Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007432.1 Hibiscus syriacus cultivar Beakdansim tig00020158_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: 180061
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1594 original size:16 final size:17
Alignment explanation
Indices: 1567--1600 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1557 ATTTTCATTC
1567 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
1584 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
1600 T
1 T
1601 GACACCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:5177 original size:23 final size:23
Alignment explanation
Indices: 5147--5214 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
5137 GTGCAACATA
* *
5147 TTTGTCCCAAAAGACCATATAGG
1 TTTGTCCCGAAAGACCACATAGG
* *
5170 TTTGTCCCGAAGGACAACATAGG
1 TTTGTCCCGAAAGACCACATAGG
*
5193 TTTGTCCTGAAAGACCACATAG
1 TTTGTCCCGAAAGACCACATAG
5215 AACCCTCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (23 bp):
TTTGTCCCGAAAGACCACATAGG
Found at i:8291 original size:44 final size:44
Alignment explanation
Indices: 8234--8386 Score: 227
Period size: 44 Copynumber: 3.5 Consensus size: 44
8224 CCAAAATACA
* * *
8234 CCGTTATGCATTTTCATTTATGACACATTTCTACCAATAATGCT
1 CCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCT
* * *
8278 CCGTTATGCATTTTCGTATATGGCACCTTTCTGCCAATAATGCA
1 CCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCT
*
8322 CCGTTATGCATTTTCCTTTATGGCACCTTTCTGCCAATAATG-T
1 CCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCT
8365 ACCGTTATGCATTTTCATTTAT
1 -CCGTTATGCATTTTCATTTAT
8387 TCATTCATTT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 98 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (44 bp):
CCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCT
Found at i:8572 original size:14 final size:14
Alignment explanation
Indices: 8549--8582 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8539 AATAAATGCA
*
8549 CTCACCTGATAAGT
1 CTCACTTGATAAGT
8563 CTCACTTGATAAGT
1 CTCACTTGATAAGT
8577 CTCACT
1 CTCACT
8583 AATACGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (14 bp):
CTCACTTGATAAGT
Found at i:10471 original size:44 final size:44
Alignment explanation
Indices: 10323--10586 Score: 232
Period size: 44 Copynumber: 5.9 Consensus size: 44
10313 CAAGAGTGGC
* * *
10323 ACCTTTCTGCCAA-AATACACCATTATGCATTTAAGTTTCATTTATGGC
1 ACCTTTCTGCCAATAATGCACCATTATGCA--T---TCTCATTTATGGT
* * * * *
10371 ACGTTCCTGCCAA-AATACACCATAATGCATTTTCATTTATGGCTT
1 ACCTTTCTGCCAATAATGCACCATTATGCATTCTCATTTATGG--T
* * * * **
10416 A--TTTATACCAATAACGCACCGTTATGCATTCTCATTTATGAA
1 ACCTTTCTGCCAATAATGCACCATTATGCATTCTCATTTATGGT
* * * *
10458 ATCTTTCTGCCAATAATGCATCATTATGTATTTTCATTTATGGT
1 ACCTTTCTGCCAATAATGCACCATTATGCATTCTCATTTATGGT
* *
10502 ACCTTTCTGCCAATAATACACTATTATGCATTCTCATTTATGGT
1 ACCTTTCTGCCAATAATGCACCATTATGCATTCTCATTTATGGT
*
10546 ACCTTTCTGCCAATAATGCAACC-TTATGCATTTTCATTTAT
1 ACCTTTCTGCCAATAATGC-ACCATTATGCATTCTCATTTAT
10587 TCATTCATTT
Statistics
Matches: 178, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 19 0.11
44 128 0.72
45 3 0.02
46 1 0.01
48 26 0.15
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (44 bp):
ACCTTTCTGCCAATAATGCACCATTATGCATTCTCATTTATGGT
Found at i:17271 original size:44 final size:44
Alignment explanation
Indices: 17125--17392 Score: 247
Period size: 44 Copynumber: 6.0 Consensus size: 44
17115 AAAATAGAAG
* * * *
17125 TGGCACCTTTCTGCCAA-AATACACCATTATACATTTAAGTTTCGTTTG
1 TGGCACCTTTCTGCCAATAATACACCTTTATGCA--T---TTTCATTTA
* * * * * * *
17173 TGGCACCTTCCTTCCAA-AATGCATCGTCATGCACTTTCATTTA
1 TGGCACCTTTCTGCCAATAATACACCTTTATGCATTTTCATTTA
* * * *
17216 TGGCACCTTTCTACCAATAACACACCTTTATACATTTTTATTTA
1 TGGCACCTTTCTGCCAATAATACACCTTTATGCATTTTCATTTA
* * *
17260 TGACACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATACACCTTTATGCATTTTCATTTA
* * * *
17304 TGGTACATTTATGCCAATAATACA-TTGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATACACCT-TTATGCATTTTCATTTA
17348 TGGCACCTTTCTGCCAATAATACAACC-TTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATAC-ACCTTTATGCATTTTCATTTA
17392 T
1 T
17393 TCATTCATTT
Statistics
Matches: 178, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
43 22 0.12
44 129 0.72
45 1 0.01
48 26 0.15
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.40
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATACACCTTTATGCATTTTCATTTA
Found at i:29540 original size:234 final size:233
Alignment explanation
Indices: 28891--29801 Score: 1258
Period size: 232 Copynumber: 3.9 Consensus size: 233
28881 ATCCTTTGGG
* * *
28891 TTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATG
1 TTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATG
* * *
28956 TCTCTCGAAAAATAAGAAACG-TTTCTCATTTAAATCTAAAAATTGAAATTTTTTAAAAGTAAGA
66 TCTCTCAAAAAATGAGAAA-GATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGA
* ** *
29020 AAGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTGCATGCCATCAGTAAGTCTTT
130 AAGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTT
* *
29085 CGAGCATGATGCTTAAATCCTTGGGGTCATTTGTAAGTC
195 CGAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTC
* *
29124 TTTCGAGCAAGATGATAAGTCATTCGGGCAATCCATAAGACCTTCATGCAGGAT-TTTTCACATG
1 TTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATG
* * *
29188 TCTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATCTAAAAAATGAAATTTTTGAAAAATAAGAA
66 TCTCTCAAAAAATGAGAAAGATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAA
*
29253 AGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCACTAAGTCTTTC
131 AGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTC
** *
29318 GAGTGTGATGCTTAAATCCTTTGGGTAATCTGTAAGTC
196 GAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTC
* * *
29356 TTTCGAGAAAGATGATAAGTCATTCGGGCCATTCC-TAAGACCTTCGGGCAGGATGTTTTCACGT
1 TTTCGAGCAAGATGATAAGTCATTCGGGCCA-TCCATAAGACCTTCAGGCAGGATGTTTTCACAT
* ** * * * * *
29420 GATTTCAAAAAAAATGAGAAAAATTTCTCATTTAAATTTGAAATTTGAAATTTTTGAAAAGTGAG
65 G-TCTCTCAAAAAATGAGAAAGATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAG
* *
29485 AAAGGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGTGCCATCAATAAGTCTT
129 AAAGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTT
* * *
29550 TCGAGAATGATGCTTAAAT-CTTTCGGGCCATCTGTACGTC
194 TCGAGCATGATGCTTAAATCCTTT-GGGTCATCTGTAAGTC
* * * * *
29590 TTTCGAGCAAGATGATAAGTCCTTCGGGCCATCAATAAGACCTTTAAGCTA-TATGTTTTCACAT
1 TTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGC-AGGATGTTTTCACAT
** * *
29654 GTCTCTTGAAAAATGAGAAAGATTTCTCATTTTAATCTGAAAATTGAAATTTTTGAAAAGTAAGA
65 GTCTCTCAAAAAATGAGAAAGATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGA
* ** * * *
29719 AAGGTTTCTTATCTAGTAAACTATTT-CAAAAGTTGGTAAGTCCTTTGGGCCATCATTAAGACTT
130 AAGGTTTCTTACCTAGTAAACTATTTCCAAAA-TTTATAAGTCCTTCGGGCCATCAATAAGTCTT
29783 TCGAGCATGATGCTTAAAT
194 TCGAGCATGATGCTTAAAT
29802 TCTTCAGGTC
Statistics
Matches: 603, Mismatches: 67, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
231 1 0.00
232 213 0.35
233 192 0.32
234 196 0.33
235 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
TTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATG
TCTCTCAAAAAATGAGAAAGATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAA
AGGTTTCTTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTC
GAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTC
Found at i:29971 original size:3 final size:3
Alignment explanation
Indices: 29956--29998 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
29946 TTTAGTTTCA
* *
29956 TAT TAT TAC TAT TAT TAT TAT TA- TAT T-T TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29999 CTCTATTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:41688 original size:43 final size:42
Alignment explanation
Indices: 41641--41771 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 42
41631 TCTTACAAAT
* *
41641 GCCGCAATAGATGTTGAGATTTGGCAGCGTTTTTCACATAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCAGCGTTTTTCACA-AAAC
*
41684 GCCGCAATAGGTTTTGAGATTTAGCAGCGATTTTATCAC-AAAC
1 GCCGCAATAGGTGTTGAGATTTAGCAGCG-TTTT-TCACAAAAC
** * * *
41727 ATCGTAATAGGCGTTGAGATTTAGCAGCGTTTTTCCCACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCAGCGTTTTTCACA-AAAC
41770 GC
1 GC
41772 TGTAAAATGC
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 4 0.05
43 58 0.79
44 4 0.05
45 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (42 bp):
GCCGCAATAGGTGTTGAGATTTAGCAGCGTTTTTCACAAAAC
Found at i:42343 original size:19 final size:19
Alignment explanation
Indices: 42321--42365 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
42311 ACCGCTATTT
*
42321 CTCTCTGCTTCTGTTGCTG
1 CTCTCTGCTTCTGCTGCTG
*
42340 CTCTCTGCTTTTGCTGCTG
1 CTCTCTGCTTCTGCTGCTG
42359 CTCTCTG
1 CTCTCTG
42366 TGCTTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.20, T:0.47
Consensus pattern (19 bp):
CTCTCTGCTTCTGCTGCTG
Found at i:42369 original size:21 final size:20
Alignment explanation
Indices: 42320--42372 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
42310 TACCGCTATT
* *
42320 TCTCTCTGCTTCTGTTGCTGC
1 TCTCT-TGCTTTTGCTGCTGC
42341 TCTC-TGCTTTTGCTGCTGC
1 TCTCTTGCTTTTGCTGCTGC
42360 TCTCTGTGCTTTT
1 TCTCT-TGCTTTT
42373 CTTGCTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.00, C:0.30, G:0.19, T:0.51
Consensus pattern (20 bp):
TCTCTTGCTTTTGCTGCTGC
Found at i:42378 original size:21 final size:20
Alignment explanation
Indices: 42320--42378 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
42310 TACCGCTATT
* *
42320 TCTCTCTGCTTCTGTTGCTGC
1 TCTCT-TGCTTTTCTTGCTGC
42341 TCTC-TGCTTTTGC-TGCTGC
1 TCTCTTGCTTTT-CTTGCTGC
42360 TCTCTGTGCTTTTCTTGCT
1 TCTCT-TGCTTTTCTTGCT
42379 TCATTTTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 16 0.50
20 1 0.03
21 15 0.47
ACGTcount: A:0.00, C:0.31, G:0.19, T:0.51
Consensus pattern (20 bp):
TCTCTTGCTTTTCTTGCTGC
Found at i:50888 original size:14 final size:14
Alignment explanation
Indices: 50869--50900 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50859 CGTTCGTGAA
50869 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
50883 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
50897 CGTT
1 CGTT
50901 TATGTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:50917 original size:24 final size:24
Alignment explanation
Indices: 50870--50920 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50860 GTTCGTGAAC
* *
50870 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
* *
50894 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
50918 GTT
1 GTT
50921 TAACCCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTCGGTTATGTTCATTCAGTTAT
Found at i:51959 original size:16 final size:16
Alignment explanation
Indices: 51936--52012 Score: 145
Period size: 16 Copynumber: 4.8 Consensus size: 16
51926 GGGTCTCCAA
51936 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
51952 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
51968 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
51984 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
52000 CGTTTATGTTCGT
1 CGTTTATGTTCGT
52013 TTATTTATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 59 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:51977 original size:10 final size:10
Alignment explanation
Indices: 51964--52016 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
51954 TTTATGTTCG
51964 TGTTCGTTTA
1 TGTTCGTTTA
51974 TGTTCG----
1 TGTTCGTTTA
51980 TGTTCGTTTA
1 TGTTCGTTTA
51990 TGTTCG----
1 TGTTCGTTTA
51996 TGTTCGTTTA
1 TGTTCGTTTA
52006 TGTTCGTTTA
1 TGTTCGTTTA
52016 T
1 T
52017 TTATTAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
6 12 0.34
10 23 0.66
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:52103 original size:16 final size:16
Alignment explanation
Indices: 52082--52114 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52072 AAAAATATTT
52082 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
52098 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
52114 T
1 T
52115 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:52240 original size:27 final size:27
Alignment explanation
Indices: 52202--52255 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
52192 GGCTATAGAA
52202 TTTTGGATATCTGATAAATGAAAGGAC
1 TTTTGGATATCTGATAAATGAAAGGAC
52229 TTTTGGATATCTGATAAATGAAAGGAC
1 TTTTGGATATCTGATAAATGAAAGGAC
52256 AATGGTAGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
TTTTGGATATCTGATAAATGAAAGGAC
Found at i:52808 original size:14 final size:14
Alignment explanation
Indices: 52789--52816 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52779 TTCATCTTTG
52789 ACTTTGAAAGATGA
1 ACTTTGAAAGATGA
52803 ACTTTGAAAGATGA
1 ACTTTGAAAGATGA
52817 TAAGGATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
ACTTTGAAAGATGA
Found at i:54147 original size:40 final size:40
Alignment explanation
Indices: 54092--54253 Score: 261
Period size: 40 Copynumber: 4.0 Consensus size: 40
54082 TGCAGGTTTA
54092 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
54132 TAATACACTTCGGTGTATATGTTGGGCACGACGTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * *
54172 TAATACACTTCGGTGTATATGGTAGGCATGACCTTAAGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
54212 TAATACATTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
54252 TA
1 TA
54254 GCACTACGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:61605 original size:40 final size:40
Alignment explanation
Indices: 61550--61711 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
61540 TGCAGGTTTA
*
61550 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
61590 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
61630 TAATACACTTCGGTGTATATGGTGGGTACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
61670 TAATACATTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
61710 TA
1 TA
61712 GCACTACGGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:62324 original size:21 final size:22
Alignment explanation
Indices: 62292--62334 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
62282 TTCCAGAATG
62292 TAAAAGGGGAACCGATTCCCCC
1 TAAAAGGGGAACCGATTCCCCC
62314 TAAAA-GGGAACCGATTCCCCC
1 TAAAAGGGGAACCGATTCCCCC
62335 ACAGTTCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (22 bp):
TAAAAGGGGAACCGATTCCCCC
Found at i:62866 original size:134 final size:134
Alignment explanation
Indices: 62613--62890 Score: 369
Period size: 134 Copynumber: 2.1 Consensus size: 134
62603 TAAAAAGCAT
*
62613 CACTAAAGAACAACTTTTTAGTGACGTTCGGTAACAAACGCCACTAAATTAAGAGCATTTTATGG
1 CACTAAAGAACAACTTTTTAGCGACGTTCGGTAACAAACGCCACTAAATTAAGAGCATTTTATGG
* ** * *
62678 CGTTTTTTTTAAAAATGCCGCTATAAATGACAATATACAACTCTATTGCAGCGTTTATGTCAAAA
66 CGATTGATTAAAAAACGCCGCTATAAATGACAATATACAACTCTATTGCAGCGTTTATGTCAAAA
62743 ATGC
131 ATGC
* * ** * * *
62747 CATTAAAGTACAACTTTTTAGCGGTGTTTGGTAACAAACGCCACTAAATTAAGAGTATTTTGTGG
1 CACTAAAGAACAACTTTTTAGCGACGTTCGGTAACAAACGCCACTAAATTAAGAGCATTTTATGG
* ** * * *
62812 CGATTGATTAAAAAACGCCGCTATAAATGACAATATACAAC-CATTTTGTGGCGTTTGTTTGAAA
66 CGATTGATTAAAAAACGCCGCTATAAATGACAATATACAACTC-TATTGCAGCGTTTATGTCAAA
62876 AATGC
130 AATGC
62881 CACTAAAGAA
1 CACTAAAGAA
62891 TTACTCTTTA
Statistics
Matches: 122, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
133 1 0.01
134 121 0.99
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (134 bp):
CACTAAAGAACAACTTTTTAGCGACGTTCGGTAACAAACGCCACTAAATTAAGAGCATTTTATGG
CGATTGATTAAAAAACGCCGCTATAAATGACAATATACAACTCTATTGCAGCGTTTATGTCAAAA
ATGC
Found at i:67616 original size:20 final size:20
Alignment explanation
Indices: 67588--67659 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
67578 AATTATATCG
67588 GTATCGATACTGACTTTTGA
1 GTATCGATACTGACTTTTGA
* *
67608 GTATTGATACTAAGCCTTTTG-
1 GTATCGATACT--GACTTTTGA
**
67629 GTATTAATACTGACTTTTGA
1 GTATCGATACTGACTTTTGA
67649 GTATCGATACT
1 GTATCGATACT
67660 CCACCTTGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.16
20 19 0.44
21 10 0.23
22 7 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (20 bp):
GTATCGATACTGACTTTTGA
Found at i:74678 original size:3 final size:3
Alignment explanation
Indices: 74670--74780 Score: 107
Period size: 3 Copynumber: 35.7 Consensus size: 3
74660 TGTCCAAAAT
* * *
74670 TTA TTA TTA -TA ATA TTA TTA TTG TTA TTA GTTG TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A
* * *
74716 TTA TTA ATA TTA TTA TTG TTA TTA GTTG TTA TTA TTA TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA
*
74763 TTA TTAA CTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TT
74781 GTAAGTAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.02
3 75 0.84
4 12 0.13
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:74708 original size:19 final size:19
Alignment explanation
Indices: 74684--74751 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
74674 TATTATAATA
74684 TTATTATTGTTATTAGTTG
1 TTATTATTGTTATTAGTTG
* * *
74703 TTATTATTATTAATTATTAATA
1 TTATTATTGTT-ATTAGT--TG
74725 TTATTATTGTTATTAGTTG
1 TTATTATTGTTATTAGTTG
74744 TTATTATT
1 TTATTATT
74752 ATTAATTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 19 0.47
20 5 0.12
21 5 0.12
22 11 0.28
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (19 bp):
TTATTATTGTTATTAGTTG
Found at i:74710 original size:22 final size:22
Alignment explanation
Indices: 74682--74754 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
74672 ATTATTATAA
74682 TATTATTATTGTTATTAGTTGT
1 TATTATTATTGTTATTAGTTGT
* **
74704 TATTATTA-T-TAATTA-TTAA
1 TATTATTATTGTTATTAGTTGT
74723 TATTATTATTGTTATTAGTTGT
1 TATTATTATTGTTATTAGTTGT
74745 TATTATTATT
1 TATTATTATT
74755 AATTATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.24
20 6 0.14
21 6 0.14
22 20 0.48
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (22 bp):
TATTATTATTGTTATTAGTTGT
Found at i:74712 original size:16 final size:15
Alignment explanation
Indices: 74670--74780 Score: 107
Period size: 16 Copynumber: 7.1 Consensus size: 15
74660 TGTCCAAAAT
*
74670 TTATTATTA-TAATA
1 TTATTATTATTATTA
*
74684 TTATTATTGTTATTA
1 TTATTATTATTATTA
*
74699 GTTGTTATTATTATTAA
1 -TTATTATTATTATT-A
*
74716 TTATTAATATTATTA
1 TTATTATTATTATTA
* *
74731 TTGTTATTAGTTGTTA
1 TTATTATTA-TTATTA
74747 TTATTATTAATTATTA
1 TTATTATT-ATTATTA
*
74763 TTATTAACTATTATTA
1 TTATT-ATTATTATTA
74779 TT
1 TT
74781 GTAAGTAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.10
15 12 0.15
16 55 0.70
17 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:74726 original size:41 final size:41
Alignment explanation
Indices: 74670--74768 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
74660 TGTCCAAAAT
74670 TTATT-ATTA-TAATATTATTATTGTTATTAGTTGTTATTA
1 TTATTAATTATTAATATTATTATTGTTATTAGTTGTTATTA
74709 TTATTAATTATTAATATTATTATTGTTATTAGTTGTTATTA
1 TTATTAATTATTAATATTATTATTGTTATTAGTTGTTATTA
*
74750 TTATTAATTATTATTATTA
1 TTATTAATTATTAATATTA
74769 ACTATTATTA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 5 0.09
40 4 0.07
41 48 0.84
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (41 bp):
TTATTAATTATTAATATTATTATTGTTATTAGTTGTTATTA
Found at i:76696 original size:5 final size:5
Alignment explanation
Indices: 76686--76749 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
76676 TTTTTAATAA
** * * *
76686 TATTT TATTT TATTT TACTTT TATAA TATTT ATTTTT TACTT TATTT TGTTT
1 TATTT TATTT TATTT TA-TTT TATTT TATTT -TATTT TATTT TATTT TATTT
*
76738 TATTT AATTT TA
1 TATTT TATTT TA
76750 GTACTAACGA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
5 36 0.80
6 9 0.20
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:76733 original size:26 final size:27
Alignment explanation
Indices: 76677--76733 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
76667 TTTTTTATAT
*
76677 TTTTAATAATATTTTATTTTATTTTAC
1 TTTTAATAATATTTTATTTTACTTTAC
*
76704 TTTT-ATAATATTTATTTTTTACTTTA-
1 TTTTAATAATATTT-TATTTTACTTTAC
76730 TTTT
1 TTTT
76734 GTTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTAATAATATTTTATTTTACTTTAC
Found at i:77330 original size:97 final size:98
Alignment explanation
Indices: 77202--77398 Score: 378
Period size: 97 Copynumber: 2.0 Consensus size: 98
77192 TAACGATTTT
77202 ATTTTTGTTTTCAGCTCTATCAAAGTTTCTATCGAGGGTTTTTCTTTTCTGTTTTTTGAGTCAAT
1 ATTTTTGTTTTCAGC-CTATCAAAGTTTCTATCGAGGGTTTTTCTTTTCTGTTTTTTGAGTCAAT
77267 AGTTTGTATGTTTCTCCTCACACACATCACGTGC
65 AGTTTGTATGTTTCTCCTCACACACATCACGTGC
77301 ATTTTTGTTTTCAG-CTATCAAAGTTTCTATCGAGGGTTTTTCTTTTCTGTTTTTTGAGTCAATA
1 ATTTTTGTTTTCAGCCTATCAAAGTTTCTATCGAGGGTTTTTCTTTTCTGTTTTTTGAGTCAATA
77365 GTTTGTATGTTTCTCCTCACACACATCACGTGC
66 GTTTGTATGTTTCTCCTCACACACATCACGTGC
77398 A
1 A
77399 ATTACATGAC
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 84 0.86
99 14 0.14
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (98 bp):
ATTTTTGTTTTCAGCCTATCAAAGTTTCTATCGAGGGTTTTTCTTTTCTGTTTTTTGAGTCAATA
GTTTGTATGTTTCTCCTCACACACATCACGTGC
Found at i:88989 original size:2 final size:2
Alignment explanation
Indices: 88982--89013 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88972 TCATTTATCC
88982 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
89014 CTCTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90309 original size:32 final size:33
Alignment explanation
Indices: 90236--90310 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
90226 GAAGCAATAG
* * *
90236 AGGGCATC-TTTGAAGATTCAACATCAAATGTT
1 AGGGAATCTTTTGAAGATTCAACATCAAATATC
* *
90268 AGGGCATCTTTTG-AGATTCAACATCGAATATC
1 AGGGAATCTTTTGAAGATTCAACATCAAATATC
*
90300 GGGGAATCTTT
1 AGGGAATCTTT
90311 GGGAATTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (33 bp):
AGGGAATCTTTTGAAGATTCAACATCAAATATC
Found at i:90590 original size:61 final size:60
Alignment explanation
Indices: 90495--90726 Score: 277
Period size: 61 Copynumber: 3.8 Consensus size: 60
90485 AATCTCTTGT
* * * *
90495 AGCTTTTAGAGTCAATTTTAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTGC
1 AGCTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTT-C
* *
90556 AGCTTTCAGAGCCAATGTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTC
1 AGCTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTC
*
90616 TAGCTTTCAGAGCCAA-TTAATACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTC
1 -AGCTTTCAGAGCCAATTTCA-ACTTCACAACGAAGGATATTGGACTCAACAAACAAC-TTTC
* * * ** *
90678 AGTTTCATTCACAGTCAATTTCAACTTCACGGCGAAGGATATTGAACTC
1 AG---CTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
90727 GAAGCGACAC
Statistics
Matches: 148, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
60 3 0.02
61 106 0.72
62 3 0.02
64 33 0.22
65 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (60 bp):
AGCTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTC
Found at i:93508 original size:32 final size:32
Alignment explanation
Indices: 93442--93509 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
93432 AAAGTTTATG
* *
93442 TTTTTGCTATTTTAGTCCTTTAACTTTCTATT
1 TTTTTGCTATTTTAGTCCTTAAAATTTCTATT
* *
93474 TTTTTGCTATTTT-GATCCTTAAAATTTTTGTT
1 TTTTTGCTATTTTAG-TCCTTAAAATTTCTATT
93506 TTTT
1 TTTT
93510 CTATATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (32 bp):
TTTTTGCTATTTTAGTCCTTAAAATTTCTATT
Found at i:97108 original size:3 final size:3
Alignment explanation
Indices: 97093--97162 Score: 61
Period size: 3 Copynumber: 22.3 Consensus size: 3
97083 CAAAATTTAA
* * *
97093 TAT TAT TAA TAT TAT TAT TGT TAT TAGT TGAT GA- TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT TAT TAT TAT TAT T-AT
*
97140 TAT TAT TAT TAAC TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT T
97163 GTAAGTAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 1 0.02
3 44 0.81
4 8 0.15
5 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:97143 original size:13 final size:12
Alignment explanation
Indices: 97093--97162 Score: 70
Period size: 13 Copynumber: 5.6 Consensus size: 12
97083 CAAAATTTAA
97093 TATTATTAATAT
1 TATTATTAATAT
**
97105 TATTATTGTTAT
1 TATTATTAATAT
*
97117 TAGTTGA-TGATAT
1 TA-TT-ATTAATAT
97130 TATTATTAATTAT
1 TATTATTAA-TAT
97143 TATTATTAACTAT
1 TATTATTAA-TAT
97156 TATTATT
1 TATTATT
97163 GTAAGTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
11 1 0.02
12 16 0.33
13 31 0.63
14 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:98926 original size:29 final size:28
Alignment explanation
Indices: 98867--98921 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
98857 AACTCAAGAG
*
98867 TTTTTTTTATATTTTTAATAATATTTTTA
1 TTTTATTT-TATTTTTAATAATATTTTTA
98896 TTTTATTTTATTTTT-ATAATATTTTT
1 TTTTATTTTATTTTTAATAATATTTTT
98922 TTATTGTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.44
28 7 0.28
29 7 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTATTTTATTTTTAATAATATTTTTA
Found at i:98933 original size:29 final size:28
Alignment explanation
Indices: 98876--98937 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
98866 GTTTTTTTTA
*
98876 TATTTTTAATAATATTTTTATTTTATTT
1 TATTTTTAATAATATTTTTATTGTATTT
*
98904 TATTTTT-ATAATATTTTTTTATTGTGTTT
1 TATTTTTAATAATA--TTTTTATTGTATTT
98933 TATTT
1 TATTT
98938 AATTTTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 7 0.23
29 17 0.57
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (28 bp):
TATTTTTAATAATATTTTTATTGTATTT
Found at i:102992 original size:15 final size:14
Alignment explanation
Indices: 102976--103018 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
102966 AATTAAAATA
102976 AAATTATAAAATTT
1 AAATTATAAAATTT
*
102990 AAATTGTAGAAATTT
1 AAATTATA-AAATTT
*
103005 AGATTACTAAAATT
1 AAATTA-TAAAATT
103019 AGGACTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATTATAAAATTT
Found at i:113504 original size:55 final size:55
Alignment explanation
Indices: 112826--113487 Score: 1004
Period size: 55 Copynumber: 12.0 Consensus size: 55
112816 AACATCGAAT
*
112826 GGCACTATATGTGTGCAAAACCTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
1 GGCACT-T-TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * *
112884 GGCACATTGTGTGCAAAAGCTAATAAATTCATAATAAGTTTATGAATTTCCATATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
112940 GGCACTTTGTGTGCAATACTAAGAAATTCATAATCAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
112995 GGCACTTTGTGTACAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* **
113050 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATATCTATATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
113105 GGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
113161 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAG--TATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
113214 GGCACTTTGTGTGCAAAACTAACAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* **
113269 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTTGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* ** *
113324 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
113379 GGCACTTTGTGTGCAAAACTAATAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
113434 GGTACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
113488 TGGTAGTGGG
Statistics
Matches: 557, Mismatches: 44, Indels: 9
0.91 0.07 0.01
Matches are distributed among these distances:
53 50 0.09
55 389 0.70
56 112 0.20
57 1 0.00
58 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
Found at i:113557 original size:329 final size:330
Alignment explanation
Indices: 112836--113559 Score: 985
Period size: 329 Copynumber: 2.2 Consensus size: 330
112826 GGCACTATAT
** *
112836 GTGTGCAAAACCTAAGAAATTCATAACGAGTTTATGAATT-TCCGTATGGGCAC-ATTGTGTGCA
1 GTGTGCAAAACC-AAGAAATTCATAATAAG--TATGAATTCT-CGTATGGGCACTA-CGTGTGCA
* * *
112899 AAAGCTAATAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAATACTAAGA
61 AAAGCTAACAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGAAAAACTAAGA
112964 AATTCATAATCAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAACTAAGAAATTCATAAT
126 AATTCATAATCAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAACTAAGAAATTCATAAT
* *
113029 GAGTTTATGAATTTTCGTATTGGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGA
191 AAGTTTATGAATTTTCGTATTGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* *
113094 ATATCTATATGGGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCATA
256 ATATCCATATGGGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCATA
**
113159 TGGGCACTTT
321 TGGGCACTGG
* * * **
113169 GTGTGCAAAACTAAGAAATTCATAATGAGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAA-C
1 GTGTGCAAAACCAAGAAATTCATAATAAGTATGAATTCTCGTATGGGCACTACGTGTGCAAAAGC
* *
113233 TAACAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAGAAATTC
66 TAACAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGAAAAACTAAGAAATTC
* ** *
113298 ATAATGAGTTTATGAATTTTTGTATGGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTT
131 ATAATCAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAACTAAGAAATTCATAATAAGTT
* * *
113363 TATGAATTTTTGTATTGGCACTTTGTGTGCAAAACTAATAAATTCATAATAAGTTTATGAATTTC
196 TATGAATTTTCGTATTGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATATC
* * * * * *
113428 CGTATGGGTACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGT
261 CATATGGGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGC
*
113492 AGTGG
326 ACTGG
* * * *
113497 GTGTGC-AACCCACGTAAATT-ATAATAAGTTTTTGAATTACT-GTATTGGCACTACGTGTGCAA
1 GTGTGCAAAACCAAG-AAATTCATAATAAG--TATGAATT-CTCGTATGGGCACTACGTGTGCAA
113559 A
62 A
113560 CTATAGAGTT
Statistics
Matches: 348, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
327 12 0.03
328 48 0.14
329 229 0.66
330 31 0.09
331 1 0.00
332 16 0.05
333 11 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (330 bp):
GTGTGCAAAACCAAGAAATTCATAATAAGTATGAATTCTCGTATGGGCACTACGTGTGCAAAAGC
TAACAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGAAAAACTAAGAAATTC
ATAATCAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAACTAAGAAATTCATAATAAGTT
TATGAATTTTCGTATTGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATATC
CATATGGGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGC
ACTGG
Found at i:113573 original size:54 final size:55
Alignment explanation
Indices: 112825--113575 Score: 683
Period size: 55 Copynumber: 13.6 Consensus size: 55
112815 GAACATCGAA
** **
112825 TGGCACTATATGTGTGCAAAACCTA-AGAAATTCATAACGAGTTTATGAATTTCCGTAT
1 TGGCACT-T-TGTGTGCAAAA-CTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * ***
112883 GGGCACATTGTGTGCAAAAGCTAATA-AATTCATAATAAGTTTATGAATTTCCATAT
1 TGGCACTTTGTGTGCAAAA-CT-ATAGAATTCATAATAAGTTTATGAATTTTTGTAT
* * * **
112939 GGGCACTTTGTGTGCAATACTA-AGAAATTCATAATCAGTTTATGAATTTCCGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * * *
112994 GGGCACTTTGTGTACAAAACTA-AGAAATTCATAATGAGTTTATGAATTTTCGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * * *
113049 TGGCACTTTGTGTGCAAAACTA-AGAAATTCATAATGAGTTTATGAATATCTATAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * * ***
113104 GGGAACTTTGTGTGCAAAAGCTA-AGAAATTCATAATGAGTTTATGAATTTCCATAT
1 TGGCACTTTGTGTGCAAAA-CTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * *
113160 GGGCACTTTGTGTGCAAAACTA-AGAAATTCATAATGAG--TATGAATTTTCGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * * **
113213 GGGCACTTTGTGTGCAAAACTA-ACAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTTTGTGTGCAAAACTATA-GAATTCATAATAAGTTTATGAATTTTTGTAT
* * *
113268 GGGCACTTTGTGTGAAAAACTA-AGAAATTCATAATGAGTTTATGAATTTTTGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
*
113323 GGGCACTTTGTGTGCAAAACTA-AGAAATTCATAATAAGTTTATGAATTTTTGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
**
113378 TGGCACTTTGTGTGCAAAACTAATA-AATTCATAATAAGTTTATGAATTTCCGTAT
1 TGGCACTTTGTGTGCAAAACT-ATAGAATTCATAATAAGTTTATGAATTTTTGTAT
* * *
113433 GGGTACTTTGTGTGCAAAACTA-AGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 TGGCACTTTGTGTGCAAAACTATAG-AATTCATAATAAGTTTATGAATTTTTGTAT
* * ** * * * **
113488 TGGTAGTGGGTGTGCAACCCAC-GTA-AATT-ATAATAAGTTTTTGAATTACTGTAT
1 TGGCACTTTGTGTGCAA--AACTATAGAATTCATAATAAGTTTATGAATTTTTGTAT
** * *
113542 TGGCACTACGTGTGC-AAACTATAGAGTTTATAAT
1 TGGCACTTTGTGTGCAAAACTATAGAATTCATAAT
113576 GAATTGAAAG
Statistics
Matches: 616, Mismatches: 58, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.00
52 2 0.00
53 55 0.09
54 39 0.06
55 396 0.64
56 110 0.18
57 6 0.01
58 6 0.01
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (55 bp):
TGGCACTTTGTGTGCAAAACTATAGAATTCATAATAAGTTTATGAATTTTTGTAT
Found at i:119205 original size:218 final size:220
Alignment explanation
Indices: 118808--119294 Score: 780
Period size: 218 Copynumber: 2.2 Consensus size: 220
118798 TAGCACTACA
*
118808 TGTGTGCAAAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTCTGGAA
1 TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTCTGCAA
* * *
118873 AAGCTAGGAAATTCATAATAAGTTTATGAATTTTCGTATGCGCACTTTGTGTGCAAAACTAAGAA
65 AAGCTAAGAAATTCATAATAAG-TTATGAATTTCCGTATGCGCACTTTGTGTGCAAAACTAACAA
*
118938 AATCATAATGAGTTTATAAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAAAAATTCATAATG
129 AATCATAATGAGTTTATAAATTTCCGTATGGGCACTTTGTGTACAAAACTAAAAAATTCATAATG
*
119003 AGTTTATGAATTTCTGTATGGGCACTT
194 AGTTTATGAATTTCCGTATGGGCACTT
* * * *
119030 TGTTTGCAAAACTAAGAAATTTATAACGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTCTGCAAA
* * * *
119095 A-CTAAGAAATTCATAATGAG-TATGAATTTCCGTATGGGCATTTTGTGTGCAAAACTAACAAAT
66 AGCTAAGAAATTCATAATAAGTTATGAATTTCCGTATGCGCACTTTGTGTGCAAAACTAACAAAA
* *
119158 TCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAACTAAGAAATTCATAATGAG
131 TCATAATGAGTTTATAAATTTCCGTATGGGCACTTTGTGTACAAAACTAAAAAATTCATAATGAG
119223 TTTATGAATTTCCGTATGGGCACTT
196 TTTATGAATTTCCGTATGGGCACTT
* *
119248 TGTGTGCAAAACTAAGAAATTCATAATAAGTTCATGAATTTCCGTAT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
119295 TGGTAGTAGG
Statistics
Matches: 244, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
218 166 0.68
220 17 0.07
221 51 0.21
222 10 0.04
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (220 bp):
TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTCTGCAAA
AGCTAAGAAATTCATAATAAGTTATGAATTTCCGTATGCGCACTTTGTGTGCAAAACTAACAAAA
TCATAATGAGTTTATAAATTTCCGTATGGGCACTTTGTGTACAAAACTAAAAAATTCATAATGAG
TTTATGAATTTCCGTATGGGCACTT
Found at i:119308 original size:55 final size:55
Alignment explanation
Indices: 118808--119294 Score: 780
Period size: 55 Copynumber: 8.9 Consensus size: 55
118798 TAGCACTACA
118808 TGTGTGCAAAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* * * * * *
118864 TGTCTGGAAAAGCTAGGAAATTCATAATAAGTTTATGAATTTTCGTATGCGCACTT
1 TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
118920 TGTGTGCAAAACTAAGAAAATCATAATGAGTTTATAAATTTCCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
118975 TGTGTGCAAAACTAAAAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* * *
119030 TGTTTGCAAAACTAAGAAATTTATAACGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
*
119085 TGTGTGCAAAACTAAGAAATTCATAATGAG--TATGAATTTCCGTATGGGCATTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
*
119138 TGTGTGCAAAACTAACAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
*
119193 TGTGTACAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
119248 TGTGTGCAAAACTAAGAAATTCATAATAAGTTCATGAATTTCCGTAT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
119295 TGGTAGTAGG
Statistics
Matches: 394, Mismatches: 35, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
53 51 0.13
55 285 0.72
56 58 0.15
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (55 bp):
TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
Found at i:119323 original size:55 final size:55
Alignment explanation
Indices: 118809--119366 Score: 498
Period size: 55 Copynumber: 10.2 Consensus size: 55
118799 AGCACTACAT
* * **
118809 GTGTGCAAAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAACC-AAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * * * **
118865 GTCTGGAAAAGCTAGGAAATTCATAATAAGTTTATGAATTTTCGTA-TGCGCACTTT
1 GTGTGCAAAA-CCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTG-GCACTAG
* * * * * **
118921 GTGTGCAAAACTAAGAAAATCATAATGAGTTTATAAATTTCCGTATGGGCACTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * * * **
118976 GTGTGCAAAACTAAAAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * ** * **
119031 GTTTGCAAAACTAAGAAATTTATAACGAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * * **
119086 GTGTGCAAAACTAAGAAATTCATAATGAG--TATGAATTTCCGTATGGGCATTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * * **
119139 GTGTGCAAAACTAACAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * * **
119194 GTGTACAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * *
119249 GTGTGCAAAACTAAGAAATTCATAATAAGTTCATGAATTTCCGTATTGGTAGTAG
1 GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
* * * *
119304 GTGTG-AAACCCACGTAAATT-ATAATAAGTTTGTGAATTAT-CGTATTGGCACTAC
1 GTGTGCAAAACCAAG-AAATTCATAATAAGTTTATGAATT-TCCGTATTGGCACTAG
119358 GTGTGCAAA
1 GTGTGCAAA
119367 CTATAGAGTT
Statistics
Matches: 446, Mismatches: 48, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
53 51 0.11
54 38 0.09
55 302 0.68
56 54 0.12
57 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (55 bp):
GTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAG
Found at i:122411 original size:50 final size:48
Alignment explanation
Indices: 122348--122444 Score: 113
Period size: 50 Copynumber: 2.0 Consensus size: 48
122338 CTTCACTGTT
* * *
122348 AAAAAAATAGTGTAAACAATTGATTTACAACTCATCTTTATTATTCAG
1 AAAAAAATAGTGTAAACAATTGATTTACAACCCATCTTCACTATTCAG
* ** *
122396 AAAAAAATACAGTGTAGACGGTTGGTTTACAACCCATCTTCACTATTCA
1 AAAAAAAT--AGTGTAAACAATTGATTTACAACCCATCTTCACTATTCA
122445 TCAAAAAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 8 0.20
50 32 0.80
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (48 bp):
AAAAAAATAGTGTAAACAATTGATTTACAACCCATCTTCACTATTCAG
Found at i:126522 original size:501 final size:500
Alignment explanation
Indices: 125572--127070 Score: 2401
Period size: 500 Copynumber: 3.0 Consensus size: 500
125562 TAGGGAAGGT
* * ** *
125572 TCGAGAAATGGTGTAGTGTGGCTATCCGAGGACTGTCCAGATGTTTGTTCGGTTGTGAACTGATT
1 TCGAGAAATGGTGTAGTGTGGCTATCCGGGGACTGTCCAGATGCTTGTTCGGTTGTGGGCTGATC
* * * *
125637 GGGGACCGAAATGAAATCATCATCTTCAAAAAATTTGTGCGGGATTTCCTGT-TGTTTTTAGTCG
66 GGGGACTGGAATGAAATCATCATCTTCAAAAAATTTGGGCGGGATTTCCTGTGTGTTTTTAGACG
* * * * * *
125701 AAGAGAAGAAGGAGCTCAGATATTCGTCTGTCTCACCATGACCTTTTTCGTGGAGAGGCGAGACA
131 AAGAGAAGGAGGAGCTCAGATATTTGTCTTTCTCACCGTGGCCTTTTTCGTGGAAAGGCGAGACA
* * *
125766 TGCATGGCTAGTGGAGGGACATATGTGATGAACTT-GGGGGAACATTTTGCGCTGAGGCGTGAAA
196 TGCATGGCTAGTGGAGGGACATCTGCGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCGTGAAA
* *
125830 TGTACTGCCGCCTGTCGTGTGTTTCAGAATTTGATTGGGAAAGGGAGACAGGTCCTCATTGGTAA
261 TGTACTGCCGCCTGTTGTGTGTTTCAGAATTTGATTGGGAAAGGGAGGCAGGTCCTCATTGGTAA
* * *
125895 TTGAGAGACACTCCTTGAATAAGACATTTAGTTGTGCATCACTCGCCTTGACATAACCAAAGAAA
326 TTGGGAGA-ACTCCTTGAAGAAGGCATTTAGTTGTGCATCACTCGCCTTGACATAACCAAAGAAA
*
125960 GTCTACATGTGACTTTCCAGGTGCTCATTTCTCTCCCGTGTCTCCCTCGTAGATGTGACCACGAC
390 GTCTACATGTGACTTTCCAGGTGCTCAATTCTCTCCCGTGTCTCCCTCGTAGATGTGACCACGAC
* *
126025 TGCCATTCTTGCCGCAGCAACTGATTTTGCTACTCTCTCCAGACCA
455 TGCCATTCTTGCCGCAGCAACTGATTTTGCTCCTCTCTCTAGACCA
* * * * *
126071 TCGATAAATGGTATAGTGTGGCTATTCGGGGACTGTCTATATGCTTGTTCGGTTGTGGGCTGATC
1 TCGAGAAATGGTGTAGTGTGGCTATCCGGGGACTGTCCAGATGCTTGTTCGGTTGTGGGCTGATC
* * *
126136 GGGGATTGGAATGAAATCATCATCTTCAAAAAATTCGGGCGGGATTTCCTGTGTGTTTTTTGACG
66 GGGGACTGGAATGAAATCATCATCTTCAAAAAATTTGGGCGGGATTTCCTGTGTGTTTTTAGACG
126201 AAGAGAAGGAGGAGCTCAGATATTTGTCTTTCTCACCGTGGCCTTTTTCGTGGAAAGGCGAGACA
131 AAGAGAAGGAGGAGCTCAGATATTTGTCTTTCTCACCGTGGCCTTTTTCGTGGAAAGGCGAGACA
* *
126266 TGCATGGCTAGTGGAGGGACATCTACGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCATGAAA
196 TGCATGGCTAGTGGAGGGACATCTGCGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCGTGAAA
* * * *
126331 TGTACTGCTGCCTGTTGTGTGTTTTAGAATTTGATTGAGAAAGGGAGGCAAGTCCTCATTGGTAA
261 TGTACTGCCGCCTGTTGTGTGTTTCAGAATTTGATTGGGAAAGGGAGGCAGGTCCTCATTGGTAA
*
126396 TTGGGAGCAACTCCTTGAAGAAGGCATTTAGTTATGCATCACTCGCCTTGACATAACCAAAGAAA
326 TTGGGAG-AACTCCTTGAAGAAGGCATTTAGTTGTGCATCACTCGCCTTGACATAACCAAAGAAA
* * *
126461 GTCTACATGTGACTTTCCAGGTGCTCAATTCTCTCCCCTGTCTCCCTCGTAGATATGACCACAAC
390 GTCTACATGTGACTTTCCAGGTGCTCAATTCTCTCCCGTGTCTCCCTCGTAGATGTGACCACGAC
** *
126526 TGCCATTCTTGTTGCAGCAACTGATTTTGCTCCTCTCTCTAGACCC
455 TGCCATTCTTGCCGCAGCAACTGATTTTGCTCCTCTCTCTAGACCA
126572 TCGAGAAATGGTGTAGTGTGGCTATCCGGGGACTGTCCAGATGCTTGTT-GGTTGTGGGCTGATC
1 TCGAGAAATGGTGTAGTGTGGCTATCCGGGGACTGTCCAGATGCTTGTTCGGTTGTGGGCTGATC
* * *
126636 GGGGACTGGAATGAAATCATCATTTTCAAAAAATTTGGGTGGGATTTCCTGTGTATTTTTAGACG
66 GGGGACTGGAATGAAATCATCATCTTCAAAAAATTTGGGCGGGATTTCCTGTGTGTTTTTAGACG
* *
126701 AAGAGAAGGAAGAGCTCAGATATTTGTCTTTCTCACCGTGGCTTTTTTCGTGGAAAGGCGAGACA
131 AAGAGAAGGAGGAGCTCAGATATTTGTCTTTCTCACCGTGGCCTTTTTCGTGGAAAGGCGAGACA
* *
126766 TGTATGGCTAGTGGTGGGACATCTGCGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCGTGAAA
196 TGCATGGCTAGTGGAGGGACATCTGCGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCGTGAAA
126831 TGTACTGCCGCCTGTTGTGTGTTTCAGAATTTGATTGGGAAAGGGAGGCAGGTCCTCATTGGTAA
261 TGTACTGCCGCCTGTTGTGTGTTTCAGAATTTGATTGGGAAAGGGAGGCAGGTCCTCATTGGTAA
*
126896 TTGGGAGAAACTCCTTGAAGAAGGCATTTAGTTGTGCATCACTCACCTTGACATAACCAAAGAAA
326 TTGGGAG-AACTCCTTGAAGAAGGCATTTAGTTGTGCATCACTCGCCTTGACATAACCAAAGAAA
* * *
126961 GTCTATATGTGACTTTCCAGGCGCTCAATTCTCTCTCGTGTCTCCCTCGTAGATGTGACCACGAC
390 GTCTACATGTGACTTTCCAGGTGCTCAATTCTCTCCCGTGTCTCCCTCGTAGATGTGACCACGAC
* **
127026 TGCCATTCTTGCCACAATAACTGATTTTGCTCCTCTCTCTAGACC
455 TGCCATTCTTGCCGCAGCAACTGATTTTGCTCCTCTCTCTAGACC
127071 CTCATGTAGA
Statistics
Matches: 915, Mismatches: 82, Indels: 5
0.91 0.08 0.00
Matches are distributed among these distances:
499 102 0.11
500 520 0.57
501 292 0.32
502 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (500 bp):
TCGAGAAATGGTGTAGTGTGGCTATCCGGGGACTGTCCAGATGCTTGTTCGGTTGTGGGCTGATC
GGGGACTGGAATGAAATCATCATCTTCAAAAAATTTGGGCGGGATTTCCTGTGTGTTTTTAGACG
AAGAGAAGGAGGAGCTCAGATATTTGTCTTTCTCACCGTGGCCTTTTTCGTGGAAAGGCGAGACA
TGCATGGCTAGTGGAGGGACATCTGCGAGGAACTTGGGGGGAACATTTTGCGCTGAGGCGTGAAA
TGTACTGCCGCCTGTTGTGTGTTTCAGAATTTGATTGGGAAAGGGAGGCAGGTCCTCATTGGTAA
TTGGGAGAACTCCTTGAAGAAGGCATTTAGTTGTGCATCACTCGCCTTGACATAACCAAAGAAAG
TCTACATGTGACTTTCCAGGTGCTCAATTCTCTCCCGTGTCTCCCTCGTAGATGTGACCACGACT
GCCATTCTTGCCGCAGCAACTGATTTTGCTCCTCTCTCTAGACCA
Found at i:135691 original size:209 final size:209
Alignment explanation
Indices: 135326--135718 Score: 504
Period size: 209 Copynumber: 1.9 Consensus size: 209
135316 AAAGTAAAGT
* * *
135326 ACACCCTCTATAAATTTGGTCCAACTCAATGGATTGACCTACGGGACTTTGAACTATCACATAAC
1 ACACCCTCTATAAATTTGGTACAACTCAATAGATTGACCTACGGGACTCTGAACTATCACATAAC
* * * * * * **
135391 TCTAGGTATTCTCGATCGTGATATTATGGCTCCTAGATTAGAATGTGATATATAAGAATGGGTAG
66 TCTAGGTATTCTCAATCGGGATATTAAGACCCCTAGATTAGAACGTGATATATAAGAATGCATAG
* * * * *
135456 AACCATGATCAAATAAAGCAAAGTACG-ATACTGAATAAATAGTAACAATACCTGTAACAATATC
131 AACAAGGATCAAATAAAACAAAGTACGTA-ACTAAATAAATAATAACAATACCTGTAACAATATC
135520 AGAACTCTTTATAGG
195 AGAACTCTTTATAGG
* * * *
135535 ACACTCTCTATAAATTTGGTATAACTCAATAGATTGACCTAC-GGACTCTGAACTGTCACATGAC
1 ACACCCTCTATAAATTTGGTACAACTCAATAGATTGACCTACGGGACTCTGAACTATCACATAAC
* * * *
135599 TCTCGGTATTTTCAATTGGGATATTAAGACCCCTAGA-TACGAAACGTGATATATAGGAATGCAT
66 TCTAGGTATTCTCAATCGGGATATTAAGACCCCTAGATTA-G-AACGTGATATATAAGAATGCAT
* *
135663 AGAACAAGGATCAGATAAAACAAAGTACGTAACTAAATAAATAATAACAGTACCTG
129 AGAACAAGGATCAAATAAAACAAAGTACGTAACTAAATAAATAATAACAATACCTG
135719 CAACCACACC
Statistics
Matches: 155, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
207 2 0.01
208 49 0.32
209 103 0.66
210 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (209 bp):
ACACCCTCTATAAATTTGGTACAACTCAATAGATTGACCTACGGGACTCTGAACTATCACATAAC
TCTAGGTATTCTCAATCGGGATATTAAGACCCCTAGATTAGAACGTGATATATAAGAATGCATAG
AACAAGGATCAAATAAAACAAAGTACGTAACTAAATAAATAATAACAATACCTGTAACAATATCA
GAACTCTTTATAGG
Found at i:136403 original size:18 final size:18
Alignment explanation
Indices: 136382--136419 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
136372 TTGGGATACT
136382 CCTGGAAAT-TGAACGCCA
1 CCTGGAAATCT-AACGCCA
136400 CCTGGAAATCTAACGCCA
1 CCTGGAAATCTAACGCCA
136418 CC
1 CC
136420 ATCTAGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (18 bp):
CCTGGAAATCTAACGCCA
Found at i:137535 original size:19 final size:20
Alignment explanation
Indices: 137494--137544 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
137484 GAAACCCCTT
*
137494 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
137514 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
137533 TGAAGATACATG
1 TGAAAATACATG
137545 CTCTTGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:138347 original size:30 final size:31
Alignment explanation
Indices: 138308--138367 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
138298 ACATGCTGCC
**
138308 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
138339 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
138368 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:139801 original size:19 final size:20
Alignment explanation
Indices: 139760--139810 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
139750 GAAACCCCTT
*
139760 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
139780 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
139799 TGAAGATACATG
1 TGAAAATACATG
139811 CTCTTGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:140746 original size:30 final size:31
Alignment explanation
Indices: 140707--140766 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
140697 ACATGCTGCC
**
140707 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
140738 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
140767 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:143263 original size:16 final size:16
Alignment explanation
Indices: 143242--143293 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
143232 CTTTTTGAAT
143242 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTC
143258 TTTTC-TTTTCTTCTT-
1 TTTTCTTTTTCTT-TTC
* *
143273 TTTTGATTTTTCTCTTC
1 TTTT-CTTTTTCTTTTC
143290 TTTT
1 TTTT
143294 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 11 0.37
16 9 0.30
17 10 0.33
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:143285 original size:17 final size:18
Alignment explanation
Indices: 143263--143311 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
143253 TTTTCTTTTC
143263 TTTTCTTCTTTTTTG-AT
1 TTTTCTTCTTTTTTGAAT
143280 TTTTC-TCTTCTTTTGAAT
1 TTTTCTTCTT-TTTTGAAT
*
143298 TTTTATTTCTTTTT
1 TTTT-CTTCTTTTT
143312 GCACTCCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 10 0.37
18 6 0.22
19 3 0.11
20 4 0.15
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTCTTCTTTTTTGAAT
Found at i:144058 original size:20 final size:20
Alignment explanation
Indices: 144033--144085 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
144023 GAAACCCCTT
*
144033 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
144053 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
144072 TGAAGATACATGAT
1 TGAAAATACATGAT
144086 CTTGGCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:145019 original size:30 final size:31
Alignment explanation
Indices: 144980--145039 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
144970 ACATGATGCC
**
144980 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
145011 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
145040 TAAAGCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:145749 original size:19 final size:18
Alignment explanation
Indices: 145725--145795 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 18
145715 TACTTTCACA
145725 TTTCAAATTCATAACTCAT
1 TTTCAAATTCATAACT-AT
*
145744 TTTCAAATTCAGAACTAT
1 TTTCAAATTCATAACTAT
* *
145762 TTATCATATTCAAAACTAATT
1 TT-TCAAATTCATAACT-A-T
145783 TTTCAAATTCATA
1 TTTCAAATTCATA
145796 GCCTAATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.09
19 27 0.61
20 10 0.23
21 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.42
Consensus pattern (18 bp):
TTTCAAATTCATAACTAT
Found at i:151323 original size:28 final size:30
Alignment explanation
Indices: 151269--151324 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
151259 TTTTTGATCC
* *
151269 CTAAACTCTTACAAAATTTATACTTTGGCT
1 CTAAACTCTTACAAAACTTACACTTTGGCT
*
151299 CTAAACT-TT-CAAAACTTACAGTTTGG
1 CTAAACTCTTACAAAACTTACACTTTGG
151325 TCACTAGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 2 0.09
30 7 0.30
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (30 bp):
CTAAACTCTTACAAAACTTACACTTTGGCT
Found at i:153755 original size:29 final size:29
Alignment explanation
Indices: 153722--153810 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
153712 AAATTTTGGT
153722 TAGTGATCAAAATATAAATTTTAAAAGTC
1 TAGTGATCAAAATATAAATTTTAAAAGTC
* *
153751 TAGTG-TCTAAACTATAAACTTTGGAAAAGTTC
1 TAGTGATC-AAAATATAAA-TTT-TAAAAG-TC
* * *
153783 AAG-GACCAAAACTATAATTTTTAAAAGT
1 TAGTGATCAAAA-TATAAATTTTAAAAGT
153811 TATATATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
28 2 0.04
29 15 0.32
30 8 0.17
31 12 0.26
32 10 0.21
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (29 bp):
TAGTGATCAAAATATAAATTTTAAAAGTC
Found at i:161457 original size:20 final size:20
Alignment explanation
Indices: 161429--161477 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
161419 ATATTCATGG
*
161429 GTACTGATATTGACCCTTCA
1 GTACCGATATTGACCCTTCA
161449 GTACCGATATTGACCCTTCA
1 GTACCGATATTGACCCTTCA
*
161469 GTATCGATA
1 GTACCGATA
161478 CTAAACCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (20 bp):
GTACCGATATTGACCCTTCA
Found at i:161486 original size:20 final size:20
Alignment explanation
Indices: 161443--161497 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
161433 TGATATTGAC
* * * *
161443 CCTTCAGTACCGATATTGAC
1 CCTTCAGTATCGATACTAAA
161463 CCTTCAGTATCGATACTAAA
1 CCTTCAGTATCGATACTAAA
*
161483 CCTTCGGTATCGATA
1 CCTTCAGTATCGATA
161498 ATGACCTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (20 bp):
CCTTCAGTATCGATACTAAA
Found at i:164689 original size:46 final size:46
Alignment explanation
Indices: 164639--165011 Score: 545
Period size: 46 Copynumber: 8.2 Consensus size: 46
164629 ATCCATTATA
* * *
164639 CATTTAAATTATGACATCCTTTTATGCATTAATGCATCCTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
** * *
164685 CATTTTAATTATGACATATTTTCAAGCATTAATGCATCCTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
164731 CATTTTAATAATGGCATCCTTTCATGCCTTAATGCAT-CTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
164776 CATTTTAATTATGACATCCTTTCACGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
*
164822 CATTTTAATTGTGGA-ATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTAT-GACATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
164868 CATTTTAATTATGCCATCATTTCATGCCTTAGTGCATCCTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
164914 GATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
*
164960 CATTTTAATTATGGCATCC-TTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
*
165005 GATTTTA
1 CATTTTA
165012 CGTACTCTAA
Statistics
Matches: 296, Mismatches: 28, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
45 75 0.25
46 219 0.74
47 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (46 bp):
CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:164845 original size:137 final size:138
Alignment explanation
Indices: 164639--165011 Score: 554
Period size: 137 Copynumber: 2.7 Consensus size: 138
164629 ATCCATTATA
* * * *
164639 CATTTAAATTATGACATCCTTTTATGCATTAATGCATCCTTTCATGCATTTTAATTAT-GACATA
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGA-ATC
* * * * *
164703 TTTTCAAGCATTAATGCATCCTTTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCAT
65 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATAATGCCATCATTTCATGCCTTAATGCAT
164768 -CTTTCATG
130 CCTTTCATG
* * *
164776 CATTTTAATTATGACATCCTTTCACGCCTTAATGCATCATTTCATGCATTTTAATTGTGGAATCC
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGAATCC
* *
164841 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGCCATCATTTCATGCCTTAGTGCATC
66 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAATAATGCCATCATTTCATGCCTTAATGCATC
164906 CTTTCATG
131 CTTTCATG
* * *
164914 GATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCC
1 CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGAATCC
*
164979 -TTCATGCCTTAATGCATCCTTTCATGGATTTTA
66 TTTCATGCCTTAATGCATCCTTTCATGCATTTTA
165012 CGTACTCTAA
Statistics
Matches: 213, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
137 144 0.68
138 69 0.32
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (138 bp):
CATTTTAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGAATCC
TTTCATGCCTTAATGCATCCTTTCATGCATTTTAATAATGCCATCATTTCATGCCTTAATGCATC
CTTTCATG
Found at i:164910 original size:20 final size:20
Alignment explanation
Indices: 164653--165004 Score: 141
Period size: 20 Copynumber: 15.6 Consensus size: 20
164643 TAAATTATGA
* *
164653 CATCCTTTTATGCATTAATG
1 CATCCTTTCATGCCTTAATG
*
164673 CATCCTTTCATGCATTTTAATTATG
1 CATCCTTTCATGC--CTT-A--ATG
** * *
164698 ACATATTTTCAAGCATTAATG
1 -CATCCTTTCATGCCTTAATG
*
164719 CATCCTTTCATGCATTTTAATAATGG
1 CATCCTTTCATGC---CT--TAAT-G
164745 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
164765 CAT-CTTTCATGCATTTTAATTATG
1 CATCCTTTCATGC--CTT-A--ATG
*
164789 ACATCCTTTCACGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
* *
164810 CATCATTTCATGCATTTTAATTGTGG
1 CATCCTTTCATGC--CTTAA---T-G
*
164836 AATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
164856 CATCCTTTCATGCATTTTAATTATG
1 CATCCTTTCATGC--CTT-A--ATG
* *
164881 CCATCATTTCATGCCTTAGTG
1 -CATCCTTTCATGCCTTAATG
**
164902 CATCCTTTCATGGATTTTAATTATGG
1 CATCCTTTCAT-G-CCTT-A--AT-G
164928 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
164948 CATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATGC--CTT-A--AT-G
164974 CATCC-TTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
164993 CATCCTTTCATG
1 CATCCTTTCATG
165005 GATTTTACGT
Statistics
Matches: 255, Mismatches: 33, Indels: 88
0.68 0.09 0.23
Matches are distributed among these distances:
19 15 0.06
20 82 0.32
21 18 0.07
22 14 0.05
23 12 0.05
24 15 0.06
25 25 0.10
26 74 0.29
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:164990 original size:183 final size:183
Alignment explanation
Indices: 164654--165011 Score: 576
Period size: 183 Copynumber: 2.0 Consensus size: 183
164644 AAATTATGAC
*
164654 ATCCTTTTATGCATTAATGCATCCTTTCATGCATTTTAATTATGACATATTTTCAAGCATTAATG
1 ATCCTTTCATGCATTAATGCATCCTTTCATGCATTTTAATTATGACATATTTTCAAGCATTAATG
164719 CATCCTTTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTAA
66 CATCCTTTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTAA
164784 TTATGACATCCTTTCACGCCTTAATGCATCATTTCATGCATTTTAATTGTGGA
131 TTATGACATCCTTTCACGCCTTAATGCATCATTTCATGCATTTTAATTGTGGA
* * * * *
164837 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGCCATCA-TTTCATGCCTTAGT
1 ATCCTTTCATGCATTAATGCATCCTTTCATGCATTTTAATTATGACAT-ATTTTCAAGCATTAAT
* *
164901 GCATCCTTTCATGGATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
65 GCATCCTTTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCAT-CTTTCATGCATTTT
* * * *
164966 AATTATGGCATCC-TTCATGCCTTAATGCATCCTTTCATGGATTTTA
129 AATTATGACATCCTTTCACGCCTTAATGCATCATTTCATGCATTTTA
165012 CGTACTCTAA
Statistics
Matches: 161, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 134 0.83
184 27 0.17
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (183 bp):
ATCCTTTCATGCATTAATGCATCCTTTCATGCATTTTAATTATGACATATTTTCAAGCATTAATG
CATCCTTTCATGCATTTTAATAATGGCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTTAA
TTATGACATCCTTTCACGCCTTAATGCATCATTTCATGCATTTTAATTGTGGA
Found at i:171293 original size:42 final size:44
Alignment explanation
Indices: 171184--171308 Score: 166
Period size: 42 Copynumber: 2.9 Consensus size: 44
171174 ATATTAACAT
* * *
171184 ATCCATTTATACATTTAAATTAT-GCATCCTTTCATGCCTTAATGC
1 ATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAA--C
*
171229 ATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAA-
1 ATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAC
*
171272 AT-CATTCATGCATTTTAATTATGGGATCCTTTCATGC
1 ATCCATTCATGCATTTTAATTATGGCATCCTTTCATGC
171309 ATTTAATTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
42 33 0.45
43 2 0.03
45 19 0.26
46 19 0.26
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.43
Consensus pattern (44 bp):
ATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAC
Found at i:171319 original size:25 final size:26
Alignment explanation
Indices: 171276--171333 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 26
171266 CCTTAAATCA
*
171276 TTCATGCATTTTAATTATGGGATCCT
1 TTCATGCATTTTAATTATGGCATCCT
171302 TTCATGCA-TTTAATTATGGCATCCT
1 TTCATGCATTTTAATTATGGCATCCT
171327 TTCATGC
1 TTCATGC
171334 CTTAATGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (26 bp):
TTCATGCATTTTAATTATGGCATCCT
Found at i:172963 original size:46 final size:47
Alignment explanation
Indices: 172874--173087 Score: 333
Period size: 47 Copynumber: 4.6 Consensus size: 47
172864 TCATTTATCT
*
172874 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
* *
172921 CATACGCTCGTAAGCTTA-TTTATCAACATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
* *
172967 CATAATCTCGTAAGCTTATTTTATCAAAATACTTACCATTAAAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATT-TAAATTC
* * *
173015 CATAAGCTCGTAAGCTTATTTTATCAACATGCTTACTATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
173062 CATAAGCTCGTAAGCTTA-TTTATCAA
1 CATAAGCTCGTAAGCTTATTTTATCAA
173088 TAAACCATAA
Statistics
Matches: 153, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
46 50 0.33
47 61 0.40
48 42 0.27
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (47 bp):
CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
Found at i:177662 original size:46 final size:47
Alignment explanation
Indices: 177598--177807 Score: 340
Period size: 46 Copynumber: 4.6 Consensus size: 47
177588 TCATTTATCT
*
177598 CATAAGCT-GTAAGCTTATTTTACCAAAATACTTACCATTTAAATT-
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
*
177643 CATAAGCTCGTAAGCTTA-TTTATCAACATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
*
177689 CATAATCTCGTAAGC-TATTTTATCAAAATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
*
177735 CATAAGCTCGTAAGCTTA-TTTATCAACATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
*
177781 CATAAGCTCATAAGCTTATTTTATCAA
1 CATAAGCTCGTAAGCTTATTTTATCAA
177808 TAAACCATAA
Statistics
Matches: 153, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
45 35 0.23
46 108 0.71
47 10 0.07
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (47 bp):
CATAAGCTCGTAAGCTTATTTTATCAAAATACTTACCATTTAAATTC
Found at i:180014 original size:45 final size:44
Alignment explanation
Indices: 179965--180054 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
179955 TAAAATAGCC
* *
179965 TGAGTACATCGATGCATGGCT-TGTGCAACGATGTATCAAATGCAT
1 TGAGTACATCGATGCATGG-TATGTG-AACGATGCATAAAATGCAT
** *
180010 TGAGTGTATCGATGCATGGTATGTGATCGATGCATAAAATGCAT
1 TGAGTACATCGATGCATGGTATGTGAACGATGCATAAAATGCAT
180054 T
1 T
180055 CGATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (44 bp):
TGAGTACATCGATGCATGGTATGTGAACGATGCATAAAATGCAT
Done.