Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001287.1 Hibiscus syriacus cultivar Beakdansim tig00002521_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: 66730
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Found at i:3672 original size:60 final size:60
Alignment explanation
Indices: 3564--3678 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
3554 TCCACGATAC
* * * * *
3564 CGACATTTAGTTCGAACAAGCTGGTAGTTGAGTGCATTCCCCTTGAACTTGAAGGCATCT
1 CGACATTGAGGTCGAACAAGCTCGTAGTTGAATGCACTCCCCTTGAACTTGAAGGCATCT
*
3624 CGACATTGAGGTCGAAGAAGCTCGTAGTTGAATGC-CTCCCCTTGGAACTTGAAGG
1 CGACATTGAGGTCGAACAAGCTCGTAGTTGAATGCACTCCCCTT-GAACTTGAAGG
3679 AATCGTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 7 0.15
60 41 0.85
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (60 bp):
CGACATTGAGGTCGAACAAGCTCGTAGTTGAATGCACTCCCCTTGAACTTGAAGGCATCT
Found at i:7327 original size:15 final size:15
Alignment explanation
Indices: 7307--7360 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
7297 TAGAGGAGAG
*
7307 AACAGGTGATATAGT
1 AACAGGTGAGATAGT
7322 AACAGGTGAGATAGT
1 AACAGGTGAGATAGT
7337 AACAGGTGAGATAGT
1 AACAGGTGAGATAGT
*
7352 AACGGGTGA
1 AACAGGTGA
7361 AGGGATGACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
AACAGGTGAGATAGT
Found at i:9075 original size:18 final size:18
Alignment explanation
Indices: 9052--9098 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
9042 AGAGAAACCT
*
9052 CTCTCTCCCTCTTCCTCC
1 CTCTCTCCCTCTCCCTCC
*
9070 CTCTCTCTCTCTCCCTCC
1 CTCTCTCCCTCTCCCTCC
*
9088 CTCCCTCCCTC
1 CTCTCTCCCTC
9099 ATGTTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (18 bp):
CTCTCTCCCTCTCCCTCC
Found at i:9078 original size:22 final size:22
Alignment explanation
Indices: 9050--9094 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
9040 AAAGAGAAAC
9050 CTCTCTCTCCCTCTTCCTCCCTCT
1 CTCTCTCTCCCTC--CCTCCCTCT
9074 CTCTCTCTCCCTCCCTCCCTC
1 CTCTCTCTCCCTCCCTCCCTC
9095 CCTCATGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (22 bp):
CTCTCTCTCCCTCCCTCCCTCT
Found at i:12018 original size:312 final size:312
Alignment explanation
Indices: 11423--12022 Score: 728
Period size: 312 Copynumber: 1.9 Consensus size: 312
11413 TCTTTTTCTT
* * ** * *
11423 AAGCTTCTTGGTAATTGGTTTTGTCACTGACTTATCCTTTCCTCCTTCAAGCACATTCAAGTTAG
1 AAGCTTCTTGCTAACTAATTTTGTCACCGACTTATCATTTCCTCCTTCAAGCACATTCAAGTTAG
* * * * *
11488 AAGGGTTATGGGAACCTTCATTTCCAGGCCTTCTTCATCAAGTGAAGGAACCTCAACATCTTGCT
66 AAGGGCTATGAGAACCTTCATTCCCAGGCCTTCTTCATCAAATGAAGGAACCTCAACAACTTGCT
* * * * **
11553 GCTTATTCTTCAGCTCATCGTGCTCTCCAACAACTTGTAGTTGTTCTAAGCCGTACTCTTTGATA
131 GCTTATTCTGCAGCTCACCGTGCTCTCCAACAACTTGTAGCTGTTCTAAGCCGTAATCTTCAATA
* * *
11618 TTTGATCTGCTTGCAGAGGAGCTCTCTCTTTAATCCCTTGAAGGACATTTGGGGTGATTTCTCAC
196 TTTGATCTGCTTGCAGAGGAGCGCTCTCTTTAATCCCGTGAAGGACATTTGGGGTGACTTCTCAC
** *
11683 AGGCATTCTCACTTTGCATATCTGGCTTGTTCACTTGTTTTGTCAGTTTTGC
261 AACCAATCTCACTTTGCATATCTGGCTTGTTCACTTGTTTTGTCAGTTTTGC
*
11735 AAGCTTCTTGCTAACTAATTTTGTCACCGACTTATCATTTCCTCCTTCAAGCAC-TTCCATGTTA
1 AAGCTTCTTGCTAACTAATTTTGTCACCGACTTATCATTTCCTCCTTCAAGCACATT-CAAGTTA
* ** **
11799 GAAGGGCTGTGAGAATTTTCATTCCGCA-GTTTTCTTTCATCAAATGAAGGAACCTCAACAACTT
65 GAAGGGCTATGAGAACCTTCATTCC-CAGGCCTTC-TTCATCAAATGAAGGAACCTCAACAACTT
** * ** *
11863 GCTGCTTATTCTGCAGCTCACC-TGGCTCTCCGCCTACTTGT-GCCTGTTCTTGGCTGTAATCTT
128 GCTGCTTATTCTGCAGCTCACCGT-GCTCTCCAACAACTTGTAG-CTGTTCTAAGCCGTAATCTT
* * * *
11926 CAATATTTGATCTGCTTGCAGGGGTGGGCTCTC-TTAATCCCGTGTAA-GACATTTGTGGTGACT
191 CAATATTTGATCTGCTTGCAGAGGAGCGCTCTCTTTAATCCCGTG-AAGGACATTTGGGGTGACT
*
11989 TCTCATAACCAATCTCA-TTTCGCATATCTGGCTT
255 TCTCACAACCAATCTCACTTT-GCATATCTGGCTT
12023 ACCTGCAAAG
Statistics
Matches: 241, Mismatches: 40, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
311 5 0.02
312 129 0.54
313 107 0.44
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (312 bp):
AAGCTTCTTGCTAACTAATTTTGTCACCGACTTATCATTTCCTCCTTCAAGCACATTCAAGTTAG
AAGGGCTATGAGAACCTTCATTCCCAGGCCTTCTTCATCAAATGAAGGAACCTCAACAACTTGCT
GCTTATTCTGCAGCTCACCGTGCTCTCCAACAACTTGTAGCTGTTCTAAGCCGTAATCTTCAATA
TTTGATCTGCTTGCAGAGGAGCGCTCTCTTTAATCCCGTGAAGGACATTTGGGGTGACTTCTCAC
AACCAATCTCACTTTGCATATCTGGCTTGTTCACTTGTTTTGTCAGTTTTGC
Found at i:14277 original size:129 final size:126
Alignment explanation
Indices: 13973--14322 Score: 418
Period size: 129 Copynumber: 2.7 Consensus size: 126
13963 CATCTTTAGG
* * * *
13973 AAGGGTGATAAC-TCAGTTTCTACGTGATGAGGACGACTGGTTATAT-GGGTTGACACAACTCCT
1 AAGGGTGATAACAT-AGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGAAACGACTCCT
* * * **
14036 ACATAATATGGAAATATGGTCGGGTGATGACACGGTTCCTACGTGATGAGGATGTAGGCCACTT
65 ACATAATA-GGAGATA-GGTCGGGTGATGACACGGTTCCTACGCGATGAGGATGCAGGAAACTT
** * * *
14100 AAGGGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTAGGGTTGAGACGGCTCCTA
1 AAGGGTGATAACATAGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGAAACGACTCCTA
* * *
14165 CGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTATGCGATGAGGACTGCAGGAAA-TCT
66 CATAAT-AGGAGAT-AGGTCGGGTGATGACACGGTTCCTACGCGATGAGGA-TGCAGGAAACT-T
*
14229 AAGGGTGATAACATAGTTCCTACGTGATGAGGATGACTGGTTATCTAGGGTTGAAACGACTCCTA
1 AAGGGTGATAACATAGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGAAACGACTCCTA
* *
14294 CATAACAAGGAGATTAGTTCGGGTGATGA
66 CATAA-TAGGAGA-TAGGTCGGGTGATGA
14323 ACTGCTCATA
Statistics
Matches: 189, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
127 40 0.21
128 58 0.31
129 90 0.48
130 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (126 bp):
AAGGGTGATAACATAGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGAAACGACTCCTA
CATAATAGGAGATAGGTCGGGTGATGACACGGTTCCTACGCGATGAGGATGCAGGAAACTT
Found at i:14501 original size:44 final size:43
Alignment explanation
Indices: 14314--14776 Score: 262
Period size: 44 Copynumber: 11.1 Consensus size: 43
14304 AGATTAGTTC
*
14314 GGGTGATGA-ACTGCTCATACTATGATAAGTCTTGGCCATCTAA
1 GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCT-A
* * * *
14357 TGGTGATAACACTGCTCACACTATGATGAA-TCTTGGTTATC-A
1 GGGTGATGACACTGCTCATACTATGAT-AAGTCTTGGTCATCTA
* * * ** * ** *
14399 -GGT--TGACACTGCTCCTAC-GTGATGAG--GAGATCAGGTT
1 GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCTA
*
14436 GAGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCTA
1 GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCTA
* * *
14479 CGGGTGATAACACTGCTCATACTATGATGAA-TCTTGGTTATCCA
1 -GGGTGATGACACTGCTCATACTATGAT-AAGTCTTGGTCATCTA
** *
14523 GGGT--TGACACAACTCCTAC-ATGATGAGGAGATC-TGG---TC--
1 GGGTGATGACACTGCTCATACTATGAT-A--AG-TCTTGGTCATCTA
* *
14561 GGGTGATGACACTGCTCATACGATGATAAGTCTTGGCCATCTA
1 GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCTA
* ** *
14604 TGGGTGATAACACTGCTCATACTATGATGAA-TCTTGGTTGTCCA
1 -GGGTGATGACACTGCTCATACTATGAT-AAGTCTTGGTCATCTA
* * ** * *
14648 GGGT--TGACAC-GACTCCTAC-GTGATAAG--GAGATC-TAGTA
1 GGGTGATGACACTG-CTCATACTATGATAAGTCTTGGTCAT-CTA
* *
14686 GGGTGATGACACTACTCATACTATGATAAGTCTTGGCCATCTAA
1 GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCT-A
* * *
14730 GGGTGATAACACTGCTCATACTATGATGAA-TCTTGGTTATCCA
1 GGGTGATGACACTGCTCATACTATGAT-AAGTCTTGGTCATCTA
14773 GGGT
1 GGGT
14777 TGACACGGCT
Statistics
Matches: 315, Mismatches: 66, Indels: 78
0.69 0.14 0.17
Matches are distributed among these distances:
36 3 0.01
37 4 0.01
38 22 0.07
39 14 0.04
40 53 0.17
41 45 0.14
42 2 0.01
43 31 0.10
44 133 0.42
45 8 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
GGGTGATGACACTGCTCATACTATGATAAGTCTTGGTCATCTA
Found at i:14594 original size:125 final size:125
Alignment explanation
Indices: 13891--14812 Score: 833
Period size: 125 Copynumber: 7.3 Consensus size: 125
13881 TCTAAGAGTA
*
13891 ACACAACTCCTACGTGATGAGGAGATCTGGTCAGGG-GATGACACTGCTCATACGTGATGA-AGA
1 ACACGACTCCTACGTGATGAGGAGATCTGGTC-GGGTGATGACACTGCTCATAC-T-ATGATA-A
* * * *
13954 GTTCTTGGCCATCTTTAGGAAGGGTGATAACTCAGTTTC-TACGTGATGAGGACGA-C-TGGTTA
62 G-TCTTGGCCATC--T---AAGGGTGATAACACTG-CTCATAC-T-ATGATGA--ATCTTGGTTA
14016 T--ATGGGTTG
116 TCCA-GGGTTG
* * * * * * * * * *
14025 ACACAACTCCTACATAAT-ATGGAAATATGGTCGGGTGATGACACGGTTCCTAC-GTGATGAGGA
1 ACACGACTCCTACGTGATGA-GGAGATCTGGTCGGGTGATGACACTGCTCATACTATGAT-AAG-
* * * * * * *
14088 TGTAGGCCA-CTTAAGGGTGATAACACGGTTCCTAC-ATGATGAGGA-CGACTGGTTATCTAGGG
63 TCTTGGCCATC-TAAGGGTGATAACACTGCTCATACTATGATGA--ATC--TTGGTTATCCAGGG
14150 TTG
123 TTG
* * * * * * ** * *
14153 AGACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTA-TGCGATGAGGAC
1 ACACGACTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACTATGAT-AAGTC
* ** * * * *
14217 TGCAGGAAATCTAAGGGTGATAACA-TAGTTCCTACGTGATGA-GGATGAC-TGGTTATCTAGGG
65 T--TGGCCATCTAAGGGTGATAACACT-GCTCATAC-T-ATGATGAAT--CTTGGTTATCCAGGG
14279 TTG
123 TTG
* * * ** *
14282 AAACGACTCCTACATAACAAGGAGAT-TAGTTCGGGTGATGA-ACTGCTCATACTATGATAAGTC
1 ACACGACTCCTACGTGATGAGGAGATCT-GGTCGGGTGATGACACTGCTCATACTATGATAAGTC
* *
14345 TTGGCCATCTAATGGTGATAACACTGCTCACACTATGATGAATCTTGGTTAT-CA-GGTTG
65 TTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
* * *
14404 ACACTG-CTCCTACGTGATGAGGAGATCAGGTTGAGTGATGACACTGCTCATACTATGATAAGTC
1 ACAC-GACTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACTATGATAAGTC
* *
14468 TTGGTCATCTACGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
65 TTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
* * *
14529 ACACAACTCCTACATGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACGATGATAAGTCT
1 ACACGACTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACTATGATAAGTCT
* *
14594 TGGCCATCTATGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTGTCCAGGGTTG
66 TGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
* * * *
14654 ACACGACTCCTACGTGATAAGGAGATCTAGTAGGGTGATGACACTACTCATACTATGATAAGTCT
1 ACACGACTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACTATGATAAGTCT
14719 TGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
66 TGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
*
14779 ACACGGCTCCTACGTGATGAGGAGATCTGGTCGG
1 ACACGACTCCTACGTGATGAGGAGATCTGGTCGG
14813 AGAATTTTGG
Statistics
Matches: 665, Mismatches: 90, Indels: 75
0.80 0.11 0.09
Matches are distributed among these distances:
122 34 0.05
123 73 0.11
124 22 0.03
125 270 0.41
126 26 0.04
127 26 0.04
128 67 0.10
129 81 0.12
130 3 0.00
131 5 0.01
132 13 0.02
133 5 0.01
134 40 0.06
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (125 bp):
ACACGACTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACTGCTCATACTATGATAAGTCT
TGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCAGGGTTG
Found at i:15128 original size:32 final size:32
Alignment explanation
Indices: 15074--15162 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
15064 TCCGCATCAG
* * *
15074 GATGTTAAATCCCCGAAGATGCCCCAATATTC
1 GATGTTGAATCTCCAAAGATGCCCCAATATTC
* *
15106 GATGTTGAATCTCCAAATATGCCCCAATATTT
1 GATGTTGAATCTCCAAAGATGCCCCAATATTC
* **
15138 GCTGTTGAATCTTTAAAGATGCCCC
1 GATGTTGAATCTCCAAAGATGCCCC
15163 TATTGTTCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAATATTC
Found at i:22316 original size:20 final size:20
Alignment explanation
Indices: 22293--22335 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22283 AATCCACCAC
*
22293 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
22313 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
22333 ATG
1 ATG
22336 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:31249 original size:27 final size:25
Alignment explanation
Indices: 31210--31259 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
31200 GAAAATGTTT
31210 AAAAATGAAATGCAGATGCAAAATG
1 AAAAATGAAATGCAGATGCAAAATG
*
31235 AAAAGATGCAAATGCATATGCAAAA
1 AAAA-ATG-AAATGCAGATGCAAAA
31260 ATATTAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 3 0.14
27 15 0.68
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.16
Consensus pattern (25 bp):
AAAAATGAAATGCAGATGCAAAATG
Found at i:33029 original size:76 final size:76
Alignment explanation
Indices: 32919--33124 Score: 292
Period size: 76 Copynumber: 2.7 Consensus size: 76
32909 CGTTGTACAA
* *
32919 GGGGGAATCGGTACCCCCT-TGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
** *
32982 AAACTGTTTAG
66 AAACCATTCAG
* * * *
32993 GGGGGAATCAGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
33058 AAACCATTCAG
66 AAACCATTCAG
*
33069 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
33125 TTTGACTTTG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
74 16 0.14
75 7 0.06
76 93 0.80
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
AAACCATTCAG
Found at i:33751 original size:17 final size:17
Alignment explanation
Indices: 33729--33772 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
33719 TTCATAAATC
33729 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
33746 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
33763 -AAATATCCAA
1 CAAA-ATCCAA
33773 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:33764 original size:9 final size:8
Alignment explanation
Indices: 33724--33774 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
33714 CACCATTCAT
33724 AAATCC-A
1 AAATCCAA
33731 AAATCCAA
1 AAATCCAA
*
33739 CAATCCACA
1 AAATCCA-A
33748 AAAT-CAA
1 AAATCCAA
33755 ACAATCCAA
1 A-AATCCAA
33764 AATATCCAA
1 AA-ATCCAA
33773 AA
1 AA
33775 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:35760 original size:21 final size:21
Alignment explanation
Indices: 35734--35773 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35724 CAGAACCCCA
*
35734 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
35755 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
35774 TAAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:35808 original size:20 final size:20
Alignment explanation
Indices: 35732--35816 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
35722 AACAGAACCC
*
35732 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGAATCGATT-CCCT
** *
35753 GTGGGGGGAATCGGTTCCCCTT
1 CAGGGGGGAATCGATT-CCC-T
* * *
35775 AAAAGGGGGAATCGGTTCCCT
1 -CAGGGGGGAATCGATTCCCT
*
35796 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
35816 C
1 C
35817 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
20 17 0.33
21 17 0.33
22 4 0.08
23 13 0.25
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.22
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:41703 original size:75 final size:75
Alignment explanation
Indices: 41576--41783 Score: 276
Period size: 75 Copynumber: 2.8 Consensus size: 75
41566 CCGTTGTACA
* * *
41576 AGGGGGAATCGGTACC-CC-ATTGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGAATCGGTTCCTCCTA-TGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
** *
41639 AAAAACTGTTT
65 AAAAACCATTC
* *
41650 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAGA
*
41715 CAAACCATTC
66 AAAACCATTC
* *
41725 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAATT
1 A-GGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
41784 TTTGACTTTG
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
74 15 0.13
75 49 0.42
76 22 0.19
77 32 0.27
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (75 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAGA
AAAACCATTC
Found at i:43005 original size:21 final size:21
Alignment explanation
Indices: 42980--43020 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42970 AAGTTAAAAA
42980 AAACTAAAACAACAAAAATAG
1 AAACTAAAACAACAAAAATAG
* **
43001 AAACTTAAAGGACAAAAATA
1 AAACTAAAACAACAAAAATA
43021 TAAAAAACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.12, G:0.07, T:0.12
Consensus pattern (21 bp):
AAACTAAAACAACAAAAATAG
Found at i:44002 original size:3 final size:3
Alignment explanation
Indices: 43950--43989 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
43940 GTAGTGTTAG
*
43950 ATA ATA ATTA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43990 GTATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:45999 original size:12 final size:11
Alignment explanation
Indices: 45976--46023 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 11
45966 TTAGTCCCTA
*
45976 AAAATAAAAAT
1 AAAATAATAAT
45987 AAAATTAATAAT
1 AAAA-TAATAAT
45999 AAAATAATATAT
1 AAAATAATA-AT
46011 AAAATAATAAT
1 AAAATAATAAT
46022 AA
1 AA
46024 GCTTAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
11 13 0.38
12 21 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:46035 original size:24 final size:24
Alignment explanation
Indices: 45976--46023 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
45966 TTAGTCCCTA
*
45976 AAAATAA-AAATAAAATTAATAAT
1 AAAATAATATATAAAATTAATAAT
45999 AAAATAATATATAAAA-TAATAAT
1 AAAATAATATATAAAATTAATAAT
46022 AA
1 AA
46024 GCTTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATAATATATAAAATTAATAAT
Found at i:46163 original size:13 final size:14
Alignment explanation
Indices: 46147--46177 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
46137 TATAAATACG
46147 TTTTCAAAA-TATA
1 TTTTCAAAATTATA
46160 TTTTCAAAATTATA
1 TTTTCAAAATTATA
46174 TTTT
1 TTTT
46178 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTCAAAATTATA
Found at i:46232 original size:34 final size:33
Alignment explanation
Indices: 46160--46345 Score: 178
Period size: 37 Copynumber: 5.4 Consensus size: 33
46150 TCAAAATATA
* * * *
46160 TTTTCAAAATTATATTTTATATATATATATATATG
1 TTTTCAAAAATAT-TTTTA-AAACATATATATACG
*
46195 TTTTTTCAAAAATGTTTTTAAAAC-TATATATACG
1 --TTTTCAAAAATATTTTTAAAACATATATATACG
* *
46229 TTTTCAAAAATATATTCAAAACATATATTATACG
1 TTTTCAAAAATATTTTTAAAACATATA-TATACG
*
46263 TTTT-AAAAATGTTTTTAAAACCATATATTATACG
1 TTTTCAAAAATATTTTTAAAA-CATATA-TATACG
*
46297 TTTTCAAAACTATTTTTAAAAAACTATATATTATACG
1 TTTTCAAAAATATTTTT--AAAAC-ATATA-TATACG
46334 TTTTCAAAAATA
1 TTTTCAAAAATA
46346 AGTTTCCAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
32 19 0.15
33 17 0.13
34 36 0.28
35 12 0.09
36 6 0.05
37 38 0.30
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (33 bp):
TTTTCAAAAATATTTTTAAAACATATATATACG
Found at i:46329 original size:37 final size:36
Alignment explanation
Indices: 46197--46369 Score: 191
Period size: 34 Copynumber: 4.9 Consensus size: 36
46187 TATATATGTT
*
46197 TTTTCAAAAATGTTTTT-AAAAC--TATA-TATACG
1 TTTTCAAAAATATTTTTAAAAACTATATATTATACG
* *
46229 TTTTCAAAAATA-TATTCAAAAC-ATATATTATACG
1 TTTTCAAAAATATTTTTAAAAACTATATATTATACG
* *
46263 TTTT-AAAAATGTTTTT-AAAACCATATATTATACG
1 TTTTCAAAAATATTTTTAAAAACTATATATTATACG
*
46297 TTTTCAAAACTATTTTTAAAAAACTATATATTATACG
1 TTTTCAAAAATATTTTT-AAAAACTATATATTATACG
**
46334 TTTTCAAAAATAAGTTTCCAAAAACTATATATTATA
1 TTTTCAAAAAT-A-TTTTTAAAAACTATATATTATA
46370 TATTTTTAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
31 3 0.02
32 16 0.13
33 15 0.12
34 29 0.24
35 10 0.08
37 27 0.22
38 18 0.15
39 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (36 bp):
TTTTCAAAAATATTTTTAAAAACTATATATTATACG
Found at i:48143 original size:13 final size:15
Alignment explanation
Indices: 48111--48148 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
48101 TTGGACCCAC
*
48111 CTTATTTTTTTTGTT
1 CTTATTTTTCTTGTT
48126 CTTATTTTTCTT-TT
1 CTTATTTTTCTTGTT
48140 -TTATTTTTC
1 CTTATTTTTC
48149 AATTTAGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (15 bp):
CTTATTTTTCTTGTT
Found at i:48197 original size:47 final size:48
Alignment explanation
Indices: 48135--48228 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 48
48125 TCTTATTTTT
* * * * *
48135 CTTTTTTATTTTTCAATTTAGAGCGCCCTTTCGGGTTTTCACTCTAAA
1 CTTTTTTATTATTCAACTTAGAGCGCCCATTCGAGTTTTCACCCTAAA
* *
48183 CTTTTTTA-TATTCAACTTAGGGTGCCCATTCGAGTTTTCACCCTAA
1 CTTTTTTATTATTCAACTTAGAGCGCCCATTCGAGTTTTCACCCTAA
48229 GCAAAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 31 0.79
48 8 0.21
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (48 bp):
CTTTTTTATTATTCAACTTAGAGCGCCCATTCGAGTTTTCACCCTAAA
Found at i:58538 original size:23 final size:24
Alignment explanation
Indices: 58510--58557 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
58500 CCTAAAAATA
*
58510 AAAATAAAAATAA-TTTAATATAT
1 AAAATAAAAATAAGCTTAATATAT
*
58533 AAAATAATAATAAGCTTAATATAT
1 AAAATAAAAATAAGCTTAATATAT
58557 A
1 A
58558 TATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATAAAAATAAGCTTAATATAT
Found at i:58808 original size:38 final size:38
Alignment explanation
Indices: 58684--58877 Score: 146
Period size: 38 Copynumber: 5.4 Consensus size: 38
58674 TCAAAATATC
* *
58684 TTTCAAAACTATA--TTAAAAAA-CATAAATTATACAT
1 TTTCAAAAATATATTTTAAAAAACCATATATTATACAT
* * *
58719 TTTGAAAAA-A-AATTT--AAAACCATATATTATACGT
1 TTTCAAAAATATATTTTAAAAAACCATATATTATACAT
* **
58753 TTTC---AAT-T-TTTTTAAAAACCATATATTATATGT
1 TTTCAAAAATATATTTTAAAAAACCATATATTATACAT
* *
58786 TTTCAAAACTATATTTTAAAAAACTATATATTATACAT
1 TTTCAAAAATATATTTTAAAAAACCATATATTATACAT
** *
58824 TTTCAAAAATA-AGTTTCCAAAAACTC-TATATTATATAT
1 TTTCAAAAATATA-TTTTAAAAAAC-CATATATTATACAT
*
58862 TTTTAAAAATATATTT
1 TTTCAAAAATATATTT
58878 GAAATTATTA
Statistics
Matches: 126, Mismatches: 18, Indels: 27
0.74 0.11 0.16
Matches are distributed among these distances:
31 5 0.04
33 27 0.21
34 16 0.13
35 9 0.07
36 2 0.02
37 2 0.02
38 64 0.51
39 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (38 bp):
TTTCAAAAATATATTTTAAAAAACCATATATTATACAT
Found at i:59624 original size:13 final size:13
Alignment explanation
Indices: 59579--59641 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
59569 TTAGATGGTA
59579 AATAA-AAAAAAT
1 AATAATAAAAAAT
59591 -ATCAACTAAAAAAT
1 AAT-AA-TAAAAAAT
*
59605 -A-AATAAATAAT
1 AATAATAAAAAAT
59616 AATAATAAAAAAT
1 AATAATAAAAAAT
*
59629 AAAAAATAAAAAA
1 -AATAATAAAAAA
59642 GGATGTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 9 0.21
12 5 0.12
13 9 0.21
14 19 0.45
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAATAAAAAAT
Found at i:59635 original size:23 final size:24
Alignment explanation
Indices: 59578--59637 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
59568 GTTAGATGGT
59578 AAATAAAAAA-AATATCAACTAAA
1 AAATAAAAAATAATATCAACTAAA
59601 AAATAAATAAATAATAAT-AA-TAAA
1 AAATAAA-AAATAAT-ATCAACTAAA
59625 AAATAAAAAATAA
1 AAATAAAAAATAA
59638 AAAAGGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 13 0.38
24 14 0.41
25 5 0.15
26 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (24 bp):
AAATAAAAAATAATATCAACTAAA
Found at i:59661 original size:7 final size:7
Alignment explanation
Indices: 59597--59641 Score: 63
Period size: 7 Copynumber: 6.0 Consensus size: 7
59587 AAATATCAAC
59597 TAAAAAA
1 TAAAAAA
59604 TAAATAAA
1 TAAA-AAA
59612 TAATAATAA
1 TAA-AA-AA
59621 TAAAAAA
1 TAAAAAA
59628 TAAAAAA
1 TAAAAAA
59635 TAAAAAA
1 TAAAAAA
59642 GGATGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 20 0.57
8 9 0.26
9 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:61274 original size:86 final size:87
Alignment explanation
Indices: 61071--61275 Score: 242
Period size: 85 Copynumber: 2.4 Consensus size: 87
61061 CACTGTTATC
* * * * * *
61071 GAGCTGAATGAAATCAAACTCGTTA-GT-TTTT-GTTGACAGATAGCCCTTCTCGCCTTGAGTTA
1 GAGCTGAATGTAATCGAACTCG-AAGGTCTTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTA
* *
61133 TGCTGTAAATTCGATTTGCCTCT
65 TGCTGCAAATTCGATGTGCCTCT
* *
61156 GAGTTGAATGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTAT
*
61220 GCTGCAAA-T-GATGGTGCCTTT
66 GCTGCAAATTCGAT-GTGCCTCT
*
61241 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGGT
61276 AAGTGGCCTC
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
84 4 0.04
85 57 0.56
86 41 0.40
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (87 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATTCGATGTGCCTCT
Found at i:61926 original size:106 final size:106
Alignment explanation
Indices: 61741--62401 Score: 893
Period size: 106 Copynumber: 6.5 Consensus size: 106
61731 TATTGTTCCA
* * * * * *
61741 AGTCCAATATCCTCCACCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * * * *
61806 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
61847 AGTCCAATATCCTTCGCTGTGAAGTTGCAATTGGCTCTGAGATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
61912 CAGCAGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
61953 AGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTAACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* **
62006 CAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
62047 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
62112 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
62153 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAAAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
62218 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
62259 AGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
62312 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
62353 AGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
62402 GCCCCTTCTT
Statistics
Matches: 498, Mismatches: 33, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
94 157 0.32
95 4 0.01
96 4 0.01
99 6 0.01
100 8 0.02
101 6 0.01
104 4 0.01
105 4 0.01
106 305 0.61
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:62134 original size:200 final size:198
Alignment explanation
Indices: 61784--62386 Score: 805
Period size: 200 Copynumber: 3.0 Consensus size: 198
61774 GCTCTGGAAC
* * * * * *
61784 TGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCGAG
1 TGGGAAATTGTTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAG
*
61849 TCCAATATCCTTCGCTGTGAAGTTGCAATTGGCTCTGAGATTGGGAAATTGTTTATTGACAACCA
66 TCCAATATCCTTCG-TGTGAAGTTG-AATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
* *
61914 GCAGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
129 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
61979 GAAAT
194 GAAAT
* *
61984 TGGGAAATTGTTTATTAACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTGTCTGGAG
1 TGGGAAATTGTTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAG
* *
62049 TCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAACCA
66 TCCAATATCCTTCG-TGTGAAGTTG-AATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
62114 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
129 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-T-T---G-T
62179 GAAATTGGCTCTGAAAT
188 G-AA---G-T-TGAAAT
**
62196 TGGGAAATTGTTTATTGAA-AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGA
1 TGGGAAATTGTTTATT-AACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
62260 GTCCAATATCCTTCGT-T---G-TGAA---G-T-TGAAATTGGGAAATTGTTTATTGACAACCAG
65 GTCCAATATCCTTCGTGTGAAGTTGAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
* * * *
62315 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCCCTCGCTGTGAAGTTG
130 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
62380 AAAT
195 AAAT
62384 TGG
1 TGG
62387 CTCTGAATTT
Statistics
Matches: 365, Mismatches: 25, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
188 9 0.02
189 1 0.00
190 1 0.00
193 2 0.01
194 2 0.01
195 1 0.00
198 1 0.00
200 251 0.69
201 2 0.01
202 2 0.01
205 3 0.01
206 4 0.01
207 3 0.01
210 2 0.01
211 2 0.01
212 77 0.21
213 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (198 bp):
TGGGAAATTGTTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAG
TCCAATATCCTTCGTGTGAAGTTGAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
AAT
Found at i:62294 original size:306 final size:306
Alignment explanation
Indices: 61741--62401 Score: 1072
Period size: 306 Copynumber: 2.2 Consensus size: 306
61731 TATTGTTCCA
* * * * * *
61741 AGTCCAATATC-CTCCACCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCACT-CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAA
* *
61805 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCGAGTCCAATATCCTTCGCTGTGAA
65 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTCGAGTCCAATATCCTTCGCTGTGAA
* * * *
61870 GTTGCAATTGGCTCTGAGATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTTGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAAAACCAGCAGTCCCTTCGTCGTGAAGT
*
61935 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATT
195 TGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATT
*
62000 AACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTGTCTGG
260 AACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTATCTGG
* *
62047 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAAC
1 AGTCCAATATCACTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAAC
* * * *
62112 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTCGAGTCCAATATCCTTCGCTGTGAAG
*
62177 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAAAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAAAACCAGCAGTCCCTTCGTCGTGAAGTT
*
62242 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTG
196 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTA
* *
62307 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGG
261 ACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTATCTGG
* *
62353 AGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAA
1 AGTCCAATATCACTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
62402 GCCCCTTCTT
Statistics
Matches: 326, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
306 325 1.00
307 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (306 bp):
AGTCCAATATCACTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTCGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAAAACCAGCAGTCCCTTCGTCGTGAAGTT
GAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTA
ACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTATGTTATCTGG
Done.