Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 75 of 211
Found at i:23264255 original size:21 final size:21
Alignment explanation
Indices: 23264230--23264271 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23264220 GATACCTGAT
*
23264230 AAAAGGTATCGATACTTTTTG
1 AAAAGATATCGATACTTTTTG
23264251 AAAAGATATCGATACTTTTTG
1 AAAAGATATCGATACTTTTTG
23264272 TCATTTTTTG
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:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
AAAAGATATCGATACTTTTTG
Found at i:23264854 original size:24 final size:24
Alignment explanation
Indices: 23264822--23264872 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23264812 ACTATGTAGA
* * *
23264822 CATAGAACCATTGTGTTTGAATTG
1 CATAAAACCATTGTGTCTAAATTG
23264846 CATAAAACCATTGTGTCTAAATTG
1 CATAAAACCATTGTGTCTAAATTG
23264870 CAT
1 CAT
23264873 TAACAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (24 bp):
CATAAAACCATTGTGTCTAAATTG
Found at i:23267827 original size:9 final size:9
Alignment explanation
Indices: 23267792--23267904 Score: 82
Period size: 9 Copynumber: 11.9 Consensus size: 9
23267782 TGTATGTATG
*
23267792 TTATGTATA
1 TTATGTCTA
*
23267801 TTATTGTTTA
1 TTA-TGTCTA
23267811 TGTATGTCTA
1 T-TATGTCTA
*
23267821 TTATGTCTG
1 TTATGTCTA
**
23267830 TTATGAATA
1 TTATGTCTA
*
23267839 TTACTGTTTA
1 TTA-TGTCTA
23267849 TGTATGTCTA
1 T-TATGTCTA
*
23267859 TTATGTCTG
1 TTATGTCTA
**
23267868 TTATGAATA
1 TTATGTCTA
*
23267877 TTACTGTTTA
1 TTA-TGTCTA
23267887 TGTATGTCTA
1 T-TATGTCTA
23267897 TTATGTCT
1 TTATGTCT
23267905 GCTCTGAATA
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
9 42 0.51
10 34 0.41
11 6 0.07
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (9 bp):
TTATGTCTA
Found at i:23267834 original size:38 final size:37
Alignment explanation
Indices: 23267784--23268094 Score: 219
Period size: 38 Copynumber: 8.1 Consensus size: 37
23267774 ATCTGTTATG
*
23267784 TATGTATGTTATGTATATTATTGTTTATGTATGTCTAT
1 TATGTCTGTTATGTATATTA-TGTTTATGTATGTCTAT
*
23267822 TATGTCTGTTATGAATATTACTGTTTATGTATGTCTAT
1 TATGTCTGTTATGTATATTA-TGTTTATGTATGTCTAT
*
23267860 TATGTCTGTTATGAATATTACTGTTTATGTATGTCTAT
1 TATGTCTGTTATGTATATTA-TGTTTATGTATGTCTAT
* * *
23267898 TATGTCTGCTCTGAATATGTATGTATGTATGTATG--TAT
1 TATGTCTGTTATGTATAT-TATGT-T-TATGTATGTCTAT
* *
23267936 GTATGTATG-TATGTATGTATGTATG-TTATGTA-GTATAT
1 -TATGTCTGTTATGTA--TAT-TATGTTTATGTATGTCTAT
* *
23267974 TATTGT-TATGTATGTATATTATGTATGTTATGTATATTACTATT
1 TA-TGTCTGT-TATGTATATTATG--T-TTATGTAT-GT-CTA-T
* * *
23268018 TATG-CATG-TCTGT-TAGTATG-TTATGTATGTATAT
1 TATGTC-TGTTATGTATATTATGTTTATGTATGTCTAT
* * * *
23268052 TATGTATGTTATGTTTATTACTGTTTATGTATGTATGT
1 TATGTCTGTTATGTATATTA-TGTTTATGTATGTCTAT
23268090 TATGT
1 TATGT
23268095 TTATTACTGT
Statistics
Matches: 227, Mismatches: 20, Indels: 52
0.76 0.07 0.17
Matches are distributed among these distances:
34 7 0.03
35 6 0.03
36 10 0.04
37 22 0.10
38 124 0.55
39 16 0.07
40 23 0.10
41 6 0.03
42 5 0.02
43 4 0.02
44 4 0.02
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (37 bp):
TATGTCTGTTATGTATATTATGTTTATGTATGTCTAT
Found at i:23267922 original size:4 final size:4
Alignment explanation
Indices: 23267913--23268094 Score: 119
Period size: 4 Copynumber: 44.2 Consensus size: 4
23267903 CTGCTCTGAA
23267913 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
23267961 TTATG TA-G TATAT TATTG TTATG TATG TATAT TATG TATG TTATG TATA
1 -TATG TATG TAT-G TA-TG -TATG TATG TAT-G TATG TATG -TATG TATG
* * * * *
23268010 T-TAC TATT TATG CATG TCTG T-TAG TATG TTATG TATG TATAT TATG
1 TAT-G TATG TATG TATG TATG TAT-G TATG -TATG TATG TAT-G TATG
23268056 TATG TTATG T-T- TAT- TACTG T-T- TATG TATG TATG TTATG T
1 TATG -TATG TATG TATG TA-TG TATG TATG TATG TATG -TATG T
23268095 TTATTACTGT
Statistics
Matches: 145, Mismatches: 13, Indels: 40
0.73 0.07 0.20
Matches are distributed among these distances:
2 2 0.01
3 11 0.08
4 96 0.66
5 33 0.23
6 3 0.02
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.54
Consensus pattern (4 bp):
TATG
Found at i:23267982 original size:18 final size:18
Alignment explanation
Indices: 23267784--23268095 Score: 174
Period size: 18 Copynumber: 16.3 Consensus size: 18
23267774 ATCTGTTATG
23267784 TATG-TATGTTATGTATAT
1 TATGTTATG-TATGTATAT
*
23267802 TATTGTTTATGTATGTCTAT
1 TA-TG-TTATGTATGTATAT
* *
23267822 TATG-TCTGTTATGAATAT
1 TATGTTATG-TATGTATAT
*
23267840 TACTGTTTATGTATGTCTAT
1 TA-TG-TTATGTATGTATAT
* *
23267860 TATG-TCTGTTATGAATAT
1 TATGTTATG-TATGTATAT
*
23267878 TACTGTTTATGTATGTCTAT
1 TA-TG-TTATGTATGTATAT
* * *
23267898 TATG-TCTGCTCTGAATAT
1 TATGTTATG-TATGTATAT
23267916 GTATG-TATGTATGTATGTAT
1 -TATGTTATGTATGTA--TAT
23267936 GTATG-TATGTATGTATGTAT
1 -TATGTTATGTATGTA--TAT
23267956 GTATGTTATGTA-GTATAT
1 -TATGTTATGTATGTATAT
23267974 TATTGTTATGTATGTATAT
1 TA-TGTTATGTATGTATAT
23267993 TATG-TATGTTATGTATAT
1 TATGTTATG-TATGTATAT
* * * *
23268011 TACTATTTATGCATGTCTGTTAG
1 TA-T-GTTATGTATG--T-ATAT
23268034 TATGTTATGTATGTATAT
1 TATGTTATGTATGTATAT
*
23268052 TATG-TATGTTATGTTTAT
1 TATGTTATG-TATGTATAT
*
23268070 TACTGTTTATGTATGTATGT
1 TA-TG-TTATGTATGTATAT
23268090 TATGTT
1 TATGTT
23268096 TATTACTGTT
Statistics
Matches: 234, Mismatches: 31, Indels: 58
0.72 0.10 0.18
Matches are distributed among these distances:
17 19 0.08
18 73 0.31
19 33 0.14
20 71 0.30
21 32 0.14
22 2 0.01
23 4 0.02
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (18 bp):
TATGTTATGTATGTATAT
Found at i:23268031 original size:29 final size:29
Alignment explanation
Indices: 23267993--23268144 Score: 118
Period size: 29 Copynumber: 5.3 Consensus size: 29
23267983 GTATGTATAT
23267993 TATGTATGTTATGTATATTACTATTTATG
1 TATGTATGTTATGTATATTACTATTTATG
* * * *
23268022 CATGTCTGTTA-GTATGTTATGTATGTATAT-
1 TATGTATGTTATGTATATTA-CTAT-T-TATG
* *
23268052 TATGTATGTTATGTTTATTACTGTTTATG
1 TATGTATGTTATGTATATTACTATTTATG
* *
23268081 TATGTATGTTATGTTTATTACTGTTTA--
1 TATGTATGTTATGTATATTACTATTTATG
** * *
23268108 -AAATATG-TATGTATATTACAATTTATA
1 TATGTATGTTATGTATATTACTATTTATG
23268135 TAATGTATGT
1 T-ATGTATGT
23268145 GCAGTGTTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
25 15 0.16
26 5 0.05
28 10 0.10
29 45 0.47
30 12 0.12
31 9 0.09
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (29 bp):
TATGTATGTTATGTATATTACTATTTATG
Found at i:23268040 original size:59 final size:59
Alignment explanation
Indices: 23267920--23268091 Score: 196
Period size: 59 Copynumber: 3.0 Consensus size: 59
23267910 GAATATGTAT
* * * * *
23267920 GTATG-TATGTATGTAT-GTATGTATG-TATGTAT-GTATGTATGTTATGTA-GTATATTA
1 GTATGTTATGTATGTATATTATGTATGTTATGTATATTA-CTAT-TTATGCATGTATGTTA
*
23267976 -T-TGTTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGCATGTCTGTTA
1 GTATGTTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGCATGTATGTTA
* * *
23268033 GTATGTTATGTATGTATATTATGTATGTTATGTTTATTACTGTTTATGTATGTATGTTA
1 GTATGTTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGCATGTATGTTA
23268092 TGTTTATTAC
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
54 2 0.02
55 12 0.12
56 14 0.14
57 16 0.16
58 3 0.03
59 52 0.53
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.53
Consensus pattern (59 bp):
GTATGTTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGCATGTATGTTA
Found at i:23268078 original size:10 final size:9
Alignment explanation
Indices: 23268034--23268107 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
23268024 TGTCTGTTAG
23268034 TATG-TTAT
1 TATGTTTAT
*
23268042 GTATGTATAT
1 -TATGTTTAT
* *
23268052 TATGTATGT
1 TATGTTTAT
23268061 TATGTTTAT
1 TATGTTTAT
23268070 TACTGTTTAT
1 TA-TGTTTAT
* *
23268080 GTATGTATGT
1 -TATGTTTAT
23268090 TATGTTTAT
1 TATGTTTAT
23268099 TACTGTTTA
1 TA-TGTTTA
23268108 AAATATGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 30 0.57
10 21 0.40
11 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (9 bp):
TATGTTTAT
Found at i:23268115 original size:59 final size:59
Alignment explanation
Indices: 23267979--23268119 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 59
23267969 TATATTATTG
* * * *
23267979 TTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGCATGTCTGTTAGTATG
1 TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGCATGTATGTTAGTATA
* * * * * *
23268038 TTATGTATGTATATTATGTATGTTATGTTTATTACTGTTTATGTATGTATGTTATGTTTA
1 TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGCATGTATGTTA-GTATA
23268098 TTACTGT-T-TAAAATATGTATGT
1 TTA-TGTATGTAAAATATGTATGT
23268120 ATATTACAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
59 62 0.86
60 7 0.10
61 3 0.04
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.55
Consensus pattern (59 bp):
TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGCATGTATGTTAGTATA
Found at i:23275157 original size:21 final size:20
Alignment explanation
Indices: 23275128--23275173 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
23275118 CGAAATGCAA
23275128 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
23275149 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
23275169 T-AACC
1 TCAACC
23275174 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:23275433 original size:18 final size:19
Alignment explanation
Indices: 23275410--23275445 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
23275400 AATTTTGGAA
23275410 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGACGAAAG
23275428 TGGAAAGAAGAGACGAAA
1 TGGAAAGAAGAGACGAAA
23275446 AATGTGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.03, G:0.36, T:0.06
Consensus pattern (19 bp):
TGGAAAGAAGAGACGAAAG
Found at i:23278641 original size:24 final size:24
Alignment explanation
Indices: 23278598--23278658 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
23278588 CAGAGTATGC
* *
23278598 CTCCACCAGTTCGAGCAGCTCCTG
1 CTCCACCAGCTCTAGCAGCTCCTG
* *
23278622 CTCCACCAGCTCTAGTAGCTCTTG
1 CTCCACCAGCTCTAGCAGCTCCTG
* *
23278646 CTGCACTAGCTCT
1 CTCCACCAGCTCT
23278659 TTCTGATCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.39, G:0.18, T:0.26
Consensus pattern (24 bp):
CTCCACCAGCTCTAGCAGCTCCTG
Found at i:23279201 original size:67 final size:67
Alignment explanation
Indices: 23279121--23279255 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
23279111 TGGAAAATTT
* *
23279121 GATGGTTTGATTTTGTTAACATACTATGGATAATTTGATAGTTTGATTTTGTTGGATCATTTTGA
1 GATGGTTTGATTTTGTTAACATACGATAGATAATTTGATAGTTTGATTTTGTTGGATCATTTTGA
23279186 TG
66 TG
* * * *
23279188 GATGGTTTTATTTTGTTAACATACGGTAGATAATTTGATGGTTTTATTTTGTTGGATCATTTTGA
1 GATGGTTTGATTTTGTTAACATACGATAGATAATTTGATAGTTTGATTTTGTTGGATCATTTTGA
23279253 TG
66 TG
23279255 G
1 G
23279256 TTGTATTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (67 bp):
GATGGTTTGATTTTGTTAACATACGATAGATAATTTGATAGTTTGATTTTGTTGGATCATTTTGA
TG
Found at i:23279265 original size:14 final size:13
Alignment explanation
Indices: 23279221--23279268 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
23279211 CGGTAGATAA
23279221 TTTGATGGTTTTAT
1 TTTGATGG-TTTAT
* * *
23279235 TTTGTTGGATCAT
1 TTTGATGGTTTAT
23279248 TTTGATGGTTGTAT
1 TTTGATGGTT-TAT
23279262 TTTGATG
1 TTTGATG
23279269 TACAGTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.15, C:0.02, G:0.25, T:0.58
Consensus pattern (13 bp):
TTTGATGGTTTAT
Found at i:23280192 original size:48 final size:49
Alignment explanation
Indices: 23280089--23280196 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 49
23280079 GGAAAAATGA
*
23280089 AAGA-GATGGCAGAGAAAAGGAAAGAGAAAGAGACAAGAATGAAAAATGTTG
1 AAGACGAT-GCAGAGAAAACGAAAGAGAAAGAGACAAG-A-GAAAAATGTTG
*
23280140 AAGACGATGCAGGGAAAACGAAAGAGAAAGTAG-CAAG-GAAAAATGTTG
1 AAGACGATGCAGAGAAAACGAAAGAGAAAG-AGACAAGAGAAAAATGTTG
23280188 AAGACGATG
1 AAGACGATG
23280197 GTGAAGAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
48 20 0.38
51 28 0.53
52 5 0.09
ACGTcount: A:0.52, C:0.06, G:0.31, T:0.10
Consensus pattern (49 bp):
AAGACGATGCAGAGAAAACGAAAGAGAAAGAGACAAGAGAAAAATGTTG
Found at i:23294951 original size:14 final size:15
Alignment explanation
Indices: 23294932--23294973 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
23294922 TCAAGCATCC
23294932 ATAATATCTATA-AT
1 ATAATATCTATACAT
23294946 ATAATATCTAGTATCAT
1 ATAATATCTA-TA-CAT
23294963 ATAATATCTAT
1 ATAATATCTAT
23294974 TCATGCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 1 0.04
17 12 0.48
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (15 bp):
ATAATATCTATACAT
Found at i:23298942 original size:41 final size:41
Alignment explanation
Indices: 23298882--23298987 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
23298872 AATGAGATAA
* **
23298882 TTCAGACTTTACGTTTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACACCGGTGAAATGT
23298923 TTCAGACTTTACGTCTAGCAGGCTTGACACCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACACCGGTGAAATGT
*
23298964 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
23298988 AATTGCCAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACACCGGTGAAATGT
Found at i:23302824 original size:23 final size:23
Alignment explanation
Indices: 23302798--23302846 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
23302788 AAAAGATTCA
23302798 AACGCGAAAATTAAGCAAAATAC
1 AACGCGAAAATTAAGCAAAATAC
23302821 AACGCGAAAATTAAGCAAAATAC
1 AACGCGAAAATTAAGCAAAATAC
23302844 AAC
1 AAC
23302847 AACAATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.12
Consensus pattern (23 bp):
AACGCGAAAATTAAGCAAAATAC
Found at i:23303105 original size:44 final size:44
Alignment explanation
Indices: 23303042--23303144 Score: 181
Period size: 44 Copynumber: 2.4 Consensus size: 44
23303032 TGTAGGCTTT
* *
23303042 CAAAAAATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAACACTGAGTCATCC
23303086 CAAAACATGCTCAAATCACCTAAACTCAAAACACTGAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAACACTGAGTCATCC
23303130 CAAAACATGCT-AAAT
1 CAAAACATGCTCAAAT
23303145 ATCTCTACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 4 0.07
44 53 0.93
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.19
Consensus pattern (44 bp):
CAAAACATGCTCAAATCACCTAAACTCAAAACACTGAGTCATCC
Found at i:23303709 original size:7 final size:7
Alignment explanation
Indices: 23303697--23303741 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
23303687 GCAGTAAAAC
23303697 AAAACTT
1 AAAACTT
23303704 AAAACTT
1 AAAACTT
23303711 AAAACTT
1 AAAACTT
23303718 AAAA-TT
1 AAAACTT
23303724 AAAACTT
1 AAAACTT
23303731 AAAAC-T
1 AAAACTT
23303737 AAAAC
1 AAAAC
23303742 AAAATGTAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
6 12 0.32
7 25 0.68
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAACTT
Found at i:23303727 original size:13 final size:13
Alignment explanation
Indices: 23303697--23303741 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
23303687 GCAGTAAAAC
23303697 AAAACTTAAAACTT
1 AAAACTTAAAA-TT
23303711 AAAACTTAAAATT
1 AAAACTTAAAATT
*
23303724 AAAACTTAAAACT
1 AAAACTTAAAATT
23303737 AAAAC
1 AAAAC
23303742 AAAATGTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAACTTAAAATT
Found at i:23303727 original size:20 final size:20
Alignment explanation
Indices: 23303691--23303741 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
23303681 TATCGGGCAG
23303691 TAAAAC-AAAACTTAAAACT
1 TAAAACTAAAACTTAAAACT
23303710 TAAAACTTAAAA-TTAAAACT
1 TAAAAC-TAAAACTTAAAACT
23303730 TAAAACTAAAAC
1 TAAAACTAAAAC
23303742 AAAATGTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.38
20 14 0.48
21 4 0.14
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAACTAAAACTTAAAACT
Found at i:23313573 original size:18 final size:18
Alignment explanation
Indices: 23313537--23313574 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23313527 TATTAATATA
*
23313537 ATTATTTAATATTACAAT
1 ATTATTTAATAATACAAT
23313555 ATTATTTTAATAATA-AAT
1 ATTA-TTTAATAATACAAT
23313573 AT
1 AT
23313575 ATAGATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTTAATAATACAAT
Found at i:23319270 original size:14 final size:14
Alignment explanation
Indices: 23319238--23319295 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
23319228 TCACAATTTG
23319238 ATTCTCAATTTATT
1 ATTCTCAATTTATT
* * *
23319252 GTTCTGAATTTGTT
1 ATTCTCAATTTATT
23319266 ATTCTCAATTGTCA--
1 ATTCTCAATT-T-ATT
23319280 ATTCTCAATTTATT
1 ATTCTCAATTTATT
23319294 AT
1 AT
23319296 CCTAAATTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
12 1 0.03
13 1 0.03
14 31 0.91
15 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (14 bp):
ATTCTCAATTTATT
Found at i:23319284 original size:28 final size:28
Alignment explanation
Indices: 23319253--23319319 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
23319243 CAATTTATTG
* * * **
23319253 TTCTGAATTTGTTATTCTCAATTGTCAA
1 TTCTGAATTTATTATCCTAAATTCCCAA
*
23319281 TTCTCAATTTATTATCCTAAATTCCCAA
1 TTCTGAATTTATTATCCTAAATTCCCAA
23319309 TTCCTGAATTT
1 TT-CTGAATTT
23319320 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (28 bp):
TTCTGAATTTATTATCCTAAATTCCCAA
Found at i:23322306 original size:16 final size:16
Alignment explanation
Indices: 23322285--23322316 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23322275 TAAAACAATT
23322285 AATTCAAGTCAAAATC
1 AATTCAAGTCAAAATC
23322301 AATTCAAGTCAAAATC
1 AATTCAAGTCAAAATC
23322317 GAGTCTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AATTCAAGTCAAAATC
Found at i:23323524 original size:26 final size:26
Alignment explanation
Indices: 23323413--23323626 Score: 89
Period size: 24 Copynumber: 8.6 Consensus size: 26
23323403 ACCCTTTCTC
* **
23323413 GAGCTATATAACAAGAAGCTCACAAA
1 GAGCCATATAACGGGAAGCTCACAAA
23323439 GAGCCATATCAA---GAAGCTCACAAA
1 GAGCCATAT-AACGGGAAGCTCACAAA
* *
23323463 GA-TCATAT--CGGGAAGCTTATC--A
1 GAGCCATATAACGGGAAGCTCA-CAAA
* * *
23323485 GGGCTATATAACGGGAAGCTCATAAA
1 GAGCCATATAACGGGAAGCTCACAAA
**
23323511 GAGCCATATAACGGG-AGCTC-CGGA
1 GAGCCATATAACGGGAAGCTCACAAA
* * * * * **
23323535 TAACCATACATCGGGAAGTTCA-AGT
1 GAGCCATATAACGGGAAGCTCACAAA
23323560 GAG-CACTAT--CGGGAAGCTCACAAA
1 GAGCCA-TATAACGGGAAGCTCACAAA
* ** *
23323584 GAGCCAATTTAATAGGAAGCTCACGAA
1 GAGCC-ATATAACGGGAAGCTCACAAA
23323611 GAGCC-TATAATCGGGA
1 GAGCCATATAA-CGGGA
23323627 TGCTTATAAG
Statistics
Matches: 136, Mismatches: 33, Indels: 38
0.66 0.16 0.18
Matches are distributed among these distances:
22 2 0.01
23 26 0.19
24 33 0.24
25 30 0.22
26 26 0.19
27 19 0.14
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
GAGCCATATAACGGGAAGCTCACAAA
Found at i:23328009 original size:23 final size:23
Alignment explanation
Indices: 23327983--23328029 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
23327973 TTATGCTAAC
23327983 GAATTACTTGATTATAATAAAAT
1 GAATTACTTGATTATAATAAAAT
* *
23328006 GAATTACTTTATTATACTAAAAT
1 GAATTACTTGATTATAATAAAAT
23328029 G
1 G
23328030 CCACTGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (23 bp):
GAATTACTTGATTATAATAAAAT
Found at i:23329189 original size:22 final size:22
Alignment explanation
Indices: 23329159--23329227 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
23329149 TATACACTAT
*
23329159 TAAACAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
*
23329181 TATATAGAGAGCAC-AAATGTGC
1 TAAATAGAGAGCACTAAA-GTGC
* *
23329203 TAAAT-GAATAGCACTAATGTGC
1 TAAATAG-AGAGCACTAAAGTGC
23329225 TAA
1 TAA
23329228 TAATTGGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.10
22 33 0.85
23 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:23337921 original size:14 final size:14
Alignment explanation
Indices: 23337904--23337943 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
23337894 TAATTTAATT
23337904 TTATTTATTTATTA
1 TTATTTATTTATTA
23337918 TTA-TT-TTTA-TA
1 TTATTTATTTATTA
23337929 TTATTTATTT-TTA
1 TTATTTATTTATTA
23337942 TT
1 TT
23337944 TTACTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 9 0.39
14 3 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:23337960 original size:23 final size:21
Alignment explanation
Indices: 23337919--23337971 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 21
23337909 TATTTATTAT
23337919 TATTTTTATATTATTTATTTT
1 TATTTTTATATTATTTATTTT
23337940 TA-TTTTACTAATCTATTTATTTT
1 TATTTTTA-T-AT-TATTTATTTT
23337963 TATTTTTAT
1 TATTTTTAT
23337972 TACTCTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.18
21 3 0.11
22 2 0.07
23 13 0.46
24 5 0.18
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTTTATATTATTTATTTT
Found at i:23343612 original size:60 final size:60
Alignment explanation
Indices: 23343514--23343629 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 60
23343504 TGTCAGCAGG
*
23343514 TGTAATAGCTTGAGCCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTTGGT
1 TGTAATAGCTTGAGCCACACCAGCTTCATCCTTATTAGATTCAACATGTACAAATTTGGT
* *
23343574 TGTAGTAGCTTGAGTCACACCAGCTTCATCCTTATTAGATTCAACATGTACAAATT
1 TGTAATAGCTTGAGCCACACCAGCTTCATCCTTATTAGATTCAACATGTACAAATT
23343630 CAGTTTTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (60 bp):
TGTAATAGCTTGAGCCACACCAGCTTCATCCTTATTAGATTCAACATGTACAAATTTGGT
Found at i:23352641 original size:33 final size:33
Alignment explanation
Indices: 23352599--23352666 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23352589 TCTTACTTTC
23352599 AGTAGGAAAGTAAATCTCTCTATTGAAACCGAT
1 AGTAGGAAAGTAAATCTCTCTATTGAAACCGAT
23352632 AGTAGGAAAGTAAATCTCTCTATTGAAACCGAT
1 AGTAGGAAAGTAAATCTCTCTATTGAAACCGAT
23352665 AG
1 AG
23352667 AATTTGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (33 bp):
AGTAGGAAAGTAAATCTCTCTATTGAAACCGAT
Found at i:23357099 original size:252 final size:252
Alignment explanation
Indices: 23356644--23357149 Score: 764
Period size: 252 Copynumber: 2.0 Consensus size: 252
23356634 CGCAATTTCC
* * *
23356644 CATAATGAGGCACATAGAGGCGATGCCCATGAGTGTATAGTAATTCCCCACCAAGCCAAAATATC
1 CATAATAAGACACATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATC
23356709 CTCGTTTTCCTCCCCTTGGCAAGCTCAATCAAGCTTTTGGCTATGGGATCATGGGACAATCCCTC
66 CTCGTTTTCCTCCCCTTGGCAAGCTCAATCAAGCTTTTGGCTATGGGATCATGGGACAATCCCTC
* * * *
23356774 TCGAATGCACTCCAATAAGGAACCATCAGGTTGGTTGATTGTCGCAAATTCCATCTTTCGGTTAA
131 TCAAATGCACTCCAATAAGGAACCATCAGCTTGGTTGATTGCCGCAAATTCCATCTTTCGGCTAA
* *
23356839 GGGCATCCGCCATAATGTAGGCACTCCCTAGCTTATA-TGCCATTTTAAAATCAAACT
196 GGGCATCCGCCACAATGTAGGCACTCCCTAGCTTATACT-CCATTGTAAAATCAAACT
* * *
23356896 CATAATAAGACACATAGAGGCGGTGCCCATGAGTGTATAGCAATTCCCCATCAAGCCAAAATCTC
1 CATAATAAGACACATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATC
* *
23356961 TTCGTTTT-CTCCTCCTTGGCAAGCTCAATCAAGCTTTTGGCTGTGGGATCATGGGACAATCCCT
66 CTCGTTTTCCTCC-CCTTGGCAAGCTCAATCAAGCTTTTGGCTATGGGATCATGGGACAATCCCT
* * *
23357025 CTCAAATGCGCTCTAATAAGGAACCATCAGCTTGGTTGATTGCCGCAAATTCCATCTTTTGGCTA
130 CTCAAATGCACTCCAATAAGGAACCATCAGCTTGGTTGATTGCCGCAAATTCCATCTTTCGGCTA
* * * * * * *
23357090 TGTGCATCCGCCACAATGTTGGCATTCCTTGGCTTATACTCCATTGTGAAATCAAACT
195 AGGGCATCCGCCACAATGTAGGCACTCCCTAGCTTATACTCCATTGTAAAATCAAACT
23357148 CA
1 CA
23357150 GCTAGGAAAA
Statistics
Matches: 228, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
251 4 0.02
252 223 0.98
253 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (252 bp):
CATAATAAGACACATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATC
CTCGTTTTCCTCCCCTTGGCAAGCTCAATCAAGCTTTTGGCTATGGGATCATGGGACAATCCCTC
TCAAATGCACTCCAATAAGGAACCATCAGCTTGGTTGATTGCCGCAAATTCCATCTTTCGGCTAA
GGGCATCCGCCACAATGTAGGCACTCCCTAGCTTATACTCCATTGTAAAATCAAACT
Found at i:23360629 original size:48 final size:48
Alignment explanation
Indices: 23360560--23360809 Score: 315
Period size: 47 Copynumber: 5.2 Consensus size: 48
23360550 TCGGAATAAA
* * * * * * *
23360560 AACAGATTTCTCGGTGGCCTGCACATAGTCCGTACCACCTTTGTGTAAT
1 AACAGA-TTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * * * *
23360609 AACAGATTCTCGATGGCCTGCACATAGTCCGTGCCACCCTTGTATCTT
1 AACAGATTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
* *
23360657 AACAGGTTATTGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
1 AACAGATTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
*
23360705 AATAGA-TATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
1 AACAGATTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
* *
23360752 AATAGA-TATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTGTCAT
1 AACAGATTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
*
23360799 AACAGAATATC
1 AACAGATTATC
23360810 AGTGCGCATA
Statistics
Matches: 182, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
47 91 0.50
48 85 0.47
49 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
AACAGATTATCGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCAT
Found at i:23366238 original size:21 final size:21
Alignment explanation
Indices: 23366213--23366256 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
23366203 TCCTTATAAA
*
23366213 CCGAACATTAAGGCTAAAATT
1 CCGAACAATAAGGCTAAAATT
23366234 CCGAACAATAAGGCTAAAATT
1 CCGAACAATAAGGCTAAAATT
23366255 CC
1 CC
23366257 TAAAATACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (21 bp):
CCGAACAATAAGGCTAAAATT
Found at i:23378858 original size:25 final size:25
Alignment explanation
Indices: 23378825--23378872 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
23378815 AATTTAGCCA
* * * *
23378825 TTTTTATTTTATTTTTATATTTTTG
1 TTTTAATTTAATTTCTACATTTTTG
23378850 TTTTAATTTAATTTCTACATTTT
1 TTTTAATTTAATTTCTACATTTT
23378873 AATTTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTAATTTAATTTCTACATTTTTG
Found at i:23382605 original size:8 final size:9
Alignment explanation
Indices: 23382572--23382614 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
23382562 CCTTCCTTTC
*
23382572 TTTTCTTTA
1 TTTTATTTA
23382581 TTTTATTTTA
1 TTTTA-TTTA
23382591 TTTTATTTA
1 TTTTATTTA
23382600 -TTTATTTA
1 TTTTATTTA
23382608 -TTTATTT
1 TTTTATTT
23382615 CCTATTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 15 0.47
9 8 0.25
10 9 0.28
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:23382775 original size:21 final size:21
Alignment explanation
Indices: 23382750--23382801 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
23382740 TTGGTTGTTT
23382750 TTCATATTATTCT-TATTTTTA
1 TTCATATTATTCTGTA-TTTTA
*
23382771 TTCATTTTA-TCTGTATTTTA
1 TTCATATTATTCTGTATTTTA
23382791 TT-ATGATTATT
1 TTCAT-ATTATT
23382802 ATATCGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 11 0.42
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (21 bp):
TTCATATTATTCTGTATTTTA
Found at i:23384997 original size:101 final size:101
Alignment explanation
Indices: 23384880--23385064 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
23384870 AAAGTGATGG
**
23384880 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCAGAATGATA-GGTTGCAAGTGTAGTA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACC-GAATGATACGGTCACAAGTGTAGTA
* *
23384944 CTATGTGTAGGCTACTATGCGTACCGGATAGTTTCGA
65 CTATATGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * * *
23384981 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTACTGGTCACATGTGTAGTA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAATGATAC-GGTCACAAGTGTAGTA
23385046 CTATATGCAGGCTACTATG
65 CTATATGCAGGCTACTATG
23385065 TGAACGGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 7 0.09
101 37 0.50
102 30 0.41
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAATGATACGGTCACAAGTGTAGTAC
TATATGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:23385000 original size:51 final size:51
Alignment explanation
Indices: 23384880--23385064 Score: 162
Period size: 51 Copynumber: 3.6 Consensus size: 51
23384870 AAAGTGATGG
* * * * * * *
23384880 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCAGAATGATA-GGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATGGTACTGA
* * * *
23384931 TGCA-A-GTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGT-TTCGA
1 T-CACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATGGTACT-GA
* * * * *
23384981 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTACTGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATGGTACTGA
*
23385032 TCACATGTGTAGTACTATATGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
23385065 TGAACGGAAC
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
49 6 0.06
50 31 0.29
51 66 0.62
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATGGTACTGA
Found at i:23385124 original size:45 final size:45
Alignment explanation
Indices: 23385073--23385158 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
23385063 TGTGAACGGA
* *
23385073 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
23385118 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
23385159 TCGAGTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:23397769 original size:48 final size:48
Alignment explanation
Indices: 23397701--23397796 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
23397691 CAAATTTACC
* *
23397701 AATCCTAATTGTAATCCCAAGTTGACTAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
*
23397749 AATCCTAACTGTAATTCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
23397797 TTTTTTCCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (48 bp):
AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
Found at i:23404202 original size:30 final size:30
Alignment explanation
Indices: 23404167--23404225 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23404157 TATCTTGTTT
* *
23404167 AAATAA-TATCTTGTACTATTTTTTTTACTG
1 AAATAAGTATC-TATACTATTATTTTTACTG
*
23404197 AAATAAGTATCTATCCTATTATTTTTACT
1 AAATAAGTATCTATACTATTATTTTTACT
23404226 CATGAAAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (30 bp):
AAATAAGTATCTATACTATTATTTTTACTG
Found at i:23406223 original size:96 final size:95
Alignment explanation
Indices: 23405969--23406236 Score: 310
Period size: 95 Copynumber: 2.8 Consensus size: 95
23405959 GTTTGCCAAT
* * * * * *
23405969 TAAATTAATTATAAATTTTT-CAAAATTGGATTAGGTTTCGTGTTTATTGTTTTTTAAGAAAAAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTA-GGGTTTTTAAGAAAGAA
* *
23406033 TCAATTAAATTAGGGTTTAAGGTTACTTGAG
65 TCAAATAAATTAGGGTTCAAGGTTACTTGAG
* * * *
23406064 TAATTTAA-T-T-AATTTTTAAAAAAAATTAGATTAAGGTTTAGAGTTAAGGGTTTTTAAGGAAG
1 TAAATTAATTATAAATTTTT--AAAAAATTAGATT-AGGTTTAGTGTTTAGGGTTTTTAAGAAAG
* *
23406126 AATTAAATAAATTAGGGTTCAGGGTTACTTGAG
63 AATCAAATAAATTAGGGTTCAAGGTTACTTGAG
* *
23406159 TAAATTAATTATAAATTTTTATAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGTAAGAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTA-GGTTTAGTGTTTAGGGTTTTTAAGAAAGAA
23406224 CTCAAATAAATTA
65 -TCAAATAAATTA
23406237 ATGTTTGGGG
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
92 7 0.05
93 1 0.01
94 1 0.01
95 65 0.45
96 51 0.35
97 12 0.08
98 7 0.05
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (95 bp):
TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTAGGGTTTTTAAGAAAGAAT
CAAATAAATTAGGGTTCAAGGTTACTTGAG
Found at i:23406511 original size:126 final size:126
Alignment explanation
Indices: 23406281--23406697 Score: 690
Period size: 126 Copynumber: 3.3 Consensus size: 126
23406271 TTGTTAATTT
* * *
23406281 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAGTTTCAAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
23406346 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
23406407 AAAGAAGCTCGCATGTGGACGCGCTTTTGCTATAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
23406472 GTTTCTGAGCAAATGGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
** * * *
23406533 AAAGAAGCTCCCACACGGACGTGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
23406598 GATTCTGAGAAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
23406659 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
23406698 GCATGTTTGG
Statistics
Matches: 266, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 266 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:23407528 original size:34 final size:35
Alignment explanation
Indices: 23407490--23407559 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
23407480 TGTATAAGTA
*
23407490 AATTTCTATTTTAGTACATGAAATAATAT-AAAAT
1 AATTTCTATTTTAGTACATCAAATAATATCAAAAT
*
23407524 AATTTCTATTTTATTACATCAAATAATATCAAAAT
1 AATTTCTATTTTAGTACATCAAATAATATCAAAAT
23407559 A
1 A
23407560 TTCAAAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (35 bp):
AATTTCTATTTTAGTACATCAAATAATATCAAAAT
Found at i:23408593 original size:27 final size:27
Alignment explanation
Indices: 23408527--23408594 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
23408517 GCAAGCTGGT
* *
23408527 GTACGCTAGTAGGCATGGCGAGTTGAA
1 GTACGCCAGTAGGCATGGAGAGTTGAA
** * *
23408554 GTAAACCAGTAGGCCTGGAGAGTTGTA
1 GTACGCCAGTAGGCATGGAGAGTTGAA
*
23408581 GTACGCCAATAGGC
1 GTACGCCAGTAGGC
23408595 TTAGCGAGCT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.34, T:0.21
Consensus pattern (27 bp):
GTACGCCAGTAGGCATGGAGAGTTGAA
Found at i:23414361 original size:18 final size:18
Alignment explanation
Indices: 23414338--23414372 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23414328 CAAGAATAGG
23414338 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
23414356 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
23414373 GGCATATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:23416656 original size:31 final size:31
Alignment explanation
Indices: 23416615--23416713 Score: 180
Period size: 31 Copynumber: 3.2 Consensus size: 31
23416605 TATATACACT
*
23416615 TATATTCACCTATGCCGAATGCATACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
*
23416646 TATATCCACCTATGCCGAATGCTTACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
23416677 TATATCCACCTATGCCGAATGCATACATATA
1 TATATCCACCTATGCCGAATGCATACATATA
23416708 TATATC
1 TATATC
23416714 TATCAATTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (31 bp):
TATATCCACCTATGCCGAATGCATACATATA
Found at i:23416687 original size:62 final size:65
Alignment explanation
Indices: 23416578--23416713 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 65
23416568 CATATACACT
* *
23416578 TATACCCACCTATGCCGAATGCATACATATATACACTTATATTCACCTATGCCGAATGCATACAT
1 TATATCCACCTATGCCGAATGCATACA-ATATA-AC-TATATCCACCTATGCCGAATGCATACAT
23416643 ATA
63 ATA
*
23416646 TATATCCACCTATGCCGAATGCTTAC-ATAT-A-TATATCCACCTATGCCGAATGCATACATATA
1 TATATCCACCTATGCCGAATGCATACAATATAACTATATCCACCTATGCCGAATGCATACATATA
23416708 TATATC
1 TATATC
23416714 TATCAATTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
62 36 0.55
64 1 0.02
66 4 0.06
68 24 0.37
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (65 bp):
TATATCCACCTATGCCGAATGCATACAATATAACTATATCCACCTATGCCGAATGCATACATATA
Found at i:23417028 original size:41 final size:43
Alignment explanation
Indices: 23416922--23417033 Score: 169
Period size: 41 Copynumber: 2.7 Consensus size: 43
23416912 CCAGCTCTTG
*
23416922 AGCCTGCTAGACTTATAGTCTG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTGAATAATGTATCACCGGCATTA
23416963 AGCCTGCTAGACGTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTGAATAATGTATCACCGGCATTA
* *
23417004 AGCCTGCTAGACGTAAAGTCTGAATTATGT
1 AGCCTGCTAGACGTATAGTCTGAATAATGT
23417034 CACTAACAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
41 59 0.91
42 3 0.05
43 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
AGCCTGCTAGACGTATAGTCTGAATAATGTATCACCGGCATTA
Found at i:23424493 original size:31 final size:31
Alignment explanation
Indices: 23424455--23424552 Score: 178
Period size: 31 Copynumber: 3.2 Consensus size: 31
23424445 TATATACACT
23424455 TATATTCACCTATGCCGAATGCATACATATA
1 TATATTCACCTATGCCGAATGCATACATATA
*
23424486 TATATTCACCTATGCCGAATGCTTACATATA
1 TATATTCACCTATGCCGAATGCATACATATA
*
23424517 TATATCCACCTATGCCGAATGCATACATATA
1 TATATTCACCTATGCCGAATGCATACATATA
23424548 TATAT
1 TATAT
23424553 CTATCAATTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (31 bp):
TATATTCACCTATGCCGAATGCATACATATA
Found at i:23424810 original size:41 final size:41
Alignment explanation
Indices: 23424762--23424868 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 41
23424752 CAAGCTCTTG
* *
23424762 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGTATTA
1 AGCCTGCTAGACGTATAGTCCGAATAAT-T-TCACCGGCATTA
*
23424803 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
* *
23424844 AGCCTGCTAGACGTAAAGTCTGAAT
1 AGCCTGCTAGACGTATAGTCCGAAT
23424869 TATGTCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 55 0.92
42 2 0.03
43 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
Found at i:23425072 original size:2 final size:2
Alignment explanation
Indices: 23425065--23425097 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23425055 ATACATTCGA
23425065 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23425098 ACTTAACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23431679 original size:6 final size:6
Alignment explanation
Indices: 23431668--23431747 Score: 151
Period size: 6 Copynumber: 13.3 Consensus size: 6
23431658 GCTATGATGT
*
23431668 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAATGA AAAGGA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA
23431716 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
23431748 GGTTACGACT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (6 bp):
AAAGGA
Found at i:23432532 original size:20 final size:20
Alignment explanation
Indices: 23432482--23432533 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
23432472 AAGCTTATGC
*
23432482 TAAGTAAATGAAATAGAAAG
1 TAAGTAAATGGAATAGAAAG
23432502 TAAGTAAATGGAAT-GATAAG
1 TAAGTAAATGGAATAGA-AAG
23432522 TAAGTAAATGGA
1 TAAGTAAATGGA
23432534 GTGGTTCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (20 bp):
TAAGTAAATGGAATAGAAAG
Found at i:23437683 original size:27 final size:27
Alignment explanation
Indices: 23437621--23437683 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
23437611 GTGGGCTGGT
* *
23437621 GTACACCAGTAGGCCTGTCGAGTTGGA
1 GTACACCAGTAGGCCTGACGAGTTAGA
*
23437648 GTACGCCAGTAGGCCTGACGAGCTTAG-
1 GTACACCAGTAGGCCTGACGAG-TTAGA
*
23437675 GTTCACCAG
1 GTACACCAG
23437684 AAGTCTTGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (27 bp):
GTACACCAGTAGGCCTGACGAGTTAGA
Found at i:23438499 original size:30 final size:30
Alignment explanation
Indices: 23438463--23438522 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
23438453 GTTCTTCATC
*
23438463 TTAGTTAAGTTGGTTAACAGTATAGATAAG
1 TTAGTTAAGTTGGTTAACACTATAGATAAG
*
23438493 TTAGTTAAGTTGGTTAACACTATAGCTAAG
1 TTAGTTAAGTTGGTTAACACTATAGATAAG
23438523 CTTTATTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (30 bp):
TTAGTTAAGTTGGTTAACACTATAGATAAG
Found at i:23438723 original size:18 final size:18
Alignment explanation
Indices: 23438700--23438734 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23438690 TGCATGAAAA
* *
23438700 TCTCAAGTTTTATATTTT
1 TCTCAAGCTTTACATTTT
23438718 TCTCAAGCTTTACATTT
1 TCTCAAGCTTTACATTT
23438735 ATGGTTGCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
TCTCAAGCTTTACATTTT
Found at i:23439780 original size:66 final size:66
Alignment explanation
Indices: 23439698--23439827 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
23439688 TCCCCAAATC
23439698 ATACACAAGATAACTTTTCTAATATCCCATCCTTAGGAAAGAGAGAGCAAATATTCTCTAAATTA
1 ATACACAAGATAACTTTTCTAATATCCCATCCTTAGGAAAGAGAGAGCAAATATTCTCTAAATTA
23439763 T
66 T
* *
23439764 ATACACAAGATAACTTTTCTAATATCTCATCCTTAGTAAAGAGAGAGCAAATATTCTCTAAATT
1 ATACACAAGATAACTTTTCTAATATCCCATCCTTAGGAAAGAGAGAGCAAATATTCTCTAAATT
23439828 TCTTGTGTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (66 bp):
ATACACAAGATAACTTTTCTAATATCCCATCCTTAGGAAAGAGAGAGCAAATATTCTCTAAATTA
T
Found at i:23447207 original size:37 final size:37
Alignment explanation
Indices: 23447157--23447263 Score: 196
Period size: 37 Copynumber: 2.9 Consensus size: 37
23447147 ACATAATGCT
23447157 CCACAAGCTATAACCATATTAAATCACACACATTGCA
1 CCACAAGCTATAACCATATTAAATCACACACATTGCA
* *
23447194 CCACAAGCTATAACCATATTAAATCACAAACATTGCT
1 CCACAAGCTATAACCATATTAAATCACACACATTGCA
23447231 CCACAAGCTATAACCATATTAAATCACACACAT
1 CCACAAGCTATAACCATATTAAATCACACACAT
23447264 ACATATATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.44, C:0.29, G:0.05, T:0.22
Consensus pattern (37 bp):
CCACAAGCTATAACCATATTAAATCACACACATTGCA
Found at i:23462702 original size:34 final size:34
Alignment explanation
Indices: 23462659--23462728 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
23462649 TATGTGTAAG
23462659 ATAAATTTGAGGCTTTACTACACTCACCCTCCAT
1 ATAAATTTGAGGCTTTACTACACTCACCCTCCAT
23462693 ATAAATTTGAGGCTTTACTACACTCACCCTCCAT
1 ATAAATTTGAGGCTTTACTACACTCACCCTCCAT
23462727 AT
1 AT
23462729 CAGTAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (34 bp):
ATAAATTTGAGGCTTTACTACACTCACCCTCCAT
Found at i:23473065 original size:51 final size:51
Alignment explanation
Indices: 23472943--23473122 Score: 168
Period size: 51 Copynumber: 3.5 Consensus size: 51
23472933 GATGGTCATG
** * * ** *
23472943 TGTGTAGTACTATGTGCAACCTACTACGTGTACCGGA-A-TAATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GACCACA
* * *
23472993 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GACCACA
* * * * * *
23473044 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGACCACA
*
23473095 TGTTTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
23473123 TGAACCGAAC
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 33 0.31
51 71 0.67
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGACCACA
Found at i:23473181 original size:45 final size:45
Alignment explanation
Indices: 23473131--23473218 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
23473121 TGTGAACCGA
* * * *
23473131 ACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCAG
23473176 ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACC
23473219 GAGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCAG
Found at i:23477726 original size:20 final size:20
Alignment explanation
Indices: 23477678--23477726 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
23477668 GAGGCATCGT
*
23477678 AGTGCAAATAGAGGCACCAA
1 AGTGCAAACAGAGGCACCAA
23477698 AGTGCAAACAGAGGCACCAA
1 AGTGCAAACAGAGGCACCAA
23477718 AGTGCAAAC
1 AGTGCAAAC
23477727 TCATAAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.08
Consensus pattern (20 bp):
AGTGCAAACAGAGGCACCAA
Found at i:23478574 original size:19 final size:18
Alignment explanation
Indices: 23478531--23478574 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23478521 ATAGGTTCGT
*
23478531 ATAAAAACATAGGTTTAC
1 ATAATAACATAGGTTTAC
* *
23478549 ATAATAACATATGTTTCC
1 ATAATAACATAGGTTTAC
23478567 ACTAATAA
1 A-TAATAA
23478575 GGGTTCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (18 bp):
ATAATAACATAGGTTTAC
Found at i:23479266 original size:159 final size:159
Alignment explanation
Indices: 23478975--23479292 Score: 521
Period size: 159 Copynumber: 2.0 Consensus size: 159
23478965 TCCGTGATCT
* *
23478975 ACTTACCTATGACACAAGAAAGGGGTGGGTGAGTTTATTGAGAACTCAGTGAATATACAGGAAAC
1 ACTTACCTATGACACAAGAAAAGGGTGGGTGAGTTTATTGAGAACTCAGTGAATATACAGAAAAC
* *
23479040 ATCAAAGCATGCTTAAAATTACATGCTTAAAAAAACATTTTAGTCTAAAAACCATTTTAAGATCT
66 ATCAAAGCATGCTTAAAAGTACATGCTTAAAAAAACATTTTAGTCTAAAAACCATTTTAAGAGCT
*
23479105 AGGTTCACCGTAAAAGTGCAAGACCCAAA
131 AGGCTCACCGTAAAAGTGCAAGACCCAAA
* * *
23479134 ACTTACCTATGACGCACGAAAAGGGTGGGTGAGTTTATTGAGAACTCATTGAATATACAGAAAAC
1 ACTTACCTATGACACAAGAAAAGGGTGGGTGAGTTTATTGAGAACTCAGTGAATATACAGAAAAC
* **
23479199 ATCAAAGCATGCTTAAAAGTACATGCTTAAAACAAA-ATTTTAGTCTGAAAACCATTTTGCGAGC
66 ATCAAAGCATGCTTAAAAGTACATGCTTAAAA-AAACATTTTAGTCTAAAAACCATTTTAAGAGC
23479263 TAGGCTCACCGTAAAAGTGCAAGACCCAAA
130 TAGGCTCACCGTAAAAGTGCAAGACCCAAA
23479293 TCGTAGTTAC
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
159 144 0.98
160 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (159 bp):
ACTTACCTATGACACAAGAAAAGGGTGGGTGAGTTTATTGAGAACTCAGTGAATATACAGAAAAC
ATCAAAGCATGCTTAAAAGTACATGCTTAAAAAAACATTTTAGTCTAAAAACCATTTTAAGAGCT
AGGCTCACCGTAAAAGTGCAAGACCCAAA
Found at i:23479427 original size:6 final size:6
Alignment explanation
Indices: 23479416--23479442 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23479406 TATTCATCAA
23479416 CTTGTT CTTGTT CTTGTT CTTGTT CTT
1 CTTGTT CTTGTT CTTGTT CTTGTT CTT
23479443 ATACTGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.67
Consensus pattern (6 bp):
CTTGTT
Found at i:23482279 original size:15 final size:16
Alignment explanation
Indices: 23482259--23482291 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
23482249 TCTTGTTAAA
23482259 TTTTCTTTTTG-AGTT
1 TTTTCTTTTTGCAGTT
23482274 TTTTCTTTTTGCAGTT
1 TTTTCTTTTTGCAGTT
23482290 TT
1 TT
23482292 AAGCTAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTTCTTTTTGCAGTT
Found at i:23484704 original size:23 final size:23
Alignment explanation
Indices: 23484659--23484701 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23484649 TGGTTGCGTA
*
23484659 AAAGTATTTTTTGAGTTAAAATT
1 AAAGTATTTTTAGAGTTAAAATT
*
23484682 AAAGT-TTTTTAGGGTTAAAA
1 AAAGTATTTTTAGAGTTAAAA
23484702 ATTGGGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (23 bp):
AAAGTATTTTTAGAGTTAAAATT
Found at i:23495644 original size:27 final size:27
Alignment explanation
Indices: 23495614--23495791 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23495604 ATATTGAGTC
* * * *
23495614 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23495641 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23495669 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23495696 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23495723 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23495750 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23495777 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23495792 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 108 0.83
28 22 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23503586 original size:13 final size:13
Alignment explanation
Indices: 23503570--23503594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23503560 CTTTAATATC
23503570 ATACTTTCTCATT
1 ATACTTTCTCATT
23503583 ATACTTTCTCAT
1 ATACTTTCTCAT
23503595 ACCATTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
ATACTTTCTCATT
Found at i:23510931 original size:27 final size:27
Alignment explanation
Indices: 23510901--23511058 Score: 165
Period size: 27 Copynumber: 5.8 Consensus size: 27
23510891 TTTCATCTCC
**
23510901 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
23510928 TAGGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* * * *
23510955 TGGGGGTATTT-TGATCATTTTACCTTG
1 TAGGGGTATTTCAG-TCATTTTACCCTA
** * *
23510982 CGGGGGTATTTTAGTTATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
23511009 CAGGGGGTATTTCAGTCATTTTACCCTA
1 TA-GGGGTATTTCAGTCATTTTACCCTA
* **
23511037 TAGGGCTATTTTGGTCATTTTA
1 TAGGGGTATTTCAGTCATTTTA
23511059 TTGACCTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.76
28 25 0.23
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:23514935 original size:21 final size:21
Alignment explanation
Indices: 23514891--23514935 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23514881 TATGTCGCGG
***
23514891 CATGGAACCCCTATGCCGTGA
1 CATGGAACCCCTATGCCACAA
*
23514912 CATGGAACCCCTATGTCACAA
1 CATGGAACCCCTATGCCACAA
23514933 CAT
1 CAT
23514936 CGCTACAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (21 bp):
CATGGAACCCCTATGCCACAA
Found at i:23515111 original size:19 final size:17
Alignment explanation
Indices: 23515087--23515121 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
23515077 CTCTTAATCC
23515087 TCTTAAATCTCTTAAAATT
1 TCTTAAA-C-CTTAAAATT
23515106 TCTTAAACCTTAAAAT
1 TCTTAAACCTTAAAAT
23515122 CATAAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (17 bp):
TCTTAAACCTTAAAATT
Found at i:23520813 original size:25 final size:25
Alignment explanation
Indices: 23520785--23520836 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
23520775 ATATTGTCAA
23520785 CATGAGTCACAGTATGCATGAATTT
1 CATGAGTCACAGTATGCATGAATTT
*
23520810 CATGAGTCATAGTATGCATGAATTT
1 CATGAGTCACAGTATGCATGAATTT
23520835 CA
1 CA
23520837 AAGTCATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
CATGAGTCACAGTATGCATGAATTT
Found at i:23523227 original size:50 final size:50
Alignment explanation
Indices: 23523119--23523415 Score: 256
Period size: 50 Copynumber: 5.8 Consensus size: 50
23523109 ATTTGGGTAA
* *
23523119 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--TGAG---ATG
* *
23523175 AGAGGTCCCATGTAAGACTATGTTTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
**
23523225 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** * * * *
23523275 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCT-ATATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGAGATG
** * * * * * * * * *
23523325 AGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGTAGT-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
* ** * * *
23523374 AAACATCTCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
23523416 TGTTATATTC
Statistics
Matches: 202, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
49 36 0.18
50 122 0.60
51 1 0.00
53 4 0.02
55 1 0.00
56 38 0.19
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
Found at i:23526337 original size:16 final size:16
Alignment explanation
Indices: 23526313--23526343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23526303 TTCTAACTAT
*
23526313 TTATTAAAAATTAAGA
1 TTATAAAAAATTAAGA
23526329 TTATAAAAAATTAAG
1 TTATAAAAAATTAAG
23526344 GGTCTACTAA
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:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTATAAAAAATTAAGA
Found at i:23529427 original size:9 final size:9
Alignment explanation
Indices: 23529413--23529443 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23529403 TTTGGTTAAA
23529413 AATTAACCG
1 AATTAACCG
23529422 AATTAACCG
1 AATTAACCG
*
23529431 AATTACCCG
1 AATTAACCG
23529440 AATT
1 AATT
23529444 GAATAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:23530332 original size:42 final size:41
Alignment explanation
Indices: 23530247--23530351 Score: 149
Period size: 42 Copynumber: 2.6 Consensus size: 41
23530237 ACAATATTTT
* ** *
23530247 TAGT-GGCATGCTGAACATGCAATCGGATTTATAATCAATA
1 TAGTCGGCATGCTTAACATGCAATCAAATTTATAATCAACA
*
23530287 TAGTCGGCATGCTTAACATGCGAATCAAATTTATAGTCAACA
1 TAGTCGGCATGCTTAACATGC-AATCAAATTTATAATCAACA
23530329 TAGTCGGCATGCTTAACATGCAA
1 TAGTCGGCATGCTTAACATGCAA
23530352 GTTTTATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
40 4 0.07
41 17 0.29
42 37 0.64
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
TAGTCGGCATGCTTAACATGCAATCAAATTTATAATCAACA
Found at i:23531067 original size:22 final size:22
Alignment explanation
Indices: 23531037--23531105 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
23531027 ACGACAGTGA
23531037 TGCGACGGTCGTCTGATGGTAG
1 TGCGACGGTCGTCTGATGGTAG
* * *
23531059 TGTGGCGGTCGTCTGATGGTTG
1 TGCGACGGTCGTCTGATGGTAG
* * *
23531081 TGCGACGATCGTCTGACGGTTG
1 TGCGACGGTCGTCTGATGGTAG
23531103 TGC
1 TGC
23531106 AGCGATGGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.10, C:0.19, G:0.41, T:0.30
Consensus pattern (22 bp):
TGCGACGGTCGTCTGATGGTAG
Found at i:23532263 original size:17 final size:17
Alignment explanation
Indices: 23532260--23532382 Score: 72
Period size: 17 Copynumber: 7.1 Consensus size: 17
23532250 TTTAATATAA
*
23532260 AATATAAAAT-TATTTT
1 AATATAAAATATAATTT
*
23532276 AATATAAAATAT--TCTA
1 AATATAAAATATAAT-TT
*
23532292 AATATTATAATATAATTT
1 AATA-TAAAATATAATTT
* *
23532310 AATAAAAAATACTTAAATAT
1 AATATAAAATA--T-AATTT
* * *
23532330 AATTTAATATAAAATTT
1 AATATAAAATATAATTT
* * *
23532347 TATTTGAAATATAATTT
1 AATATAAAATATAATTT
*
23532364 AATAGAAAATATAATTT
1 AATATAAAATATAATTT
23532381 AA
1 AA
23532383 ATATTTATAT
Statistics
Matches: 80, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
15 1 0.01
16 15 0.19
17 45 0.56
18 5 0.06
19 2 0.03
20 12 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATAAAATATAATTT
Found at i:23532295 original size:16 final size:16
Alignment explanation
Indices: 23532259--23532331 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
23532249 ATTTAATATA
23532259 AAATATAAAATTATTT
1 AAATATAAAATTATTT
*
23532275 TAATATAAAA-TATTCT
1 AAATATAAAATTATT-T
*
23532291 AAATATTATAATATAATTT
1 AAATA-TA-AA-ATTATTT
* *
23532310 -AATA-AAAAATACTT
1 AAATATAAAATTATTT
23532324 AAATATAA
1 AAATATAA
23532332 TTTAATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 4 0.09
15 10 0.23
16 17 0.39
17 2 0.05
18 6 0.14
19 2 0.05
20 3 0.07
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAAATTATTT
Found at i:23532295 original size:32 final size:32
Alignment explanation
Indices: 23532259--23532331 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
23532249 ATTTAATATA
* * *
23532259 AAATATAAAAT-TATTTTAATATAAAATATTCT
1 AAATATAAAATATAATTTAATAAAAAATACT-T
*
23532291 AAATATTATAATATAATTTAATAAAAAATACTT
1 AAATA-TAAAATATAATTTAATAAAAAATACTT
23532324 AAATATAA
1 AAATATAA
23532332 TTTAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 7 0.21
33 11 0.32
34 16 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATATAAAATATAATTTAATAAAAAATACTT
Found at i:23532295 original size:57 final size:56
Alignment explanation
Indices: 23532234--23532377 Score: 179
Period size: 57 Copynumber: 2.6 Consensus size: 56
23532224 AAACTATAAA
* *
23532234 AAATATTGTAATATAATTTAATATAAAATATAAAAT-TATTTTAATATAAAATATTCT
1 AAATATTGTAATATAATTTAATAAAAAATATAAAATATAATTTAATATAAAAT-TT-T
* *
23532291 AAATATTATAATATAATTTAATAAAAAATACTTAAATATAATTTAATATAAAATTTT
1 AAATATTGTAATATAATTTAATAAAAAATA-TAAAATATAATTTAATATAAAATTTT
* *
23532348 --AT-TTGAAATATAATTTAATAGAAAATATAA
1 AAATATTGTAATATAATTTAATAAAAAATATAA
23532378 TTTAAATATT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
53 2 0.03
54 22 0.29
55 2 0.03
57 29 0.38
58 7 0.09
59 15 0.19
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (56 bp):
AAATATTGTAATATAATTTAATAAAAAATATAAAATATAATTTAATATAAAATTTT
Found at i:23532358 original size:29 final size:26
Alignment explanation
Indices: 23532300--23532386 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 26
23532290 TAAATATTAT
* *
23532300 AATATAATTTAATAAAAA-ATACTTA
1 AATATAATTTAATAAAAATTTATTTA
23532325 AATATAATTTAATATAAAATTTTATTTGA
1 AATATAATTTAATA-AAAA-TTTATTT-A
*
23532354 AATATAATTTAATAGAAAATATAATTTA
1 AATATAATTTAATA-AAAAT-TTATTTA
23532382 AATAT
1 AATAT
23532387 TTATATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
25 14 0.26
26 4 0.08
28 11 0.21
29 24 0.45
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (26 bp):
AATATAATTTAATAAAAATTTATTTA
Found at i:23540230 original size:20 final size:20
Alignment explanation
Indices: 23540205--23540257 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
23540195 AATAATAAAC
23540205 TGATCATTTTATTAAAAATT
1 TGATCATTTTATTAAAAATT
23540225 TGATCATTTTATTAAAAATT
1 TGATCATTTTATTAAAAATT
*
23540245 TCATTCATTTTAT
1 TGA-TCATTTTAT
23540258 GGTTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (20 bp):
TGATCATTTTATTAAAAATT
Found at i:23540275 original size:22 final size:21
Alignment explanation
Indices: 23540208--23540275 Score: 86
Period size: 20 Copynumber: 3.2 Consensus size: 21
23540198 AATAAACTGA
*
23540208 TCATTTTATTAAAAATTTGA-
1 TCATTTTATTAAAAATTTCAT
23540228 TCATTTTATTAAAAATTTCAT
1 TCATTTTATTAAAAATTTCAT
*
23540249 TCATTTTATGGTTAAAATTT-AT
1 TCATTTTAT--TAAAAATTTCAT
23540271 TCATT
1 TCATT
23540276 GTACGTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.44
21 9 0.21
22 7 0.16
23 8 0.19
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (21 bp):
TCATTTTATTAAAAATTTCAT
Found at i:23541896 original size:42 final size:42
Alignment explanation
Indices: 23541844--23541924 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
23541834 CCTACTTTCT
*
23541844 TGACTCATATAAAAAACATAGCGAAACATCACATCTAATTTA
1 TGACTCATATAAAAAACATAACGAAACATCACATCTAATTTA
* * * *
23541886 TGACTTATATAACAAACATAATGAAACATCACGTCTAAT
1 TGACTCATATAAAAAACATAACGAAACATCACATCTAAT
23541925 CACTTTCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (42 bp):
TGACTCATATAAAAAACATAACGAAACATCACATCTAATTTA
Found at i:23555608 original size:14 final size:14
Alignment explanation
Indices: 23555589--23555628 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
23555579 TGTTCATTTA
23555589 TTCATCAAGTGTTT
1 TTCATCAAGTGTTT
23555603 TTCATCAA--GTTT
1 TTCATCAAGTGTTT
*
23555615 TTAATCAAGT-TTT
1 TTCATCAAGTGTTT
23555628 T
1 T
23555629 AATCAAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 11 0.48
13 4 0.17
14 8 0.35
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (14 bp):
TTCATCAAGTGTTT
Found at i:23555616 original size:12 final size:12
Alignment explanation
Indices: 23555599--23555635 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
23555589 TTCATCAAGT
*
23555599 GTTTTTCATCAA
1 GTTTTTAATCAA
23555611 GTTTTTAATCAA
1 GTTTTTAATCAA
23555623 GTTTTTAATCAA
1 GTTTTTAATCAA
23555635 G
1 G
23555636 CTTTCATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (12 bp):
GTTTTTAATCAA
Found at i:23557195 original size:20 final size:22
Alignment explanation
Indices: 23557167--23557210 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
23557157 GGTTATATCA
23557167 AAATACTTAGA-ATTTTAG-AT
1 AAATACTTAGATATTTTAGTAT
*
23557187 AAATCCTTAGATATTTTAGTAT
1 AAATACTTAGATATTTTAGTAT
23557209 AA
1 AA
23557211 CTTTAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
AAATACTTAGATATTTTAGTAT
Found at i:23557825 original size:19 final size:19
Alignment explanation
Indices: 23557781--23557826 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23557771 AAATCATACC
23557781 AAAATTTTGGTAAATCCTTG
1 AAAATTTTGGTAAAT-CTTG
*
23557801 AAAATTTTGGTATAAT-TTT
1 AAAATTTTGGTA-AATCTTG
23557820 AAAATTT
1 AAAATTT
23557827 CTGATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (19 bp):
AAAATTTTGGTAAATCTTG
Found at i:23557978 original size:20 final size:20
Alignment explanation
Indices: 23557953--23558016 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
23557943 GGTATTAAGG
*
23557953 AAATCTTTAGAAATATTGCT
1 AAATCTTTAGAAATATTGGT
** *
23557973 AAATCTTTAGAAGCAATGGT
1 AAATCTTTAGAAATATTGGT
23557993 AAAT-TCTTAGAAATATTGGT
1 AAATCT-TTAGAAATATTGGT
23558013 AAAT
1 AAAT
23558017 TGTTAGATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (20 bp):
AAATCTTTAGAAATATTGGT
Found at i:23558017 original size:20 final size:20
Alignment explanation
Indices: 23557959--23558023 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
23557949 AAGGAAATCT
*
23557959 TTAGAAATATTGCTAAA-TC
1 TTAGAAATATTGGTAAATTC
** *
23557978 TTTAGAAGCAATGGTAAATTC
1 -TTAGAAATATTGGTAAATTC
*
23557999 TTAGAAATATTGGTAAATTG
1 TTAGAAATATTGGTAAATTC
23558019 TTAGA
1 TTAGA
23558024 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 34 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (20 bp):
TTAGAAATATTGGTAAATTC
Found at i:23558063 original size:20 final size:20
Alignment explanation
Indices: 23557989--23558075 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
23557979 TTAGAAGCAA
*
23557989 TGGTAAATTCTTAGAAATAT
1 TGGTAAATTCTTAGAAATTT
* *
23558009 TGGTAAATTGTTAG-ATTTT
1 TGGTAAATTCTTAGAAATTT
** * *
23558028 TTTTATATAACATTAGAAATTT
1 TGGTAAAT-TC-TTAGAAATTT
*
23558050 TGGTAAATTCTTAGATATTT
1 TGGTAAATTCTTAGAAATTT
23558070 TGGTAA
1 TGGTAA
23558076 GGAATAGTAT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
19 8 0.16
20 28 0.56
21 5 0.10
22 9 0.18
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.47
Consensus pattern (20 bp):
TGGTAAATTCTTAGAAATTT
Found at i:23558364 original size:20 final size:20
Alignment explanation
Indices: 23558339--23558436 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
23558329 AAGAAAGAAG
23558339 TTTTGGTAAATCCTTAAATA
1 TTTTGGTAAATCCTTAAATA
*
23558359 TTTTGGTATAA-CTTTAGAAT-
1 TTTTGGTA-AATCCTTA-AATA
* * *
23558379 TTTTGTTAAATTCTTAGATA
1 TTTTGGTAAATCCTTAAATA
*
23558399 TTTTGGTAAAGCCTTATAA-A
1 TTTTGGTAAATCCTTA-AATA
** *
23558419 TTTTAATAAATTCTTAAA
1 TTTTGGTAAATCCTTAAA
23558437 AATATCACTA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
19 6 0.10
20 48 0.80
21 6 0.10
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (20 bp):
TTTTGGTAAATCCTTAAATA
Found at i:23558429 original size:40 final size:40
Alignment explanation
Indices: 23558345--23558436 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
23558335 GAAGTTTTGG
* * * **
23558345 TAAATCCTTAAATATTTTGGTATAACTTTAGAATTTTTGT
1 TAAATTCTTAAATATTTTGGTATAACCTTAGAAATTTTAA
* *
23558385 TAAATTCTTAGATATTTTGGTA-AAGCCTTATAAATTTTAA
1 TAAATTCTTAAATATTTTGGTATAA-CCTTAGAAATTTTAA
23558425 TAAATTCTTAAA
1 TAAATTCTTAAA
23558437 AATATCACTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (40 bp):
TAAATTCTTAAATATTTTGGTATAACCTTAGAAATTTTAA
Found at i:23558722 original size:19 final size:20
Alignment explanation
Indices: 23558694--23558747 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
23558684 GATATTTTGG
*
23558694 AATACTAAAATTTCTAACC-
1 AATACCAAAATTTCTAACCA
* *
23558713 AATATCAAAATATGC-AACCA
1 AATACCAAAAT-TTCTAACCA
23558733 AATACCAAAATTTCT
1 AATACCAAAATTTCT
23558748 TAAAGCGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (20 bp):
AATACCAAAATTTCTAACCA
Found at i:23558909 original size:21 final size:20
Alignment explanation
Indices: 23558839--23558921 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 20
23558829 GACCAATACT
23558839 AAAAT-TTCTAACGA-ATATC
1 AAAATCTTCTAAC-ATATATC
* * *
23558858 GAAAT-TTCTAACACATACC
1 AAAATCTTCTAACATATATC
* *
23558877 AAAAT-ATCTAACCATATATG
1 AAAATCTTCTAA-CATATATC
23558897 AAAATCTTCTAACATATATC
1 AAAATCTTCTAACATATATC
23558917 AAAAT
1 AAAAT
23558922 TTTGTAACAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 1 0.02
19 24 0.46
20 22 0.42
21 5 0.10
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAATCTTCTAACATATATC
Found at i:23558968 original size:20 final size:19
Alignment explanation
Indices: 23558839--23558967 Score: 105
Period size: 20 Copynumber: 6.6 Consensus size: 19
23558829 GACCAATACT
*
23558839 AAAATTTCTAACGAATATC
1 AAAATTTCTAACAAATATC
* * *
23558858 GAAATTTCTAACACATACC
1 AAAATTTCTAACAAATATC
* * *
23558877 AAAATATCTAACCATATATG
1 AAAATTTCTAA-CAAATATC
*
23558897 AAAATCTTCTAACATATATC
1 AAAAT-TTCTAACAAATATC
* *
23558917 AAAATTTTGTAACAAATACC
1 AAAA-TTTCTAACAAATATC
* * *
23558937 ACATTTTTTAATCAAATATC
1 AAAATTTCTAA-CAAATATC
23558957 AAAATTTCTAA
1 AAAATTTCTAA
23558968 TGGATATCCA
Statistics
Matches: 85, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
19 30 0.35
20 49 0.58
21 6 0.07
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAATTTCTAACAAATATC
Found at i:23561502 original size:22 final size:22
Alignment explanation
Indices: 23561474--23561516 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23561464 CGGTGGTCGG
* * *
23561474 AATTTTTTTTTTTACAAAATCT
1 AATTTTTCTTTTAAAAAAATCT
23561496 AATTTTTCTTTTAAAAAAATC
1 AATTTTTCTTTTAAAAAAATC
23561517 ACTACTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTTCTTTTAAAAAAATCT
Found at i:23561762 original size:146 final size:144
Alignment explanation
Indices: 23561477--23561808 Score: 474
Period size: 146 Copynumber: 2.3 Consensus size: 144
23561467 TGGTCGGAAT
* * * *
23561477 TTTTTTTTTTACAAAATCTAA-TTTTTCTTTTAAAAAAATCACTACTTTTTTTAAAAATCAAAAC
1 TTTTTATTTTA-AAAATCTAACTTTCTCTTTTAAAAAAA--ACTACTTTTTTTAAAAATAAAAAA
*
23561541 TTTATTTCGAAATAATTGAAAAAGATCAAAACTTTATTTTAAAAATTTTAAAATTTTCCTTTAAA
63 ATTATTTCGAAATAATTGAAAAAGATCAAAACTTTATTTTAAAAATTTTAAAATTTTCCTTTAAA
23561606 ATGACTAAAAAACA-AA
128 ATGACTAAAAAACAGAA
23561622 TTTTTATTTTAAAAATCTATACTTTCTCTTTTAAAAAAAACTA-TTTTTCTTAAAAATAAAAAAA
1 TTTTTATTTTAAAAATCTA-ACTTTCTCTTTTAAAAAAAACTACTTTTT-TTAAAAAT--AAAAA
* *
23561686 AATTATTTCGAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAA-TTTAAACTTTTCCTTTAA
62 AATTATTTCGAAATAATTGAAAAAGATCAAAACTTTATTTTAAAAATTTTAAAATTTTCCTTTAA
* *
23561750 TATGACTAAAAAAACAGAT
127 AATGACT-AAAAAACAGAA
23561769 TTTTTATTTTAAAAATCTAAACTTTCTCTTTTAAAAAAAA
1 TTTTTATTTTAAAAATCT-AACTTTCTCTTTTAAAAAAAA
23561809 ATCAAAGTTT
Statistics
Matches: 170, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
143 5 0.03
144 20 0.12
145 34 0.20
146 71 0.42
147 39 0.23
148 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (144 bp):
TTTTTATTTTAAAAATCTAACTTTCTCTTTTAAAAAAAACTACTTTTTTTAAAAATAAAAAAATT
ATTTCGAAATAATTGAAAAAGATCAAAACTTTATTTTAAAAATTTTAAAATTTTCCTTTAAAATG
ACTAAAAAACAGAA
Found at i:23569930 original size:40 final size:35
Alignment explanation
Indices: 23569877--23569971 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 35
23569867 ATTTATCGGT
* * *
23569877 TTTATTCGACTAGTGTTGGGCACACATTTGACATTTTTGG
1 TTTATCCGACTAGTGTTGGGCACAC--CT---ATTGTTGG
**
23569917 TTTATCCGACTAGTGCAGGGCACACCTATTGTTGG
1 TTTATCCGACTAGTGTTGGGCACACCTATTGTTGG
23569952 TTTATCCGACTAGTGTTGGG
1 TTTATCCGACTAGTGTTGGG
23569972 TGCAAAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 25 0.52
38 1 0.02
40 22 0.46
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (35 bp):
TTTATCCGACTAGTGTTGGGCACACCTATTGTTGG
Found at i:23570513 original size:71 final size:71
Alignment explanation
Indices: 23570420--23570561 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
23570410 GCCATGTAAA
*
23570420 CTTTTGAATCATTTTTTGCCTTGAAACAAATGCTTATATTTAGCTTGTGAATGAAATAAGTATGT
1 CTTTTGAATCATTTTTTGCCTTGAAACAAATGCTTATATGTAGCTTGTGAATGAAATAAGTATGT
23570485 TTGATG
66 TTGATG
* *
23570491 CTTTTGAATTATGTTTTT-CCTTGAAACAAATGCTTGTATGTAGCTTGTGAATGAAATAAGTATG
1 CTTTTGAATCAT-TTTTTGCCTTGAAACAAATGCTTATATGTAGCTTGTGAATGAAATAAGTATG
23570555 TTTGATG
65 TTTGATG
23570562 AGCTTGAATC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 62 0.93
72 5 0.07
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (71 bp):
CTTTTGAATCATTTTTTGCCTTGAAACAAATGCTTATATGTAGCTTGTGAATGAAATAAGTATGT
TTGATG
Found at i:23577560 original size:25 final size:25
Alignment explanation
Indices: 23577526--23577573 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
23577516 TGATATAGAA
23577526 ATGTGCTAATAATCAGAGAGCACCG
1 ATGTGCTAATAATCAGAGAGCACCG
23577551 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
23577574 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACCG
Found at i:23578595 original size:50 final size:50
Alignment explanation
Indices: 23578478--23578810 Score: 282
Period size: 50 Copynumber: 6.6 Consensus size: 50
23578468 AAATATAACA
* * * * * *
23578478 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA-TGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATAT-CGG
* * * *
23578527 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * ** * *
23578577 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * * *
23578627 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
***
23578677 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATAATTTTAATAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A---T--CGG
* * * *
23578733 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-AG-C-TCACATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-TGGGACTTCTCATATCGG
* *
23578781 TGTCAATGCCATGTCCCAGACATGGTCTTA
1 TGCCAACGCCATGTCCCAGACATGGTCTTA
23578811 TACGAGATCA
Statistics
Matches: 241, Mismatches: 33, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
48 31 0.13
49 37 0.15
50 131 0.54
53 1 0.00
54 6 0.02
55 1 0.00
56 33 0.14
57 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:23578830 original size:48 final size:48
Alignment explanation
Indices: 23578736--23578830 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
23578726 TTAATAATGC
* * * *
23578736 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGATGT
1 CAATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGT
* *
23578784 CAATGCCATGTCCCAGACATGGTCTTATACGAGATCACACGCCGATG
1 CAATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATG
23578831 CCATATCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGT
Found at i:23585503 original size:6 final size:6
Alignment explanation
Indices: 23585485--23585518 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
23585475 TATGGTAATA
23585485 AAATTC TAAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC -AAATTC AAATTC AAATTC AAATTC AAA
23585519 ATATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTC
Found at i:23586431 original size:18 final size:18
Alignment explanation
Indices: 23586408--23586443 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23586398 AACCATCAAT
23586408 TAAATATATTTT-AATTAA
1 TAAATA-ATTTTGAATTAA
23586426 TAAATAATTTTGAATTAA
1 TAAATAATTTTGAATTAA
23586444 ATTCTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAAATAATTTTGAATTAA
Found at i:23588038 original size:25 final size:26
Alignment explanation
Indices: 23588000--23588051 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
23587990 CTAATATTAG
23588000 AAAATGCTAAGGCAA-AACAAGAATA
1 AAAATGCTAAGGCAATAACAAGAATA
*
23588025 AAAATGC-AATGGCAATTACAAGAATA
1 AAAATGCTAA-GGCAATAACAAGAATA
23588051 A
1 A
23588052 TTACGCGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 12 0.50
26 10 0.42
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAATGCTAAGGCAATAACAAGAATA
Found at i:23612933 original size:24 final size:22
Alignment explanation
Indices: 23612889--23612937 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
23612879 CTTTTCCAAG
* **
23612889 AGGGAAATTGGAAAGGGAATGGA
1 AGGGAAAATGGAAAGCAAAT-GA
23612912 AGGGAAAAATGGAAAGCAAATGA
1 AGGG-AAAATGGAAAGCAAATGA
23612935 AGG
1 AGG
23612938 TTTGGAAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.39, T:0.10
Consensus pattern (22 bp):
AGGGAAAATGGAAAGCAAATGA
Found at i:23613373 original size:6 final size:6
Alignment explanation
Indices: 23613362--23613390 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23613352 AATAAATTGG
23613362 ATTAAA ATTAAA ATTAAA ATTAAA ATTAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAA
23613391 TTATATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:23617788 original size:18 final size:18
Alignment explanation
Indices: 23617765--23617827 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
23617755 TACTTTCATA
*
23617765 GGGTTCACATAAATACAT
1 GGGTTCACATAATTACAT
* *
23617783 GGGTTCACATACTTATAT
1 GGGTTCACATAATTACAT
* *
23617801 GGGTTCGCACAATTCACAT
1 GGGTTCACATAATT-ACAT
23617820 GGGTTCAC
1 GGGTTCAC
23617828 TAAGTAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 26 0.72
19 10 0.28
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (18 bp):
GGGTTCACATAATTACAT
Found at i:23617794 original size:37 final size:37
Alignment explanation
Indices: 23617743--23617827 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
23617733 ATCATACATG
** *
23617743 CATGGGTTTTCATACTT-TCATAGGGTTCACATAAAT-A
1 CATGGGTTCACATACTTAT-AT-GGGTTCACACAAATCA
* *
23617780 CATGGGTTCACATACTTATATGGGTTCGCACAATTCA
1 CATGGGTTCACATACTTATATGGGTTCACACAAATCA
23617817 CATGGGTTCAC
1 CATGGGTTCAC
23617828 TAAGTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 11 0.27
37 29 0.71
38 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (37 bp):
CATGGGTTCACATACTTATATGGGTTCACACAAATCA
Found at i:23620841 original size:23 final size:24
Alignment explanation
Indices: 23620815--23620861 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
23620805 AATTGTAGTT
23620815 TTGAAAAAAAAA-TCAAAAAAAAA
1 TTGAAAAAAAAATTCAAAAAAAAA
*
23620838 TTGAAAAAAAAATTGAAAAAAAAA
1 TTGAAAAAAAAATTCAAAAAAAAA
23620862 CAATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (24 bp):
TTGAAAAAAAAATTCAAAAAAAAA
Found at i:23620845 original size:13 final size:12
Alignment explanation
Indices: 23620815--23620861 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
23620805 AATTGTAGTT
23620815 TTGAAAAAAAAA
1 TTGAAAAAAAAA
*
23620827 -TCAAAAAAAAA
1 TTGAAAAAAAAA
23620838 TTGAAAAAAAAA
1 TTGAAAAAAAAA
23620850 TTGAAAAAAAAA
1 TTGAAAAAAAAA
23620862 CAATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (12 bp):
TTGAAAAAAAAA
Found at i:23623076 original size:18 final size:18
Alignment explanation
Indices: 23623043--23623088 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
23623033 AAATAAGAAA
23623043 ATAAAAAAA-AATGAGTG
1 ATAAAAAAAGAATGAGTG
23623060 ATAAAAAAAGAGA-GAGTG
1 ATAAAAAAAGA-ATGAGTG
*
23623078 A-AACAAAAGAA
1 ATAAAAAAAGAA
23623089 AAAAAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 17 0.65
18 7 0.27
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (18 bp):
ATAAAAAAAGAATGAGTG
Done.