Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000378.1 Hibiscus syriacus cultivar Beakdansim tig00000694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 295613
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:1771 original size:15 final size:15
Alignment explanation
Indices: 1751--1785 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1741 TTTCATCCCA
1751 TAAAATATTGAATAT
1 TAAAATATTGAATAT
1766 TAAAATATTGAATAT
1 TAAAATATTGAATAT
1781 TAAAA
1 TAAAA
1786 ATATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
TAAAATATTGAATAT
Found at i:8651 original size:21 final size:21
Alignment explanation
Indices: 8627--8669 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8617 TATTAAATTT
8627 TTAGGATAGAATAATTACATG
1 TTAGGATAGAATAATTACATG
*
8648 TTAGTATAGAATAATTACATG
1 TTAGGATAGAATAATTACATG
8669 T
1 T
8670 GAGATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (21 bp):
TTAGGATAGAATAATTACATG
Found at i:9202 original size:20 final size:20
Alignment explanation
Indices: 9172--9231 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
9162 CACATTAATT
9172 TAAATAAAATTAAAAAATTAA
1 TAAA-AAAATTAAAAAATTAA
**
9193 TAAAAAAATT-AAATTTATAA
1 TAAAAAAATTAAAAAAT-TAA
*
9213 TAAAAATATTAAAAAATTA
1 TAAAAAAATTAAAAAATTA
9232 CTTTGGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.12
20 20 0.62
21 8 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAAATTAAAAAATTAA
Found at i:9206 original size:17 final size:18
Alignment explanation
Indices: 9186--9219 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9176 TAAAATTAAA
9186 AAATTAATAA-AAAAATT
1 AAATTAATAATAAAAATT
*
9203 AAATTTATAATAAAAAT
1 AAATTAATAATAAAAAT
9220 ATTAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTAATAATAAAAATT
Found at i:9286 original size:23 final size:22
Alignment explanation
Indices: 9253--9315 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
9243 TTTTCAAAAT
9253 ATATTT-A-AAATTTTCAATCA-A
1 ATATTTAATAAATTTT-AAT-ATA
9274 ATATTTAATAAATTATTAATATA
1 ATATTTAATAAATT-TTAATATA
*
9297 ATATTTTATTAAATTTTAA
1 ATA-TTTAATAAATTTTAA
9316 ACTTTTCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 6 0.17
22 2 0.06
23 16 0.44
24 12 0.33
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTTAATAAATTTTAATATA
Found at i:9884 original size:14 final size:15
Alignment explanation
Indices: 9847--9884 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9837 ATATATTATA
*
9847 GATCCGAAATAACTC
1 GATCCAAAATAACTC
*
9862 GATCCAAAATGACTC
1 GATCCAAAATAACTC
9877 GA-CCAAAA
1 GATCCAAAA
9885 CCCGATCCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (15 bp):
GATCCAAAATAACTC
Found at i:10080 original size:16 final size:15
Alignment explanation
Indices: 10039--10082 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
10029 TATTTGAATA
10039 AAAGATACTTTAA-TG
1 AAAGATA-TTTAATTG
10054 AAAGA-ATTTAATTG
1 AAAGATATTTAATTG
10068 AAATGATATTTAATT
1 AAA-GATATTTAATT
10083 AATTCATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 7 0.27
16 8 0.31
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (15 bp):
AAAGATATTTAATTG
Found at i:10862 original size:22 final size:22
Alignment explanation
Indices: 10799--10863 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
10789 AAGATGTAAT
* **
10799 CTATGGAGTTAAGTCCAAGCAG
1 CTATGGAGGTAAGTCCAAGTTG
*
10821 TTATGGAGGTAAGTCCAAGTTG
1 CTATGGAGGTAAGTCCAAGTTG
10843 CTATGGAGGTAAGTCCAAGTT
1 CTATGGAGGTAAGTCCAAGTT
10864 TCATGAAGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (22 bp):
CTATGGAGGTAAGTCCAAGTTG
Found at i:14411 original size:91 final size:89
Alignment explanation
Indices: 14258--14431 Score: 276
Period size: 91 Copynumber: 1.9 Consensus size: 89
14248 ACACACCCTT
*
14258 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCAATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCAATATTTA
* *
14323 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* * *
14347 TTATATCCAAGTTACCCTAATCATATTAAAGGATTTTATTATTTTAAATTAATTAAATCTATATT
1 TTATAGCCAAGTTACCCTAATCATATT--AGGATTTTATTATTTCAAATTAATTAAATCAATATT
14412 TAATTAATTGAAATTAAATA
64 TAATTAATTGAAATTAAATA
14432 TTCGGGATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 26 0.34
91 51 0.66
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCAATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:21188 original size:90 final size:89
Alignment explanation
Indices: 21049--21221 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 89
21039 ACACACCCTT
*
21049 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATAAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
21114 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
21138 TTATATCCAAGTTACCCTAATCATATAAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATAAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
*
21203 AATTGATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
21222 TTCTGGATTA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 29 0.37
90 49 0.63
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATAAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:26521 original size:3 final size:3
Alignment explanation
Indices: 26513--26553 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
26503 ATATTACCAC
*
26513 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26554 TTATTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27018 original size:19 final size:19
Alignment explanation
Indices: 26994--27032 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26984 ATTATGTTTC
26994 AGTAAAAGAAAAAAGAAAA
1 AGTAAAAGAAAAAAGAAAA
*
27013 AGTAAAAGCAAAAAGAAAA
1 AGTAAAAGAAAAAAGAAAA
27032 A
1 A
27033 AACACAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (19 bp):
AGTAAAAGAAAAAAGAAAA
Found at i:32779 original size:2 final size:2
Alignment explanation
Indices: 32772--32881 Score: 220
Period size: 2 Copynumber: 55.0 Consensus size: 2
32762 TATACCTAGA
32772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32856 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32882 GTATGTATAC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 108 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32918 original size:19 final size:19
Alignment explanation
Indices: 32894--32937 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
32884 ATGTATACAA
32894 TAAAGCTGAGCTATTCCGC
1 TAAAGCTGAGCTATTCCGC
*
32913 TAAAGCTGAGCTATTCTGC
1 TAAAGCTGAGCTATTCCGC
32932 TAAAGC
1 TAAAGC
32938 AATTGGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (19 bp):
TAAAGCTGAGCTATTCCGC
Found at i:34788 original size:111 final size:111
Alignment explanation
Indices: 34594--35233 Score: 789
Period size: 111 Copynumber: 5.8 Consensus size: 111
34584 GTTTAATTTG
* * * * * * *
34594 CAGATATGATAATCCCTTAGAAGAAGCGGAACAGATCCCTCTATTCCAAGATTTGATATTCCTTG
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
* * * * * * *
34659 AGTGATAGTGGACCAAGTCTGCCCTGATTCAATGGATCAACTCACT
66 AGTGACAGCGAAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
* * * * *
34705 CAGATATGATATTCCCTTAAAAAAAGAGGAACATATCATTCTCTTCCAAGATTTGATATTCCCCG
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
* ** * *
34770 AGTGACAACGAAACAAGTCTGCCTGGATTCAATAGATAAACTCCCC
66 AGTGACAGCGAAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
* * * *
34816 CAGATCTAATATTCCCTTAGAAGAAGTGGAACATATCATTCTCTTCCAAGATTTGATATTCCGTG
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
*
34881 AGTGAC-GAC-AGAACAAGTCTGCCCCGATGCAATGGATCAACTCCCC
66 AGTGACAG-CGA-AACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
* * * ** *
34927 TAGATCTAATATTCCCTTAGAATAATCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTT
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
* * *
34992 AGTGACAGCGGAACAAGTTTGGCCCGATTCAATGGATCAACTCCCC
66 AGTGACAGCGAAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
* *
35038 CATATCTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
* * * * *
35103 AGTGACAGCGGAACAAGTCTGCCCCGATTAAATGGATAAAATCCCT
66 AGTGACAGCGAAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
* * * * * *
35149 CAGATCTGATATTCCCTTATAAGAAGAGGAAAAAATCACTTTCTTCCAAGATTTGATATTCTCTT
1 CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
35214 AGTGACAGCGAAACAAGTCT
66 AGTGACAGCGAAACAAGTCT
35234 ACCATATATA
Statistics
Matches: 458, Mismatches: 67, Indels: 8
0.86 0.13 0.02
Matches are distributed among these distances:
110 1 0.00
111 456 1.00
112 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (111 bp):
CAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTG
AGTGACAGCGAAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
Found at i:35233 original size:333 final size:333
Alignment explanation
Indices: 34606--35209 Score: 881
Period size: 333 Copynumber: 1.8 Consensus size: 333
34596 GATATGATAA
* * *
34606 TCCCTTAGAAGAAGCGGAACAGATCCCTCTATTCCAAGATTTGATATTCCTTGAGTGATAGTGGA
1 TCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCTTGAGTGACAGCGGA
* *
34671 CCAAGTCTGCCCTGATTCAATGGATCAACTCACTCAGATATGATATTCCCTTAAAAAAAGAGGAA
66 ACAAGTCTGCCCTGATTCAATGGATCAACTCACCCAGATATGATATTCCCTTAAAAAAAGAGGAA
* ** *
34736 CATATCATTCTCTTCCAAGATTTGATATTCCCCGAGTGACAACGAAACAAGTCTGCCTGGATTCA
131 CATATCACTCTCTTCCAAGATTTGATATTCCCCGAGTGACAACGAAACAAGTCTGCCCCGATTAA
* * * *
34801 ATAGATAAACTCCCCCAGATCTAATATTCCCTTAGAAGAAGTGGAACATATCATTCTCTTCCAAG
196 ATAGATAAAATCCCCCAGATCTAATATTCCCTTAGAAGAAGAGGAAAAAATCATTCTCTTCCAAG
34866 ATTTGATATTCCGTGAGTGACGACAGAACAAGTCTGCCCCGATGCAATGGATCAACTCCCCTAGA
261 ATTTGATATTCCGTGAGTGACGACAGAACAAGTCTGCCCCGATGCAATGGATCAACTCCCCTAGA
34931 TCTAATAT
326 TCTAATAT
* * * *
34939 TCCCTTAGAATAATCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTT-AGTGACAGCGG
1 TCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATT-CCTTGAGTGACAGCGG
* * * * * * *
35003 AACAAGTTTGGCCC-GATTCAATGGATCAACTCCCCCATATCTGATATTCCCTTAGAAGAAGTGG
65 AACAAGTCT-GCCCTGATTCAATGGATCAACTCACCCAGATATGATATTCCCTTAAAAAAAGAGG
* * *
35067 AACATATCACTCTCTTCCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATT
129 AACATATCACTCTCTTCCAAGATTTGATATTCCCCGAGTGACAACGAAACAAGTCTGCCCCGATT
* * * *
35132 AAATGGATAAAATCCCTCAGATCTGATATTCCCTTATAAGAAGAGGAAAAAATCACTT-TCTTCC
194 AAATAGATAAAATCCCCCAGATCTAATATTCCCTTAGAAGAAGAGGAAAAAATCA-TTCTCTTCC
35196 AAGATTTGATATTC
258 AAGATTTGATATTC
35210 TCTTAGTGAC
Statistics
Matches: 237, Mismatches: 31, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
333 227 0.96
334 10 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (333 bp):
TCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCTTGAGTGACAGCGGA
ACAAGTCTGCCCTGATTCAATGGATCAACTCACCCAGATATGATATTCCCTTAAAAAAAGAGGAA
CATATCACTCTCTTCCAAGATTTGATATTCCCCGAGTGACAACGAAACAAGTCTGCCCCGATTAA
ATAGATAAAATCCCCCAGATCTAATATTCCCTTAGAAGAAGAGGAAAAAATCATTCTCTTCCAAG
ATTTGATATTCCGTGAGTGACGACAGAACAAGTCTGCCCCGATGCAATGGATCAACTCCCCTAGA
TCTAATAT
Found at i:35423 original size:3 final size:3
Alignment explanation
Indices: 35415--35465 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
35405 AACAATACCG
35415 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CCTT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA
35460 TTA TTA
1 TTA TTA
35466 CATGATCCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
5 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35896 original size:19 final size:19
Alignment explanation
Indices: 35872--35908 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35862 ATGATGTTTA
*
35872 AGTAAAAGTAAAAAGAAAT
1 AGTAAAAGAAAAAAGAAAT
35891 AGTAAAAGAAAAAAGAAA
1 AGTAAAAGAAAAAAGAAA
35909 AAAACACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
AGTAAAAGAAAAAAGAAAT
Found at i:39782 original size:20 final size:20
Alignment explanation
Indices: 39757--39799 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
39747 TCTAAGAGCC
*
39757 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
39777 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
39797 CAT
1 CAT
39800 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:49685 original size:81 final size:81
Alignment explanation
Indices: 49286--49677 Score: 514
Period size: 81 Copynumber: 4.8 Consensus size: 81
49276 TTTCCTTTAG
* ** * * ** * * *
49286 TCTTTTACCCAAAGACATTTAGCTTTTCATCTAACTTTCATGATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
49351 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* * * * *
49367 TCTTTTACTCAAAGGTGTTTAACCTTTCATCTAACTAGCATCATTGATACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
49432 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* * * *
49448 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGAATCATTGATACCTTTATGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
49513 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* * * ** * *
49529 TCTCTTACTTAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTCCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
*
49594 ACAACTAGGCTATAAA
66 ACAACTAGGCTATTAA
* * *
49610 TCTTTTAATCAAAGGTATTTAACATTCCATCTAACTGGCATCATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
49675 ACA
66 ACA
49678 GTTAGGCTTC
Statistics
Matches: 271, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 271 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
ACAACTAGGCTATTAA
Found at i:49987 original size:204 final size:204
Alignment explanation
Indices: 49637--50091 Score: 739
Period size: 204 Copynumber: 2.2 Consensus size: 204
49627 TTTAACATTC
* * * * *
49637 CATCTAACTGGCATCATTGACATCTTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACTTAGCC
1 CATCTAACTAGCATGATTGACATCTTTATGTCAAATGCACAGTTAGGCTTCAAAGACACTTAGCA
* *
49702 TTTCATCTAACTGGCATGATTGGCACCTTTCTGTCAAATACACAGTTAGGCCTCAAAGGCACTTA
66 TTTCATCTAACTGACATGATTGGCACCTTTCTATCAAATACACAGTTAGGCCTCAAAGGCACTTA
* * *
49767 GCCTTTCATCTAACTAGCATGGTTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGCCAC
131 GCCTTTCATCTAACTAGCATGATTGACACATTTCTATCAAATGCACAGTTAGGTCTCAAAGCCAC
49832 TTAGCCTTT
196 TTAGCCTTT
* *
49841 CATCTAACTAGCATGATTGACATCTTTTTGTCAAATGTACAGTTAGGCTTCAAAGACACTTAGCA
1 CATCTAACTAGCATGATTGACATCTTTATGTCAAATGCACAGTTAGGCTTCAAAGACACTTAGCA
* * *
49906 TTTCATCTAACTGACATGATTGGCACTTTTCTATCAAATTCATAGTTAGGCCTCAAAGGCACTTA
66 TTTCATCTAACTGACATGATTGGCACCTTTCTATCAAATACACAGTTAGGCCTCAAAGGCACTTA
*
49971 GCCTTTCATCTAACTAGCATGATTGACACATTTCTATCAAATGCACAGTTAGGTCTCAAAGGCAC
131 GCCTTTCATCTAACTAGCATGATTGACACATTTCTATCAAATGCACAGTTAGGTCTCAAAGCCAC
50036 TTAGCCTTT
196 TTAGCCTTT
* * *
50045 CATCTAATTATCATGATTGACACCTTTATGTCAAATGCACAGTTAGG
1 CATCTAACTAGCATGATTGACATCTTTATGTCAAATGCACAGTTAGG
50092 TCATTATCTT
Statistics
Matches: 231, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
204 231 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (204 bp):
CATCTAACTAGCATGATTGACATCTTTATGTCAAATGCACAGTTAGGCTTCAAAGACACTTAGCA
TTTCATCTAACTGACATGATTGGCACCTTTCTATCAAATACACAGTTAGGCCTCAAAGGCACTTA
GCCTTTCATCTAACTAGCATGATTGACACATTTCTATCAAATGCACAGTTAGGTCTCAAAGCCAC
TTAGCCTTT
Found at i:50092 original size:68 final size:68
Alignment explanation
Indices: 49637--50093 Score: 641
Period size: 68 Copynumber: 6.7 Consensus size: 68
49627 TTTAACATTC
* * *
49637 CATCTAACTGGCATCATTGACATCTTTCTGTCAAATGCACAGTTAGG-CTTCAAAGGCACTTAGC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTC-TCAAAGGCACTTAGC
49701 CTTT
65 CTTT
* * * *
49705 CATCTAACTGGCATGATTGGCACCTTTCTGTCAAATACACAGTTAGGCCTCAAAGGCACTTAGCC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTAGCC
49770 TTT
66 TTT
* *
49773 CATCTAACTAGCATGGTTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGCCACTTAGCC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTAGCC
49838 TTT
66 TTT
* * * *
49841 CATCTAACTAGCATGATTGACATCTTTTTGTCAAATGTACAGTTAGG-CTTCAAAGACACTTAGC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTC-TCAAAGGCACTTAGC
*
49905 ATTT
65 CTTT
* * * * * *
49909 CATCTAACT-GACATGATTGGCACTTTTCTATCAAATTCATAGTTAGGCCTCAAAGGCACTTAGC
1 CATCTAACTAG-CATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTAGC
49973 CTTT
65 CTTT
* *
49977 CATCTAACTAGCATGATTGACACATTTCTATCAAATGCACAGTTAGGTCTCAAAGGCACTTAGCC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTAGCC
50042 TTT
66 TTT
* * *
50045 CATCTAATTATCATGATTGACACCTTTATGTCAAATGCACAGTTAGGTC
1 CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTC
50094 ATTATCTTGT
Statistics
Matches: 348, Mismatches: 36, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
67 2 0.01
68 343 0.99
69 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (68 bp):
CATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTAGCC
TTT
Found at i:50408 original size:57 final size:57
Alignment explanation
Indices: 50298--50410 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
50288 TAAAGTTCTT
* * * ** *
50298 ATACGAAAATTTATAAATAAATTATGCATTTCTTAACTTTTTGCACCCGAAGTGCCC
1 ATACGAAAATTTATAAACAAATTATGAATTTCTTAACTTTTAGCAAACAAAGTGCCC
*
50355 ATACG-AAATTTCATATACAAATTATGAATTTCTTAACTTTTAGCAAACAAAGTGCC
1 ATACGAAAATTT-ATAAACAAATTATGAATTTCTTAACTTTTAGCAAACAAAGTGCC
50411 ATTATGTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 6 0.12
57 42 0.88
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (57 bp):
ATACGAAAATTTATAAACAAATTATGAATTTCTTAACTTTTAGCAAACAAAGTGCCC
Found at i:52535 original size:2 final size:2
Alignment explanation
Indices: 52528--52560 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52518 CCAGAAAAGC
52528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52561 GACATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55313 original size:81 final size:81
Alignment explanation
Indices: 55194--55488 Score: 385
Period size: 81 Copynumber: 3.6 Consensus size: 81
55184 ACCCAAAAAC
* * * * * * *
55194 ATTTAGCCTTTCATCTATCTTGCATGATTGTCACCTTTCTGCCAAATGCACATCTAGGCTATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
55259 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * *
55275 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCATAGCTAGGGTATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
* *
55340 TCTTTTACACAAAAGT
66 TCTTTTACTCAAAGGT
* * * * *
55356 ATTTAACCTTTCATCTAACTGGCATTATTGACACATTTCTGTCAAGTACACAACTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
*
55421 TCTCTTACT-AAATGGT
66 TCTTTTACTCAAA-GGT
* * *
55437 ATTTAACCATTCATCTAACTGGCATCATCGACACCTTTTTGTCAAATGCACA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACA
55489 GTTAGGCCTC
Statistics
Matches: 184, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 3 0.02
81 181 0.98
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
TCTTTTACTCAAAGGT
Found at i:55452 original size:162 final size:162
Alignment explanation
Indices: 55178--55486 Score: 440
Period size: 162 Copynumber: 1.9 Consensus size: 162
55168 TATCCTTCAG
* * * * * * *
55178 TCTTTTACCCAAAAACATTTAGCCTTTCATCTATCTTGCATGATTGTCACCTTTCTGCCAAATGC
1 TCTTTTACACAAAAACATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGCCAAATAC
* * * * *
55243 ACATCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACA
66 ACAACTAGGCAATTAATCTCTTACTCAAAGGTATTTAACCATTCATCTAACTGGCATCATCGACA
55308 CCTTTCTGTCAAATGCATAGCTAGGGTATTAA
131 CCTTTCTGTCAAATGCATAGCTAGGGTATTAA
** * * *
55340 TCTTTTACACAAAAGTATTTAACCTTTCATCTAACTGGCATTATTGACACATTTCTGTCAAGTAC
1 TCTTTTACACAAAAACATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGCCAAATAC
55405 ACAACTAGGCAATTAATCTCTTACT-AAATGGTATTTAACCATTCATCTAACTGGCATCATCGAC
66 ACAACTAGGCAATTAATCTCTTACTCAAA-GGTATTTAACCATTCATCTAACTGGCATCATCGAC
*
55469 ACCTTTTTGTCAAATGCA
130 ACCTTTCTGTCAAATGCA
55487 CAGTTAGGCC
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
161 3 0.02
162 125 0.98
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (162 bp):
TCTTTTACACAAAAACATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGCCAAATAC
ACAACTAGGCAATTAATCTCTTACTCAAAGGTATTTAACCATTCATCTAACTGGCATCATCGACA
CCTTTCTGTCAAATGCATAGCTAGGGTATTAA
Found at i:55557 original size:68 final size:68
Alignment explanation
Indices: 55446--55970 Score: 836
Period size: 68 Copynumber: 7.7 Consensus size: 68
55436 TATTTAACCA
* * *
55446 TTCATCTAACTGGCATCATCGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
55511 CCT
66 CCT
* *
55514 TCCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGGACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
55579 CTT
66 CCT
*
55582 TTCATCTAATTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
55647 CTT
66 CCT
* * *
55650 TTCATCTAATTGGCATGATTGACACCTTTCTGTCAAATTCACAGTTAGGCATCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
55715 CCT
66 CCT
* * *
55718 TTCATCTAACTGGCATGATTGACACATTTATGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
55783 CCT
66 CCT
* * * * * *
55786 TTCATCTAACTGACATGATTGACACCTTTTTGTCAAATACACAGTTACGCCTCAAAGGTACTTAT
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
55851 CCT
66 CCT
* *
55854 TTCATCTAACTGGCATGATTGACACCTTTCTATCATATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
55919 CCT
66 CCT
55922 TTCATCTAACTGGCATGATTCG-CACCTTTCTGTCAAATGCACAGTTAGG
1 TTCATCTAACTGGCATGATT-GACACCTTTCTGTCAAATGCACAGTTAGG
55971 TCATTATCTT
Statistics
Matches: 420, Mismatches: 36, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
68 419 1.00
69 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:56229 original size:57 final size:57
Alignment explanation
Indices: 56157--56287 Score: 147
Period size: 57 Copynumber: 2.3 Consensus size: 57
56147 AATATCTTAG
* * ** * *
56157 TTTTTGCACATAAAGTTCTTATACAGAAA-TTCATAAACAAATTATAAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCATACA-AAATTTCATAAACAAAATATAAAGTTCTTAAC
* * * *
56214 TTTTTGCACCCAAAGTGCCCATACAAAATTTCATTAAGAAAATATTAAGTTCTTAAC
1 TTTTTGCACACAAAGTGCCCATACAAAATTTCATAAACAAAATATAAAGTTCTTAAC
*
56271 TTTTAGCACACAAAGTG
1 TTTTTGCACACAAAGTG
56288 GCATTATATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 3 0.05
57 58 0.95
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (57 bp):
TTTTTGCACACAAAGTGCCCATACAAAATTTCATAAACAAAATATAAAGTTCTTAAC
Found at i:56675 original size:19 final size:21
Alignment explanation
Indices: 56629--56668 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
56619 TACCCCAACG
56629 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
56651 ATGGTATCGATACT-CTAT
1 ATGGTATCGATACTACTAT
56669 TTCGGTACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
ATGGTATCGATACTACTATAT
Found at i:57485 original size:86 final size:86
Alignment explanation
Indices: 57348--57575 Score: 267
Period size: 86 Copynumber: 2.7 Consensus size: 86
57338 GGCTTTCTCA
** * * * *
57348 CAAAGAGGAGTCACTTGAAGAATATCCCACTTGACTTTCTCGTAAAAGGGAGTCATCCAAAGATC
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCCGTGAAGGGGAGTCATCCAAAGATC
* * *
57413 ATCTCACTTGGTTCAGACCCG
66 ACCTCACCTGGTTCAAACCCG
* * * * * * *
57434 CAAAGAGGAACCACCTGAAGAATATACCACATGACATTCCCGTGAGGGGGAGTTATCTAAATATC
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCCGTGAAGGGGAGTCATCCAAAGATC
57499 ACCTCACCTGGTTCAAACCCG
66 ACCTCACCTGGTTCAAACCCG
* * * * *
57520 CGAAGGGGAACCAGTTGAAGAATATACCACTTGGCTTTCCTGTGAAGGGGAGTCAT
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCCGTGAAGGGGAGTCAT
57576 TTAAAGATTT
Statistics
Matches: 116, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 116 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (86 bp):
CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCCGTGAAGGGGAGTCATCCAAAGATC
ACCTCACCTGGTTCAAACCCG
Found at i:57977 original size:200 final size:200
Alignment explanation
Indices: 57632--58147 Score: 730
Period size: 200 Copynumber: 2.6 Consensus size: 200
57622 CACTTAGAGG
* *
57632 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCAATTCC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAAC-AAAACTTTCGAGTTCGATTCC
* * * * * * *
57697 ATTCAGCTCGATGACATATCAATCGCATGGTAGCAGCAATGAACTACTTTCCAGTTGAAGTTTAA
65 ATTCAGCTCGAAGGCATATCAACCGCATGGTAGCAACAAGGAACTACTTTCCAGTTAAAATTTAA
* * *
57762 ACTAAGGTCTTTAAGTCAAGAAGAAGACCAAGGTTTGTTGCGATTTAGTAACAAGGAACTATCTC
130 ACTAAGATCTTTAAGTCAAGAAGAAGACCAAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTC
57827 CCAGCC
195 CCAGCC
* *
57833 GAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTTAACAAAACTTTCGAGTTCGATTCCA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAAACTTTCGAGTTCGATTCCA
*
57898 TTCAGCTCGAAGGCATATCAACCGCATGGTAAG-AACGAGGAACTACTTTCCAGTTAAAATTTAA
66 TTCAGCTCGAAGGCATATCAACCGCATGGT-AGCAACAAGGAACTACTTTCCAGTTAAAATTTAA
** *
57962 ACTGTGATCTTTAAGTCAAGAAGAAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTC
130 ACTAAGATCTTTAAGTCAAGAAGAAGACCAAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTC
58027 CCAGCC
195 CCAGCC
* * * * * *
58033 AAATTTACAGCATAGCTCAAGGCGAAAAGAGCTATCTATAAACAAACCCCTTCGAGTTCGATTCC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAA-ACTTTCGAGTTCGATTCC
* ** *
58098 ATTCAGCTCGAGGGCATATCAACCATATAGTAGCATA-AAGGAACTACTTT
65 ATTCAGCTCGAAGGCATATCAACCGCATGGTAGCA-ACAAGGAACTACTTT
58148 TCGGTTGAAT
Statistics
Matches: 281, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
200 181 0.64
201 99 0.35
202 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (200 bp):
AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAAACTTTCGAGTTCGATTCCA
TTCAGCTCGAAGGCATATCAACCGCATGGTAGCAACAAGGAACTACTTTCCAGTTAAAATTTAAA
CTAAGATCTTTAAGTCAAGAAGAAGACCAAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCC
CAGCC
Found at i:59081 original size:17 final size:18
Alignment explanation
Indices: 59059--59100 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
59049 CTTTAGATTA
*
59059 TTTATTTAATTATTTTC-
1 TTTATTTAATTATTATCT
*
59076 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
59094 TTTATTT
1 TTTATTT
59101 TAAAACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:59230 original size:16 final size:15
Alignment explanation
Indices: 59207--59236 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59197 TTCCCACATC
59207 TTTTTTTTTATTTTG
1 TTTTTTTTTATTTTG
59222 TTTTATTTTTATTTT
1 TTTT-TTTTTATTTT
59237 CTCTTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTATTTTG
Found at i:59256 original size:27 final size:26
Alignment explanation
Indices: 59222--59306 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
59212 TTTTATTTTG
59222 TTTTATTTTTATTTTCTCTTTTAACAT
1 TTTTATTTTT-TTTTCTCTTTTAACAT
** *
59249 TTTTATTTTTCTTTTCTGAAATTTAATA-
1 TTTTATTTTT-TTTTCT--CTTTTAACAT
59277 TTTTATTTTCTTTTT-TCTTTTAACAT
1 TTTTATTTT-TTTTTCTCTTTTAACAT
59303 TTTT
1 TTTT
59307 TATATAGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
25 6 0.13
26 4 0.09
27 17 0.36
28 13 0.28
29 7 0.15
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTTATTTTTTTTTCTCTTTTAACAT
Found at i:59332 original size:56 final size:55
Alignment explanation
Indices: 59222--59335 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
59212 TTTTATTTTG
* ** *
59222 TTTTATTTTTATTTTCTCTTTTAACATTTTTATTTTTCTTTTCTGAAATTTAATA
1 TTTTATTTTTATTTTCTCTTTTAACATTTTTATATAGCTTTTCTAAAATTTAATA
*
59277 TTTTATTTTCT-TTTT-TCTTTTAACATTTTTTATATAGCATTTTTTAAAATTTAATA
1 TTTTATTTT-TATTTTCTCTTTTAACA-TTTTTATATAGC-TTTTCTAAAATTTAATA
59333 TTT
1 TTT
59336 CCTTCTTTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 10 0.20
55 22 0.43
56 19 0.37
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (55 bp):
TTTTATTTTTATTTTCTCTTTTAACATTTTTATATAGCTTTTCTAAAATTTAATA
Found at i:64101 original size:44 final size:44
Alignment explanation
Indices: 64035--64327 Score: 291
Period size: 44 Copynumber: 6.7 Consensus size: 44
64025 TTAAAATATT
* ** *
64035 TAGCTGCGTTTTTTGCATACAAACGCCGTAAAAGGTCAGGTATA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
* * * *
64079 TAGCGGCGTTTTTCGTATACAAATGCTGCCAAAGGTCTGGTATA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
* * *
64123 TAGCGGCGTTTTTTGCATACAAACTCCGCCAAATGTCTGGTAAA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
* * **
64167 TAGCGGCGTTTTTTGGATACAAACGCTGCCAAATATCTGGTATA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
* * * * * * *
64211 TAACGGTGTTTTTTGGATACAAACACCACCAAATGTCTCGTATA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
* * * * * ** *
64255 TAGTGGCATTTTTCGAATAAAAAACGCCGTAAAAGGGCTGGTATA
1 TAGCGGCGTTTTTTGCAT-ACAAACGCCGCCAAAGGTCTGGTATA
*
64300 TAGCAGCGTTTTTTG-ATACAAACGCCGC
1 TAGCGGCGTTTTTTGCATACAAACGCCGC
64328 TAATGAACAC
Statistics
Matches: 201, Mismatches: 47, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
43 9 0.04
44 163 0.81
45 29 0.14
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
TAGCGGCGTTTTTTGCATACAAACGCCGCCAAAGGTCTGGTATA
Found at i:64139 original size:88 final size:88
Alignment explanation
Indices: 64035--64327 Score: 327
Period size: 88 Copynumber: 3.3 Consensus size: 88
64025 TTAAAATATT
* ** * * *
64035 TAGCTGCGTTTTTTGCATACAAACGCCGTAAAAGGTCAGGTATATAGCGGCGTTTTTCGTATACA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAATGTCTGGTATATAGCGGCGTTTTTCGAATACA
*
64100 AATGCTGCCAAAGGTCTGGTATA
66 AACGCTGCCAAAGGTCTGGTATA
* * * *
64123 TAGCGGCGTTTTTTGCATACAAACTCCGCCAAATGTCTGGTAAATAGCGGCGTTTTTTGGATACA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAATGTCTGGTATATAGCGGCGTTTTTCGAATACA
**
64188 AACGCTGCCAAATATCTGGTATA
66 AACGCTGCCAAAGGTCTGGTATA
* * * * * * * * *
64211 TAACGGTGTTTTTTGGATACAAACACCACCAAATGTCTCGTATATAGTGGCATTTTTCGAATAAA
1 TAGCGGCGTTTTTTGCATACAAACGCCGCCAAATGTCTGGTATATAGCGGCGTTTTTCGAAT-AC
* ** *
64276 AAACGCCGTAAAAGGGCTGGTATA
65 AAACGCTGCCAAAGGTCTGGTATA
*
64300 TAGCAGCGTTTTTTG-ATACAAACGCCGC
1 TAGCGGCGTTTTTTGCATACAAACGCCGC
64328 TAATGAACAC
Statistics
Matches: 169, Mismatches: 35, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
88 138 0.82
89 31 0.18
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
TAGCGGCGTTTTTTGCATACAAACGCCGCCAAATGTCTGGTATATAGCGGCGTTTTTCGAATACA
AACGCTGCCAAAGGTCTGGTATA
Found at i:64703 original size:30 final size:30
Alignment explanation
Indices: 64645--64703 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
64635 ATGCTGATAA
* ** *
64645 GCTGCTTCTCTCTGTGCTTCTGTTGCTTCT
1 GCTGCTTCTCTCTCTGCTTCCCTCGCTTCT
*
64675 GCTGCTTTTCTCTCTGCTTCCCTCGCTTC
1 GCTGCTTCTCTCTCTGCTTCCCTCGCTTC
64704 ATTTTCGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.00, C:0.36, G:0.17, T:0.47
Consensus pattern (30 bp):
GCTGCTTCTCTCTCTGCTTCCCTCGCTTCT
Found at i:71415 original size:16 final size:16
Alignment explanation
Indices: 71394--71428 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
71384 TAATCACTCC
71394 TAAATT-ATAAAACTTT
1 TAAATTGATAAAA-TTT
71410 TAAATTGATAAAATTT
1 TAAATTGATAAAATTT
71426 TAA
1 TAA
71429 GGGAGCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAATTGATAAAATTT
Found at i:76220 original size:60 final size:61
Alignment explanation
Indices: 76126--76309 Score: 209
Period size: 60 Copynumber: 3.1 Consensus size: 61
76116 GAATGAATTT
* * * * *
76126 GGGATGAGATTGGAATGTTCAAAAAGTTT-GGGACTAATTTAGAAAT-AGGGTCATAGTTTA
1 GGGATGAAATTGAAATGTTC-AAAAGTTTAAGGACTAATTTAGAAATGAGAGTTATAGTTTA
* *
76186 GGGATGAAATTGAAATGTTCAATAGTTTAAGGACTAATTTAG-AATGAGAGTTATAATTT-
1 GGGATGAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAAATGAGAGTTATAGTTTA
* * * *
76245 GGGAATGAAATTGAAAT-ATCAAAAATTTAAAGACCAATTTA-AAATGAGAGTTATAGTTTA
1 GGG-ATGAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAAATGAGAGTTATAGTTTA
76305 GGGAT
1 GGGAT
76310 ATATGATGCA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
59 50 0.47
60 56 0.53
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (61 bp):
GGGATGAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAAATGAGAGTTATAGTTTA
Found at i:76291 original size:59 final size:61
Alignment explanation
Indices: 76182--76308 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 61
76172 AGGGTCATAG
* * * * * *
76182 TTTAGGG-ATGAAATTGAAATGTTCAATAGTTTAAGGACTAATTTAGAATGAGAGTTATAA
1 TTTAGGGAATGAAATTGAAATGATCAAAAATTTAAAGACCAATTTAAAATGAGAGTTATAA
*
76242 TTT-GGGAATGAAATTGAAAT-ATCAAAAATTTAAAGACCAATTTAAAATGAGAGTTATAG
1 TTTAGGGAATGAAATTGAAATGATCAAAAATTTAAAGACCAATTTAAAATGAGAGTTATAA
76301 TTTAGGGA
1 TTTAGGGA
76309 TATATGATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 38 0.66
60 20 0.34
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (61 bp):
TTTAGGGAATGAAATTGAAATGATCAAAAATTTAAAGACCAATTTAAAATGAGAGTTATAA
Found at i:83250 original size:10 final size:11
Alignment explanation
Indices: 83223--83247 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83213 ATTATTTAAA
83223 AAAATATTTAG
1 AAAATATTTAG
83234 AAAATATTTAG
1 AAAATATTTAG
83245 AAA
1 AAA
83248 TATCGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATATTTAG
Found at i:84437 original size:23 final size:22
Alignment explanation
Indices: 84406--84463 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
84396 GGGACGTTTG
84406 CTCTCTGTTTTCTGTCTCTCTCT
1 CTCTCTGTTTTCTGTCTCTC-CT
* * *
84429 GTCTCTGTTGT-GGTCTCTCCT
1 CTCTCTGTTTTCTGTCTCTCCT
84450 CTCTCTGTTCTTCT
1 CTCTCTGTT-TTCT
84464 CCATTTTTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 10 0.37
22 8 0.30
23 9 0.33
ACGTcount: A:0.00, C:0.33, G:0.14, T:0.53
Consensus pattern (22 bp):
CTCTCTGTTTTCTGTCTCTCCT
Found at i:84881 original size:3 final size:3
Alignment explanation
Indices: 84873--84940 Score: 102
Period size: 3 Copynumber: 22.7 Consensus size: 3
84863 GGCCCGTTTG
* *
84873 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84920 TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TA
84941 GTAAATGGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:85290 original size:17 final size:17
Alignment explanation
Indices: 85268--85323 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
85258 TTGAACAAGC
85268 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
*
85285 TCTTCTTCTTCAGATGAA-T
1 TCTTCTTATT---ATGAACT
*
85304 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
85321 TCT
1 TCT
85324 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
19 9 0.28
20 5 0.16
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:85588 original size:113 final size:111
Alignment explanation
Indices: 85252--85812 Score: 643
Period size: 113 Copynumber: 5.0 Consensus size: 111
85242 AGAATTATGA
* ** * *
85252 AAAAAGTTGAACAAGCTCTTCTTATTATGAA--CTTCTT-CTTCTTCAGATGAATTCTTCTCATT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
85314 ATGAACTT-CTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGA-
66 ATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTT-AAAC
85360 AAAAGGTTGAACAAATTCTTCTCATTATGAA-T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTC
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * * *
85422 GTTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
63 ATTATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTTAAAC
*
85472 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
85537 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC
65 TATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTTAAAC
* *
85585 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * *
85650 CATTATGAACACTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
62 CATTATGAAC-TTACCTGGAAAAGTTGATCCATCAAATGATGAATTTAAAC
* *
85701 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTATTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * **
85766 TATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATGAATTTAAA
65 TATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTTAAA
85813 TCTTTGCTAA
Statistics
Matches: 387, Mismatches: 49, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
108 43 0.11
111 21 0.05
112 58 0.15
113 148 0.38
114 1 0.00
115 5 0.01
116 109 0.28
117 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (111 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTACCTGGAAAAGTTGATCCATCAAATGATGAATTTAAAC
Found at i:85702 original size:229 final size:224
Alignment explanation
Indices: 85252--85809 Score: 845
Period size: 229 Copynumber: 2.5 Consensus size: 224
85242 AGAATTATGA
* ** *
85252 AAAAAGTTGAACAAGCTCTTCTTATTATGAA--CTTCTT-CTTCTTCAGATGAATTCTTCTCATT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
85314 ATGAAC-TTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGAAAAAGGTTGAACAAATTC
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGAAAAAGATTGAACAAATTC
* *
85378 TTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCGTTATGAACTCTACCTGGCAA
131 TTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACACTACCTGGCAA
85443 TGTTAATCCATCAAATGATGAATTTAAAC
196 TGTTAATCCATCAAATGATGAATTTAAAC
85472 AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
85537 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATT
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGAAAAAGATTGAACAAATT
85602 CTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACACTACCT
130 CTTCTCATTATGAA--T-TTCTTC-TTCTTCAGATGACGAGTTCTTCTCATTATGAACACTACCT
85667 GGCAATGTTAATCCATCAAATGATGAATTTAAAC
191 GGCAATGTTAATCCATCAAATGATGAATTTAAAC
* * *
85701 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTATTCTCAT
1 AAAAGGTTGAACAAATTCTTCTTATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * ** *
85766 TATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATGAATTT
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
85810 AAATCTTTGC
Statistics
Matches: 307, Mismatches: 22, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
220 28 0.09
223 6 0.02
224 30 0.10
225 67 0.22
227 1 0.00
228 6 0.02
229 169 0.55
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (224 bp):
AAAAGGTTGAACAAATTCTTCTTATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGAAAAAGATTGAACAAATTC
TTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACACTACCTGGCAA
TGTTAATCCATCAAATGATGAATTTAAAC
Found at i:86641 original size:92 final size:92
Alignment explanation
Indices: 86531--86948 Score: 782
Period size: 92 Copynumber: 4.5 Consensus size: 92
86521 GGTTTTATAT
* * * *
86531 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCCTCTTACAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
*
86596 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
86623 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
86688 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
86715 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
86780 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
86807 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
86872 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
86899 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
86949 CATGGCATTT
Statistics
Matches: 319, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 319 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (92 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
TTCAATAACTGGTTCTGTGGTTCATAC
Found at i:88081 original size:1 final size:1
Alignment explanation
Indices: 88077--88156 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
88067 TTGACCCCCC
* * * * * * * * * *
88077 TTTTTCTTTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTCTTTTCTTTTCTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
88142 TTTTCTCTTTTTTTT
1 TTTTTTTTTTTTTTT
88157 ATTATTAAGC
Statistics
Matches: 55, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:88089 original size:7 final size:7
Alignment explanation
Indices: 88077--88154 Score: 95
Period size: 7 Copynumber: 10.7 Consensus size: 7
88067 TTGACCCCCC
88077 TTTTTCT
1 TTTTTCT
88084 TTTTTCTT
1 TTTTTC-T
88092 TTTTTCT
1 TTTTTCT
88099 TTTTTCT
1 TTTTTCT
88106 TTTTTCTT
1 TTTTTC-T
88114 TTTTTCT
1 TTTTTCT
88121 TTCTTT-T
1 TT-TTTCT
*
88128 CTTTTCTT
1 TTTTTC-T
88136 TTTTTCT
1 TTTTTCT
*
88143 TTTCTCT
1 TTTTTCT
88150 TTTTT
1 TTTTT
88155 TTATTATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
6 3 0.05
7 36 0.58
8 23 0.37
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:88097 original size:15 final size:15
Alignment explanation
Indices: 88077--88155 Score: 110
Period size: 15 Copynumber: 5.3 Consensus size: 15
88067 TTGACCCCCC
88077 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
88092 TTTTTCTTTTTTC-T
1 TTTTTCTTTTTTCTT
88106 TTTTTCTTTTTTTCTT
1 TTTTTC-TTTTTTCTT
88122 TCTTTTC--TTTTCTT
1 T-TTTTCTTTTTTCTT
*
88136 TTTTTCTTTTCTCTT
1 TTTTTCTTTTTTCTT
88151 TTTTT
1 TTTTT
88156 TATTATTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
13 5 0.09
14 15 0.26
15 31 0.53
16 2 0.03
17 5 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:88105 original size:22 final size:22
Alignment explanation
Indices: 88077--88154 Score: 122
Period size: 22 Copynumber: 3.5 Consensus size: 22
88067 TTGACCCCCC
88077 TTTTTCTTTTTTCTTTTTTTCT
1 TTTTTCTTTTTTCTTTTTTTCT
88099 TTTTTCTTTTTTCTTTTTTTCT
1 TTTTTCTTTTTTCTTTTTTTCT
*
88121 TTCTTT-TCTTTTCTTTTTTTCT
1 TT-TTTCTTTTTTCTTTTTTTCT
*
88143 TTTCTCTTTTTT
1 TTTTTCTTTTTT
88155 TTATTATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 2 0.04
22 46 0.90
23 3 0.06
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTTTCT
Found at i:91327 original size:20 final size:21
Alignment explanation
Indices: 91288--91329 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
91278 GTGCATCACT
91288 ATATCTGTGCTTAAACCAGGC
1 ATATCTGTGCTTAAACCAGGC
91309 ATATCT-TG-TTAAGACCAGGC
1 ATATCTGTGCTTAA-ACCAGGC
91329 A
1 A
91330 AATATATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (21 bp):
ATATCTGTGCTTAAACCAGGC
Found at i:99331 original size:10 final size:11
Alignment explanation
Indices: 99297--99328 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
99287 ATAATCATAT
*
99297 TATTTAAAAAA
1 TATTTAGAAAA
99308 TATTTAGAAAA
1 TATTTAGAAAA
99319 TATTTAGAAA
1 TATTTAGAAA
99329 TATCGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (11 bp):
TATTTAGAAAA
Found at i:100945 original size:3 final size:3
Alignment explanation
Indices: 100937--100994 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
100927 GGCCCGTTTG
*
100937 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
100984 TAA TAA TAA TA
1 TAA TAA TAA TA
100995 GTAAATGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:108884 original size:65 final size:64
Alignment explanation
Indices: 108804--108956 Score: 202
Period size: 65 Copynumber: 2.4 Consensus size: 64
108794 GCACTAAGGG
* * * **
108804 TGCACCGATGCATAAAATGCATTCGATGTTT-TA-AACAAGCCTGGAGTGTATCGATGCATAGTT
1 TGCATCGATGCATAAAATGCATTCGATGTTTCCATAA-AAGCCT-GAGTGCATCGATGCAT-GGC
108867 TA
63 TA
*
108869 TGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAATCCTGAGTGCATCGATGCATGGCTA
1 TGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCTA
*
108933 TGCATCGATGCATAAAATGTATTC
1 TGCATCGATGCATAAAATGCATTC
108957 AAAATGGGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 26 0.33
65 45 0.57
66 6 0.08
67 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (64 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCTA
Found at i:115458 original size:22 final size:21
Alignment explanation
Indices: 115416--115455 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
115406 GAGATTATTT
*
115416 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
115437 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
115456 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:118153 original size:37 final size:38
Alignment explanation
Indices: 118111--118196 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 38
118101 TTATAAAATA
* *
118111 AAATAAAATTATATC-AAGTTTGATTATGCTCAATTTT
1 AAATAAAATAAAATCAAAGTTTGATTATGCTCAATTTT
*
118148 AAAT-AAATAAAATCAAAGTTTTATTATGCTCAATTTT
1 AAATAAAATAAAATCAAAGTTTGATTATGCTCAATTTT
*
118185 AAATAAATTAAA
1 AAATAAAATAAA
118197 TTTAAATCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 8 0.19
37 29 0.67
38 6 0.14
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.40
Consensus pattern (38 bp):
AAATAAAATAAAATCAAAGTTTGATTATGCTCAATTTT
Found at i:122440 original size:36 final size:36
Alignment explanation
Indices: 122398--122473 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
122388 TTATAGCTAA
*
122398 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
122434 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
122470 AAAA
1 AAAA
122474 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:123304 original size:25 final size:25
Alignment explanation
Indices: 123275--123324 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
123265 TAGGATTGAA
123275 AAATTCAATTTCAAGAATGAAAAAG
1 AAATTCAATTTCAAGAATGAAAAAG
123300 AAATTCAATTTCAAGAATGAAAAAG
1 AAATTCAATTTCAAGAATGAAAAAG
123325 TTGGAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (25 bp):
AAATTCAATTTCAAGAATGAAAAAG
Found at i:123890 original size:21 final size:22
Alignment explanation
Indices: 123850--123891 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
123840 ATTTAAAAAT
*
123850 ATTAAAGGAAGTATCGATACTC
1 ATTAAAGGAAGTACCGATACTC
*
123872 ATTAAAGG-AGTGCCGATACT
1 ATTAAAGGAAGTACCGATACT
123892 ACCTTTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (22 bp):
ATTAAAGGAAGTACCGATACTC
Found at i:128067 original size:22 final size:21
Alignment explanation
Indices: 128007--128070 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
127997 AGTCGAGGGT
128007 TTCATAGGT-CTTCCGGGACAA
1 TTCATAGGTCCTT-CGGGACAA
* * *
128028 CTCATAGGTCATTTGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
128050 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
128071 ATTTCATATG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:138509 original size:14 final size:15
Alignment explanation
Indices: 138490--138520 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
138480 AGGGTGTTCC
138490 TTCTAA-AATAATGT
1 TTCTAAGAATAATGT
138504 TTCTAAGAATAATGT
1 TTCTAAGAATAATGT
138519 TT
1 TT
138521 AGTATAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (15 bp):
TTCTAAGAATAATGT
Found at i:155212 original size:60 final size:59
Alignment explanation
Indices: 155137--155262 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
155127 TCCTGCAAAG
* * * *
155137 TATGACCTTCATTTTAAATTAGTTCATAAACATTTAAATATTTTAATTTTATCCCTAAAA
1 TATGA-CTTCATTTTAAATCAGTCCATAAACATTTAAACAATTTAATTTTATCCCTAAAA
* * * * * *
155197 TATGACTATCATTTTAAATCAGTCCTTCAACTTTTGAACAATTTAATTTTATCGCTAAAC
1 TATGACT-TCATTTTAAATCAGTCCATAAACATTTAAACAATTTAATTTTATCCCTAAAA
155257 TATGAC
1 TATGAC
155263 CTAAATTCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.43
Consensus pattern (59 bp):
TATGACTTCATTTTAAATCAGTCCATAAACATTTAAACAATTTAATTTTATCCCTAAAA
Found at i:155540 original size:60 final size:61
Alignment explanation
Indices: 155441--155625 Score: 218
Period size: 60 Copynumber: 3.1 Consensus size: 61
155431 GAATGAATTT
* * * * *
155441 GGGATGAGATTGGAATGTTCAAAAAGTTT-GGGACCAATTTAGAAAT-AGGGTCATAGTTTA
1 GGGATGAAATTGAAATGTTC-AAAAGTTTAAGGACCAATTTAGAAATGAGAGTTATAGTTTA
* * * *
155501 GGGATGAAATTGAAATGTTCAATAGTTTAAGGACTAATTTAG-AATGAGAGTTATAATTTG
1 GGGATGAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAGAAATGAGAGTTATAGTTTA
* * *
155561 GGGATGAAATTGAAAT-ATCAAAAATTTAAAGACCAATTTA-AAATGAGAGTTATAGTTTA
1 GGGATGAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAGAAATGAGAGTTATAGTTTA
155620 GGGATG
1 GGGATG
155626 CAACTAACTC
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
59 51 0.48
60 55 0.52
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.31
Consensus pattern (61 bp):
GGGATGAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAGAAATGAGAGTTATAGTTTA
Found at i:155744 original size:20 final size:20
Alignment explanation
Indices: 155719--155760 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
155709 AATTACATGT
155719 TTACTCACTGAACTTTATTC
1 TTACTCACTGAACTTTATTC
*
155739 TTACTCACTGAATTTTATTC
1 TTACTCACTGAACTTTATTC
155759 TT
1 TT
155761 TCTCCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (20 bp):
TTACTCACTGAACTTTATTC
Found at i:159629 original size:34 final size:34
Alignment explanation
Indices: 159588--159658 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
159578 TTGGATATCT
*
159588 AACTTATTTCTCT-CACTATGTTGGAGC-ATTGTCC
1 AACTTATTTC-CTAAACTATGTTGGAGCTATTG-CC
159622 AACTTATTTCCTAAACTATGTTGGAGCTATTGCC
1 AACTTATTTCCTAAACTATGTTGGAGCTATTGCC
159656 AAC
1 AAC
159659 ATTACCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 2 0.06
34 28 0.82
35 4 0.12
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (34 bp):
AACTTATTTCCTAAACTATGTTGGAGCTATTGCC
Found at i:163099 original size:31 final size:31
Alignment explanation
Indices: 163001--163091 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
162991 CAATTTAAGG
163001 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
163032 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
163063 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
163092 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:163178 original size:19 final size:19
Alignment explanation
Indices: 163156--163203 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
163146 AATGTTTTTA
*
163156 TGAACAGTAAATTACTATT
1 TGAACAGTAAATCACTATT
* *
163175 TGAACAGTAAATCATTGTT
1 TGAACAGTAAATCACTATT
163194 TGAACAGTAA
1 TGAACAGTAA
163204 CCCGAGGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
TGAACAGTAAATCACTATT
Found at i:163335 original size:21 final size:21
Alignment explanation
Indices: 163309--163350 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
163299 ATTTGAATAT
*
163309 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
163330 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
163351 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:163671 original size:34 final size:32
Alignment explanation
Indices: 163632--163701 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
163622 TTTTGTAAAG
*
163632 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
163666 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
163698 GGGA
1 GGGA
163702 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:170641 original size:65 final size:64
Alignment explanation
Indices: 170546--170699 Score: 195
Period size: 65 Copynumber: 2.4 Consensus size: 64
170536 TGCACTAAGG
* * *
170546 GTGCATCGATGCATAAAATGCATTCAATGTTT-TA-AACAAGCCTGGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCAATGTTTCCATAA-AAGCAT-GAGTGCATCGATGCAT-GG
*
170609 TT
63 CT
** *
170611 GTGCATCGATGCATAAAATGCATTTGATGTTTCCATAAAATCATGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCAATGTTTCCATAAAAGCATGAGTGCATCGATGCATGGCT
*
170675 ATGCATCGATGCATAAAATGCATTC
1 GTGCATCGATGCATAAAATGCATTC
170700 CAAATGGGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 25 0.32
65 46 0.59
66 5 0.06
67 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCAATGTTTCCATAAAAGCATGAGTGCATCGATGCATGGCT
Found at i:177274 original size:22 final size:21
Alignment explanation
Indices: 177232--177271 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
177222 GAGATTATTT
*
177232 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
177253 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
177272 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:179277 original size:65 final size:63
Alignment explanation
Indices: 179224--179379 Score: 190
Period size: 65 Copynumber: 2.4 Consensus size: 63
179214 TGCACTAAGG
*
179224 GTGCATCGATGCATAAAATGCATTCGATGTTT-TA-AACAAGCCTGGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAA-AA-CCTGGAGTGCATCGATGCATGG-
179287 CT
63 -T
* * * * *
179289 GTGCATCAAAGCATAAAATACATTCGATGTTTCCATAAAATCTTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAACCTGGAGTGCATCGATGCATGG-T
*
179353 ATGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
179380 AATAGGGTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 25 0.32
65 49 0.62
66 3 0.04
67 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAACCTGGAGTGCATCGATGCATGGT
Found at i:182960 original size:16 final size:17
Alignment explanation
Indices: 182921--182967 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
182911 AATGTTTATG
182921 AGGAATTGGAATCTGTGA
1 AGGAATTGGAATCTGT-A
*
182939 AGGAATTGAAATCTGT-
1 AGGAATTGGAATCTGTA
182955 AGGAATTGGAATC
1 AGGAATTGGAATC
182968 CAATTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (17 bp):
AGGAATTGGAATCTGTA
Found at i:183006 original size:44 final size:43
Alignment explanation
Indices: 182956--183043 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
182946 GAAATCTGTA
* *
182956 GGAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCATGAAAT
1 GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCA-GAAAT
*
183000 GGAATTGGAATCCAATTCTATATTATGTTTGGTTCGCAGAAAT
1 GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCAGAAAT
183043 G
1 G
183044 TCAGATGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 6 0.15
44 35 0.85
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (43 bp):
GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCAGAAAT
Found at i:183597 original size:37 final size:37
Alignment explanation
Indices: 183542--183630 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
183532 CCCTAACCCG
183542 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
*
183579 AACCCGACCCGACTCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
183616 AACCCGACCCGACCC
1 AACCCGACCCGACCC
183631 AAACAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.36, C:0.43, G:0.11, T:0.10
Consensus pattern (37 bp):
AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:183983 original size:27 final size:24
Alignment explanation
Indices: 183953--184019 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
183943 CTCCAACAAG
183953 GGAATTGAATTCCATCCATTTTTTGAT
1 GGAATTGAATTCCATCCA---TTTGAT
* * *
183980 GGAATTCACTTTCCCT-CATTTGAT
1 GGAATTGA-ATTCCATCCATTTGAT
184004 GGAATTGAATTCCATC
1 GGAATTGAATTCCATC
184020 AGGAATTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 5 0.16
24 13 0.41
27 9 0.28
28 5 0.16
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (24 bp):
GGAATTGAATTCCATCCATTTGAT
Found at i:184826 original size:66 final size:66
Alignment explanation
Indices: 184734--184866 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
184724 AATGTCATAA
*
184734 GGCAGATGGTGTTGAAGAGAAGGAGATGTTGAGGAGTAAGATTTGTTAAGAAGCAAGATATGTCT
1 GGCAGATGGTGTTGAAGAGAAGGAGATATTGAGGAGTAAGATTTGTTAAGAAGCAAGATATGTCT
184799 T
66 T
* *
184800 GGCAGATGGTGTTGAAGAGAATGAGATATTGAGGAGTACGATTTGTTAAGAAGCAAGATATGTCT
1 GGCAGATGGTGTTGAAGAGAAGGAGATATTGAGGAGTAAGATTTGTTAAGAAGCAAGATATGTCT
184865 T
66 T
184866 G
1 G
184867 AGGGAGACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.33, C:0.05, G:0.34, T:0.28
Consensus pattern (66 bp):
GGCAGATGGTGTTGAAGAGAAGGAGATATTGAGGAGTAAGATTTGTTAAGAAGCAAGATATGTCT
T
Found at i:190382 original size:200 final size:201
Alignment explanation
Indices: 190029--190447 Score: 561
Period size: 200 Copynumber: 2.1 Consensus size: 201
190019 CATTTATTGG
* ** * * **
190029 AAATTTACAGCATAAATCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTTTATTCC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTCGATTCC
* * * * * *
190094 ATTCAGCTCGATGACATATCAACCTCATGGTAGCAGCGAGGAACTACTTTCTGATTGAAGTTTAA
66 ATTCAGCTCGAAGACATATCAACCGCATGGTAGCAACGAAGAACTACTTTCCGATTGAAATTTAA
* * * *
190159 ACTAAGTTCTTTAACTTAAGAAGAATACATAGGTTTACTGCGATTTAGCAACAAGGAACTATCTC
131 ACTAAGGTCTTTAACTCAAGAAGAAGACATAGGTTGACTGCGATTTAGCAACAAGGAACTATCTC
190224 CCAGCC
196 CCAGCC
* *
190230 GAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAACTTTCAAGTTCGATTTC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTCGATTCC
* * * * *
190294 ATTCAGTTTGAAGGCATATCAACCGGATGGTAGCAACGAAGAACTACTTTCCGGTTGAAATTTAA
66 ATTCAGCTCGAAGACATATCAACCGCATGGTAGCAACGAAGAACTACTTTCCGATTGAAATTTAA
** * * * *
190359 ACTGTGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGTGATTTAGCAACAAGGAACTATCTC
131 ACTAAGGTCTTTAACTCAAGAAGAAGACATAGGTTGACTGCGATTTAGCAACAAGGAACTATCTC
190424 CCAGCC
196 CCAGCC
190430 AAATTTACAACATAGCTC
1 AAATTTACAACATAGCTC
190448 TGTCAACAAA
Statistics
Matches: 187, Mismatches: 31, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
200 149 0.80
201 38 0.20
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (201 bp):
AAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACTTTCAAGTTCGATTCC
ATTCAGCTCGAAGACATATCAACCGCATGGTAGCAACGAAGAACTACTTTCCGATTGAAATTTAA
ACTAAGGTCTTTAACTCAAGAAGAAGACATAGGTTGACTGCGATTTAGCAACAAGGAACTATCTC
CCAGCC
Found at i:202272 original size:134 final size:134
Alignment explanation
Indices: 202034--202609 Score: 640
Period size: 134 Copynumber: 4.3 Consensus size: 134
202024 ATCGAGAAAC
* * * * * *
202034 GTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATTGAGGCACATTTGTTCCACTGTTACTTA
1 GTTGATTCATTCCACTGTTATTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTTA
** ** * *
202099 AGGAATATCAAATCTCAAAAGAGAGGGATCTA-TTTTGCTTCTTTTTGAGGGAAAATCAGATCTA
66 AGGAATATCAAATCTTGAAAGAGAGGGA-CTAGTTCCGCTTCTTTCTGAGGAAAAATCAGATCTA
202163 GGGAT
130 GGGAT
* * * * * * *
202168 GTTGATTTATTCCACTATTTTTTAAGGAAGATTGAATCGAGTCAGACTTGTTCCACTGTTACTCA
1 GTTGATTCATTCCACTGTTATTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTTA
* * * * * * *
202233 GGGAATATCAAATCTTGAAAGAGGGGGACCAGTTCTGCTTCTTTCTGAGG-GAAATCAGATGTGG
66 AGGAATATCAAATCTTGAAAGAGAGGGACTAGTTCCGCTTCTTTCTGAGGAAAAATCAGATCTAG
202297 GGAT
131 GGAT
* * *
202301 GTTGATTCATTCCACTGTTACTCAAGGAAGATTGATTCGAGGCAAACTTGTTCCACTATTACTTA
1 GTTGATTCATTCCACTGTTATTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTTA
* * * * *
202366 AGGAATATCAAATCCTGAAATAGATGGA-TATGTTCCG-TTTTTTCTTGAGGAAAAATCATATCT
66 AGGAATATCAAATCTTGAAAGAGAGGGACTA-GTTCCGCTTCTTTC-TGAGGAAAAATCAGATCT
* *
202429 GGGGAC
129 AGGGAT
* * *
202435 GTTGATTCATTCCACTGATTCTT-AGGGAAGATTGAATCGAGGCAGACTTATTCCACTATTACTT
1 GTTGATTCATTCCACTG-TTATTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTT
* * * * * * *
202499 AGGGAATTTCAAATCTTGAAAGAGGGGGATTTGTTCCGCTTCTTCCTGATGAAAAATCAGATCTA
65 AAGGAATATCAAATCTTGAAAGAGAGGGACTAGTTCCGCTTCTTTCTGAGGAAAAATCAGATCTA
202564 GGGAT
130 GGGAT
* * *
202569 GTTGGTTAATTCCACTGTTATTCAGGGAAGATTGAATCGAG
1 GTTGATTCATTCCACTGTTATTCAAGGAAGATTGAATCGAG
202610 TTTGATTCGC
Statistics
Matches: 370, Mismatches: 64, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
132 7 0.02
133 109 0.29
134 245 0.66
135 9 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (134 bp):
GTTGATTCATTCCACTGTTATTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTTA
AGGAATATCAAATCTTGAAAGAGAGGGACTAGTTCCGCTTCTTTCTGAGGAAAAATCAGATCTAG
GGAT
Found at i:202513 original size:267 final size:267
Alignment explanation
Indices: 202034--202609 Score: 723
Period size: 267 Copynumber: 2.2 Consensus size: 267
202024 ATCGAGAAAC
* * * *
202034 GTTGATTCATTCCACTGTT-CTTCATGGAAGATTGAATT-GAGGCACATTTGTTCCACTGTTACT
1 GTTGATTCATTCCACTGTTAC-TCAAGGAAGATTG-ATTCGAGGCAAACTTGTTCCACTATTACT
* * *
202097 TAAGGAATATCAAATCTCAAAAGAGAGGGATCTATTTTGCTTCTTTTTGAGGGAAAATCAGATCT
64 TAAGGAATATCAAATCTCAAAAGAGAGGGA-CTATGTTCCTTCTTTTTGAGGAAAAATCAGATCT
* * * * * *
202162 AGGGATGTTGATTTATTCCACTATTTTTTAAGGAAGATTGAATCGAGTCAGACTTGTTCCACTGT
128 AGGGACGTTGATTCATTCCACTATTTCTTAAGGAAGATTGAATCGAGGCAGACTTATTCCACTAT
* * **
202227 TACTCAGGGAATATCAAATCTTGAAAGAGGGGGACCAGTTCTGCTTCTTTCTGA-GGGAAATCAG
193 TACTCAGGGAATATCAAATCTTGAAAGAGGGGGACCAGTTCCGCTTCTTCCTGATGAAAAATCAG
* *
202291 ATGTGGGGAT
258 ATCTAGGGAT
202301 GTTGATTCATTCCACTGTTACTCAAGGAAGATTGATTCGAGGCAAACTTGTTCCACTATTACTTA
1 GTTGATTCATTCCACTGTTACTCAAGGAAGATTGATTCGAGGCAAACTTGTTCCACTATTACTTA
* * * * *
202366 AGGAATATCAAATC-CTGAAATAGATGGA-TATGTTCCGTTTTTTCTTGAGGAAAAATCATATCT
66 AGGAATATCAAATCTC-AAAAGAGAGGGACTATGTTCC-TTCTTT-TTGAGGAAAAATCAGATCT
* *
202429 GGGGACGTTGATTCATTCCACTGA-TTCTTAGGGAAGATTGAATCGAGGCAGACTTATTCCACTA
128 AGGGACGTTGATTCATTCCACT-ATTTCTTAAGGAAGATTGAATCGAGGCAGACTTATTCCACTA
* * ***
202493 TTACTTAGGGAATTTCAAATCTTGAAAGAGGGGGATTTGTTCCGCTTCTTCCTGATGAAAAATCA
192 TTACTCAGGGAATATCAAATCTTGAAAGAGGGGGACCAGTTCCGCTTCTTCCTGATGAAAAATCA
202558 GATCTAGGGAT
257 GATCTAGGGAT
* * * * *
202569 GTTGGTTAATTCCACTGTTATTCAGGGAAGATTGAATCGAG
1 GTTGATTCATTCCACTGTTACTCAAGGAAGATTGATTCGAG
202610 TTTGATTCGC
Statistics
Matches: 266, Mismatches: 36, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
265 6 0.02
266 9 0.03
267 197 0.74
268 54 0.20
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (267 bp):
GTTGATTCATTCCACTGTTACTCAAGGAAGATTGATTCGAGGCAAACTTGTTCCACTATTACTTA
AGGAATATCAAATCTCAAAAGAGAGGGACTATGTTCCTTCTTTTTGAGGAAAAATCAGATCTAGG
GACGTTGATTCATTCCACTATTTCTTAAGGAAGATTGAATCGAGGCAGACTTATTCCACTATTAC
TCAGGGAATATCAAATCTTGAAAGAGGGGGACCAGTTCCGCTTCTTCCTGATGAAAAATCAGATC
TAGGGAT
Found at i:208512 original size:21 final size:21
Alignment explanation
Indices: 208469--208513 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
208459 AATTCTTTTC
*
208469 TTTATTTTACTTTAAATCGCT
1 TTTATTTTACTTTAAATAGCT
*
208490 TTTATTATTA-TTTAAATATCT
1 TTTATT-TTACTTTAAATAGCT
208511 TTT
1 TTT
208514 TACCAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATTTTACTTTAAATAGCT
Found at i:209018 original size:85 final size:83
Alignment explanation
Indices: 208875--209088 Score: 198
Period size: 85 Copynumber: 2.5 Consensus size: 83
208865 ACATTTGCCT
* * * * ** * * ** *
208875 GTCATTGAAGCCACCGACATGAATCTCAGATGACACGTATTTATGTCATACATTTATGATGCGCA
1 GTCATTGAAGCCCCCGTCATAAAT-TAAGATGACACACATTTATGTCATAAATGTATGACACCCA
*
208940 TTTATGACGTT-CATTGAGC
65 TGTATGAC-TTACATTGAGC
*
208959 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTGTGCGTCATAAATGTATGACACCC
1 GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTAT--GTCATAAATGTATGACACCC
* *
209024 ATGTATGACTTACATTGCGT
64 ATGTATGACTTACATTGAGC
* * * *
209044 GTCATTGAAGCACACGTCATTAAA-AAAGATGACACACATTCATGT
1 GTCATTGAAGCCCCCGTCA-TAAATTAAGATGACACACATTTATGT
209089 GTCGTGATTG
Statistics
Matches: 106, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
83 17 0.16
84 23 0.22
85 62 0.58
86 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (83 bp):
GTCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTATGTCATAAATGTATGACACCCAT
GTATGACTTACATTGAGC
Found at i:212697 original size:91 final size:91
Alignment explanation
Indices: 212537--212711 Score: 221
Period size: 91 Copynumber: 1.9 Consensus size: 91
212527 CAATAAACTC
* * * * *
212537 ATGTAACGTTCTCGGTTGTAACCGAAATTATTATCAATTATGTAACTTTTTAGGGTAGACATGGT
1 ATGTAACATTCTAGGCTGTAACCGAAATTATTATCAATTATGTAACTTTTTAGAGTAAACATGGT
*
212602 AACATTTTAGGTTAAAATCGGCCGCA
66 AACATTTTAGGATAAAATCGGCCGCA
* *
212628 ATGTAACATTCTAGGCTGTAACC-AAGATTATT-TCCAATTGTTTAACTTTTTAGAGTAAACA-G
1 ATGTAACATTCTAGGCTGTAACCGAA-ATTATTAT-CAATTATGTAACTTTTTAGAGTAAACATG
*
212690 TTAAACATTTTAGGATAAAATC
64 GT-AACATTTTAGGATAAAATC
212712 CAACGCATGT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 5 0.07
91 67 0.93
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (91 bp):
ATGTAACATTCTAGGCTGTAACCGAAATTATTATCAATTATGTAACTTTTTAGAGTAAACATGGT
AACATTTTAGGATAAAATCGGCCGCA
Found at i:238063 original size:16 final size:16
Alignment explanation
Indices: 238042--238072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
238032 TTGATGCTTA
*
238042 TGGATGTTTGAATTTG
1 TGGATGTTTAAATTTG
238058 TGGATGTTTAAATTT
1 TGGATGTTTAAATTT
238073 CTTTTAGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (16 bp):
TGGATGTTTAAATTTG
Found at i:239653 original size:3 final size:3
Alignment explanation
Indices: 239645--239686 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
239635 ATTTATTAAT
* *
239645 TAA TAA TAA TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
239687 AAGCGGGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:240931 original size:90 final size:88
Alignment explanation
Indices: 240779--240948 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
240769 ACACACCCTT
240779 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
240844 ATTAATTAGAATTTAATAATCCTC
66 ATTAATT-GAAATTAATAATCCTC
*
240868 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
240933 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
240949 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCCTC
Found at i:258503 original size:111 final size:111
Alignment explanation
Indices: 258309--258628 Score: 478
Period size: 111 Copynumber: 2.9 Consensus size: 111
258299 TTGCAAATAT
* * * *
258309 GATCAACTCTCCTAGATCTGATATTCCCTTGGAAGAAGCGGAACATATCACTCTCTTCCAAGATT
1 GATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACAAATCACTCTCTTCCAAGATT
* * *
258374 TGATATTCCCTGAGTGACAGCGGAACAAGTTTGCCCCGATTCAATG
66 TGATATTCCCTGAGTGACAGCAGAACAAGTCTGCCCCGATTCAAAG
258420 GATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACAAATCACTCTCTTCCAAGATT
1 GATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACAAATCACTCTCTTCCAAGATT
* *
258485 TGATATTCCATGAGTGACAGCAAAACAAGTCTGCCCCGATTCAAAG
66 TGATATTCCCTGAGTGACAGCAGAACAAGTCTGCCCCGATTCAAAG
* * * * * *
258531 GATCAAATCCCTCAGATCTGATATTCCCTTATAAGAAGAGGAAAAAAATCACTTTCTTCCAAGAT
1 GATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGG-AACAAATCACTCTCTTCCAAGAT
* *
258596 TTGATATTCCCTTAGTGATAGCAGAACAAGTCT
65 TTGATATTCCCTGAGTGACAGCAGAACAAGTCT
258629 ACCGTAGATC
Statistics
Matches: 189, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
111 139 0.74
112 50 0.26
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (111 bp):
GATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACAAATCACTCTCTTCCAAGATT
TGATATTCCCTGAGTGACAGCAGAACAAGTCTGCCCCGATTCAAAG
Found at i:258820 original size:3 final size:3
Alignment explanation
Indices: 258812--258863 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
258802 TATTATCGTT
* *
258812 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA CTT- TTT TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA
258858 TTA TTA
1 TTA TTA
258864 CATGATCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 1 0.02
5 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:259295 original size:19 final size:19
Alignment explanation
Indices: 259271--259309 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
259261 ATGATGTTTC
*
259271 AGTAAAAGTAAAAAGAAAA
1 AGTAAAAGCAAAAAGAAAA
*
259290 AGTAAATGCAAAAAGAAAA
1 AGTAAAAGCAAAAAGAAAA
259309 A
1 A
259310 AACACAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (19 bp):
AGTAAAAGCAAAAAGAAAA
Found at i:263191 original size:20 final size:20
Alignment explanation
Indices: 263166--263207 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
263156 CTAAGAGCTT
*
263166 ATTTAGGATCATATAGATGC
1 ATTTAGGAGCATATAGATGC
*
263186 ATTTAGGAGCATATAGTTGC
1 ATTTAGGAGCATATAGATGC
263206 AT
1 AT
263208 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
ATTTAGGAGCATATAGATGC
Found at i:270957 original size:5 final size:5
Alignment explanation
Indices: 270947--270973 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
270937 TCGAGATACC
270947 TTGCA TTGCA TTGCA TTGCA TTGCA TT
1 TTGCA TTGCA TTGCA TTGCA TTGCA TT
270974 ACATAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTGCA
Found at i:270982 original size:15 final size:15
Alignment explanation
Indices: 270949--270982 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
270939 GAGATACCTT
* *
270949 GCATTGCATTGCATT
1 GCATTGCATTACATA
270964 GCATTGCATTACATA
1 GCATTGCATTACATA
270979 GCAT
1 GCAT
270983 GTAGTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (15 bp):
GCATTGCATTACATA
Found at i:271984 original size:20 final size:20
Alignment explanation
Indices: 271959--272011 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
271949 AGAGCTCATT
271959 TAGGATCATATAGATACATG
1 TAGGATCATATAGATACATG
*
271979 TAGGATCATATAGATATATG
1 TAGGATCATATAGATACATG
* *
271999 TATGAGCATATAG
1 TAGGATCATATAG
272012 TTGCATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
TAGGATCATATAGATACATG
Found at i:273577 original size:20 final size:22
Alignment explanation
Indices: 273554--273595 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
273544 CATACTATCA
273554 CCATTCCA-TTTG-CACAACAT
1 CCATTCCATTTTGCCACAACAT
*
273574 CCATTTCATTTTGCCACAACAT
1 CCATTCCATTTTGCCACAACAT
273596 TCTCATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (22 bp):
CCATTCCATTTTGCCACAACAT
Found at i:274428 original size:81 final size:81
Alignment explanation
Indices: 274030--274419 Score: 478
Period size: 81 Copynumber: 4.8 Consensus size: 81
274020 TTTCCTTTAG
* ** * * ** * * *
274030 TCTTTTACCCAAAGACATTTAGCTTTTCATCTAACTTTCATGATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
274095 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* *
274111 TCTTTTACTCAAAGGTATTTATCCTTTCATCTAACTGGCATCATTGATACCTTTCT-TCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGT-CAAATG
274175 CACAACTAGGCTATTAA
65 CACAACTAGGCTATTAA
* * * * * * *
274192 TATTTTACTCAAAGGTAATTAACCTTTCATCTAGCTGGAATCTTTGACACCTTTATGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
274257 ACAACTAGGCTATTAA
66 ACAACTAGGCTATTAA
* * * * **
274273 TCTCTTACTTAACGGTATTTAA-CTGTTCATCTAACTGGCATAATTGACACCTACCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCT-TTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATG
* *
274337 CACAACTAGGCAATAAA
65 CACAACTAGGCTATTAA
* * *
274354 TCTTTTAATCAAAGGTATTTAACCTTCCATCTAACTGGCATCATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
274419 A
66 A
274420 TAGTTAGGCT
Statistics
Matches: 261, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 256 0.98
82 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGC
ACAACTAGGCTATTAA
Found at i:274476 original size:68 final size:68
Alignment explanation
Indices: 274362--274835 Score: 678
Period size: 68 Copynumber: 7.0 Consensus size: 68
274352 AATCTTTTAA
* * * * * * * *
274362 TCAAAGGTATTTAACCTTCCATCTAACTGGCATCATTGACATCTTTCTGTCAAATGCATAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
*
274427 GCT
66 GCC
* * * *
274430 TCAAAGGAACTTAGTCTTTCATCTAACTAACATGATTGACACCTTTCTGTCAATTGCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
274495 GCC
66 GCC
*
274498 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGGTTGACACCTTTCTGTCAAATGCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
*
274563 GTC
66 GCC
* * * * *
274566 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGTCATCTTTTTGTCAAATGTATAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
*
274631 GCT
66 GCC
* * * * *
274634 TCAAAGGCACTTAGCATTTCATCTAACTAACATGATTGACACTTTTCTATCAAATTCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
274699 GCC
66 GCC
* *
274702 TAAAAGGCACTTAGCCTTTCATATAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
274767 GCC
66 GCC
* *
274770 TCAAAGGCACTTAGCCTTTCATCTAATTAGCATGATTGACACCTTTATGTCAAATGCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
274835 G
66 G
274836 TCATTATCTT
Statistics
Matches: 358, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 358 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (68 bp):
TCAAAGGCACTTAGCCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAGTTAG
GCC
Found at i:277278 original size:2 final size:2
Alignment explanation
Indices: 277271--277321 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
277261 CCAGAAAAGC
277271 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
277313 TA TA TA TA T
1 TA TA TA TA T
277322 CTTCATTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:280213 original size:81 final size:81
Alignment explanation
Indices: 279912--280204 Score: 406
Period size: 81 Copynumber: 3.6 Consensus size: 81
279902 ACCCAAAAAC
* * * * * * * *
279912 ATTTAGCCTTTCATCTATCTTGTATGATTGTCACCTTTCTGCCAAATGCACAGCTAGGCTATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
279977 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
*
279993 ATTTAACCTTTCATCTAGCTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
280058 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * *
280074 ATTTAACCTTTCATCTAATTGACATCATTAACAACTTTCTGTCAAATGCACAACTAGGCTATTAA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
* *
280139 TCTCTTACTCAATGGT
66 TCTTTTACTCAAAGGT
* * * * *
280155 ATTTAACCATGCATCTAACTGGCATCATCGACACCTTTTTTTCAAATGCA
1 ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCA
280205 TAGTTAGGCC
Statistics
Matches: 188, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 188 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATCATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAA
TCTTTTACTCAAAGGT
Found at i:280268 original size:68 final size:68
Alignment explanation
Indices: 280166--280688 Score: 758
Period size: 68 Copynumber: 7.7 Consensus size: 68
280156 TTTAACCATG
* * * * * *
280166 CATCTAACTGGCATCATCGACACCTTTTTTTCAAATGCATAGTTAGGCCTCAACGGCACTTAGCC
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
*
280231 TTC
66 TTT
* * * * * *
280234 CATCCAACTGGCATGATTGACACATTTCCGTCAAATGTACAGTTAGGCCTCAAAGGGACTTAGCT
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
280299 TTT
66 TTT
* *
280302 CATCTAATTGGCATGATTAACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
*
280367 ATT
66 TTT
* * *
280370 CATTTAACTGACATGATTGAAACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
280435 TTT
66 TTT
* * *
280438 CATCTAACTGGCATGATTGACACATTTCTGTGAAATGCACAGTTAGGCCTCAAAGACACTTAGCC
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
280503 TTT
66 TTT
* * * * * * *
280506 CATCTAACTGACATGATTGACACCTTTCTATCAAATACATAGTTAGGCCTCAAAGGTACTTATCA
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
280571 TTT
66 TTT
*
280574 CATCTAACTGGCATGATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
280639 TTT
66 TTT
* *
280642 CATCTAACTGGCATGATTCACACCTTTCTGTCAAATGCATAGTTAGG
1 CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGG
280689 TCATTATCTT
Statistics
Matches: 400, Mismatches: 55, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 400 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
CATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
TTT
Found at i:282279 original size:86 final size:86
Alignment explanation
Indices: 282046--282280 Score: 319
Period size: 86 Copynumber: 2.7 Consensus size: 86
282036 GGCTTTCTCA
** * * *
282046 CAAAGAGGAGTCACTTGAAGAATATCCCACTTGACTTT-CTCGTAAAGGGGAGTCATCCAAAGAT
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCT-GTGAAGGGGAGTCATCTAAAGAT
* *
282110 CATCTCACCTGGTTCAGACCCG
65 CACCCCACCTGGTTCAGACCCG
* *
282132 CAAAGAGGAACCACCTGAAGAATATACCACATGACTTTCCTGTGAAGGGGAGTCATCTAAAGATC
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCTGTGAAGGGGAGTCATCTAAAGATC
282197 ACCCCACCTGGTTCAGACCCG
66 ACCCCACCTGGTTCAGACCCG
* * * * * *
282218 CGAAGGGGAACCAGTTGAAGAATATAACACTTGGCTTTCCTGTGAAGGGGAGTCATTTAAAGA
1 CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCTGTGAAGGGGAGTCATCTAAAGA
282281 ATTATGATCG
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
86 129 0.98
87 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (86 bp):
CAAAGAGGAACCACTTGAAGAATATACCACTTGACTTTCCTGTGAAGGGGAGTCATCTAAAGATC
ACCCCACCTGGTTCAGACCCG
Found at i:282678 original size:200 final size:200
Alignment explanation
Indices: 282334--282846 Score: 668
Period size: 200 Copynumber: 2.6 Consensus size: 200
282324 TAGAGGAAAC
*
282334 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCCATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAAC-AAAACTTTCGAGTTCGATTCCATTC
* * * * * * * *
282399 AGCTCAATGACATATTAACCGCATGGTAGCAGCAATGAACTACTTTCCGGTTGAAGTTTAAACTA
65 AGCTCAAAGGCATATCAACCGCATGGTAGCAACAAGGAACTACTTTCCAGTTAAAATTTAAACTA
* * *
282464 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTTGCTGCGATTTAGCAATAAGGAACTATCTCCCAG
130 AGATCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
*
282529 CCGAAT
195 CCAAAT
*
282535 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTTAACAAAACTTTCGAGTTCGATTCCATTCA
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAAACTTTCGAGTTCGATTCCATTCA
* * * **
282600 GCTCAAAGGCATATCAACTGCATGGTAGCAACGAGGAACTACTTTCTAGTTAAAATTTAAACTGT
66 GCTCAAAGGCATATCAACCGCATGGTAGCAACAAGGAACTACTTTCCAGTTAAAATTTAAACTAA
* *
282665 GATCTTTAAGTCAAGAAGAAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATTTCCCAGC
131 GATCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAGC
*
282730 TAAAT
196 CAAAT
* * * * * * * * *
282735 TTACAACATAGCTCAAGGTGAGAAGAGCTATCTATAAAAAAAAGCCTTCGAGTTCAATTTCATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAAA-CTTTCGAGTTCGATTCCATTC
* * ** *
282800 AGCTCGAGGGCATATCAACCATATGGTAGCATA-AAAGAACTACTTTC
65 AGCTCAAAGGCATATCAACCGCATGGTAGCA-ACAAGGAACTACTTTC
282847 TGGTTGAATT
Statistics
Matches: 272, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
200 177 0.65
201 94 0.35
202 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (200 bp):
TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTAAACAAAACTTTCGAGTTCGATTCCATTCA
GCTCAAAGGCATATCAACCGCATGGTAGCAACAAGGAACTACTTTCCAGTTAAAATTTAAACTAA
GATCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAGC
CAAAT
Found at i:283805 original size:17 final size:17
Alignment explanation
Indices: 283770--283806 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
283760 CTTTAGATTA
*
283770 TTTATTTAATTATTTTC
1 TTTATTTAATTATTATC
*
283787 TTTATTTAATTCTTATC
1 TTTATTTAATTATTATC
283804 TTT
1 TTT
283807 TACTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTTAATTATTATC
Found at i:289254 original size:43 final size:43
Alignment explanation
Indices: 289202--289465 Score: 219
Period size: 43 Copynumber: 6.1 Consensus size: 43
289192 TTAAGATATT
* **
289202 TAGCGGCATTTTTGCATACAAACGCCGTAAAAGGTCTGGTATA
1 TAGCGGCATTTTTGGATACAAACGCCGCCAAAGGTCTGGTATA
* *
289245 TAACGGCATTTTTCGTATACAAACG-CGCCAAAGGTCTGGTATA
1 TAGCGGCATTTTT-GGATACAAACGCCGCCAAAGGTCTGGTATA
* * * * *
289288 TAGCGGCGTTTTTTGCATAC-AAC-TCGCCAAATGTCTGGTAAA
1 TAGCGGC-ATTTTTGGATACAAACGCCGCCAAAGGTCTGGTATA
* * **
289330 TAGCGGCATTTTCGGATACAAACGCTGCCAAATATCTGGTATA
1 TAGCGGCATTTTTGGATACAAACGCCGCCAAAGGTCTGGTATA
* ** * * ** *
289373 TAACGGTGTTTTTTTGGATACAAACACCACCAAATATCTCGTATA
1 TAGC-G-GCATTTTTGGATACAAACGCCGCCAAAGGTCTGGTATA
* * ** *
289418 TAGTGGCATTTTACGGATACAAACGCCGTAAAAGGGCTGGTATA
1 TAGCGGCATTTT-TGGATACAAACGCCGCCAAAGGTCTGGTATA
289462 TAGC
1 TAGC
289466 AACGTTGTTT
Statistics
Matches: 175, Mismatches: 38, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
41 9 0.05
42 29 0.17
43 62 0.35
44 42 0.24
45 33 0.19
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
TAGCGGCATTTTTGGATACAAACGCCGCCAAAGGTCTGGTATA
Found at i:289360 original size:85 final size:84
Alignment explanation
Indices: 289235--289482 Score: 255
Period size: 85 Copynumber: 2.9 Consensus size: 84
289225 GCCGTAAAAG
* *
289235 GTCTGGTATATAACGGCATTTTTCGTATACAAACGCGCCAAAGGTCTGGTATATAGCGGCGTTTT
1 GTCTGGTATATAGCGGCA-TTTTCGGATACAAACGCGCCAAAGGTCTGGTATATAGCGGCGTTTT
* *
289300 TTGCATACAAC-TCGCCAAAT
65 TTG-ATACAACACCACCAAAT
* ** * *
289320 GTCTGGTAAATAGCGGCATTTTCGGATACAAACGCTGCCAAATATCTGGTATATAACGGTGTTTT
1 GTCTGGTATATAGCGGCATTTTCGGATACAAACGC-GCCAAAGGTCTGGTATATAGCGGCG-TTT
289385 TTTGGATACAAACACCACCAAAT
64 TTT-GATAC-AACACCACCAAAT
* * * ** * ** *
289408 ATCTCGTATATAGTGGCATTTTACGGATACAAACGCCGTAAAAGGGCTGGTATATAGCAACGTTG
1 GTCTGGTATATAGCGGCATTTT-CGGATACAAACG-CGCCAAAGGTCTGGTATATAGCGGCGTTT
289473 TTTGATACAA
64 TTTGATACAA
289483 ACGCGCTAAT
Statistics
Matches: 133, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
84 16 0.12
85 37 0.28
86 12 0.09
87 9 0.07
88 30 0.23
89 28 0.21
90 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (84 bp):
GTCTGGTATATAGCGGCATTTTCGGATACAAACGCGCCAAAGGTCTGGTATATAGCGGCGTTTTT
TGATACAACACCACCAAAT
Done.