAATGTTTGC
102816 ATTTT-CTCTTAATGTTTGC
1 ATTTTCCTCTTAATGTTTGC
102835 ATTT
1 ATTT
102839 ATTCTGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (20 bp):
ATTTTCCTCTTAATGTTTGC
Found at i:104690 original size:54 final size:54
Alignment explanation
Indices: 104608--104717 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
104598 TATCTATACC
*
104608 ATATGAATGAGTATCGATACCATAAGGCAGAAAGCTGTAAATTGTTCATGGGGT
1 ATATGAATGAGTATCGATACCATAAGGCAGAAAGCTATAAATTGTTCATGGGGT
*
104662 ATATGAATGAGTATCGATACCATAAGGCAGAAAGTTATAAATTGTTCATGGGGT
1 ATATGAATGAGTATCGATACCATAAGGCAGAAAGCTATAAATTGTTCATGGGGT
104716 AT
1 AT
104718 CGATACATGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (54 bp):
ATATGAATGAGTATCGATACCATAAGGCAGAAAGCTATAAATTGTTCATGGGGT
Found at i:109142 original size:15 final size:16
Alignment explanation
Indices: 109122--109151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109112 AACACGAAAG
109122 ATTAA-TTGAGGACGA
1 ATTAATTTGAGGACGA
109137 ATTAATTTGAGGACG
1 ATTAATTTGAGGACG
109152 GGTAGACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (16 bp):
ATTAATTTGAGGACGA
Found at i:110042 original size:21 final size:21
Alignment explanation
Indices: 110014--110066 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
110004 TGAGGATATT
110014 GATACCATATGAATGAGTATC
1 GATACCATATGAATGAGTATC
* *
110035 GGTGCCATATGAATGAGTATC
1 GATACCATATGAATGAGTATC
110056 GATACCATATG
1 GATACCATATG
110067 GCAGAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
GATACCATATGAATGAGTATC
Found at i:111712 original size:18 final size:18
Alignment explanation
Indices: 111689--111723 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111679 ATTCTTAAGG
*
111689 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
111707 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
111724 AATTCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:112435 original size:19 final size:20
Alignment explanation
Indices: 112405--112447 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
112395 CTTGTTGTCT
* *
112405 ATTTTCCTCTTAGTGTTTGC
1 ATTTTCCTCTTAATGATTGC
112425 ATTTT-CTCTTAATGATTGC
1 ATTTTCCTCTTAATGATTGC
112444 ATTT
1 ATTT
112448 AATATGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (20 bp):
ATTTTCCTCTTAATGATTGC
Found at i:119543 original size:36 final size:36
Alignment explanation
Indices: 119496--119567 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
119486 CTTGAGTTCT
119496 AAGGAGACAGGATTCCAAGTCTGGTTGTTGAACCGA
1 AAGGAGACAGGATTCCAAGTCTGGTTGTTGAACCGA
119532 AAGGAGACAGGATTCCAAGTCTGGTTGTTGAACCGA
1 AAGGAGACAGGATTCCAAGTCTGGTTGTTGAACCGA
119568 GGCTGTGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (36 bp):
AAGGAGACAGGATTCCAAGTCTGGTTGTTGAACCGA
Found at i:128134 original size:3 final size:3
Alignment explanation
Indices: 128121--128162 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
128111 ATAAATAAGC
128121 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
128163 CAATTACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:128514 original size:40 final size:41
Alignment explanation
Indices: 128327--128827 Score: 272
Period size: 40 Copynumber: 11.9 Consensus size: 41
128317 TTTTGTTGGT
* * ** *
128327 GGGGACGACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAA
1 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGG--ATC--A
* *
128372 GGGG-TGACACGGCTCCTACGTGAT-AAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAA-GA-GTTCTGG--ATC-A
* * *
128415 -GGG-TGACACGGCTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GTTCTGG--ATC-A
*
128457 -GGG-TGACACGGCTCATACGTGATGAAGAGGTCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGATCA
* *
128494 GGGGAATGACACGGCTCATACGTGGTGAAGATTTCTGGCCATCTAAA
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGG--ATC---A
* * * * * *
128541 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GTTCTGG--ATC-A
* *
128585 -GGG-TGACACGGCTCATACGTGATAAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGATCA
128622 GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAA
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGG--ATC---A
* * * * * *
128669 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GTTCTGG--ATC-A
* *
128713 -GGG-TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGATCA
128750 GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGG-TC-
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGGATCA
128790 GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGG
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGG
128828 CCATCTAAAG
Statistics
Matches: 374, Mismatches: 51, Indels: 67
0.76 0.10 0.14
Matches are distributed among these distances:
38 9 0.02
39 6 0.02
40 129 0.34
41 3 0.01
42 119 0.32
43 12 0.03
44 27 0.07
45 5 0.01
46 57 0.15
47 7 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (41 bp):
GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGATCA
Found at i:128561 original size:128 final size:128
Alignment explanation
Indices: 128420--128787 Score: 682
Period size: 128 Copynumber: 2.9 Consensus size: 128
128410 ATCTAGGGTG
*
128420 ACACGGCTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGA
* * *
128485 GGTCTGGTCGGGGAATGACACGGCTCATACGTGGTGAAGATTTCTGGCCATCTAAAGGTGATA
66 GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
*
128548 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATAAAGA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGA
128613 GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
66 GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
*
128676 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAAGA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGA
128741 GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGG
66 GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGG
128788 TCGGGGAATG
Statistics
Matches: 233, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 233 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (128 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGA
GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
Found at i:128736 original size:42 final size:42
Alignment explanation
Indices: 128350--128740 Score: 295
Period size: 42 Copynumber: 9.2 Consensus size: 42
128340 CTCATACGCA
*
128350 ATGAAGA-GGTCTGGTCATCTAAGGGGTGACACGGCTCCTACGTG
1 ATGAAGACGG-CTGGTTATCT-A-GGGTGACACGGCTCCTACGTG
128394 AT-AAGGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
1 ATGAA-GACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
* *
128436 ATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTG
1 ATGAAGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
* *
128478 ATGAAGA-GGTCTGG---TC-GGGGAATGACACGGCTCATACGTG
1 ATGAAGACGG-CTGGTTATCTAGGG--TGACACGGCTCCTACGTG
* *** ** * *
128518 GTGAAGATTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
1 ATGAAGACGGCTGGTTATCT--AGG-G-TGACACGGCTCCTACGTG
* *
128564 ATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTG
1 ATGAAGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
* * * *
128606 ATAAAGA-GATCTGG---TC-GGGGAATGACACGGCTCATACGTG
1 ATGAAGACG-GCTGGTTATCTAGGG--TGACACGGCTCCTACGTG
* ** * *
128646 ATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
1 ATGAAGACG-GCTGGTTATCT--AGG-G-TGACACGGCTCCTACGTG
*
128692 ATGAGGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
1 ATGAAGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
128734 ATGAAGA
1 ATGAAGA
128741 GATCTGGTCG
Statistics
Matches: 283, Mismatches: 39, Indels: 52
0.76 0.10 0.14
Matches are distributed among these distances:
38 6 0.02
39 4 0.01
40 58 0.20
41 3 0.01
42 115 0.41
43 10 0.04
44 19 0.07
45 2 0.01
46 63 0.22
47 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (42 bp):
ATGAAGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTG
Found at i:128873 original size:296 final size:294
Alignment explanation
Indices: 128333--128879 Score: 875
Period size: 296 Copynumber: 1.8 Consensus size: 294
128323 TGGTGGGGAC
* * * *
128333 GACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGGTGACACGGCTCCTACGTGATAA
1 GACACGGCTCATACGCAATGAAGAGGTCTGGCCATCTAAGGGATAACACGGCTCCTACGTGATAA
*
128398 GGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGA
66 GGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAAGACGGCTGG-T-TCTAGGGTGA
* *
128463 CACGGCTCATACGTGATGAAGAGGTCTGGTCGGGGAATGACACGGCTCATACGTGGTGAAGATTT
129 CACGGCTCATACGTGATGAAGAGGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
128528 CTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACA
194 CTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACA
128593 CGGCTCATACGTGATAAAGAGATCTGGTCGGGGAAT
259 CGGCTCATACGTGATAAAGAGATCTGGTCGGGGAAT
** * *
128629 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 GACACGGCTCATACGCAATGAAGAGGTCTGGCCATCT-AAGG-GATAACACGGCTCCTACGTGAT
* * *
128694 GAGGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAAGA-GATCTGG-TC-GGGGAA
64 AAGGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAAGACG-GCTGGTTCTAGGG--
*
128756 TGACACGGCTCATACGTGATGAAGAGTTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
126 TGACACGGCTCATACGTGATGAAGAGGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
128821 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT
191 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT
128880 CTAGGGATAA
Statistics
Matches: 231, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
294 3 0.01
295 2 0.01
296 153 0.66
297 5 0.02
298 68 0.29
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (294 bp):
GACACGGCTCATACGCAATGAAGAGGTCTGGCCATCTAAGGGATAACACGGCTCCTACGTGATAA
GGACGGCTGGTTATCTAGGGTGACACGGCTCCTACGTGATGAAGACGGCTGGTTCTAGGGTGACA
CGGCTCATACGTGATGAAGAGGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCT
GGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTGACACG
GCTCATACGTGATAAAGAGATCTGGTCGGGGAAT
Found at i:129238 original size:66 final size:63
Alignment explanation
Indices: 129064--129242 Score: 180
Period size: 66 Copynumber: 2.8 Consensus size: 63
129054 CCAAAGCAAC
* * * * *
129064 TGTCTCGAAAGAGACAAGATTCGTTTCAAAGGAAAC-AACCCAAAGATGGCATTTAAAGGGAAT
1 TGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
* ** * * * * *
129127 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAAGATCGGCGTTTCATGGGAA
1 TGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGAT-GGCATTTAAAGGG-A
129192 AT
62 AT
129194 TGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 TGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
129243 TTTGTTTTGT
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
62 2 0.02
63 14 0.15
64 13 0.14
65 9 0.10
66 35 0.38
67 20 0.22
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (63 bp):
TGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
Found at i:129264 original size:35 final size:35
Alignment explanation
Indices: 129219--129312 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
129209 AAAATTCATT
129219 TCAAGGGAAAC-GATCTCAAAGATGTTTGTTTTGTC
1 TCAAGGGAAACAGAT-TCAAAGATGTTTGTTTTGTC
*
129254 TCAAGGGAAACAGATTCAAAGATGTTTGTTTTGTT
1 TCAAGGGAAACAGATTCAAAGATGTTTGTTTTGTC
129289 TCAAGGGAAACAGATTCAAAGATG
1 TCAAGGGAAACAGATTCAAAGATG
129313 GTAAATTTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 54 0.95
36 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (35 bp):
TCAAGGGAAACAGATTCAAAGATGTTTGTTTTGTC
Found at i:129335 original size:36 final size:35
Alignment explanation
Indices: 129217--129347 Score: 113
Period size: 35 Copynumber: 3.7 Consensus size: 35
129207 ACAAAATTCA
* ***
129217 TTTCAAGGGAAAC-GATCTCAAAGATGTTTGTTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGTAAATTTTG
* * ***
129252 TCTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGTAAATTTTG
*
129287 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGAT-GTAAATTTTG
* *
129323 TTTCCAA-AGAAACAAACTCAAAGAT
1 TTT-CAAGAGAAACAGATTCAAAGAT
129348 TTTTCTCAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
35 54 0.64
36 28 0.33
37 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (35 bp):
TTTCAAGAGAAACAGATTCAAAGATGTAAATTTTG
Found at i:129615 original size:15 final size:16
Alignment explanation
Indices: 129595--129636 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
129585 TCTTGTTTTT
129595 AAGGGAAAA-TGTTTC
1 AAGGGAAAATTGTTTC
129610 AAGGGACAAAATTTGTTTC
1 AAGGG--AAAA-TTGTTTC
129629 AAGGGAAA
1 AAGGGAAA
129637 CGACTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.22
17 7 0.30
19 11 0.48
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (16 bp):
AAGGGAAAATTGTTTC
Found at i:129789 original size:66 final size:64
Alignment explanation
Indices: 129710--129879 Score: 180
Period size: 66 Copynumber: 2.6 Consensus size: 64
129700 TGCCTTAAGG
* * * * * *
129710 GAGACAAAATTTGTTTTAATAGAAACGATCTCGAAGGTGTGTATTTTCAAAAGAAATTGTC-TCG
1 GAGACAAAATTTGTTTCAA-AGAAACAAACTCAAAGAT-TGTATTTTCAAAAGAAATTGTCATCA
129774 A
64 A
* * *
129775 GAGACAAAAGTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTTTCAAAAGAAATTGTCATTA
1 GAGACAAAA-TTTGTTTCAAA-GAAACAAACTCAAAGATTGTATTTTCAAAAGAAATTGTCATCA
129840 A
64 A
* *
129841 GAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 GAGACAAAA-TTTGTTTC-AAAGAAACAAACTCAAAGAT
129880 GGATTACATC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
65 30 0.34
66 56 0.63
67 3 0.03
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (64 bp):
GAGACAAAATTTGTTTCAAAGAAACAAACTCAAAGATTGTATTTTCAAAAGAAATTGTCATCAA
Found at i:129822 original size:65 final size:66
Alignment explanation
Indices: 129753--129879 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
129743 AAGGTGTGTA
* *
129753 TTTTCAAAAGAAATTGTC-TCGAGAGACAAAAGTTTGTTTCAAAGGAAACAAACTCAAAGATTTT
1 TTTTCAAAAGAAATTGTCATCAAGAGACAAAAGTTTGTTTCAAAAGAAACAAACTCAAAGATTTT
129817 T
66 T
* * * *
129818 TTTTCAAAAGAAATTGTCATTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTCATCAAGAGACAAAAGTTTGTTTCAAAAGAAACAAACTCAAAGAT
129880 GGATTACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 18 0.33
66 37 0.67
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (66 bp):
TTTTCAAAAGAAATTGTCATCAAGAGACAAAAGTTTGTTTCAAAAGAAACAAACTCAAAGATTTT
T
Found at i:130197 original size:32 final size:31
Alignment explanation
Indices: 130157--130223 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 31
130147 AGAGACAAAA
*
130157 TTTTGTTTCCAAAGAAACAGA-CTCAAAGATT
1 TTTTGTTTCAAAAGAAACA-ATCTCAAAGATT
130188 TTTTCGTTTCAAAAGAAACAATCTCAAAGATT
1 TTTT-GTTTCAAAAGAAACAATCTCAAAGATT
130220 TTTT
1 TTTT
130224 TTTTTTCACA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 5 0.15
32 28 0.85
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTTGTTTCAAAAGAAACAATCTCAAAGATT
Found at i:130390 original size:29 final size:28
Alignment explanation
Indices: 130314--130520 Score: 258
Period size: 29 Copynumber: 7.3 Consensus size: 28
130304 CAAAACTTTG
* * *
130314 TTTCAAAAGAAATAGACTCAAAGATATTT
1 TTTCAAAAGGAACAAACTCAAAGAT-TTT
*
130343 GTTTCAAAAGAAAC-AACTCAAAGATTTT
1 -TTTCAAAAGGAACAAACTCAAAGATTTT
* *
130371 TATTCAAAAGGAACAGACTCCAAGATTTT
1 T-TTCAAAAGGAACAAACTCAAAGATTTT
130400 TATTCAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGGAACAAACTCAAAGATTTT
*
130429 TTTCAAGAGGAACAAACTCAAAGA-TTT
1 TTTCAAAAGGAACAAACTCAAAGATTTT
*
130456 TTTCAAGAGGAACAAACTCAAAGA-TTT
1 TTTCAAAAGGAACAAACTCAAAGATTTT
*
130483 TTTCAAGAGGAACAAACTCAAAGATTTT
1 TTTCAAAAGGAACAAACTCAAAGATTTT
*
130511 TCCTCAAAAG
1 T-TTCAAAAG
130521 AAATTGTCTT
Statistics
Matches: 163, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
27 55 0.34
28 40 0.25
29 56 0.34
30 12 0.07
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (28 bp):
TTTCAAAAGGAACAAACTCAAAGATTTT
Found at i:130464 original size:27 final size:27
Alignment explanation
Indices: 130314--130520 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
130304 CAAAACTTTG
* * *
130314 TTTCAAAAGAAATAGACTCAAAGATATTT
1 TTTCAAAAGGAACAAACTCAAAG--ATTT
*
130343 GTTTCAAAAGAAAC-AACTCAAAGATTTT
1 -TTTCAAAAGGAACAAACTCAAAGA-TTT
* *
130371 TATTCAAAAGGAACAGACTCCAAGATTTT
1 T-TTCAAAAGGAACAAACTCAAAGA-TTT
130400 TATTCAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGGAACAAACTCAAAGA-TTT
*
130429 TTTCAAGAGGAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
*
130456 TTTCAAGAGGAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
*
130483 TTTCAAGAGGAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
130510 TTCCTCAAAAG
1 TT--TCAAAAG
130521 AAATTGTCTT
Statistics
Matches: 163, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
27 61 0.37
28 36 0.22
29 54 0.33
30 12 0.07
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGGAACAAACTCAAAGATTT
Found at i:130847 original size:36 final size:35
Alignment explanation
Indices: 130763--130894 Score: 117
Period size: 36 Copynumber: 3.7 Consensus size: 35
130753 AAAAAAATGA
* *
130763 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGAC-AAATTTGTTTTTAGAGAAAT
* **
130797 AGTCTCAAATGAGACAAGATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAA-ATTTGTTTTTAGAGAAAT
*
130833 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAA
1 TGTCTCAAGCGAGACAAA-TTTGTTTTTAGAGAAAT
* * *
130868 CGATCTCAAGTGAGATCAACTTTGTTT
1 TG-TCTCAAGCGAGA-CAAATTTGTTT
130895 AATGTGAAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
33 2 0.03
34 17 0.21
35 12 0.15
36 46 0.57
37 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAATTTGTTTTTAGAGAAAT
Found at i:131014 original size:105 final size:101
Alignment explanation
Indices: 130834--131066 Score: 281
Period size: 105 Copynumber: 2.3 Consensus size: 101
130824 TAGAGAAATT
* *
130834 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
* *
130899 TGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 TGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
130936 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTGTTT
* * * *
131000 -TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AAT-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
131041 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
131067 AAAAATTCTC
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
101 5 0.04
102 21 0.19
103 2 0.02
104 5 0.04
105 80 0.71
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (101 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:133418 original size:26 final size:26
Alignment explanation
Indices: 133389--133475 Score: 105
Period size: 26 Copynumber: 3.6 Consensus size: 26
133379 AAGGTGGAAA
133389 GAATGTTTCAAGGTCTCAAAGAGAGG
1 GAATGTTTCAAGGTCTCAAAGAGAGG
*
133415 GAATGTTTCAAGG--TCGAA-A-A--
1 GAATGTTTCAAGGTCTCAAAGAGAGG
* *
133435 GACTATTTCAAGGTCTCAAAGAGAGG
1 GAATGTTTCAAGGTCTCAAAGAGAGG
133461 GAATGTTTCAAGGTC
1 GAATGTTTCAAGGTC
133476 GAAAAGAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 11 0.22
22 5 0.10
23 2 0.04
24 5 0.10
26 26 0.53
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (26 bp):
GAATGTTTCAAGGTCTCAAAGAGAGG
Found at i:133502 original size:20 final size:20
Alignment explanation
Indices: 133415--133495 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
133405 CAAAGAGAGG
*
133415 GAATGTTTCAAGGTCGAAAA
1 GAATATTTCAAGGTCGAAAA
* *
133435 GACTATTTCAAGGTCTCAAAGAGA
1 GAATATTTCAAGG--TCGAA-A-A
*
133459 GGGAATGTTTCAAGGTCGAAAA
1 --GAATATTTCAAGGTCGAAAA
133481 GAATATTTCAAGGTC
1 GAATATTTCAAGGTC
133496 TCAAAGAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
20 25 0.52
22 5 0.10
23 2 0.04
24 5 0.10
26 11 0.23
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (20 bp):
GAATATTTCAAGGTCGAAAA
Found at i:133509 original size:26 final size:26
Alignment explanation
Indices: 133385--133512 Score: 100
Period size: 26 Copynumber: 5.4 Consensus size: 26
133375 TTTCAAGGTG
133385 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
133411 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
* *
133432 -AAAGACTATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
133457 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
133478 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
133503 GATAGAATGT
1 GAAAGAATGT
133513 CAAAAATTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
20 25 0.33
21 4 0.05
22 4 0.05
24 4 0.05
25 4 0.05
26 34 0.45
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:133512 original size:46 final size:46
Alignment explanation
Indices: 133371--133504 Score: 234
Period size: 46 Copynumber: 2.9 Consensus size: 46
133361 AAATAAATAC
* *
133371 AATGTTTCAAGGT-GGAAAGAATGTTTCAAGGTCTCAAAGAGAGGG
1 AATGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGAGGG
*
133416 AATGTTTCAAGGTCGAAAAGACTATTTCAAGGTCTCAAAGAGAGGG
1 AATGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGAGGG
133462 AATGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGA
1 AATGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGA
133505 TAGAATGTCA
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
45 13 0.15
46 71 0.85
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (46 bp):
AATGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGAGGG
Found at i:134954 original size:31 final size:32
Alignment explanation
Indices: 134898--134959 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
134888 TGACAAAATG
134898 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
134930 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
134960 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:136456 original size:17 final size:18
Alignment explanation
Indices: 136426--136459 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
136416 AAAAACACAC
*
136426 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
136444 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
136460 TACTCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:138792 original size:3 final size:3
Alignment explanation
Indices: 138779--138832 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
138769 ATAAATAAGC
138779 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
138826 ATA ATA A
1 ATA ATA A
138833 CAATTACAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:139552 original size:182 final size:182
Alignment explanation
Indices: 139239--139692 Score: 721
Period size: 182 Copynumber: 2.5 Consensus size: 182
139229 ACTTTTTTAC
* *
139239 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
* * * *
139304 TATATTTTTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTATCTTTTAAATTCTAAAAG
* *
139369 TGTCGATACTGATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
131 TGTCGAAACTGATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* *
139421 TACCGGTTTTGTTATTTCGAAACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
*
139486 TACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTCTTATCTTTTAAATT-TCAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTATCTTTTAAATTCT-AAAA
* *
139550 GTGTCGAAACTTATAATAAAGTATTGACACTATCAACATATCCGGTAGCGCTT
130 GTGTCGAAACTGATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* ** * * *
139603 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
139668 TACATTTTTATAAAGTATCGACACT
66 TACATTTTTATAAAGTATCGACACT
139693 ATCAACATAT
Statistics
Matches: 249, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 1 0.00
182 248 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTATCTTTTAAATTCTAAAAG
TGTCGAAACTGATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
Found at i:139651 original size:20 final size:20
Alignment explanation
Indices: 139601--139652 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
139591 CCGGTAGCGC
139601 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTTGTCATTTA
** * *
139621 TAGACCGGTTTTGTCATTTT
1 TTTACCTGTTTTGTCATTTA
139641 TTTACCTGTTTT
1 TTTACCTGTTTT
139653 ATTGTTATGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATTTA
Found at i:139762 original size:112 final size:112
Alignment explanation
Indices: 139565--140141 Score: 983
Period size: 112 Copynumber: 5.1 Consensus size: 112
139555 GAAACTTATA
* * *
139565 ATAAAGTATTGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
139630 TTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
139677 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
139742 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
139789 ATAAAGTATCGACACTTTCAATATATCTGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
139854 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
139902 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAGCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
139967 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATAGATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
140015 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
140080 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
140127 ATAAAGTATCAACAC
1 ATAAAGTATCGACAC
140142 AAACCGACAA
Statistics
Matches: 445, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
112 228 0.51
113 217 0.49
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:139955 original size:225 final size:225
Alignment explanation
Indices: 139565--140141 Score: 994
Period size: 225 Copynumber: 2.6 Consensus size: 225
139555 GAAACTTATA
* * *
139565 ATAAAGTATTGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
139630 TTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTAT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTAT
* *
139695 CAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTTACC
131 CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACA
*
139759 TGTTATATTGTTATGGATCGATACATTTTT
196 TGTTATATTGTTATGGATAGATACATTTTT
* *
139789 ATAAAGTATCGACACTTTCAATATATCTGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
139854 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTA
* *
139919 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAGCGGTTTTGTCATTTTTTTTAC
130 TCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTAC
139984 ATGTTATATTGTTATGGATAGATACATTTTT
195 ATGTTATATTGTTATGGATAGATACATTTTT
140015 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
140080 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCAACAC
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
140142 AAACCGACAA
Statistics
Matches: 333, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
224 67 0.20
225 158 0.47
226 108 0.32
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (225 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTAT
CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACA
TGTTATATTGTTATGGATAGATACATTTTT
Found at i:145743 original size:16 final size:16
Alignment explanation
Indices: 145722--145762 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
145712 TCAGATGAAC
*
145722 TTCAGATTGAAGCTCG
1 TTCAGATCGAAGCTCG
*
145738 TTCAGATCGAATCTCG
1 TTCAGATCGAAGCTCG
145754 TTCAGATCG
1 TTCAGATCG
145763 GGTCACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (16 bp):
TTCAGATCGAAGCTCG
Found at i:146379 original size:13 final size:13
Alignment explanation
Indices: 146340--146384 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
146330 ATACTTATGC
*
146340 ATATATTATAAGT
1 ATATAATATAAGT
146353 ATATACCTATATAAGT
1 ATATA---ATATAAGT
146369 ATATAATATAAGT
1 ATATAATATAAGT
146382 ATA
1 ATA
146385 CATTATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 16 0.57
16 12 0.43
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (13 bp):
ATATAATATAAGT
Found at i:146432 original size:2 final size:2
Alignment explanation
Indices: 146419--147104 Score: 176
Period size: 2 Copynumber: 343.0 Consensus size: 2
146409 TACAATGTAT
146419 TA TA TGA TA TA TA TGA TA TA CT- TA TA TA -A TA TA TA -A T- TA
1 TA TA T-A TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
146458 TA TA -A TA TA TA T- TA TA TA TA -A TA TA -A GTA TA CA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * * *
146496 -A TA TA TT TT TG TA AA TA TA CA TA TA TA -A TA AA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
146535 TA TA CT- TA TA -A GTA TA CTA TA TA GTT TA TA CTA TA TA TA AA T-
1 TA TA -TA TA TA TA -TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * *
146577 TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA CA TA CA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
** * *
146620 TA GC T- TA T- TA -A TA TA AA CTA TA TA GT- TA AA CTA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA T-A
** * *
146660 -A CTA TA TA TA -A GC TA TA TA GTC TA TA T- TCA TA TA CA -A TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA TA TA TA
* * * *
146699 TA TA AA CTA TA T- TG TT TA TA CTA TG TA TA -A CTA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* * *
146740 TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TA TA AA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
146782 TA TA -A AA T- TA TG TA TA CTA TG TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* ** * * *
146823 TA TA TA TA TA TA TA TA TA -A AA GC TA GA TA TGG TA -A GTT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA
* * *
146864 TA -A TA TA GA CTA TA TA TA TA TA TA GTA TA AA GTA TA TGA AA T-
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA T-A TA TA
* * * * * * *
146906 TA CA TA CA T- TA TA TA TC TA T- TA TA TA CTA TT TG TA CA AA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * * * *
146948 TA TA GTT TA TA TT TA TA TA TA -A TA TA CCA TA TA GTT TA TA TC
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * *
146990 TA TA AA GTA TA TA TA AA GTA TA GA GTA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
*
147033 TA TA -A TA TA -A GTA -A AA TA TGA -A CTA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA
* * *
147072 TA TA AA T- TA TA TA AA GTA TA AA CTA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
147105 AAGTATGTAT
Statistics
Matches: 499, Mismatches: 103, Indels: 164
0.65 0.13 0.21
Matches are distributed among these distances:
1 41 0.08
2 409 0.82
3 49 0.10
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:146437 original size:7 final size:7
Alignment explanation
Indices: 146416--146597 Score: 66
Period size: 7 Copynumber: 24.4 Consensus size: 7
146406 AAGTACAATG
146416 TATTATA
1 TATTATA
146423 TGA-TATA
1 T-ATTATA
*
146430 TATGATA
1 TATTATA
146437 TACTTATA
1 TA-TTATA
*
146445 TAATATA
1 TATTATA
146452 TAATTATA
1 T-ATTATA
*
146460 TAATATA
1 TATTATA
146467 TATTATA
1 TATTATA
*
146474 TATAATA
1 TATTATA
*
146481 TAAGTATA
1 T-ATTATA
*
146489 CATTATA
1 TATTATA
*
146496 -ATATATT
1 TAT-TATA
* *
146503 TTTGTAAA
1 TAT-TATA
*
146511 TATACATA
1 TAT-TATA
*
146519 TATAATA
1 TATTATA
*
146526 -AATATA
1 TATTATA
146532 TATTATA
1 TATTATA
*
146539 CTTATAAGTA
1 --TATTA-TA
*
146549 TACTATA
1 TATTATA
146556 TAGTTTATA
1 TA--TTATA
146565 CTATATATA
1 -TAT-TATA
*
146574 AATTATA
1 TATTATA
146581 TA-TATA
1 TATTATA
146587 TATATATA
1 TAT-TATA
146595 TAT
1 TAT
146598 ACATACATAC
Statistics
Matches: 128, Mismatches: 30, Indels: 33
0.67 0.16 0.17
Matches are distributed among these distances:
6 13 0.10
7 59 0.46
8 40 0.31
9 12 0.09
10 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (7 bp):
TATTATA
Found at i:146446 original size:15 final size:14
Alignment explanation
Indices: 146416--146598 Score: 72
Period size: 15 Copynumber: 12.6 Consensus size: 14
146406 AAGTACAATG
*
146416 TATTATATGATATA
1 TATTATATAATATA
* *
146430 TATGATATACTTATA
1 TATTATATA-ATATA
*
146445 TAATATATAATTATA
1 TATTATATAA-TATA
* *
146460 TAATATATATTATA
1 TATTATATAATATA
*
146474 TATAATATAAGTATA
1 TATTATATAA-TATA
*
146489 CA-T-TATAATATA
1 TATTATATAATATA
* *
146501 T-TTTTGTAA-ATA
1 TATTATATAATATA
* *
146513 TACATATATAATAAA
1 TA-TTATATAATATA
*
146528 TA-TATATTATACT-
1 TATTATATAATA-TA
* *
146541 TATAAGTATACTATA
1 TATTA-TATAATATA
146556 TAGTTTATACTATATATA
1 TA--TTATA-TA-ATATA
*
146574 AATTATATATATATA
1 TATTATATA-ATATA
146589 TATATATATA
1 TAT-TATATA
146599 CATACATACA
Statistics
Matches: 125, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
12 9 0.07
13 19 0.15
14 25 0.20
15 50 0.40
16 13 0.10
17 4 0.03
18 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (14 bp):
TATTATATAATATA
Found at i:146450 original size:13 final size:13
Alignment explanation
Indices: 146428--146557 Score: 55
Period size: 13 Copynumber: 10.5 Consensus size: 13
146418 TTATATGATA
*
146428 TATATGATATACT
1 TATATAATATACT
*
146441 TATATAATATATAAT
1 TATAT-A-ATATACT
146456 TATATAATATA--
1 TATATAATATACT
146467 TAT-T-ATATA-T
1 TATATAATATACT
* *
146477 AATATAAGTATACA
1 TATATAA-TATACT
*
146491 T-TATAATATATT
1 TATATAATATACT
* * *
146503 TTTGTAAATATACA
1 TATAT-AATATACT
*
146517 TATATAATA-A-A
1 TATATAATATACT
*
146528 TATATATTATACT
1 TATATAATATACT
*
146541 TATA-AGTATAC-
1 TATATAATATACT
146552 TATATA
1 TATATA
146558 GTTTATACTA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.06
10 3 0.03
11 17 0.19
12 15 0.17
13 29 0.32
14 10 0.11
15 11 0.12
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (13 bp):
TATATAATATACT
Found at i:146458 original size:37 final size:37
Alignment explanation
Indices: 146417--146488 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
146407 AGTACAATGT
* *
146417 ATTATATGATATATATGATATACTTATATAA-TATATA
1 ATTATATAATATATATGATATA-TAATATAAGTATATA
*
146454 ATTATATAATATATATTATATATAATATAAGTATA
1 ATTATATAATATATATGATATATAATATAAGTATA
146489 CATTATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (37 bp):
ATTATATAATATATATGATATATAATATAAGTATATA
Found at i:146533 original size:104 final size:104
Alignment explanation
Indices: 146312--146588 Score: 243
Period size: 104 Copynumber: 2.6 Consensus size: 104
146302 AAAACAATTT
* *
146312 TAATATATATATA-ATGTTATACTTATGCATATATTATAAGTATATACCTATATAAGTATATAAT
1 TAATATATATATATATGATATACTTAT-CATATATTATAAGTATATACATATATAAGTATATAAT
* *
146376 ATAAGTATACATTATAATTATCTATACTATAAGTACAATG
65 ATAAGTATACATTATAATTATCTATACTATAAATACAATA
* *
146416 TATTATATGATATATATGATATACTTAT-ATA-ATATATAATTATATA-ATATATATTA-TATAT
1 TAATATAT-ATATATATGATATACTTATCATATAT-TATAAGTATATACATATATA--AGTATAT
* **
146477 AATATAAGTATACATTATAATATAT-TTTTGTA-AATATACATATA
62 AATATAAGTATACATTATAAT-TATCTATACTATAA-ATACA-ATA
* * * *
146521 TAATA-A-ATATATAT--TATACTTATAAGTATACTATATAGTTTATACTATATATAAATTATAT
1 TAATATATATATATATGATATACTTATCA-TATATTATA-AGTATATAC-ATATAT-AAGTATAT
146582 ATATATA
62 A-ATATA
146589 TATATATATA
Statistics
Matches: 143, Mismatches: 13, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
100 9 0.06
101 1 0.01
102 14 0.10
103 17 0.12
104 57 0.40
105 27 0.19
106 18 0.13
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (104 bp):
TAATATATATATATATGATATACTTATCATATATTATAAGTATATACATATATAAGTATATAATA
TAAGTATACATTATAATTATCTATACTATAAATACAATA
Found at i:146649 original size:13 final size:11
Alignment explanation
Indices: 146630--146678 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
146620 TAGCTTATTA
146630 ATATAAACTAT
1 ATATAAACTAT
146641 ATAGTTAAACTAT
1 ATA--TAAACTAT
*
146654 ATATGAACTAT
1 ATATAAACTAT
*
146665 ATATAAGCTAT
1 ATATAAACTAT
146676 ATA
1 ATA
146679 GTCTATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 22 0.67
13 11 0.33
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (11 bp):
ATATAAACTAT
Found at i:146662 original size:11 final size:10
Alignment explanation
Indices: 146630--146786 Score: 51
Period size: 11 Copynumber: 14.8 Consensus size: 10
146620 TAGCTTATTA
146630 ATATA-AACT
1 ATATATAACT
146639 ATATAGTTAAACT
1 ATATA--T-AACT
146652 ATATATGAACT
1 ATATAT-AACT
146663 ATATATAAGCT
1 ATATATAA-CT
146674 ATATAGT--CT
1 ATATA-TAACT
*
146683 ATATTCATATACA
1 ATA-T-ATA-ACT
146696 ATATATAAACT
1 ATATAT-AACT
*
146707 ATATTGTTTATACT
1 ATA---TATA-ACT
*
146721 ATGTATAACT
1 ATATATAACT
146731 ATATAT-A-T
1 ATATATAACT
146739 ATATAT-A-T
1 ATATATAACT
146747 ATATATATA-T
1 ATATATA-ACT
**
146757 ATATATATTTT
1 ATATATA-ACT
*
146768 ATATAAAAACT
1 ATAT-ATAACT
146779 ATATATAA
1 ATATATAA
146787 AATTATGTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
8 15 0.13
9 11 0.09
10 25 0.22
11 39 0.34
12 5 0.04
13 14 0.12
14 7 0.06
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (10 bp):
ATATATAACT
Found at i:146734 original size:33 final size:33
Alignment explanation
Indices: 146630--146757 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
146620 TAGCTTATTA
*
146630 ATATAAACTATATAG-TTAAACTATATATGAACT
1 ATATAAACTATATAGTTTATACTATATAT-AACT
* * *
146663 ATATATAAGCTATATAGTCTATATTCATATACAA-T
1 ATATA-AA-CTATATAGTTTATACT-ATATATAACT
* *
146698 ATATAAACTATATTGTTTATACTATGTATAACT
1 ATATAAACTATATAGTTTATACTATATATAACT
* *
146731 ATATATA-TATATA-TATATA-TATATATA
1 ATATAAACTATATAGTTTATACTATATATA
146758 TATATATTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
30 7 0.09
31 5 0.06
32 11 0.14
33 25 0.32
34 4 0.05
35 14 0.18
36 6 0.08
37 5 0.06
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (33 bp):
ATATAAACTATATAGTTTATACTATATATAACT
Found at i:147000 original size:13 final size:11
Alignment explanation
Indices: 146990--147120 Score: 62
Period size: 11 Copynumber: 11.8 Consensus size: 11
146980 AGTTTATATC
146990 TATAAAGTATA
1 TATAAAGTATA
147001 TATAAAGTATAGA
1 TATAAAGTAT--A
*
147014 GTATATA-TATA
1 -TATAAAGTATA
*
147025 TATATA-TATA
1 TATAAAGTATA
*
147035 TAATATAAGTAAAA
1 T-ATA-AAGT-ATA
* *
147049 TATGAACTATA
1 TATAAAGTATA
147060 TATATATA-TATA
1 TATA-A-AGTATA
147072 TATAAA-T-TA
1 TATAAAGTATA
147081 TATAAAGTATA
1 TATAAAGTATA
*
147092 -A-ACTA-TATA
1 TATA-AAGTATA
*
147101 TATAAAGTATG
1 TATAAAGTATA
147112 TATAAAGTA
1 TATAAAGTA
147121 AAAAATATGA
Statistics
Matches: 95, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
9 13 0.14
10 18 0.19
11 35 0.37
12 13 0.14
13 8 0.08
14 8 0.08
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (11 bp):
TATAAAGTATA
Found at i:147001 original size:29 final size:29
Alignment explanation
Indices: 146947--147004 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
146937 TGTACAAACT
* *
146947 ATATAGTTTATATTTATATATAATATACC
1 ATATAGTTTATATCTATAAATAATATACC
146976 ATATAGTTTATATCTATAAAGTATATATA
1 ATATAGTTTATATCTATAAA-TA-ATATA
147005 AAGTATAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.72
30 2 0.08
31 5 0.20
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (29 bp):
ATATAGTTTATATCTATAAATAATATACC
Found at i:147041 original size:39 final size:38
Alignment explanation
Indices: 146998--147104 Score: 135
Period size: 41 Copynumber: 2.7 Consensus size: 38
146988 TCTATAAAGT
*
146998 ATATATAAAGTATAGAGTATATATATATATATATATATA
1 ATATATAAAGTATAGACTATATATATATATATATATA-A
*
147037 ATATAAGTAAAATAT-GAACTATATATATATATATATATAA
1 ATAT-A-TAAAGTATAG-ACTATATATATATATATATATAA
*
147077 ATTATATAAAGTATAAACTATATATATA
1 A-TATATAAAGTATAGACTATATATATA
147105 AAGTATGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
39 23 0.39
40 5 0.08
41 31 0.53
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (38 bp):
ATATATAAAGTATAGACTATATATATATATATATATAA
Found at i:147128 original size:29 final size:29
Alignment explanation
Indices: 147067--147128 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
147057 ATATATATAT
*
147067 ATATATATAAATTATATAAAGTATAAACT
1 ATATATATAAATTATATAAAGTATAAACA
*
147096 ATATATATAAAGTATGTATAAAGTA-AAA-A
1 ATATATATAAA-T-TATATAAAGTATAAACA
147125 ATAT
1 ATAT
147129 GAAATTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.52
30 4 0.14
31 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (29 bp):
ATATATATAAATTATATAAAGTATAAACA
Found at i:147866 original size:24 final size:26
Alignment explanation
Indices: 147839--147908 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
147829 TCCTTTGTTC
*
147839 TTTTGTTTTTCAAAACAAAC-TTTT-
1 TTTTGTTTTTCAAATCAAACTTTTTG
147863 TTTTGTTTTTCAAATCAAACTTTTTG
1 TTTTGTTTTTCAAATCAAACTTTTTG
147889 TTTTGTTTTTCAAATCAAAC
1 TTTTGTTTTTCAAATCAAAC
147909 CCTAACCTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 19 0.44
25 4 0.09
26 20 0.47
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (26 bp):
TTTTGTTTTTCAAATCAAACTTTTTG
Found at i:148121 original size:21 final size:21
Alignment explanation
Indices: 148044--148123 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
148034 ATTCTCGATT
*
148044 TACTATTCGTGACTCATCATC
1 TACTATTCGTGACTCCTCATC
* * * *
148065 TATTGTACGTGACTCCTCAAC
1 TACTATTCGTGACTCCTCATC
* ** *
148086 TACTGTTTTTAACTCCTCATC
1 TACTATTCGTGACTCCTCATC
*
148107 TACTATTCTTGACTCCT
1 TACTATTCGTGACTCCT
148124 TACATTTTTT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (21 bp):
TACTATTCGTGACTCCTCATC
Found at i:148348 original size:5 final size:5
Alignment explanation
Indices: 148338--148444 Score: 57
Period size: 5 Copynumber: 21.6 Consensus size: 5
148328 TTTTTCCTGT
* *
148338 TTTTA TTTTA TTTTA -TTTA TTTTA TTTT- TTTTA --TTG TTTTA TGTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
148384 TTATGTT TTTTA TTTT- TTTGT- TTTTG TTTTT TTGTTA TTCTT- TTTTA
1 TT-T-TA TTTTA TTTTA TTT-TA TTTTA TTTTA TT-TTA TT-TTA TTTTA
*
148431 TTTGTA TGTTA TTT
1 TTT-TA TTTTA TTT
148445 ATATGTTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
3 2 0.03
4 14 0.17
5 49 0.61
6 12 0.15
7 3 0.04
ACGTcount: A:0.13, C:0.01, G:0.07, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:148356 original size:9 final size:9
Alignment explanation
Indices: 148338--148385 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
148328 TTTTTCCTGT
148338 TTTTATTTTA
1 TTTTA-TTTA
148348 TTTTATTTA
1 TTTTATTTA
*
148357 TTTTATTTT
1 TTTTATTTA
*
148366 TTTTA-TTG
1 TTTTATTTA
148374 TTTTATGTTA
1 TTTTAT-TTA
148384 TT
1 TT
148386 ATGTTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.21
9 17 0.52
10 9 0.27
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:148356 original size:14 final size:14
Alignment explanation
Indices: 148339--148372 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
148329 TTTTCCTGTT
148339 TTTATTTTATTTTA
1 TTTATTTTATTTTA
*
148353 TTTATTTTATTTTT
1 TTTATTTTATTTTA
148367 TTTATT
1 TTTATT
148373 GTTTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:148396 original size:9 final size:8
Alignment explanation
Indices: 148337--148433 Score: 70
Period size: 8 Copynumber: 11.1 Consensus size: 8
148327 TTTTTTCCTG
148337 TTTTTATTT
1 TTTTTA-TT
148346 TATTTTATT
1 T-TTTTATT
148355 TATTTTATTT
1 T-TTTTA-TT
148365 TTTTTATT
1 TTTTTATT
* *
148373 GTTTTATG
1 TTTTTATT
*
148381 TTATTATGT
1 TTTTTAT-T
148390 TTTTTATT
1 TTTTTATT
*
148398 TTTTTGTT
1 TTTTTATT
148406 TTTGTT-TT
1 TTT-TTATT
148414 TTTGTTATTCT
1 TTT-TTA-T-T
148425 TTTTTATT
1 TTTTTATT
148433 T
1 T
148434 GTATGTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
8 34 0.46
9 24 0.32
10 12 0.16
11 4 0.05
ACGTcount: A:0.12, C:0.01, G:0.06, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:148434 original size:25 final size:24
Alignment explanation
Indices: 148335--148435 Score: 70
Period size: 25 Copynumber: 4.1 Consensus size: 24
148325 AGTTTTTTCC
*
148335 TGTTTTTATTTTATTTTATT-TATT
1 TGTTTTT-TTTTATTTTTTTGTATT
148359 T-TATTTTTTTTATTGTTTTATGTTATT
1 TGT-TTTTTTTTATT-TTTT-TG-TATT
*
148386 ATG---TTTTTTATTTTTTTGTTTT
1 -TGTTTTTTTTTATTTTTTTGTATT
148408 TGTTTTTTTGTTATTCTTTTT-TATT
1 TGTTTTTTT-TTATT-TTTTTGTATT
148433 TGT
1 TGT
148436 ATGTTATTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 23
0.70 0.03 0.26
Matches are distributed among these distances:
21 2 0.03
22 3 0.05
23 10 0.16
24 16 0.26
25 21 0.34
26 5 0.08
27 4 0.06
28 1 0.02
ACGTcount: A:0.12, C:0.01, G:0.08, T:0.79
Consensus pattern (24 bp):
TGTTTTTTTTTATTTTTTTGTATT
Done.