Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 65 of 279
Found at i:21653274 original size:9 final size:9
Alignment explanation
Indices: 21653260--21653316 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
21653250 ATCTCATGTG
21653260 CATATCATA
1 CATATCATA
*
21653269 CATATCATGTG
1 CATATCA--TA
21653280 CATATCATA
1 CATATCATA
* *
21653289 CATGTCATGTG
1 CATATCA--TA
21653300 CATATCATA
1 CATATCATA
21653309 CATATCAT
1 CATATCAT
21653317 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:21653276 original size:20 final size:20
Alignment explanation
Indices: 21653248--21653318 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
21653238 GCATTTATGA
*
21653248 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
21653268 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
21653288 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
21653308 ACATATCATGT
1 ACATATCATGT
21653319 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:21653283 original size:11 final size:11
Alignment explanation
Indices: 21653253--21653307 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
21653243 TATGAACATC
21653253 TCATGTGCATA
1 TCATGTGCATA
*
21653264 TCA--TACATA
1 TCATGTGCATA
21653273 TCATGTGCATA
1 TCATGTGCATA
* *
21653284 TCA--TACATG
1 TCATGTGCATA
21653293 TCATGTGCATA
1 TCATGTGCATA
21653304 TCAT
1 TCAT
21653308 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:21653383 original size:25 final size:25
Alignment explanation
Indices: 21653355--21653402 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21653345 ATATATAAAC
* * *
21653355 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
21653380 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
21653403 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:21660827 original size:26 final size:24
Alignment explanation
Indices: 21660676--21660891 Score: 256
Period size: 24 Copynumber: 8.8 Consensus size: 24
21660666 GCTTTATCAT
*
21660676 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
21660701 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* **
21660724 ACAACTGGGATATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* **
21660748 ACAACTATGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
21660772 ATAACTGGGGCGTAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
21660797 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21660821 TCATAACTGGGGCATAAGCCCTTTTA
1 --ATAACTGGGGCATAAGCCCTTTTA
*
21660847 TCATAACTGGGGCATAAGCCCTTTATT
1 --ATAACTGGGGCATAAGCCCTTT-TA
21660874 ATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCC
21660892 TTGTTACACT
Statistics
Matches: 169, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
23 15 0.09
24 57 0.34
25 48 0.28
26 48 0.28
27 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:21660971 original size:20 final size:20
Alignment explanation
Indices: 21660946--21661006 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
21660936 TTATGAATAC
21660946 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21660966 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21660986 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21661006 A
1 A
21661007 CCAGGTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21660977 original size:11 final size:11
Alignment explanation
Indices: 21660946--21661001 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
21660936 TTATGAATAC
21660946 ATCATGTGCAT
1 ATCATGTGCAT
*
21660957 ATCA--TACAT
1 ATCATGTGCAT
21660966 ATCATGTGCAT
1 ATCATGTGCAT
*
21660977 ATCA--TACAT
1 ATCATGTGCAT
*
21660986 GTCATGTGCAT
1 ATCATGTGCAT
21660997 ATCAT
1 ATCAT
21661002 ACATACCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:21666946 original size:40 final size:40
Alignment explanation
Indices: 21666884--21667141 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
21666874 AAGCCAAGTA
* * * *
21666884 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21666923 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21666963 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21667003 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21667043 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21667083 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21667123 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21667142 TTATCATCCA
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.06
40 193 0.94
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21669195 original size:144 final size:144
Alignment explanation
Indices: 21668931--21669218 Score: 513
Period size: 144 Copynumber: 2.0 Consensus size: 144
21668921 AATTCACATG
*
21668931 CAATTTACTAAATAGAAGTTTAAAACTTTCACACATTCATAATCACATATTTTAGACAATAAATA
1 CAATTTACTAAATAGAAGCTTAAAACTTTCACACATTCATAATCACATATTTTAGACAATAAATA
* *
21668996 AAATATTCAAATAATTTGGTGACTCGGTTTAGCGGTTCCGAAACCGCTTTTCGACTAGGGTCACT
66 AAATATTCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACT
*
21669061 TTAGGGCTGTCACA
131 TTAGGGCAGTCACA
*
21669075 CAATTTACTAAATCGAAGCTTAAAACTTTCACACATTCATAATCACATATTTTAGACAATAAATA
1 CAATTTACTAAATAGAAGCTTAAAACTTTCACACATTCATAATCACATATTTTAGACAATAAATA
**
21669140 TCATATTCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACT
66 AAATATTCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACT
21669205 TTAGGGCAGTCACA
131 TTAGGGCAGTCACA
21669219 TAAAAAACTT
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 137 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (144 bp):
CAATTTACTAAATAGAAGCTTAAAACTTTCACACATTCATAATCACATATTTTAGACAATAAATA
AAATATTCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACT
TTAGGGCAGTCACA
Found at i:21687436 original size:21 final size:21
Alignment explanation
Indices: 21687410--21687453 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21687400 TGTAAGGTAA
21687410 AACTCCTAATTGTTTTTGTAC
1 AACTCCTAATTGTTTTTGTAC
21687431 AACTCCTAATTGTTTTTGTAC
1 AACTCCTAATTGTTTTTGTAC
21687452 AA
1 AA
21687454 TTTATAGTGA
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:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (21 bp):
AACTCCTAATTGTTTTTGTAC
Found at i:21691569 original size:29 final size:27
Alignment explanation
Indices: 21691531--21691595 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
21691521 AAAAGAGCCC
*
21691531 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
21691560 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
21691587 -AAATAAATA
1 AAAATAAATA
21691596 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:21693888 original size:133 final size:133
Alignment explanation
Indices: 21693702--21694205 Score: 735
Period size: 133 Copynumber: 3.8 Consensus size: 133
21693692 AGATTTGCTA
* * *
21693702 TGCTCCACTGCAACATC-AGAGAGATAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG
1 TGCTCCACTGCAACTTCAAG-GAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG
* * **
21693766 GGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAGACTAGATTCACCATCTTC
65 GGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTC
21693831 GATC
130 GATC
* * *
21693835 TGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAGCCTACTCCACTACAACTTTGGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * * * *
21693900 GAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAA-AATAATATTTGCCATCTTC
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACT-AGATTTGCCATCTTC
21693964 GATC
130 GATC
* *
21693968 TGCTCCACTGCAACTT-TAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAAATTTAGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* *
21694032 GAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
21694097 ATC
131 ATC
* *
21694100 TGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * *
21694165 GAGATAGGATGGTGGTTTAAATCTGTTTTACTGCAACTTCA
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCA
21694206 TAGAGACAAG
Statistics
Matches: 330, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
132 120 0.36
133 208 0.63
134 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
ATC
Found at i:21694117 original size:265 final size:266
Alignment explanation
Indices: 21693628--21694205 Score: 845
Period size: 265 Copynumber: 2.2 Consensus size: 266
21693618 CCACTACAAC
* * * * * * *
21693628 CCACTACAA-TATATGGAGATAAGATGGTGGCTTAAATCTGCTTCATTGCAACTTCAGGAAAACA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
* * *
21693692 AGATTTG----C-T--A--TGCTCCACTGCAACATCAGAGAGATAAGATCTACAATCTTCAGCCT
66 ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
*
21693748 ACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
131 ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
* *
21693813 ACTAGATTCACCATCTTCGATCTGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAG
196 ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
21693878 CCTACT
261 CCTACT
** *
21693884 CCACTACAACTTTGGGGAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
* *
21693949 ATATTTGCCATCTTCGATCTGCTCCACTGCAACTTTAG-GAAACAAGATCTACAATCTTCAGCCT
66 ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
* * * *
21694013 ACTCCACTACAAATTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAG
131 ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
** *
21694078 ACTAGATTTGCCATCTTCGATCTGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAG
196 ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
21694143 CCTACT
261 CCTACT
*
21694149 CCACTACAACTTTAAGGAGATAGGATGGTGGTTTAAATCTGTTTTACTGCAACTTCA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCA
21694206 TAGAGACAAG
Statistics
Matches: 284, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
256 9 0.03
257 52 0.18
261 1 0.00
262 1 0.00
264 1 0.00
265 203 0.71
266 17 0.06
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (266 bp):
CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
CCTACT
Found at i:21694248 original size:88 final size:88
Alignment explanation
Indices: 21694097--21694297 Score: 280
Period size: 88 Copynumber: 2.3 Consensus size: 88
21694087 GCCATCTTCG
* * * *
21694097 ATCTGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
1 ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTT
*
21694162 AAGGAGATAGGATGGTGGTTTAA
66 AAGGAGATAGGATGGTGGGTTAA
* * *
21694185 ATCTGTTTTACTGCAACTTCATA-GAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTT
1 ATCTGCTTCACTGCAACTTCA-AGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTT
* *
21694249 TAGGGAGCTAGGATGGTGGGTTAA
65 TAAGGAGATAGGATGGTGGGTTAA
*
21694273 ATCTGCTTCACTGCATCTTC-AGGAA
1 ATCTGCTTCACTGCAACTTCAAGGAA
21694298 GACTAGATTC
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 2 0.02
88 93 0.96
89 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (88 bp):
ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTT
AAGGAGATAGGATGGTGGGTTAA
Found at i:21694257 original size:221 final size:220
Alignment explanation
Indices: 21693974--21694413 Score: 740
Period size: 221 Copynumber: 2.0 Consensus size: 220
21693964 GATCTGCTCC
*
21693974 ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAAATTTAGGGAGCTAG
1 ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAATTTAGGGAGCTAG
* *
21694039 GATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTTGCCATCTTCGATCTGCT
66 GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
*
21694104 CCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
131 CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
*
21694169 TAGGATGGTGGTTTAAATCTGTTTT
196 TAGGATGGTGGCTTAAATCTGTTTT
*
21694194 ACTGCAACTTCATA-GAGACAAGATCTACAATCTTCAGCCTACTCCACCA-AAACTTTAGGGAGC
1 ACTGCAACTT--TAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAA-TTTAGGGAGC
*
21694257 TAGGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCT
63 TAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCT
* * *
21694322 GCTCCACTGCAACTTCATGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
128 GCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGG
*
21694387 AGCTAGGATGGTGGCTTAAATCTGTTT
193 AGATAGGATGGTGGCTTAAATCTGTTT
21694414 CACTACATCT
Statistics
Matches: 206, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
220 13 0.06
221 191 0.93
222 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (220 bp):
ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAATTTAGGGAGCTAG
GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
TAGGATGGTGGCTTAAATCTGTTTT
Found at i:21694338 original size:45 final size:44
Alignment explanation
Indices: 21694273--21694469 Score: 114
Period size: 45 Copynumber: 4.4 Consensus size: 44
21694263 GGTGGGTTAA
* * *
21694273 ATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCACCATCTTCG
* *
21694318 ATCTGCTCCACTGCAACTTCATGG-AGACAAGATCTACAATCTTC-
1 ATCTGCTCCACTGCAACTTCA-GGAAGACTAGATC-ACCATCTTCG
* * * * * ***** **
21694362 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATCACCATCTTCG
* * * * *
21694406 ATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCACCATCTTCG
21694451 ATCTGCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTT
21694470 GAAAGAAACA
Statistics
Matches: 110, Mismatches: 33, Indels: 18
0.68 0.20 0.11
Matches are distributed among these distances:
43 23 0.21
44 12 0.11
45 73 0.66
46 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACTAGATCACCATCTTCG
Found at i:21694350 original size:133 final size:133
Alignment explanation
Indices: 21694194--21694485 Score: 485
Period size: 133 Copynumber: 2.2 Consensus size: 133
21694184 AATCTGTTTT
21694194 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
* * *
21694259 GGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
21694324 TCC
131 TCC
* * *
21694327 ACTGCAACTTCATGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
* *
21694392 GGATGGTGGCTTAAATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
21694457 TCC
131 TCC
* * *
21694460 ACTGCAACTTGAAAGAAACAAGATCT
1 ACTGCAACTTCATAGAGACAAGATCT
21694486 GTAGAATTGG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 147 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
TCC
Found at i:21699987 original size:30 final size:30
Alignment explanation
Indices: 21699953--21700014 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
21699943 CCCGTAAGTT
21699953 AGGACACAATACCATGAACTCCCGAACACA
1 AGGACACAATACCATGAACTCCCGAACACA
**
21699983 AGGACATGATACCATGAACTCCCGAACACA
1 AGGACACAATACCATGAACTCCCGAACACA
21700013 AG
1 AG
21700015 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.31, G:0.16, T:0.11
Consensus pattern (30 bp):
AGGACACAATACCATGAACTCCCGAACACA
Found at i:21700774 original size:19 final size:18
Alignment explanation
Indices: 21700734--21700770 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21700724 AAAAGGGGAC
21700734 ATAAAACAATTTAAAATA
1 ATAAAACAATTTAAAATA
* *
21700752 ATAAAACATTTTTAAATA
1 ATAAAACAATTTAAAATA
21700770 A
1 A
21700771 ATAATACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAACAATTTAAAATA
Found at i:21701008 original size:29 final size:27
Alignment explanation
Indices: 21700970--21701034 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
21700960 AAAAGAGCTC
*
21700970 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
21700999 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
21701026 -AAATAAATA
1 AAAATAAATA
21701035 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:21702328 original size:18 final size:17
Alignment explanation
Indices: 21702293--21702329 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
21702283 AGGAAAATAA
*
21702293 AAAAATAAAGAGACGAG
1 AAAAATAAAGAAACGAG
21702310 AAAAATAAAGAAACAGAG
1 AAAAATAAAGAAAC-GAG
21702328 AA
1 AA
21702330 TGAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (17 bp):
AAAAATAAAGAAACGAG
Found at i:21702841 original size:9 final size:9
Alignment explanation
Indices: 21702827--21702874 Score: 87
Period size: 9 Copynumber: 5.3 Consensus size: 9
21702817 ATGTGGGCCT
21702827 CTACAGTCC
1 CTACAGTCC
21702836 CTACAGTCC
1 CTACAGTCC
21702845 CTACAGTCC
1 CTACAGTCC
*
21702854 TTACAGTCC
1 CTACAGTCC
21702863 CTACAGTCC
1 CTACAGTCC
21702872 CTA
1 CTA
21702875 TAGGATGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.25
Consensus pattern (9 bp):
CTACAGTCC
Found at i:21708793 original size:42 final size:42
Alignment explanation
Indices: 21708633--21708785 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
21708623 ACCATACCAT
* * * *
21708633 TGCCATATCCCA-AATATGGTCGTACATGTAATCTCGTATCAA
1 TGCCATATCCCAGAA-ATGGTCTTACACGAAATCTCATATCAA
* ** *
21708675 TGCCAATAGCCCAGTTATGGTCTTACACGAAATCTCATATCGA
1 TGCC-ATATCCCAGAAATGGTCTTACACGAAATCTCATATCAA
* * *
21708718 TGCCATATCCCAGATATGCTCTTACACGAAGTCTCATA-CTAA
1 TGCCATATCCCAGAAATGGTCTTACACGAAATCTCATATC-AA
*
21708760 TGCCATATCCCAGAAACGGTCTTACA
1 TGCCATATCCCAGAAATGGTCTTACA
21708786 TGTAGTCTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.63
43 33 0.36
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
TGCCATATCCCAGAAATGGTCTTACACGAAATCTCATATCAA
Found at i:21722541 original size:10 final size:9
Alignment explanation
Indices: 21722505--21722544 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
21722495 AGGAAAAAGT
21722505 AAATTAAT-
1 AAATTAATA
21722513 AAA-TAATA
1 AAATTAATA
21722521 AAATTAATA
1 AAATTAATA
21722530 AAATTAAATA
1 AAATT-AATA
21722540 AAATT
1 AAATT
21722545 GCAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.14
8 6 0.21
9 10 0.34
10 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAATA
Found at i:21728567 original size:53 final size:53
Alignment explanation
Indices: 21728375--21728579 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 53
21728365 TAGGGTTTAT
* * * * * *
21728375 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGCAA
* * * * * * * * *
21728429 GGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATATGGAAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * * *
21728484 AGATCCCATGTAAGACCATGGCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
*
21728537 GGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
21728580 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 33, Indels: 5
0.75 0.21 0.03
Matches are distributed among these distances:
53 44 0.38
54 35 0.30
55 37 0.32
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:21735771 original size:40 final size:40
Alignment explanation
Indices: 21735734--21735919 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
21735724 GCTACTCGTT
* *
21735734 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21735774 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21735814 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
21735854 CAAATGCCTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
21735895 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21735920 CATCATTCAA
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 123 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21742103 original size:17 final size:17
Alignment explanation
Indices: 21742081--21742114 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21742071 TTGTGCGGGA
21742081 GCAGGCGCTACACTCTC
1 GCAGGCGCTACACTCTC
21742098 GCAGGCGCTACACTCTC
1 GCAGGCGCTACACTCTC
21742115 AAGATCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.41, G:0.24, T:0.18
Consensus pattern (17 bp):
GCAGGCGCTACACTCTC
Found at i:21743781 original size:79 final size:82
Alignment explanation
Indices: 21743670--21743854 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21743660 GCTACTCGTT
* *
21743670 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21743733 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21743750 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21743813 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21743830 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21743855 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21743854 original size:40 final size:40
Alignment explanation
Indices: 21743651--21743854 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21743641 CGGAATTTAA
** *
21743651 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21743691 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21743731 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21743770 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21743810 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21743850 CCGGA
1 CCGGA
21743855 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21749894 original size:53 final size:53
Alignment explanation
Indices: 21749712--21749918 Score: 175
Period size: 53 Copynumber: 3.8 Consensus size: 53
21749702 ATTAGCGTTT
* * * * * * *
21749712 AAGGATACCA-AGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTAACAAGAC
1 AAGGATACCATA-TAAGACCATGTCAAGACATGGCAATAGTAAG-TTCATAAGGC
* * * * * *
21749766 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAACTACTATAAGGC
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAG-T-AAGTTC-ATAAGGC
* * * * * *
21749821 AAAGATCCCATGTAAGACCATGGCAAGGCATGGCAATAGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
*
21749874 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTT
21749919 TAAAAAGAAA
Statistics
Matches: 119, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 47 0.39
54 33 0.28
55 36 0.30
56 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
Found at i:21751607 original size:43 final size:42
Alignment explanation
Indices: 21751497--21751698 Score: 134
Period size: 39 Copynumber: 5.0 Consensus size: 42
21751487 ATGTTTCATT
* **
21751497 TTAGCGGAAGCTTAGGAAAATCGTCGTGTTTAAGGAAAACAG
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACCC
* ****** *
21751539 TTCGCATTTTTTTA-GAAAA---TCATGTTTCAGGTAAAACCC
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGG-AAAACCC
**
21751578 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAG
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACCC
****** *
21751620 TTCA-CATTTTTTTA-GAAAA---TCATGTTTCAGGTAAAACCC
1 TT-AGCGGAAGCTTAGGAAAATCGTCATGTTTAAGG-AAAACCC
21751659 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAAC
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAAC
21751699 AGTTCACATT
Statistics
Matches: 111, Mismatches: 37, Indels: 24
0.65 0.22 0.14
Matches are distributed among these distances:
38 22 0.20
39 23 0.21
40 10 0.09
41 10 0.09
42 23 0.21
43 23 0.21
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (42 bp):
TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACCC
Found at i:21751632 original size:81 final size:81
Alignment explanation
Indices: 21751497--21751740 Score: 470
Period size: 81 Copynumber: 3.0 Consensus size: 81
21751487 ATGTTTCATT
* *
21751497 TTAGCGGAAGCTTAGGAAAATCGTCGTGTTTAAGGAAAACAGTTCGCATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
21751562 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
21751578 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
21751643 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
21751659 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
21751724 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
21751740 T
1 T
21751741 CATAGTAATA
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 161 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (81 bp):
TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
GTTTCAGGTAAAACCC
Found at i:21751645 original size:38 final size:39
Alignment explanation
Indices: 21751523--21751737 Score: 125
Period size: 38 Copynumber: 5.4 Consensus size: 39
21751513 AAAATCGTCG
*
21751523 TGTTTAAGG-AAAACAGTTCGCATTTTTTTAGAAAATCA
1 TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
* ** ******
21751561 TGTTTCAGGTAAAACCCTT-AGCGGAAGCTTAGGAAAATCGTCA
1 TGTTTAAGGTAAAACAGTTCA-CATTTTTTTA-GAAAA---TCA
21751604 TGTTTAAGG-AAAACAGTTCACATTTTTTTAGAAAATCA
1 TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
* ** ******
21751642 TGTTTCAGGTAAAACCCTT-AGCGGAAGCTTAGGAAAATCGTCA
1 TGTTTAAGGTAAAACAGTTCA-CATTTTTTTA-GAAAA---TCA
21751685 TGTTTAAGG-AAAACAGTTCACATTTTTTTAGAAAATCA
1 TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
*
21751723 TGTTTCAGGTAAAAC
1 TGTTTAAGGTAAAAC
21751738 CCTCATAGTA
Statistics
Matches: 124, Mismatches: 38, Indels: 29
0.65 0.20 0.15
Matches are distributed among these distances:
38 31 0.25
39 27 0.22
40 10 0.08
41 10 0.08
42 22 0.18
43 24 0.19
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (39 bp):
TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
Found at i:21757891 original size:15 final size:15
Alignment explanation
Indices: 21757871--21757918 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21757861 TCAAAGATGG
21757871 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
21757886 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
21757901 -TTTATGGATATAAA
1 GTTTATGGATATGAA
21757915 GTTT
1 GTTT
21757919 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:21757898 original size:29 final size:29
Alignment explanation
Indices: 21757865--21757924 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
21757855 AAGGATTCAA
* *
21757865 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
21757894 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
21757923 AG
1 AG
21757925 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:21762241 original size:12 final size:12
Alignment explanation
Indices: 21762215--21762251 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
21762205 GATTTTGTTT
*
21762215 TTTTTTCTTTCAA
1 TTTTTT-TTTGAA
21762228 TTTTTTTTTGAA
1 TTTTTTTTTGAA
21762240 TTTTTTTTTGAA
1 TTTTTTTTTGAA
21762252 ACTTACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:21762490 original size:15 final size:15
Alignment explanation
Indices: 21762470--21762517 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21762460 TCAAAGATAG
21762470 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
21762485 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
21762499 GTTTATGGATATAAA
1 GTTTATGGATATGAA
21762514 GTTT
1 GTTT
21762518 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:21762533 original size:29 final size:29
Alignment explanation
Indices: 21762464--21762523 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
21762454 AAGGATTCAA
* *
21762464 AGATAGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
21762493 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
21762522 AG
1 AG
21762524 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:21771505 original size:40 final size:40
Alignment explanation
Indices: 21771353--21771498 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
21771343 TTGAATGATG
* * * *
21771353 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
21771393 TCCGGACTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21771433 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21771474 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21771499 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 84 0.90
41 9 0.10
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21771505 original size:80 final size:80
Alignment explanation
Indices: 21771353--21771531 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 80
21771343 TTGAATGATG
* *
21771353 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGGCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGGCCCGAAGGCATTT
**
21771418 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * * *
21771433 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGGCCCGAAGGCATT
*
21771497 TGAACGAGTAGCTATA
65 TGAACGAGTAGCTAAA
* *
21771513 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21771532 TACGTGATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 16 0.19
80 61 0.73
81 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGGCCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:21772975 original size:15 final size:15
Alignment explanation
Indices: 21772955--21773002 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21772945 TCAAAGATGG
21772955 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
21772970 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
21772985 -TTTATGGATATAAA
1 GTTTATGGATATGAA
21772999 GTTT
1 GTTT
21773003 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:21772982 original size:29 final size:29
Alignment explanation
Indices: 21772949--21773008 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
21772939 AAGGATTCAA
* *
21772949 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
21772978 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
21773007 AG
1 AG
21773009 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:21785247 original size:48 final size:48
Alignment explanation
Indices: 21785176--21785271 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
21785166 AGTCAAAATC
21785176 TCCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTATGACCT
1 TCCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTATGACCT
21785224 TCCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTATGACCT
1 TCCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTATGACCT
21785272 GGATATCTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (48 bp):
TCCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTATGACCT
Found at i:21786576 original size:28 final size:27
Alignment explanation
Indices: 21786512--21786691 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
21786502 ATATTAAGTC
* *
21786512 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
21786539 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
21786567 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
21786594 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
21786622 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21786650 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
21786677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21786692 GCACAATTTA
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
27 66 0.46
28 76 0.53
29 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21786596 original size:55 final size:55
Alignment explanation
Indices: 21786512--21786691 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
21786502 ATATTAAGTC
* * *
21786512 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
21786567 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* *
21786622 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
21786677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21786692 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:21786651 original size:83 final size:82
Alignment explanation
Indices: 21786512--21786691 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
21786502 ATATTAAGTC
* * *
21786512 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
21786577 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
21786594 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
21786659 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
21786677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21786692 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:21790622 original size:85 final size:86
Alignment explanation
Indices: 21790491--21790656 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 86
21790481 AAAATGCCAC
*
21790491 AAAAGATCATGCCTTTTAGCAGCGTTTGTAGGAAAAATGCCTCTAAAAGTCATGGCCTTTAGCGG
1 AAAAGATCATGCCTTTTAGCAGCGTTTGTAGGAAAAATGCCTCTAAAAGTCATGGCCTTTAGCAG
*
21790556 CGTTTGTAGGAAAAGCGTGCT
66 CGTTTATAGGAAAAGCGTGCT
*
21790577 AAAAG-TCATGGCC-TTTAGCAGCGTTTGT-GGTAAAA-GCGCTGCTAAAAGTCATGGCCTTTAG
1 AAAAGATCAT-GCCTTTTAGCAGCGTTTGTAGGAAAAATGC-CT-CTAAAAGTCATGGCCTTTAG
* *
21790638 TAGCGTTTATGGGAAAAGC
63 CAGCGTTTATAGGAAAAGC
21790657 ACCGCTAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 8 0.11
85 54 0.75
86 8 0.11
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (86 bp):
AAAAGATCATGCCTTTTAGCAGCGTTTGTAGGAAAAATGCCTCTAAAAGTCATGGCCTTTAGCAG
CGTTTATAGGAAAAGCGTGCT
Found at i:21790655 original size:43 final size:43
Alignment explanation
Indices: 21790491--21790666 Score: 216
Period size: 43 Copynumber: 4.1 Consensus size: 43
21790481 AAAATGCCAC
*
21790491 AAAAGATCAT-GCCTTTTAGCAGCGTTTGTAGGAAAAATGC-CT-CT
1 AAAAG-TCATGGCC-TTTAGCAGCGTTTGT-GGGAAAA-GCGCTGCT
* *
21790535 AAAAGTCATGGCCTTTAGCGGCGTTTGTAGGAAAAGCG-TGCT
1 AAAAGTCATGGCCTTTAGCAGCGTTTGTGGGAAAAGCGCTGCT
*
21790577 AAAAGTCATGGCCTTTAGCAGCGTTTGTGGTAAAAGCGCTGCT
1 AAAAGTCATGGCCTTTAGCAGCGTTTGTGGGAAAAGCGCTGCT
* * * *
21790620 AAAAGTCATGGCCTTTAGTAGCGTTTATGGGAAAAGCACCGCT
1 AAAAGTCATGGCCTTTAGCAGCGTTTGTGGGAAAAGCGCTGCT
21790663 AAAA
1 AAAA
21790667 TCCATGTTAC
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.03
42 42 0.36
43 64 0.55
44 8 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAAGTCATGGCCTTTAGCAGCGTTTGTGGGAAAAGCGCTGCT
Found at i:21791082 original size:21 final size:21
Alignment explanation
Indices: 21791044--21791084 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21791034 TTCTGCTCTG
*
21791044 CTCTGCTACCATTGCTGCTGC
1 CTCTGCTACCATTACTGCTGC
* *
21791065 CTCTGCTTCCCTTACTGCTG
1 CTCTGCTACCATTACTGCTG
21791085 TCGCTGCCTC
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:0.07, C:0.39, G:0.17, T:0.37
Consensus pattern (21 bp):
CTCTGCTACCATTACTGCTGC
Found at i:21791091 original size:21 final size:21
Alignment explanation
Indices: 21791058--21791126 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
21791048 GCTACCATTG
* * * *
21791058 CTGCTGCCTCTGCTTCCCTTA
1 CTGCTGTCGCTGCCTCCCTCA
*
21791079 CTGCTGTCGCTGCCTCCCTCG
1 CTGCTGTCGCTGCCTCCCTCA
* * *
21791100 CTGCTGTCGTTGCCTCTCTCG
1 CTGCTGTCGCTGCCTCCCTCA
21791121 CTGCTG
1 CTGCTG
21791127 CATCCGCTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.42, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGCTGTCGCTGCCTCCCTCA
Found at i:21795904 original size:49 final size:49
Alignment explanation
Indices: 21795832--21796025 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
21795822 GCCGAAGCTA
* *
21795832 TCTGGTACGCATAGTACCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * ** *
21795881 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTTACCTCACCA-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * * * *
21795931 TCTAATACTCGTAATAGCCTGCACTTAGTACTACACACGTGA-TAACAG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
21795979 TTTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
21796026 TCGCAATAGA
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
47 3 0.03
49 36 0.31
50 38 0.33
51 38 0.33
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:21798214 original size:15 final size:15
Alignment explanation
Indices: 21798158--21798222 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
21798148 TAAAGATAAC
* *
21798158 AAGAAAACC-GAATA
1 AAGAAATCCAGAAAA
* *
21798172 AAGAAATCCAAGATAG
1 AAGAAATCC-AGAAAA
*
21798188 AA-AAACCCAGAAAA
1 AAGAAATCCAGAAAA
*
21798202 AAGAAATCCAGAATA
1 AAGAAATCCAGAAAA
21798217 AAGAAA
1 AAGAAA
21798223 CCCAAGATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
14 14 0.36
15 21 0.54
16 4 0.10
ACGTcount: A:0.65, C:0.14, G:0.14, T:0.08
Consensus pattern (15 bp):
AAGAAATCCAGAAAA
Found at i:21798224 original size:30 final size:31
Alignment explanation
Indices: 21798158--21798226 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
21798148 TAAAGATAAC
* *
21798158 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAAAAAAGAAATCCAAGATAG
21798188 AA-AAACCCAGAAAAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAAAAAAGAAATCCAAG-ATAG
21798217 AAGAAACCCA
1 AAGAAACCCA
21798227 AGATACGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.62, C:0.17, G:0.13, T:0.07
Consensus pattern (31 bp):
AAGAAACCCAGAAAAAAGAAATCCAAGATAG
Found at i:21800951 original size:31 final size:31
Alignment explanation
Indices: 21800916--21801017 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 31
21800906 TTATGTAAAT
21800916 AATTTTTTTTTAAATTTAATTCAACTTACAC
1 AATTTTTTTTTAAATTTAATTCAACTTACAC
** * * * * * *
21800947 AATTTTTGGTGAATTTTCAAAGTCTA-TGTAAAT
1 AATTTTTTTTTAAATTT--AATTCAACT-TACAC
21800980 AATTTTTTTTTAAATTTAATTCAACTTACAC
1 AATTTTTTTTTAAATTTAATTCAACTTACAC
21801011 AATTTTT
1 AATTTTT
21801018 GGTGAATTTC
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
31 28 0.55
32 2 0.04
33 21 0.41
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (31 bp):
AATTTTTTTTTAAATTTAATTCAACTTACAC
Found at i:21801008 original size:64 final size:64
Alignment explanation
Indices: 21800907--21801034 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
21800897 CTTTAAGCTT
*
21800907 TATGTAAATAATTTTTTTTTAAATTTAATTCAACTTACACAATTTTTGGTGAATTTTCAAAGTC
1 TATGTAAATAATTTTTTTTTAAATTTAATTCAACTTACACAATTTTTGGTGAATTTCCAAAGTC
21800971 TATGTAAATAATTTTTTTTTAAATTTAATTCAACTTACACAATTTTTGGTGAATTTCCAAAGTC
1 TATGTAAATAATTTTTTTTTAAATTTAATTCAACTTACACAATTTTTGGTGAATTTCCAAAGTC
21801035 ATGCACTGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (64 bp):
TATGTAAATAATTTTTTTTTAAATTTAATTCAACTTACACAATTTTTGGTGAATTTCCAAAGTC
Found at i:21801485 original size:101 final size:99
Alignment explanation
Indices: 21801311--21801495 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 99
21801301 CTGGTACGCA
* *
21801311 TAGTACCCTGCACTTAGTACTACACATGCGACCAACAGTTTGGTACACGTAGTAGCCTGCACCTA
1 TAGTACCCTGCACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGTAGCCTGCACCTA
* *
21801376 GTATTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
21801410 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTTGGGTACGCATAGTAGCCTGCAC
1 TAGTACCCTGCACTTAGTACTACACACGCGACCAACAG--TTT-GGTACACATAGTAGCCTGCAC
* *
21801474 TTAGTACTACACATGCGACCTC
63 CTAGTACTACACACGCGACCTC
21801496 GCAATAGATC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
98 4 0.05
99 29 0.40
100 3 0.04
101 37 0.51
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTACCCTGCACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGTAGCCTGCACCTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:21803434 original size:64 final size:64
Alignment explanation
Indices: 21803362--21803845 Score: 815
Period size: 64 Copynumber: 7.6 Consensus size: 64
21803352 TGATATATAT
* * * * * *
21803362 TTATGTATTATGTAAGTCATGTAAATTATATAAGTTATGAAATGTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
21803426 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
21803490 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
* * *
21803554 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
21803618 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
21803682 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
* * *
21803746 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
* * * * *
21803810 TTATGCATTATGTAAATTATATAAAATATGTGAGTT
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTT
21803846 GCTAGTGAAC
Statistics
Matches: 400, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 400 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATCTGAACTTTAAATTATTTTAG
Found at i:21805000 original size:20 final size:20
Alignment explanation
Indices: 21804975--21805013 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21804965 GAAGACTAAG
21804975 AAAATTAAACCGAAATTGGA
1 AAAATTAAACCGAAATTGGA
21804995 AAAATTAAACCGAAATTGG
1 AAAATTAAACCGAAATTGG
21805014 TTTTAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (20 bp):
AAAATTAAACCGAAATTGGA
Found at i:21806517 original size:21 final size:21
Alignment explanation
Indices: 21806493--21806546 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
21806483 CCCATAACCT
*
21806493 TAAACTCTAAACTATATCCTC
1 TAAACCCTAAACTATATCCTC
21806514 TAAACCCTAAACTATATCC-C
1 TAAACCCTAAACTATATCCTC
*
21806534 TTAAACCATAAAC
1 -TAAACCCTAAAC
21806547 CACAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCTC
Found at i:21806519 original size:28 final size:28
Alignment explanation
Indices: 21806454--21806526 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
21806444 TTAATCAAAA
21806454 CCCTAAACCTTAAAC-CATTAAACTATAT
1 CCCTAAACCTTAAACTCA-TAAACTATAT
*
21806482 CCCCATAACCTTAAACTC-TAAACTATAT
1 CCCTA-AACCTTAAACTCATAAACTATAT
*
21806510 CCTCTAAACCCTAAACT
1 CC-CTAAACCTTAAACT
21806527 ATATCCCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 26 0.67
29 12 0.31
30 1 0.03
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (28 bp):
CCCTAAACCTTAAACTCATAAACTATAT
Found at i:21806810 original size:22 final size:22
Alignment explanation
Indices: 21806740--21806815 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
21806730 ACAAAACAAT
*
21806740 AACCCCAAAGCCT-TAACCCTTA
1 AACCCCTAA-CCTATAACCCTTA
** * *
21806762 AACCATTAACCCATAACCCCTA
1 AACCCCTAACCTATAACCCTTA
21806784 AACCCCTAACCTATAACCCTTA
1 AACCCCTAACCTATAACCCTTA
21806806 AACCCC-AACC
1 AACCCCTAACC
21806816 CTTAAACCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 6 0.14
22 38 0.86
ACGTcount: A:0.38, C:0.43, G:0.01, T:0.17
Consensus pattern (22 bp):
AACCCCTAACCTATAACCCTTA
Found at i:21806871 original size:15 final size:15
Alignment explanation
Indices: 21806818--21806865 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
21806808 CCCCAACCCT
*
21806818 TAAA-CCATAAGCCA
1 TAAACCCATAATCCA
*
21806832 TAAA--CATAATCCC
1 TAAACCCATAATCCA
21806845 TAAACCCATAATCCA
1 TAAACCCATAATCCA
21806860 TAAACC
1 TAAACC
21806866 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 4 0.14
15 14 0.48
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:21808854 original size:47 final size:47
Alignment explanation
Indices: 21808800--21808931 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
21808790 CAAAATCGAT
* * *
21808800 AAGTACCTATATTATGGCCCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * * * *
21808847 GAGTACCTATACCATGGCCCATAGCCAAATCAAGATAACTCCTCTCA
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
*
21808894 AAATACCTATATCATGGCCCTGTAGCCAAATCAAGGTA
1 AAGTACCTATATCATGGCCC-GTAGCCAAATCAAGGTA
21808932 TTATTCGCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
47 55 0.79
48 15 0.21
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:21819888 original size:53 final size:53
Alignment explanation
Indices: 21819819--21819925 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
21819809 TTTTCCTTTT
* * * *
21819819 TGAACTTACCAATGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTA
*
21819872 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
21819925 T
1 T
21819926 AGTATGTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
Found at i:21821911 original size:24 final size:25
Alignment explanation
Indices: 21821804--21821898 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
21821794 GAGGAAGTGC
*
21821804 AAAAGGGCTTTGCCCTAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
21821829 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
21821854 AAAAGGGCTTTGCCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-G
21821879 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21821899 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:21821922 original size:50 final size:50
Alignment explanation
Indices: 21821829--21821924 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
21821819 TAGTTTACTG
**
21821829 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
21821879 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTTT
21821925 TATGATAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 5 0.12
49 10 0.25
50 25 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:21822181 original size:30 final size:32
Alignment explanation
Indices: 21822145--21822209 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
21822135 TGATATGAGT
21822145 TGTGAATTAT-AAAAGGCTTCAGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
*
21822175 TGTGAATTATGAAGAGGCTTCAGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
21822207 TGT
1 TGT
21822210 TGAGATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 10 0.31
31 18 0.56
32 4 0.12
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
Found at i:21833516 original size:30 final size:32
Alignment explanation
Indices: 21833480--21833544 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
21833470 TGATATGAGT
*
21833480 TGTGAATTAT-AAGAGGCTTTAGCCCAGTA-A
1 TGTGAATTATGAAGAGGCTTCAGCCCAGTATA
21833510 TGTGAATTATGAAGAGGCTTCAGCCCAGTATA
1 TGTGAATTATGAAGAGGCTTCAGCCCAGTATA
21833542 TGT
1 TGT
21833545 TGAGATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 10 0.31
31 18 0.56
32 4 0.12
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAGAGGCTTCAGCCCAGTATA
Found at i:21834306 original size:54 final size:55
Alignment explanation
Indices: 21834214--21834317 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 55
21834204 GGGGTGTTAC
* *
21834214 ATAGTAACTCATCAATGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTT
1 ATAGTAACTCATCAATGCCATGCCTCGACATGGTCTTACATGATATCCTTGCCTT
* * **
21834269 ATAG-AACTTATCAATGCCATGCCTTGGTATGGTCTTACATGATATCCTT
1 ATAGTAACTCATCAATGCCATGCCTCGACATGGTCTTACATGATATCCTT
21834318 ATCTTACCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (55 bp):
ATAGTAACTCATCAATGCCATGCCTCGACATGGTCTTACATGATATCCTTGCCTT
Found at i:21834351 original size:47 final size:47
Alignment explanation
Indices: 21834296--21834417 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
21834286 CATGCCTTGG
* *
21834296 TATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
21834343 TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
21834390 CATGGTCTTACATGGTATCCTTGTCTTA
1 TATGGTCTTACATGGTATCCTTGTCTTA
21834418 GTGCTAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:21838934 original size:40 final size:40
Alignment explanation
Indices: 21838890--21839077 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
21838880 GCTACTTGCT
*
21838890 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21838930 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21838970 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21839010 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21839049 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
21839078 CATTCGAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 100 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21841358 original size:29 final size:27
Alignment explanation
Indices: 21841320--21841376 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
21841310 AATTTTTGGG
**
21841320 TTTTCTGTGTTTCTGTGTTTTTTAAAATA
1 TTTTCTGTG-TTCTG-GTTGGTTAAAATA
*
21841349 TTTTGTGTGTTCTGGTTGGTTAAAATA
1 TTTTCTGTGTTCTGGTTGGTTAAAATA
21841376 T
1 T
21841377 ATATTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.48
28 5 0.20
29 8 0.32
ACGTcount: A:0.18, C:0.05, G:0.19, T:0.58
Consensus pattern (27 bp):
TTTTCTGTGTTCTGGTTGGTTAAAATA
Found at i:21842551 original size:19 final size:19
Alignment explanation
Indices: 21842527--21842571 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
21842517 TTTTGGGCTT
21842527 AATGGGCTGAAAACGGGCC
1 AATGGGCTGAAAACGGGCC
*
21842546 AATGGGCTGAAAACTGGCC
1 AATGGGCTGAAAACGGGCC
21842565 AATGGGC
1 AATGGGC
21842572 CAACGGGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.36, T:0.13
Consensus pattern (19 bp):
AATGGGCTGAAAACGGGCC
Found at i:21843308 original size:19 final size:19
Alignment explanation
Indices: 21843286--21843325 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21843276 TTTTTCTAAG
*
21843286 TTAGTTTATTTTTATTATT
1 TTAGTTTACTTTTATTATT
21843305 TTAGTTTACTTTTATTATT
1 TTAGTTTACTTTTATTATT
21843324 TT
1 TT
21843326 TATATTCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (19 bp):
TTAGTTTACTTTTATTATT
Found at i:21851275 original size:20 final size:20
Alignment explanation
Indices: 21851250--21851396 Score: 102
Period size: 20 Copynumber: 7.3 Consensus size: 20
21851240 AAAATGAAAA
*
21851250 AGTGCCCCTATTTGCACATC
1 AGTGCCCTTATTTGCACATC
* * *
21851270 AGTGCCCTTGTTTGTACTTC
1 AGTGCCCTTATTTGCACATC
* *
21851290 -GATACCCCTATTTGCACATC
1 AG-TGCCCTTATTTGCACATC
* *
21851310 AGTGCCCTTGA-TTGTACTTC
1 AGTGCCCTT-ATTTGCACATC
* *
21851330 GGTACCCTTATTTGCACATC
1 AGTGCCCTTATTTGCACATC
* * * *
21851350 AGTGCCATTTTTTGTACTTC
1 AGTGCCCTTATTTGCACATC
* *
21851370 GGTACCCTTGA-TTGCACATC
1 AGTGCCCTT-ATTTGCACATC
21851390 AGTGCCC
1 AGTGCCC
21851397 CTGATTATAC
Statistics
Matches: 91, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.02
20 87 0.96
21 2 0.02
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
AGTGCCCTTATTTGCACATC
Found at i:21851309 original size:40 final size:40
Alignment explanation
Indices: 21851254--21851418 Score: 233
Period size: 40 Copynumber: 4.1 Consensus size: 40
21851244 TGAAAAAGTG
* *
21851254 CCCCTATTTGCACATCAGTGCCCTTGTTTGTACTTCGATA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
21851294 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
* * **
21851334 CCCTTATTTGCACATCAGTGCCATTTTTTGTACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
* * *
21851374 CCCTTGA-TTGCACATCAGTGCCCCTGATTATACTTCGGTA
1 CCCCT-ATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
21851414 CCCCT
1 CCCCT
21851419 GAATGCACAT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 111 0.99
41 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (40 bp):
CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
Found at i:21851417 original size:20 final size:20
Alignment explanation
Indices: 21851364--21851420 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
21851354 CCATTTTTTG
* *
21851364 TACTTCGGTACCCTTGATTG
1 TACTTCGGTACCCCTGATTA
* * * *
21851384 CACATCAGTGCCCCTGATTA
1 TACTTCGGTACCCCTGATTA
21851404 TACTTCGGTACCCCTGA
1 TACTTCGGTACCCCTGA
21851421 ATGCACATCT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.32
Consensus pattern (20 bp):
TACTTCGGTACCCCTGATTA
Found at i:21851468 original size:80 final size:80
Alignment explanation
Indices: 21851262--21851468 Score: 188
Period size: 80 Copynumber: 2.6 Consensus size: 80
21851252 TGCCCCTATT
* * ** * *
21851262 TGCACATCAGTGCC-CTTGTTTGTACTTCGATACCCCT-ATTTGCACATCAGTGCCCTTGATTGT
1 TGCACATCAGTGCCAC-TGTTTGCACTTCGGTACCCCTGA-TCACACATCAGTGCCCCTGATTAT
* *
21851325 ACTTCGGTACCCTTATT
64 ACTTCGGTACCCTGATA
* * * * **
21851342 TGCACATCAGTGCCATTTTTTGTACTTCGGTACCCTTGATTGCACATCAGTGCCCCTGATTATAC
1 TGCACATCAGTGCCACTGTTTGCACTTCGGTACCCCTGATCACACATCAGTGCCCCTGATTATAC
21851407 TTCGGTACCCCTGA-A
66 TTCGGTA-CCCTGATA
* * * *
21851422 TGCACATCTGTTTCC-CTGTTTGCACTTTGGTGCCCCTGATCACACAT
1 TGCACATCAG-TGCCACTGTTTGCACTTCGGTACCCCTGATCACACAT
21851469 TTATGCTCTT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
80 96 0.91
81 9 0.09
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (80 bp):
TGCACATCAGTGCCACTGTTTGCACTTCGGTACCCCTGATCACACATCAGTGCCCCTGATTATAC
TTCGGTACCCTGATA
Found at i:21851495 original size:20 final size:20
Alignment explanation
Indices: 21851436--21851495 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
21851426 CATCTGTTTC
* *
21851436 CCTGTTTGCACTTTGGTGCC
1 CCTGATTGCACTTTGGTGCT
** *
21851456 CCTGATCACACATTT-ATGCT
1 CCTGATTGCAC-TTTGGTGCT
*
21851476 CTTGATTGCACTTTGGTGCT
1 CCTGATTGCACTTTGGTGCT
21851496 TGTGTTATGC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (20 bp):
CCTGATTGCACTTTGGTGCT
Found at i:21852959 original size:20 final size:22
Alignment explanation
Indices: 21852934--21852973 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
21852924 GGTATAGAAA
21852934 TTTGGT-TATTTT-ATGCATGT
1 TTTGGTATATTTTAATGCATGT
*
21852954 TTTGGTATGTTTTAATGCAT
1 TTTGGTATATTTTAATGCAT
21852974 TGGTCATGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (22 bp):
TTTGGTATATTTTAATGCATGT
Found at i:21853127 original size:43 final size:43
Alignment explanation
Indices: 21853066--21853156 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
21853056 TACAGCTTAA
*
21853066 GACACGGACGTGTACCTCAACCGTTTATGACACACGACTATGT
1 GACACGGACGTGTACCTCAACCGTGTATGACACACGACTATGT
** * *
21853109 GACACGGGTGTGTGCCTCAGCCGTGTATGACACACGACTATGT
1 GACACGGACGTGTACCTCAACCGTGTATGACACACGACTATGT
21853152 GACAC
1 GACAC
21853157 TATCGTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (43 bp):
GACACGGACGTGTACCTCAACCGTGTATGACACACGACTATGT
Found at i:21853165 original size:43 final size:44
Alignment explanation
Indices: 21853066--21853170 Score: 135
Period size: 43 Copynumber: 2.4 Consensus size: 44
21853056 TACAGCTTAA
* *
21853066 GACACGGA-CGTGTACCTCAACCGTTTATGACACACGACTATGT
1 GACACGGATCGTGTGCCTCAACCGTGTATGACACACGACTATGT
* *
21853109 GACACGGGT-GTGTGCCTCAGCCGTGTATGACACACGACTATGT
1 GACACGGATCGTGTGCCTCAACCGTGTATGACACACGACTATGT
*
21853152 GACAC-TATCGTGTGTCCTC
1 GACACGGATCGTGTG-CCTC
21853171 TCTAGGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 48 0.91
44 4 0.08
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (44 bp):
GACACGGATCGTGTGCCTCAACCGTGTATGACACACGACTATGT
Found at i:21868893 original size:46 final size:46
Alignment explanation
Indices: 21868843--21869018 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
21868833 TGGTTGAGCA
21868843 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21868889 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21868934 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21868982 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
21869019 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21868999 original size:93 final size:93
Alignment explanation
Indices: 21868840--21869011 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
21868830 GGATGGTTGA
* *
21868840 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
21868905 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21868933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
21868997 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
21869012 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21871416 original size:83 final size:83
Alignment explanation
Indices: 21871277--21871442 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
21871267 CCGATGAGTA
21871277 GTTCATTTTCACAGCAACCTAGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGCTTCAGCTGGA
1 GTTCATTTTCACAGCAACCTAGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGCTTCAGCTGGA
21871342 CAATCATATGGGAATTAT
66 CAATCATATGGGAATTAT
* *
21871360 GTTCATTTTCATAGCAACCTAGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGCTTCAGCTGGG
1 GTTCATTTTCACAGCAACCTAGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGCTTCAGCTGGA
21871425 CAATCATATGGGAATTAT
66 CAATCATATGGGAATTAT
21871443 AGGAAGCAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (83 bp):
GTTCATTTTCACAGCAACCTAGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGCTTCAGCTGGA
CAATCATATGGGAATTAT
Found at i:21895056 original size:80 final size:79
Alignment explanation
Indices: 21894972--21895143 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
21894962 GGACTAAGAT
*
21894972 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
21895036 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
21895052 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21895117 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
21895131 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21895144 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:21895123 original size:39 final size:39
Alignment explanation
Indices: 21894919--21895141 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
21894909 TTGAATGCTG
* * * * *
21894919 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
21894959 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
21894998 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
21895039 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
21895079 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
21895118 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21895142 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21895161 original size:79 final size:80
Alignment explanation
Indices: 21894999--21895176 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
21894989 AGATACAAAT
* * * *
21894999 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
21895064 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
21895079 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
21895143 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
21895158 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21895177 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:21897330 original size:20 final size:20
Alignment explanation
Indices: 21897301--21897344 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21897291 CAATTCATTC
*
21897301 TCATTCATATAATCAACAAT
1 TCATTCATATAACCAACAAT
* *
21897321 TCATTTATATAACCAAGAAT
1 TCATTCATATAACCAACAAT
21897341 TCAT
1 TCAT
21897345 CTGTATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TCATTCATATAACCAACAAT
Found at i:21897351 original size:20 final size:20
Alignment explanation
Indices: 21897307--21897352 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
21897297 ATTCTCATTC
* *
21897307 ATATAATCAACAATTCATTT
1 ATATAACCAACAATTCATCT
*
21897327 ATATAACCAAGAATTCATCT
1 ATATAACCAACAATTCATCT
*
21897347 GTATAA
1 ATATAA
21897353 TTGTTAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (20 bp):
ATATAACCAACAATTCATCT
Found at i:21901411 original size:33 final size:32
Alignment explanation
Indices: 21901374--21901520 Score: 107
Period size: 33 Copynumber: 4.4 Consensus size: 32
21901364 ATAACCCGGT
21901374 TATGGTCTTATCATCAAAATGTCATAGCCCAGC
1 TATGGTCTTA-CATCAAAATGTCATAGCCCAGC
* * * * * * *
21901407 TATGGTCTTACATATAAATACTATCTTGGTCTAAC
1 TATGGTCTTACAT-CAAA-A-TGTCATAGCCCAGC
* * * *
21901442 CATGGTCTTACATTCAAGATGTCATAACCCAGT
1 TATGGTCTTACA-TCAAAATGTCATAGCCCAGC
* *
21901475 TATGGTCTTTTCATTAAAAT-TCCATAGCCCAGC
1 TATGGTC-TTACATCAAAATGT-CATAGCCCAGC
21901508 TATGGTCTTACAT
1 TATGGTCTTACAT
21901521 ATAAATACTA
Statistics
Matches: 83, Mismatches: 25, Indels: 13
0.69 0.21 0.11
Matches are distributed among these distances:
32 9 0.11
33 46 0.55
34 6 0.07
35 21 0.25
36 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (32 bp):
TATGGTCTTACATCAAAATGTCATAGCCCAGC
Found at i:21901468 original size:101 final size:101
Alignment explanation
Indices: 21901340--21901544 Score: 306
Period size: 101 Copynumber: 2.0 Consensus size: 101
21901330 CATGGCCCTG
* *
21901340 CCATGGTCTTACATTCGTAGTGCCATAACCCGGTTATGGTCTTATCATCAAAATGT-CATAGCCC
1 CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAAT-TCCATAGCCC
* * *
21901404 AGCTATGGTCTTACATATAAATACTATCTTGGTCTAA
65 AGCTATGGTCTTACATATAAATACTACCATGGTCCAA
* * *
21901441 CCATGGTCTTACATTC-AAGATGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCCC
1 CCATGGTCTTACATTCGAAG-TGCCATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCC
21901505 AGCTATGGTCTTACATATAAATACTACCATGGTCCAA
65 AGCTATGGTCTTACATATAAATACTACCATGGTCCAA
21901542 CCA
1 CCA
21901545 CAGGCTTACG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
100 3 0.03
101 91 0.97
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCCA
GCTATGGTCTTACATATAAATACTACCATGGTCCAA
Found at i:21902146 original size:21 final size:20
Alignment explanation
Indices: 21902118--21902157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21902108 CAAATCTTGT
21902118 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
21902138 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
21902158 AAAGCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:21904955 original size:28 final size:28
Alignment explanation
Indices: 21904898--21905778 Score: 1442
Period size: 28 Copynumber: 31.5 Consensus size: 28
21904888 TAAATTGTGC
* *
21904898 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21904925 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21904953 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21904981 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905009 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905037 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905065 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905093 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905121 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905149 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905177 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905205 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905233 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905261 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905289 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905317 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905345 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905373 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905401 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905429 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905457 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905485 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905513 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905541 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905569 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905597 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905625 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905653 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905681 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21905709 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
21905737 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21905764 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21905779 GACTTAATAT
Statistics
Matches: 792, Mismatches: 61, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
27 37 0.05
28 755 0.95
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:21904985 original size:56 final size:56
Alignment explanation
Indices: 21904898--21905778 Score: 1694
Period size: 56 Copynumber: 15.8 Consensus size: 56
21904888 TAAATTGTGC
* *
21904898 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21904953 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905009 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905065 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905121 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905177 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905233 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905289 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905345 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905401 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905457 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905513 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905569 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
21905625 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
21905681 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
21905737 AGCACTAGGTGTGCGAGC-TGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCG
21905779 GACTTAATAT
Statistics
Matches: 819, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
55 38 0.05
56 781 0.95
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:21912756 original size:25 final size:24
Alignment explanation
Indices: 21912722--21912849 Score: 100
Period size: 25 Copynumber: 5.2 Consensus size: 24
21912712 TAGGGATTAT
21912722 CGATTTCAGCTCGTGAGAGCTTAC
1 CGATTTCAGCTCGTGAGAGCTTAC
**
21912746 CGATTCTCAGCTTAT-ATGAGCTTAC
1 CGATT-TCAGCTCGTGA-GAGCTTAC
* * *
21912771 CAATTTCAACTC-TAGAGAGCTTAT
1 CGATTTCAGCTCGT-GAGAGCTTAC
*
21912795 AGATTTTCAGCTCGT-ATGAGCTTAC
1 CGA-TTTCAGCTCGTGA-GAGCTTAC
* * *
21912820 CGATTTATAGCTTGTGAGAGCATAC
1 CGATTT-CAGCTCGTGAGAGCTTAC
21912845 CGATT
1 CGATT
21912850 CATAGCTCGT
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
23 1 0.01
24 23 0.28
25 55 0.68
26 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
CGATTTCAGCTCGTGAGAGCTTAC
Found at i:21912865 original size:25 final size:25
Alignment explanation
Indices: 21912803--21912867 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
21912793 ATAGATTTTC
* *
21912803 AGCTCGTATGAGCTTACCGATTTAT
1 AGCTCGTATGAGCATACCGATTCAT
*
21912828 AGCTTGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCGATTCAT
21912853 AGCTCGTATGAGCAT
1 AGCTCGTATGAGCAT
21912868 TATTTACAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAT
Found at i:21915992 original size:28 final size:28
Alignment explanation
Indices: 21915952--21916245 Score: 536
Period size: 28 Copynumber: 10.5 Consensus size: 28
21915942 TAAATTGTAC
*
21915952 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21915980 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21916008 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21916036 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21916064 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21916092 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21916120 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21916148 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21916176 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21916204 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21916231 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21916246 GACTTAATAT
Statistics
Matches: 263, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 24 0.09
28 239 0.91
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:21920568 original size:25 final size:25
Alignment explanation
Indices: 21920528--21920578 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21920518 GCATGACTAT
* *
21920528 AAATGTGAATTAGGCCTGATGGGCC
1 AAATGTGAATTAGGCCTAAAGGGCC
* *
21920553 AAATGTGATTTGGGCCTAAAGGGCC
1 AAATGTGAATTAGGCCTAAAGGGCC
21920578 A
1 A
21920579 TATAAATGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (25 bp):
AAATGTGAATTAGGCCTAAAGGGCC
Found at i:21920604 original size:28 final size:29
Alignment explanation
Indices: 21920553--21920610 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
21920543 CTGATGGGCC
21920553 AAATGTGATTTGGGCCTAAAGGGCCATAT
1 AAATGTGATTTGGGCCTAAAGGGCCATAT
**
21920582 AAATGTGA-TTGGGCCTAGTGGGCCATAT
1 AAATGTGATTTGGGCCTAAAGGGCCATAT
21920610 A
1 A
21920611 CAGGTATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
AAATGTGATTTGGGCCTAAAGGGCCATAT
Found at i:21923833 original size:15 final size:16
Alignment explanation
Indices: 21923813--21923842 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21923803 TGGTGCCTTG
21923813 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
21923828 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
21923843 AGCATGTTTG
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:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:21926789 original size:46 final size:46
Alignment explanation
Indices: 21926739--21926914 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
21926729 TGATTGAGCA
21926739 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21926785 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21926830 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
21926878 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21926915 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 5 0.04
46 62 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21926895 original size:93 final size:93
Alignment explanation
Indices: 21926736--21926906 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21926726 GGATGATTGA
*
21926736 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
21926801 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21926829 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
21926893 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
21926907 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21928757 original size:39 final size:39
Alignment explanation
Indices: 21928685--21928841 Score: 242
Period size: 39 Copynumber: 4.0 Consensus size: 39
21928675 AATTATATTA
* * *
21928685 CCAGCACAAAGCATGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
21928724 CCTGCACGAAGCCTACGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
21928763 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
21928802 TCAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
21928841 C
1 C
21928842 GAGTATCTTG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:21931359 original size:20 final size:20
Alignment explanation
Indices: 21931317--21931366 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21931307 ATAAATTGGA
* *
21931317 ATCAAGCTCAATTAGCTAGC
1 ATCAAGCTGAATTAGCTACC
21931337 ATCAAGCTGAATTAAGCT-CC
1 ATCAAGCTGAATT-AGCTACC
*
21931357 ATCGAGCTGA
1 ATCAAGCTGA
21931367 GTCGAGCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCAAGCTGAATTAGCTACC
Found at i:21932580 original size:16 final size:14
Alignment explanation
Indices: 21932547--21932603 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 14
21932537 ATCAATATTT
*
21932547 TAAAAAATAAATAT
1 TAAAAAATAAATAA
21932561 TAAAAAATTAAATTAA
1 TAAAAAA-TAAA-TAA
*
21932577 TAAAAAGATATATACA
1 TAAAAA-ATAAATA-A
*
21932593 TATAAAATAAA
1 TAAAAAATAAA
21932604 CTTTGACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.20
15 10 0.29
16 17 0.49
17 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
TAAAAAATAAATAA
Found at i:21932765 original size:16 final size:16
Alignment explanation
Indices: 21932744--21932776 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21932734 GAAAAAATTT
21932744 AATAATTTATAAAAAC
1 AATAATTTATAAAAAC
*
21932760 AATAATTTATTAAAAC
1 AATAATTTATAAAAAC
21932776 A
1 A
21932777 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATTTATAAAAAC
Found at i:21934368 original size:29 final size:29
Alignment explanation
Indices: 21934325--21934381 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
21934315 TGTTTTTTGG
*
21934325 TTGGTTTGCTAACTAACCGAAAAACTTAC
1 TTGGTTTGCTAACTAACCAAAAAACTTAC
*
21934354 TTGGTTTGCTGACTAACCAAAAAACTTA
1 TTGGTTTGCTAACTAACCAAAAAACTTA
21934382 GGTAACGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (29 bp):
TTGGTTTGCTAACTAACCAAAAAACTTAC
Found at i:21937790 original size:57 final size:56
Alignment explanation
Indices: 21937687--21937793 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 56
21937677 CCTGTTTTCA
* *
21937687 ACATATGCTCACAAAAGCTTAATCAGGATTACCCGTCCGGGATAAATCCTATCTGT
1 ACATATGCTCACAAAAGCTTAATCAGGATTACCAGTCCAGGATAAATCCTATCTGT
* * * *
21937743 ACATATGCTCA-AGAGGACTTATATCAGGATTACCAGTCTAGGCTAAATCCT
1 ACATATGCTCACAAAAG-CTTA-ATCAGGATTACCAGTCCAGGATAAATCCT
21937794 TTATGTAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
55 3 0.07
56 15 0.35
57 25 0.58
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (56 bp):
ACATATGCTCACAAAAGCTTAATCAGGATTACCAGTCCAGGATAAATCCTATCTGT
Found at i:21937903 original size:18 final size:18
Alignment explanation
Indices: 21937880--21937925 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
21937870 AGGGAAATCA
21937880 CATTTA-TCTATCGATTTT
1 CATTTATTC-ATCGATTTT
21937898 CATTTATTCATCGATTTT
1 CATTTATTCATCGATTTT
21937916 CATTTATTCA
1 CATTTATTCA
21937926 AACGGGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.54
Consensus pattern (18 bp):
CATTTATTCATCGATTTT
Found at i:21938332 original size:21 final size:21
Alignment explanation
Indices: 21938288--21938335 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21938278 TATACGAGTA
*
21938288 AATTTAAAATCAATTTAATAC
1 AATTTAAAATCAATTCAATAC
* * *
21938309 AATTTAAACTCAATTCAGTCC
1 AATTTAAAATCAATTCAATAC
21938330 AATTTA
1 AATTTA
21938336 CATCTTAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTTAAAATCAATTCAATAC
Found at i:21940029 original size:40 final size:40
Alignment explanation
Indices: 21939985--21940065 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
21939975 CCGCAAGTTT
* *
21939985 TGTACTTTTTGAAAATTTAGCCCTTCATATTTACAAATTC
1 TGTACTTTTTGAAAATTTAACCCTCCATATTTACAAATTC
21940025 TGTACTTTTTGAAAATTTAACCCTCCATATTTACAAATTC
1 TGTACTTTTTGAAAATTTAACCCTCCATATTTACAAATTC
21940065 T
1 T
21940066 ATCAATTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (40 bp):
TGTACTTTTTGAAAATTTAACCCTCCATATTTACAAATTC
Found at i:21965013 original size:42 final size:42
Alignment explanation
Indices: 21964950--21965099 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
21964940 TTACTAGTGT
* **
21964950 GTAAGACCATATCTGGTATATGGCATTTATATGAGACTTCGG
1 GTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGG
* *
21964992 GTAAGACCATATTTGGGATATGGCATCAATATGAGACTTCGT
1 GTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGG
* * * * **
21965034 GTAAGACTATAGCTGGGCTATTGGCATCGATATGAGA-TTACAT
1 GTAAGACCATATCTGGGATA-TGGCATCAATATGAGACTT-CGG
**
21965077 GTAAGATTATATCTGGGATATGG
1 GTAAGACCATATCTGGGATATGG
21965100 AATTGGTACG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
42 58 0.63
43 34 0.37
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (42 bp):
GTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGG
Found at i:21965080 original size:43 final size:43
Alignment explanation
Indices: 21964978--21965093 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
21964968 TATGGCATTT
** * ** *
21964978 ATATGAGACTTCGGGTAAGACCATATTTGGGATA-TGGCATCA
1 ATATGAGACTTCATGTAAGACTATAGCTGGGCTATTGGCATCA
* *
21965020 ATATGAGACTTCGTGTAAGACTATAGCTGGGCTATTGGCATCG
1 ATATGAGACTTCATGTAAGACTATAGCTGGGCTATTGGCATCA
* *
21965063 ATATGAGA-TTACATGTAAGATTATATCTGGG
1 ATATGAGACTT-CATGTAAGACTATAGCTGGG
21965094 ATATGGAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (43 bp):
ATATGAGACTTCATGTAAGACTATAGCTGGGCTATTGGCATCA
Found at i:21969467 original size:26 final size:26
Alignment explanation
Indices: 21969436--21969494 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
21969426 TGAATGGTCC
*
21969436 GTTGAATGTTAGTAAAGTTGAAAATA
1 GTTGAAGGTTAGTAAAGTTGAAAATA
21969462 GTTGAAGGTTAGTAAAGTTGAAAATA
1 GTTGAAGGTTAGTAAAGTTGAAAATA
21969488 GTTGAAG
1 GTTGAAG
21969495 TTGTTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (26 bp):
GTTGAAGGTTAGTAAAGTTGAAAATA
Found at i:21971742 original size:42 final size:42
Alignment explanation
Indices: 21971672--21971835 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
21971662 TTAGGGTTAC
** * * **
21971672 TGAGATTACGTGTAAGGCCATATATGGGATATGGCATCTTTA
1 TGAGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
*
21971714 TGTGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
** * *
21971756 TGAGCCTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTTGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *** *
21971799 CGAGATTACATGTAAGACTATATCTGGGATATGGCAT
1 TGAGATTTTGTGTAAGACCATATCTGGGATATGGCAT
21971836 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 67 0.67
43 33 0.33
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TGAGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:21971813 original size:43 final size:42
Alignment explanation
Indices: 21971724--21971835 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
21971714 TGTGATTTTG
* * **
21971724 TGTAAGACCATATCTGGGATATGGCATCGATATGAGCCTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGCATTCA
* *
21971766 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAG-ATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGCATT-CA
*
21971809 TGTAAGACTATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
21971836 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGCATTCA
Found at i:21988081 original size:144 final size:144
Alignment explanation
Indices: 21987819--21988099 Score: 413
Period size: 144 Copynumber: 2.0 Consensus size: 144
21987809 ACTCCCAGTT
* * * * *
21987819 ATAGCTCGCGGACCGACGCTTCCAACTGATAAACTTCAACATAGCTTGTGGACCTATGTTACCAG
1 ATAGCTCGCGGAACGACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACGCTACCAA
* * *
21987884 CTGATGTTTAAAGGTCAGATGAGTTATACTCATAACCTTCATTTATTTAAGTAAGCTGAGTTAAG
66 CTGATGTTTAAAGGTCAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTAAG
21987949 CTTGCTATTCTGGA
131 CTTGCTATTCTGGA
* *
21987963 ATAGCTCGC-GAACGTACGCTTCCAACTGATAAATTTCAACATAGCTAGTGGACCTACGCTCCCA
1 ATAGCTCGCGGAACG-ACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACGCTACCA
* * *
21988027 ATTGATGTTTAAAGGAT-AGATAAATTATACTCAGAACCTTCTTTTATTTGAGTAAGCTGAGTTA
65 ACTGATGTTTAAAGG-TCAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTA
21988091 AGCTTGCTA
129 AGCTTGCTA
21988100 CTCCAGAACA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
143 4 0.03
144 117 0.96
145 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (144 bp):
ATAGCTCGCGGAACGACGCTTCCAACTGATAAACTTCAACATAGCTAGTGGACCTACGCTACCAA
CTGATGTTTAAAGGTCAGATAAATTATACTCAGAACCTTCATTTATTTAAGTAAGCTGAGTTAAG
CTTGCTATTCTGGA
Found at i:21994188 original size:49 final size:49
Alignment explanation
Indices: 21994116--21994302 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
21994106 GCCGAAGCTA
* *
21994116 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAACAG
* ** *
21994165 TCTGGTACACATAGTACCCTGCACTTAGTACTACACACATGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CT-AACAG
** * * * *
21994215 TCTAATACACGTAGTAGCCTGCACTTAATACTACACACGTGA-TCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAACAG
* *
21994263 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
21994303 TGCGGCCTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 37 0.33
50 38 0.34
51 34 0.30
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACTAACAG
Found at i:21997585 original size:30 final size:30
Alignment explanation
Indices: 21997545--21997612 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
21997535 TGCAAGTTCA
*
21997545 ACCCTATAATCATTTTCAATTACATATCAT
1 ACCCTGTAATCATTTTCAATTACATATCAT
21997575 ACCCTGTAATCATTTTCAATTACATATCAT
1 ACCCTGTAATCATTTTCAATTACATATCAT
*
21997605 ACTCTGTA
1 ACCCTGTA
21997613 CAATATGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
ACCCTGTAATCATTTTCAATTACATATCAT
Done.