Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007327.1 Hibiscus syriacus cultivar Beakdansim tig00019578_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: 101844
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:4409 original size:22 final size:21
Alignment explanation
Indices: 4363--4410 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4353 TTGCTACTAT
* *
4363 TTTTGGAAAGTTATTTGTTGT
1 TTTTGGAAACTTATTTGTTGC
4384 TTTTGG-AACTTATTTAGGTTGC
1 TTTTGGAAACTTATTT--GTTGC
4406 TTTTG
1 TTTTG
4411 ATCAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 6 0.26
22 9 0.39
ACGTcount: A:0.17, C:0.04, G:0.23, T:0.56
Consensus pattern (21 bp):
TTTTGGAAACTTATTTGTTGC
Found at i:5214 original size:43 final size:43
Alignment explanation
Indices: 5151--5232 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
5141 TTGTAATTGT
*
5151 AAGAGATACAAGGTTAGGTTGGTATGTTGAGCTTTGCTCTGAG
1 AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTCTGAG
* *
5194 AAGATATACGAGGTAAGGTTGGTATGTTGAGCTTTGCTC
1 AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTC
5233 CAAAATGTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.32, T:0.33
Consensus pattern (43 bp):
AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTCTGAG
Found at i:6258 original size:20 final size:21
Alignment explanation
Indices: 6233--6281 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
6223 AAAATGATTG
6233 ATCCCTTGAAG-AAAGGATCA
1 ATCCCTTGAAGCAAAGGATCA
* *
6253 ATCCCTTCAAGCAAAGGATCG
1 ATCCCTTGAAGCAAAGGATCA
6274 ATCCCTTG
1 ATCCCTTG
6282 CCCCAAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCCCTTGAAGCAAAGGATCA
Found at i:6973 original size:89 final size:90
Alignment explanation
Indices: 6821--6996 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 90
6811 CTAACACACC
* *
6821 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTATA
* *
6886 TTTAATTAATTTAAATTTAATAATT
66 TTTAATTAATTAAAATTAAATAATT
*
6911 CTTTTATATCC-AGATTA-CCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CTTTTATAGCCAAG-TTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTAT
6974 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
6997 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 67 0.84
90 13 0.16
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (90 bp):
CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAAAATTAAATAATT
Found at i:7773 original size:20 final size:21
Alignment explanation
Indices: 7747--7806 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
7737 GTTTTTCAGC
7747 AAAAGGATTGATCCCTTGAAG
1 AAAAGGATTGATCCCTTGAAG
** *
7768 -AAAGGATCAATCCCTTCAAG
1 AAAAGGATTGATCCCTTGAAG
7788 AAAAGGATTGATCCCTTGA
1 AAAAGGATTGATCCCTTGA
7807 CCCAAGGGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (21 bp):
AAAAGGATTGATCCCTTGAAG
Found at i:8500 original size:90 final size:90
Alignment explanation
Indices: 8347--8512 Score: 298
Period size: 90 Copynumber: 1.8 Consensus size: 90
8337 CTAACACACC
*
8347 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
8412 TTTAATTAATTGGAATTTAATAATT
66 TTTAATTAATTGGAATTTAATAATT
*
8437 CTTTTATATCC-AGATTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CTTTTATAGCCAAG-TTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
8501 ATTTAATTAATT
65 ATTTAATTAATT
8513 AAAATTAAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
89 2 0.03
90 71 0.97
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (90 bp):
CTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGGAATTTAATAATT
Found at i:10195 original size:22 final size:22
Alignment explanation
Indices: 10167--10234 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
10157 TGGTATGTGA
*
10167 AATATGTCCCGAAGGAACTATG
1 AATATGTCCCGAAGGACCTATG
10189 AATATGTCCCGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
*
10211 AATATGTCCTGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
10233 AA
1 AA
10235 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (22 bp):
AATATGTCCCGAAGGACCTATG
Found at i:13518 original size:84 final size:84
Alignment explanation
Indices: 13209--13524 Score: 361
Period size: 84 Copynumber: 3.8 Consensus size: 84
13199 ATGTGTAGTC
* * * * * * * *
13209 GAGCTGAATGGAATCGAACTCGATA-GT-TTTTATTGACATATAGCCATTCTTGCCTTGAGCTAA
1 GAGCTGAGTGTAATCGAACTCGA-AGGTCTTTTGTTGGCAGATAGCCCTTCTTACCTTGAGCTAT
* * *
13272 GTTGTAAATGATGTGCCTTT
65 GCTGCAAATGATTTGCCTTT
* * * * * *
13292 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTTGGCAGATAGTCCTTCTCACCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTACCTTGAGCTATG
13357 CTGCAAATGATGTT-CCTTT
66 CTGCAAATGAT-TTGCCTTT
* * *
13376 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC-TAGTCTTGAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTA-CCTTGAGCTAT
*
13440 GCTGCAAATGATTTGCCTTG
65 GCTGCAAATGATTTGCCTTT
* * *
13460 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTACCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTACCTTGAGCTATG
13525 TTGATGAACA
Statistics
Matches: 196, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
82 1 0.01
83 25 0.13
84 167 0.85
85 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTACCTTGAGCTATG
CTGCAAATGATTTGCCTTT
Found at i:13762 original size:124 final size:124
Alignment explanation
Indices: 13588--13986 Score: 618
Period size: 124 Copynumber: 3.2 Consensus size: 124
13578 GCTTGTGGGT
* *
13588 ACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCTTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
* * * * *
13653 TTGGATCTCTTTTGTCGTGAAGTTGAAATCCAATCGAAAGATGAATGTTACTGGTGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* * * *
13712 ACGATTCCCTTCGTCATGAAATTAAAACCGTGGATGGCCCCTCCATTGTGAAGTTGAGCCTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
* * * *
13777 TTGGATATCCTTCGTCATGAAGTTAAAATCCAATCTAAATATGAATGTTACCGATGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* * *
13836 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGTCCCTCTGTTGTAAAGTTGAGCCTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
13901 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* *
13960 ACGATTCCCTTCGTCGTGAAGTTGAAA
1 ACGATTCCCTTCATCATGAAGTTGAAA
13987 TCTACTCTCA
Statistics
Matches: 247, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 247 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (124 bp):
ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
Found at i:14819 original size:7 final size:7
Alignment explanation
Indices: 14797--14835 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
14787 ACCCACCTTA
14797 TTTTTTC
1 TTTTTTC
*
14804 -TTATTC
1 TTTTTTC
14810 TTTTTTC
1 TTTTTTC
14817 TTTTTTC
1 TTTTTTC
14824 -TTTTTC
1 TTTTTTC
14830 TTTTTT
1 TTTTTT
14836 TCAATTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:14822 original size:20 final size:20
Alignment explanation
Indices: 14797--14835 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14787 ACCCACCTTA
14797 TTTTTTCTTATTCTTTTTTC
1 TTTTTTCTTATTCTTTTTTC
*
14817 TTTTTTCTTTTTCTTTTTT
1 TTTTTTCTTATTCTTTTTT
14836 TCAATTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTCTTATTCTTTTTTC
Found at i:14833 original size:13 final size:12
Alignment explanation
Indices: 14797--14836 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
14787 ACCCACCTTA
*
14797 TTTTTTCTTATTC
1 TTTTTTCTT-TTT
14810 TTTTTTCTTTTT
1 TTTTTTCTTTTT
14822 TCTTTTTCTTTTT
1 T-TTTTTCTTTTT
14835 TT
1 TT
14837 CAATTTAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:22808 original size:17 final size:19
Alignment explanation
Indices: 22777--22814 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
22767 ATATGAATGT
22777 AAAAACATGGAAAATATAA
1 AAAAACATGGAAAATATAA
22796 AAAAACAT-G-AAATATAA
1 AAAAACATGGAAAATATAA
22813 AA
1 AA
22815 TGCAAGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAAACATGGAAAATATAA
Found at i:29623 original size:3 final size:3
Alignment explanation
Indices: 29615--29667 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
29605 ATGTAAATTA
* *
29615 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAC GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29661 AAT AAT A
1 AAT AAT A
29668 TACAAAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29920 original size:40 final size:41
Alignment explanation
Indices: 29861--30363 Score: 324
Period size: 40 Copynumber: 11.7 Consensus size: 41
29851 GGGTCGTCTA
* * *
29861 AGGG-TGACATGGTTCCTACGTGATGAGGAAATCTGG-TCG
1 AGGGATGACACGGTTCCTACGTGATGAGGAGATCTGGATCT
*
29900 AGGGTTGACACGGTTCCTACGTGATGAGGACGA-CTGGCCATCTTT
1 AGGGATGACACGGTTCCTACGTGATGAGGA-GATCTGG--ATC--T
* * *
29945 AGGTGATAACACAGTTCCTACGTGATGAGGACGGT-TGGTTATCT
1 AGG-GATGACACGGTTCCTACGTGATGAGGA-GATCTGG--ATCT
* * * *
29989 AGGGGTGACACGGCTCCTACGTGATGAAGAGATCTGG-TCG
1 AGGGATGACACGGTTCCTACGTGATGAGGAGATCTGGATCT
* *
30029 AGGGATGGCACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTTT
1 AGGGATGACACGGTTCCTACGTGATGAGGA-GATCTGG--ATC--T
* * *
30074 AGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCT
1 AGG-GATGACACGGTTCCTACGTGATGAGGAGATCTGG--ATCT
* * *
30118 ATGGG-TGACACGGCTCCTACGTGATGAAGAGATCTGG-TCG
1 A-GGGATGACACGGTTCCTACGTGATGAGGAGATCTGGATCT
* * * *
30158 AGGGATGGCACGGTTCTTACGTGATGAAGAGTTCTGGCCATCT
1 AGGGATGACACGGTTCCTACGTGATGAGGAGATCTGG--ATCT
* * * *
30201 AAAGGTGATAACACGGTTTCTACGTGATGAGGACAGCTGGTTATCT
1 --AGG-GATGACACGGTTCCTACGTGATGAGGAGATCTGG--ATCT
* * * *
30247 ATAGG-TGACACGGCTCCTACGTGATGAAGAGATCTGG-TCG
1 A-GGGATGACACGGTTCCTACGTGATGAGGAGATCTGGATCT
* * * *
30287 AGGGATGGCACGGTTCTTACGTGATGAAGAGTTCTGGCCATCT
1 AGGGATGACACGGTTCCTACGTGATGAGGAGATCTGG--ATCT
*
30330 AAAGGTGATAACACGGTTTCCTACGTGATGAGGA
1 --AGG-GATGACACGG-TTCCTACGTGATGAGGA
30364 CGGCTGGTTA
Statistics
Matches: 363, Mismatches: 66, Indels: 62
0.74 0.13 0.13
Matches are distributed among these distances:
39 9 0.02
40 122 0.34
41 2 0.01
42 2 0.01
43 86 0.24
44 9 0.02
45 15 0.04
46 103 0.28
47 15 0.04
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (41 bp):
AGGGATGACACGGTTCCTACGTGATGAGGAGATCTGGATCT
Found at i:29996 original size:46 final size:46
Alignment explanation
Indices: 29907--30370 Score: 263
Period size: 46 Copynumber: 10.7 Consensus size: 46
29897 TCGAGGGTTG
* *
29907 ACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
* * ** * *
29953 ACACAGTTCCTACGTGATGAGGACGGTTGGTTATC--TAGG-GGTG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
* * * * *
29996 ACACGGCTCCTACGTGATGAAGA-GATCTGG---TC--GAGG-GATG
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTATAGGTGATA
* *
30036 GCACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
* ** *
30082 ACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTAT-GG-G-TG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
* * * * *
30125 ACACGGCTCCTACGTGATGAAGA-GATCTGG---TC--GAGG-GATG
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTATAGGTGATA
* * * * *
30165 GCACGGTTCTTACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTATAGGTGATA
* * **
30211 ACACGGTTTCTACGTGATGAGGACAGCTGGTTATCTATAGGTG---
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
* * * * *
30254 ACACGGCTCCTACGTGATGAAGA-GATCTGG---TC--GAGG-GATG
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTATAGGTGATA
* * * * *
30294 GCACGGTTCTTACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTATAGGTGATA
30340 ACACGGTTTCCTACGTGATGAGGACGGCTGG
1 ACACGG-TTCCTACGTGATGAGGACGGCTGG
30371 TTATCTCTAG
Statistics
Matches: 326, Mismatches: 62, Indels: 59
0.73 0.14 0.13
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 3 0.01
40 90 0.28
41 1 0.00
42 1 0.00
43 81 0.25
44 5 0.02
45 11 0.03
46 110 0.34
47 19 0.06
48 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (46 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTATAGGTGATA
Found at i:30061 original size:83 final size:84
Alignment explanation
Indices: 29861--30313 Score: 311
Period size: 89 Copynumber: 5.3 Consensus size: 84
29851 GGGTCGTCTA
* *** * * *
29861 AGGG-TGACATGGTTCCTACGTGATGAGGAAATCTGG---TCGAGGGTTGACACGGTTCCTACGT
1 AGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGATGACACGGCTCCTACGT
* *
29922 GATGAGGACGA-CTGGCCATCTTT
66 GATGAAGA-GATCTGG--ATC--G
* * * *
29945 AGGTGATAACACAGTTCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTGACACGGCTCCTACG
1 AGG-GATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGATGACACGGCTCCTACG
30010 TGATGAAGAGATCTGG-TCG
65 TGATGAAGAGATCTGGATCG
* ** * *
30029 AGGGATGGCACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTA
1 AGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATC--TAGG-GATGACACGGCTCCTA
* * * *
30094 CGTGATGAGGACAGCTGGTTATCT
63 CGTGATGAAGAGATCTGG--ATCG
* * * * * * *
30118 ATGGG-TGACACGGCTCCTACGTGATGAAGA-GATCTGG---TCGAGGGATGGCACGGTTCTTAC
1 A-GGGATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAGGGATGACACGGCTCCTAC
* *
30178 GTGATGAAGAGTTCTGGCCATCTAA
64 GTGATGAAGAGATCTGG--ATC--G
* * * *
30203 AGGTGATAACACGGTTTCTACGTGATGAGGACAGCTGGTTATCTATAGG-TGACACGGCTCCTAC
1 AGG-GATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTA-GGGATGACACGGCTCCTAC
30267 GTGATGAAGAGATCTGG-TCG
64 GTGATGAAGAGATCTGGATCG
* *
30287 AGGGATGGCACGGTTCTTACGTGATGA
1 AGGGATGACACGGTTCCTACGTGATGA
30314 AGAGTTCTGG
Statistics
Matches: 289, Mismatches: 57, Indels: 47
0.74 0.15 0.12
Matches are distributed among these distances:
83 83 0.29
84 14 0.05
85 7 0.02
86 84 0.29
88 3 0.01
89 93 0.32
90 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (84 bp):
AGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGATGACACGGCTCCTACGT
GATGAAGAGATCTGGATCG
Found at i:30066 original size:129 final size:129
Alignment explanation
Indices: 29857--30376 Score: 783
Period size: 129 Copynumber: 4.0 Consensus size: 129
29847 GTTCGGGTCG
* * * * * * *
29857 TCTAAGGGTGACATGGTTCCTACGTGATGAGGAAATCTGGTCGAGGGTTGACACGGTTCCTACGT
1 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
* * ** * * *
29922 GATGAGGACG-ACTGGCCATCTTTAGGTGATAACACAGTTCCTACGTGATGAGGACGGTTGGTTA
66 GATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
*
29986 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
1 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
* * **
30051 GATGAGGACG-GCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
66 GATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
*
30115 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCTTACGT
1 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
*
30180 GATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTTCTACGTGATGAGGACAGCTGGTTA
66 GATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
* *
30244 TCTATAGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCTTACGT
1 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
*
30309 GATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTTCCTACGTGATGAGGACGGCTGGTTA
66 GATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGG-TTCCTACGTGATGAGGACAGCTGGTTA
30374 TCT
1 TCT
30377 CTAGGGATAA
Statistics
Matches: 368, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
128 1 0.00
129 339 0.92
130 28 0.08
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (129 bp):
TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTTCCTACGT
GATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
Found at i:30735 original size:66 final size:63
Alignment explanation
Indices: 30561--30739 Score: 171
Period size: 66 Copynumber: 2.8 Consensus size: 63
30551 CCACAGCAAC
* * * * * *
30561 TGTCTCGAAAGAGATAAGATTCGTTTCAAAGGAAAC-AACCCAAAGATGGCATTTAAAGGGAAT
1 TGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
* ** * * * * *
30624 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAAGATCGGCGTTTCATGGGAA
1 TGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGAT-GGCATTTAAAGGG-A
30689 AT
62 AT
30691 TGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 TGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
30740 TTTGTTTTGT
Statistics
Matches: 92, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.02
63 13 0.14
64 13 0.14
65 9 0.10
66 35 0.38
67 20 0.22
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (63 bp):
TGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
Found at i:30760 original size:35 final size:35
Alignment explanation
Indices: 30714--30809 Score: 176
Period size: 35 Copynumber: 2.7 Consensus size: 35
30704 ACAAAATTCA
30714 TTTCAAGGGAAAC-GATCTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGAT-TCAAAGATGTTTGTTTTG
30749 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
30784 TTTCAAGGGAAACAGATTCAAAGATG
1 TTTCAAGGGAAACAGATTCAAAGATG
30810 GTAAATTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
35 57 0.95
36 3 0.05
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (35 bp):
TTTCAAGGGAAACAGATTCAAAGATGTTTGTTTTG
Found at i:30844 original size:72 final size:70
Alignment explanation
Indices: 30714--30845 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 70
30704 ACAAAATTCA
* * * *
30714 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCAAGGGAAACAGATTCAAAGATGTTTG
1 TTTCAAGGGAAACGATCTCAAAGATGTATGTTTTGTTTCAAGAGAAACAAAATCAAAGATGTTTG
30779 TTTTG
66 TTTTG
30784 TTTCAAGGGAAACAGAT-TCAAAGATGGTAAAT-TTTTGTTTCCAA-AGAAACAAAATCAAAGAT
1 TTTCAAGGGAAAC-GATCTCAAAGAT-GT--ATGTTTTGTTT-CAAGAGAAACAAAATCAAAGAT
30846 TTTTCTCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
70 21 0.40
71 5 0.09
72 23 0.43
73 4 0.08
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (70 bp):
TTTCAAGGGAAACGATCTCAAAGATGTATGTTTTGTTTCAAGAGAAACAAAATCAAAGATGTTTG
TTTTG
Found at i:31629 original size:37 final size:36
Alignment explanation
Indices: 31578--31765 Score: 125
Period size: 37 Copynumber: 5.5 Consensus size: 36
31568 ATTCAAAGAT
*
31578 TTTTTTTTCAAAAGAAAATATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAAATATCTTAAGAGAGAC-AAA
* * * *
31615 TTTTGTTTCTAAAGAAACA-AAC-TCA-A-AG---AT
1 TTTTGTTTCAAAAGAAA-ATATCTTAAGAGAGACAAA
*
31645 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAA
1 TTTTGTTTCAAAAGAAAATATCTTAAGAGAGA-CAAA
* * * *
31682 TTTTGTTTCCAAAGAAACAGA-C-TCA-A-AG---AT
1 TTTTGTTTCAAAAGAAA-ATATCTTAAGAGAGACAAA
*
31712 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAAATATCTTAAGAGAGAC-AAA
*
31749 TTTTGTTTCCAAAGAAA
1 TTTTGTTTCAAAAGAAA
31766 CAGACTCAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
29 1 0.01
30 37 0.33
31 4 0.04
32 2 0.02
33 4 0.04
34 4 0.04
35 2 0.02
36 4 0.04
37 52 0.46
38 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAA
Found at i:31649 original size:30 final size:30
Alignment explanation
Indices: 31615--31812 Score: 126
Period size: 30 Copynumber: 6.1 Consensus size: 30
31605 AGAGACAAAA
*
31615 TTTTGTTTCTAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
** * * *
31645 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
* *
31682 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
** * * *
31712 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
* *
31749 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
31779 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
31809 TTTT
1 TTTT
31813 TTCACAAAAT
Statistics
Matches: 124, Mismatches: 30, Indels: 28
0.68 0.16 0.15
Matches are distributed among these distances:
30 68 0.55
31 4 0.03
32 2 0.02
33 4 0.03
34 4 0.03
35 2 0.02
36 4 0.03
37 36 0.29
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:31654 original size:67 final size:67
Alignment explanation
Indices: 31560--31795 Score: 418
Period size: 67 Copynumber: 3.5 Consensus size: 67
31550 TCATTTTAAG
* * * *
31560 AGAAACAGATTCAAAGATTTTTTTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCT
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
31625 AA
66 AA
* *
31627 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
31692 AA
66 AA
31694 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
31759 AA
66 AA
31761 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
31796 CAATCTCAAA
Statistics
Matches: 161, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 161 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (67 bp):
AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
AA
Found at i:31821 original size:30 final size:29
Alignment explanation
Indices: 31744--31821 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
31734 TTAAGAGAGA
31744 CAAA-ATTTTGTTTCC-AAAGAAACAGACT
1 CAAAGATTTT-TTTCCAAAAGAAACAGACT
*
31772 CAAAGATTTTTGTTTCAAAAGAAACA-ATCT
1 CAAAGATTTTT-TTCCAAAAGAAACAGA-CT
31802 CAAAGATTTTTTTCACAAAA
1 CAAAGATTTTTTTC-CAAAA
31822 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 11 0.26
30 27 0.63
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTTTTCCAAAAGAAACAGACT
Found at i:31875 original size:52 final size:53
Alignment explanation
Indices: 31800--31903 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
31790 AAGAAACAAT
31800 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* *
31854 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
31904 AAAGAAACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:31929 original size:30 final size:30
Alignment explanation
Indices: 31895--32024 Score: 122
Period size: 30 Copynumber: 4.1 Consensus size: 30
31885 GAGACAAAAC
31895 TTTGTTTCAAAAGAAACAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
**
31925 TTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-T
1 TTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGATT
*
31962 TTTGTTTCCAAAGAAACAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
31992 TTTGTTTCAAAAGAAACA-ATCTCAAAGATT
1 TTTGTTTCAAAAGAAACAGA-CTCAAAGATT
32022 TTT
1 TTT
32025 TTCACAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATT
Found at i:31950 original size:67 final size:67
Alignment explanation
Indices: 31870--32007 Score: 249
Period size: 67 Copynumber: 2.1 Consensus size: 67
31860 GATTTTTCAC
*
31870 GAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
31935 AA
66 AA
* *
31937 GAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
32002 AA
66 AA
32004 GAAA
1 GAAA
32008 CAATCTCAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (67 bp):
GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
AA
Found at i:31992 original size:29 final size:29
Alignment explanation
Indices: 31956--32032 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
31946 TTAAGAGAGA
31956 CAAA-ATTTTGTTTCCAAAGAAACAGA-CT
1 CAAAGATTTTGTTTCCAAAGAAACA-ATCT
*
31984 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGA-TTTTGTTTCCAAAGAAACAATCT
32014 CAAAGATTTT-TTTCACAAA
1 CAAAGATTTTGTTTC-CAAA
32033 ATTGTCTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 8 0.19
29 9 0.21
30 26 0.60
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTGTTTCCAAAGAAACAATCT
Found at i:32032 original size:212 final size:212
Alignment explanation
Indices: 31658--32152 Score: 936
Period size: 212 Copynumber: 2.3 Consensus size: 212
31648 TGTTTCAAAA
* *
31658 GAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
31723 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
66 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
31788 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
131 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
31853 ACTCAAAGATTTTTCAC
196 ACTCAAAGATTTTTCAC
* *
31870 GAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
31935 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
66 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
32000 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
131 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
32065 ACTCAAAGATTTTTCAC
196 ACTCAAAGATTTTTCAC
* *
32082 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAATAGACTCAAAGATATTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
32147 AAGAAA
66 AAGAAA
32153 CAACTCAAAG
Statistics
Matches: 275, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 275 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (212 bp):
GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
ACTCAAAGATTTTTCAC
Found at i:32087 original size:52 final size:53
Alignment explanation
Indices: 32012--32114 Score: 163
Period size: 52 Copynumber: 1.9 Consensus size: 53
32002 AAGAAACAAT
32012 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* * *
32066 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAATTTTGTTTC
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTC
32115 CAAAGAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 38 0.83
54 8 0.17
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:32141 original size:30 final size:29
Alignment explanation
Indices: 32107--32260 Score: 133
Period size: 29 Copynumber: 5.3 Consensus size: 29
32097 GAGACAAAAT
* *
32107 TTTGTTTCCAAAGAAATAGACTCAAAGATA
1 TTTGTTTCAAAAGAAACA-ACTCAAAGATA
32137 TTTGTTTCAAAAGAAACAACTCAAAGAT-
1 TTTGTTTCAAAAGAAACAACTCAAAGATA
* *
32165 TTT-TATTCAAAAGGAACAGACTCCAAGAT-
1 TTTGT-TTCAAAAGAAACA-ACTCAAAGATA
*
32194 TTT-TATTCAAAAGGAACAAACTCAAAGAT-
1 TTTGT-TTCAAAAGAAAC-AACTCAAAGATA
* *
32223 TTT-TTTCAAGAGGAACAAACTCAAAGAT-
1 TTTGTTTCAAAAGAAAC-AACTCAAAGATA
*
32251 TTTTTTTCAA
1 TTTGTTTCAA
32261 GAAATTGTCT
Statistics
Matches: 114, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.01
28 41 0.36
29 55 0.48
30 17 0.15
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAACTCAAAGATA
Found at i:32182 original size:28 final size:28
Alignment explanation
Indices: 32126--32256 Score: 183
Period size: 29 Copynumber: 4.6 Consensus size: 28
32116 AAAGAAATAG
*
32126 ACTCAAAGATATTTGTTTCAAAAGAAAC-A
1 ACTCAAAGAT-TTT-TTTCAAAAGGAACAA
*
32155 ACTCAAAGATTTTTATTCAAAAGGAACAG
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
32184 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
32213 ACTCAAAGATTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
32241 ACTCAAAGATTTTTTT
1 ACTCAAAGATTTTTTT
32257 TCAAGAAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
27 1 0.01
28 43 0.46
29 50 0.53
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:32231 original size:57 final size:55
Alignment explanation
Indices: 32101--32256 Score: 188
Period size: 57 Copynumber: 2.7 Consensus size: 55
32091 TTAAGAGAGA
* * *
32101 CAAA-ATTTTGTTTCCAAAGAAATAGACTCAAAGATATTTGTTTCAAAAGAAACAACT
1 CAAAGATTTT-TTTCAAAAGGAACAGACTCAAAGAT-TTT-TTTCAAAAGAAACAACT
* *
32158 CAAAGATTTTTATTCAAAAGGAACAGACTCCAAGATTTTTATTCAAAAGGAACAAACT
1 CAAAGATTTTT-TTCAAAAGGAACAGACTCAAAGATTTTT-TTCAAAAGAAAC-AACT
* *
32216 CAAAGATTTTTTTCAAGAGGAACAAACTCAAAGATTTTTTT
1 CAAAGATTTTTTTCAAAAGGAACAGACTCAAAGATTTTTTT
32257 TCAAGAAATT
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
56 3 0.03
57 44 0.51
58 40 0.46
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (55 bp):
CAAAGATTTTTTTCAAAAGGAACAGACTCAAAGATTTTTTTCAAAAGAAACAACT
Found at i:32260 original size:57 final size:57
Alignment explanation
Indices: 32126--32260 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 57
32116 AAAGAAATAG
* *
32126 ACTCAAAGATATTTGTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAG
1 ACTCAAAGAT-TTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
* * * *
32184 ACTCCAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGAAAC-AACTCAAAGATTTTTATTCAAAAGGAACAA
32241 ACTCAAAGATTTTTTTTCAA
1 ACTCAAAGATTTTTTTTCAA
32261 GAAATTGTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 44 0.65
58 24 0.35
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (57 bp):
ACTCAAAGATTTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:32588 original size:36 final size:36
Alignment explanation
Indices: 32504--32635 Score: 119
Period size: 36 Copynumber: 3.7 Consensus size: 36
32494 GAAAAAATGA
* * *
32504 TGTCTCAAGCGAGACAAAATTT-TCTTTA-AGATAT
1 TGTCTCAAGCGAGACCAAATTTGTTTTTAGAGAAAT
* **
32538 AGTCTCAAATGAGACCAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACCAAATTTGTTTTTAGAGAAAT
*
32574 TGTCTCAAGCGAGA-CAAAGTTTGTTTTT-GAGAAAA
1 TGTCTCAAGCGAGACCAAA-TTTGTTTTTAGAGAAAT
* * * *
32609 CGATCTCAAGTGAGATCAACTTTGTTT
1 TG-TCTCAAGCGAGACCAAATTTGTTT
32636 AATGTGAAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 18 0.22
35 16 0.20
36 43 0.54
37 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (36 bp):
TGTCTCAAGCGAGACCAAATTTGTTTTTAGAGAAAT
Found at i:32754 original size:105 final size:101
Alignment explanation
Indices: 32575--32807 Score: 276
Period size: 105 Copynumber: 2.3 Consensus size: 101
32565 TAGAGAAATT
*
32575 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
*
32639 GTGAAACAAATTCGAA-ATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTC-AAGATTTGGATCTCAAAGGAAAAAG
* *
32677 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * * *
32741 TAA-GTGAATCAAATTCAAGGTTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAGATTTGGATCTCAAAGGAAAAAG
*
32782 GTCTCAAGCGAGACGAAGTTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
32808 AAGAGAATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 6 0.05
105 75 0.66
106 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAGATTTGGATCTCAAAGGAAAAAG
Found at i:32870 original size:36 final size:36
Alignment explanation
Indices: 32781--32875 Score: 86
Period size: 36 Copynumber: 2.6 Consensus size: 36
32771 AAAGGAAAAA
* * * * *
32781 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAT
* * *
32817 TGTCTTAAGTGATACAAACTTTGTTTTTAA-AGAAAT
1 TGTCTCAAGTGAAACAAAATTTG-TTTTAAGAGAAAT
32853 TGTCTCAAG-GAAAACAAAATTTG
1 TGTCTCAAGTG-AAACAAAATTTG
32876 AGAAAACGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
35 1 0.02
36 41 0.85
37 6 0.12
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAT
Found at i:33006 original size:36 final size:35
Alignment explanation
Indices: 32965--33082 Score: 139
Period size: 36 Copynumber: 3.3 Consensus size: 35
32955 AGTGAGGCGG
32965 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAACGAGACAA
* * *
33001 GATTTGTTTTT-AGAAAGCTGTCTCAATCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAACGAGACAA
** *
33036 AATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTG-TTTTTAAGAAATTGTCTCAAACGAGAC-AA
33073 AATTTGTTTT
1 AATTTGTTTT
33083 AAAATTCTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
34 5 0.07
35 21 0.30
36 30 0.43
37 13 0.19
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAACGAGACAA
Found at i:34649 original size:17 final size:17
Alignment explanation
Indices: 34627--34685 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
34617 TTTGTCTGTG
34627 TTCTTTGTTCTTTGCTT
1 TTCTTTGTTCTTTGCTT
* *
34644 TTCTTTGCTCTTTTTCTT
1 TTCTTTGTTC-TTTGCTT
* *
34662 TGCTTT-TTCTTTGTTT
1 TTCTTTGTTCTTTGCTT
34678 TTGCTTTG
1 TT-CTTTG
34686 ATTTTTCTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 6 0.19
17 15 0.47
18 11 0.34
ACGTcount: A:0.00, C:0.17, G:0.12, T:0.71
Consensus pattern (17 bp):
TTCTTTGTTCTTTGCTT
Found at i:34660 original size:13 final size:12
Alignment explanation
Indices: 34628--34747 Score: 71
Period size: 11 Copynumber: 10.5 Consensus size: 12
34618 TTGTCTGTGT
34628 TCTTTGTTCTTTG
1 TCTTT-TTCTTTG
34641 -C-TTTTCTTTG
1 TCTTTTTCTTTG
34651 CTCTTTTTCTTTG
1 -TCTTTTTCTTTG
34664 -CTTTTTCTTTG
1 TCTTTTTCTTTG
*
34675 T-TTTTGCTTTG
1 TCTTTTTCTTTG
* *
34686 -ATTTTTC--TC
1 TCTTTTTCTTTG
**
34695 TC-TGCTCTTTG
1 TCTTTTTCTTTG
*
34706 TTTTTTTCTTTG
1 TCTTTTTCTTTG
34718 CTCTTTTCTCTTTG
1 -TCTTTT-TCTTTG
*
34732 -ATTTTTCTTTG
1 TCTTTTTCTTTG
34743 T-TTTT
1 TCTTTT
34748 GATTGGATCT
Statistics
Matches: 83, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
9 4 0.05
10 7 0.08
11 39 0.47
12 13 0.16
13 14 0.17
14 6 0.07
ACGTcount: A:0.02, C:0.17, G:0.10, T:0.71
Consensus pattern (12 bp):
TCTTTTTCTTTG
Found at i:34693 original size:46 final size:44
Alignment explanation
Indices: 34642--34742 Score: 105
Period size: 46 Copynumber: 2.2 Consensus size: 44
34632 TGTTCTTTGC
* * *
34642 TTTTCTTTGCTCTTT-TTCTTTGCTTTTTCTTTGTTTTTGCTTTGAT
1 TTTTCTTTGCTCTTTGTTCTTTGC-TTTGCTCT-TTTCT-CTTTGAT
* *
34688 TTTTCTCTCTGCTCTTTGTTTTTTTCTTTGCTCTTTTCTCTTTGAT
1 TTTTCT-T-TGCTCTTTGTTCTTTGCTTTGCTCTTTTCTCTTTGAT
34734 TTTTCTTTG
1 TTTTCTTTG
34743 TTTTTGATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
44 2 0.04
45 1 0.02
46 19 0.40
47 5 0.11
48 14 0.30
49 6 0.13
ACGTcount: A:0.02, C:0.18, G:0.10, T:0.70
Consensus pattern (44 bp):
TTTTCTTTGCTCTTTGTTCTTTGCTTTGCTCTTTTCTCTTTGAT
Found at i:34710 original size:20 final size:19
Alignment explanation
Indices: 34681--34723 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34671 TTTGTTTTTG
34681 CTTTGATTTTTCTCTCTGCT
1 CTTTGATTTTT-TCTCTGCT
* *
34701 CTTTGTTTTTTTCTTTGCT
1 CTTTGATTTTTTCTCTGCT
34720 CTTT
1 CTTT
34724 TCTCTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.02, C:0.21, G:0.09, T:0.67
Consensus pattern (19 bp):
CTTTGATTTTTTCTCTGCT
Found at i:34721 original size:26 final size:25
Alignment explanation
Indices: 34692--34742 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
34682 TTTGATTTTT
*
34692 CTCTCTGCTCTTTGTTTTTTTCTTTG
1 CTCTCTGCTCTTTG-ATTTTTCTTTG
* *
34718 CTCTTTTCTCTTTGATTTTTCTTTG
1 CTCTCTGCTCTTTGATTTTTCTTTG
34743 TTTTTGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.02, C:0.22, G:0.10, T:0.67
Consensus pattern (25 bp):
CTCTCTGCTCTTTGATTTTTCTTTG
Found at i:35428 original size:46 final size:45
Alignment explanation
Indices: 35336--35429 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
35326 ATAAATACAG
* * * *
35336 TGTTTCAAAGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAAGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
35381 TGTTTCAAGGTCGAAAAGAATATTTCAAGGCCTCAAAGAGATAGAA
1 TGTTTCAAAGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
35427 TGT
1 TGT
35430 CAAAAATTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 10 0.24
46 32 0.76
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (45 bp):
TGTTTCAAAGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:37584 original size:31 final size:32
Alignment explanation
Indices: 37530--37591 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
37520 TGACAAAATG
37530 ACACAAACAAAAGAGAAAAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAAAAATAAGTTAGTAT
37562 ACACAAACAAAAGAG-AAAAATAAGTTAGTA
1 ACACAAACAAAAGAGAAAAAATAAGTTAGTA
37592 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAAAAATAAGTTAGTAT
Found at i:41227 original size:3 final size:3
Alignment explanation
Indices: 41219--41267 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
41209 ATGTAAATTA
* * *
41219 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAC GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41267 A
1 A
41268 TACAAAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:42345 original size:20 final size:20
Alignment explanation
Indices: 42315--42365 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
42305 CCTTTGAAGT
*
42315 GTATCGGTACACATTATAGG
1 GTATCGATACACATTATAGG
*
42335 GTATTGATACACATTATAGG
1 GTATCGATACACATTATAGG
42355 GTATCGATACA
1 GTATCGATACA
42366 TCCCTTCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTATAGG
Found at i:45524 original size:3 final size:3
Alignment explanation
Indices: 45516--45606 Score: 137
Period size: 3 Copynumber: 29.7 Consensus size: 3
45506 ATGTTATTTA
45516 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
45564 AAT TAT TAT TAT TAT TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
45607 CAAAACCCAA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
3 74 0.93
4 6 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:58282 original size:7 final size:7
Alignment explanation
Indices: 58266--58400 Score: 203
Period size: 7 Copynumber: 20.3 Consensus size: 7
58256 ATTATGCTTG
58266 AAAG-AA
1 AAAGAAA
58272 AAAGAAA
1 AAAGAAA
58279 AAAGAAA
1 AAAGAAA
58286 AAAGAAA
1 AAAGAAA
58293 AAAGAAA
1 AAAGAAA
58300 AAAGAAA
1 AAAGAAA
58307 AAAGAAA
1 AAAGAAA
58314 AAAGAAA
1 AAAGAAA
58321 AAAGAAA
1 AAAGAAA
58328 AAAG-AA
1 AAAGAAA
58334 AAAG-AA
1 AAAGAAA
58340 AAA-AAA
1 AAAGAAA
58346 AAAGAAA
1 AAAGAAA
58353 AAAG-AA
1 AAAGAAA
58359 AAAG-AA
1 AAAGAAA
58365 AAAGAAA
1 AAAGAAA
*
58372 AAA-AAG
1 AAAGAAA
58378 AAAGAAA
1 AAAGAAA
*
58385 AAAGAGA
1 AAAGAAA
58392 AAAGAAA
1 AAAGAAA
58399 AA
1 AA
58401 GGGGGGTCAA
Statistics
Matches: 120, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
6 37 0.31
7 83 0.69
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:58400 original size:1 final size:1
Alignment explanation
Indices: 58270--58387 Score: 92
Period size: 1 Copynumber: 118.0 Consensus size: 1
58260 TGCTTGAAAG
* * * * * * * * *
58270 AAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
58335 AAGAAAAAAAAAAAGAAAAAAGAAAAAGAAAAAGAAAAAAAAGAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
58388 GAGAAAAGAA
Statistics
Matches: 85, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:60432 original size:95 final size:95
Alignment explanation
Indices: 60263--60462 Score: 348
Period size: 95 Copynumber: 2.1 Consensus size: 95
60253 TATTCTCCTC
* *
60263 ATCAGAATCAGAATTCAAGATTTCTCGTTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTG
*
60328 AAAGATCACTTCATAATCAGATGAGTTGTT
66 AAAGATCACTTCATAATCAAATGAGTTGTT
*
60358 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATTGATATCTATGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTG
60423 AAA-AGTCACTTCATAATCAAATGAGTTGTT
66 AAAGA-TCACTTCATAATCAAATGAGTTGTT
60453 ATCAGAATCA
1 ATCAGAATCA
60463 ACATGTTGCA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
94 1 0.01
95 99 0.99
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (95 bp):
ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTG
AAAGATCACTTCATAATCAAATGAGTTGTT
Found at i:60956 original size:113 final size:113
Alignment explanation
Indices: 60758--61755 Score: 1676
Period size: 113 Copynumber: 8.8 Consensus size: 113
60748 TAGCAAAGAT
* * * *
60758 TCAAATCCATCAATTGATGGATCAACATTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCCGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
60823 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * *
60871 TCAAATCCATCAATTGATGGATCAACATTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
60936 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * * * *
60984 TCAAATCCATCAATTGATGGATCAACATTACCAGTTCAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
61049 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* *
61097 TCAAATCCATCACTTGATGGATCAGTTTTTCCAGTTCGAGTTCATAATGAGAATAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
61162 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTTTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
61210 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
61275 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
61323 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
61388 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
61436 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
61501 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * *
61549 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTTATCTAA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* * * *
61614 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGT
66 AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * * * *
61662 TCAAATTCATCACTTGATGGATCAACATTTCCAATTCGAGTTCATAATAAGAAGAACTT-ATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCTG
* * *
61726 AAG-AGGAAGAAGAAGTTCACAATGAGAAGA
65 AAGAAGGAAAAAGAAATTCATAATGAGAAGA
61756 GCCTGTTCAA
Statistics
Matches: 853, Mismatches: 31, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
112 26 0.03
113 825 0.97
114 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
AGAAGGAAAAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
Found at i:61302 original size:24 final size:23
Alignment explanation
Indices: 61259--61303 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
61249 GTTCATAATG
*
61259 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
61282 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
61304 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:61528 original size:24 final size:23
Alignment explanation
Indices: 61485--61529 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
61475 GTTCATAATG
*
61485 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
61508 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
61530 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:61922 original size:118 final size:121
Alignment explanation
Indices: 61700--61978 Score: 284
Period size: 118 Copynumber: 2.3 Consensus size: 121
61690 TTCCAATTCG
* * * * *
61700 AGTTCATAATAAGAAGAACTTATCTG-AAGAGGAAGAAGAAGTTCACAATGAGAAGAGCCTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
* * * * * * * **
61764 AATCTTTTACATAATTTTATCACATATATGTTAGCATCAAC-C-TTTCCAG-AGAA
66 AACCTTTGACATAACTCTATCACAGATAGGATAGCATCAACACATCCCCAGCAGAA
* *
61817 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
* * *
61882 AACCTTTGGA-ATGACTCTATCACAGA-AGGAAATAG-GTCAACATCATCCCCAGCGGAA
66 AACCTTT-GACATAACTCTATCACAGATAGG--ATAGCATCAACA-CATCCCCAGCAGAA
61939 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
61979 TTTATTCAAC
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
117 26 0.20
118 56 0.42
119 4 0.03
120 1 0.01
121 5 0.04
122 31 0.23
123 5 0.04
124 5 0.04
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (121 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
AACCTTTGACATAACTCTATCACAGATAGGATAGCATCAACACATCCCCAGCAGAA
Found at i:62128 original size:3 final size:3
Alignment explanation
Indices: 62120--62192 Score: 83
Period size: 3 Copynumber: 23.7 Consensus size: 3
62110 ATGTTATTTA
* * *
62120 TAT TAT TAT TAT TAT TAT AAT TAT TAT AAT TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
62168 TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT -TAT TA-T TAT TAT TAT TA
62193 CAAAACCCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
3 52 0.90
4 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:64864 original size:29 final size:29
Alignment explanation
Indices: 64816--64986 Score: 211
Period size: 29 Copynumber: 5.9 Consensus size: 29
64806 ATGGGGATCG
* *
64816 ATAATTTATGAGAGGATTTGTCCTTTACT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* *
64845 GTAATTTATGAGAAGTTTTGTCTTTTACT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* * *
64874 ACAATTTATGAGAAGTTATGTCCTTTATT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* * *
64903 ACAATTTATGAGAAATTTTGTCTTTCTACT
1 ATAATTTATGAGAAGTTTTGTCCTT-TACT
64933 ATAATTTATGAGAAGTTTTGTCCTTT--T
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* *
64960 GTAATTTATGAGAAGTTTTGACCTTTA
1 ATAATTTATGAGAAGTTTTGTCCTTTA
64987 TTTAAGTTTC
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
27 25 0.20
29 72 0.59
30 25 0.20
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (29 bp):
ATAATTTATGAGAAGTTTTGTCCTTTACT
Found at i:71661 original size:19 final size:21
Alignment explanation
Indices: 71637--71675 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
71627 GATTTACATG
71637 AATACATGT-ATAT-ATATAT
1 AATACATGTGATATGATATAT
71656 AATACATGTGATATGATATA
1 AATACATGTGATATGATATA
71676 AGATATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AATACATGTGATATGATATAT
Found at i:71848 original size:31 final size:31
Alignment explanation
Indices: 71810--71875 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
71800 TCGAGGGTTT
**
71810 TACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTAACGA-ACATATGGACAGTA
* *
71841 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAACGAACATATGGACAGTA
71872 TACC
1 TACC
71876 GAGGATCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTAACGAACATATGGACAGTA
Found at i:71907 original size:30 final size:30
Alignment explanation
Indices: 71863--71956 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
71853 AAGGAACATA
71863 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
71894 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
71924 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
71953 TGGA
1 TGGA
71957 TAGGTCTTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:77200 original size:55 final size:55
Alignment explanation
Indices: 77072--77352 Score: 292
Period size: 53 Copynumber: 5.2 Consensus size: 55
77062 TACGGGTTCG
* * * * *
77072 CTCCCTCTTTCTTCAGGGAGTAT-AGAACTCGAA-AATCTTTTGAA-AA-CGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATC--TTCAACAATCGCGTCTA
* * * *
77126 CTCCTTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGGGTCTA
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTA
* * *
77181 CTCCCTATTTCTCCAGAGAGTATAAGACTC--ACAATCTTCATCAATCGCGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTA
* * *
77234 CCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTATCGTGTCT-
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTA
* * * * *
77288 CCCCCTATATCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTA
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTA
77341 CTCCCTATTTCT
1 CTCCCTATTTCT
77353 CTAGGGATTA
Statistics
Matches: 193, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
52 18 0.09
53 63 0.33
54 55 0.28
55 57 0.30
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (55 bp):
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTA
Found at i:77265 original size:108 final size:107
Alignment explanation
Indices: 77121--77352 Score: 347
Period size: 107 Copynumber: 2.2 Consensus size: 107
77111 TTGAAAACGT
* * * *
77121 GTCTGCTCCTTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGGGTCTACTCCC
1 GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCT-CCCCC
* *
77186 TATTTCTCCAGAGAGTATAAGACTCACAATCTTCATCAATCGC
65 TATATCTCCAGAGAGTATAAGACCCACAATCTTCATCAATCGC
* * *
77229 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTATCGTGTCTCCCCCT
1 GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTCCCCCT
* *
77294 ATATCTTCAGAGAGTATAAGACCCACAATCTTCATCAATTGC
66 ATATCTCCAGAGAGTATAAGACCCACAATCTTCATCAATCGC
*
77336 GTCTACTCCCTATTTCT
1 GTCTGCTCCCTATTTCT
77353 CTAGGGATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
107 58 0.52
108 53 0.48
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (107 bp):
GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTCCCCCT
ATATCTCCAGAGAGTATAAGACCCACAATCTTCATCAATCGC
Found at i:77520 original size:51 final size:53
Alignment explanation
Indices: 77389--77594 Score: 251
Period size: 52 Copynumber: 3.9 Consensus size: 53
77379 TCTTCTTACA
*
77389 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATGATCTTC---AAACG
*
77445 GGCTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-GATCTTCAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATGATCTTCAAACG
** * * * * *
77496 GGTTCGCTCCCTCTCCCTCT-AGGGAGTATGGAACTCAAATAATCTTCAAATG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATGATCTTCAAACG
* *
77548 GGTTCGCTCCATCTTTCTTT-AGGGAGTATAGAACTCGTAT-ATCTTCA
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATGATCTTCA
77595 TTTGCTTCAC
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
51 43 0.33
52 44 0.34
54 7 0.05
55 21 0.16
56 16 0.12
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (53 bp):
GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATGATCTTCAAACG
Found at i:77571 original size:52 final size:52
Alignment explanation
Indices: 77389--77594 Score: 254
Period size: 51 Copynumber: 3.9 Consensus size: 52
77379 TCTTCTTACA
*
77389 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACG
1 GGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATGATCTTC---AAACG
* *
77445 GGCTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-GATCTTCAAACG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATGATCTTCAAACG
** * * * * *
77496 GGTTCGCTCCCTCTCCCTCTAGGGAGTATGGAACTCAAATAATCTTCAAATG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATGATCTTCAAACG
* *
77548 GGTTCGCTCCATCTTTCTTTAGGGAGTATAGAACTCGTAT-ATCTTCA
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATGATCTTCA
77595 TTTGCTTCAC
Statistics
Matches: 130, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
51 44 0.34
52 43 0.33
54 7 0.05
55 18 0.14
56 18 0.14
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (52 bp):
GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATGATCTTCAAACG
Found at i:77576 original size:103 final size:105
Alignment explanation
Indices: 77389--77594 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 105
77379 TCTTCTTACA
** * * *
77389 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCGCTC
1 GGTTCGCTCCCTCTCCCTCTCAGGAAGTATAGAACTCAAATAATCTTC--AAAACGGGCTCGCTC
*
77454 CCTCTTTCTTCAGGGAGTATAGAACTCGAAGATCTTCAAACG
64 CATCTTTCTTCAGGGAGTATAGAACTCGAAGATCTTCAAACG
* * * *
77496 GGTTCGCTCCCTCTCCCTCT-AGGGAGTATGGAACTCAAATAATCTTC-AAATGGGTTCGCTCCA
1 GGTTCGCTCCCTCTCCCTCTCAGGAAGTATAGAACTCAAATAATCTTCAAAACGGGCTCGCTCCA
* * *
77559 TCTTTCTTTAGGGAGTATAGAACTCGTATATCTTCA
66 TCTTTCTTCAGGGAGTATAGAACTCGAAGATCTTCA
77595 TTTGCTTCAC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
103 46 0.53
106 23 0.27
107 17 0.20
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (105 bp):
GGTTCGCTCCCTCTCCCTCTCAGGAAGTATAGAACTCAAATAATCTTCAAAACGGGCTCGCTCCA
TCTTTCTTCAGGGAGTATAGAACTCGAAGATCTTCAAACG
Found at i:78149 original size:36 final size:36
Alignment explanation
Indices: 77998--78152 Score: 231
Period size: 36 Copynumber: 4.3 Consensus size: 36
77988 ACTACTTTTT
* * *
77998 GGTGAAGACTTCAGATGGTTTGCTTCACTACTCTCT
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
*
78034 GGTGAAGACTT-ATGATGGTTTGCTTCACTATTCTCC
1 GGTGAAGGCTTCA-GATGGTTTGCTTCACTATTCTCC
* * *
78070 GGTGAAGGCTTCAGATTGATTGCTTCAGTATTCTCC
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
78106 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
78142 GGTGAAGGCTT
1 GGTGAAGGCTT
78153 AGGATTGACT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
35 1 0.01
36 106 0.98
37 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (36 bp):
GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
Found at i:79083 original size:123 final size:124
Alignment explanation
Indices: 78880--79181 Score: 430
Period size: 124 Copynumber: 2.4 Consensus size: 124
78870 TCAATAATTT
**
78880 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTTGGTCT-CGCCCAACATTATCTTACAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTCTGC-CCCAACATTATCTTACAC
* * * * *
78944 TGGTAAGGGCCTTC-AAATGCCCCATCACCTCAAATTGTGAGGCTCATTCTTTATGCCTC
65 TGGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
* *
79003 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCATTCATGCCCCAACATTATCTTATAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTC-TGCCCCAACATTATCTTACAC
*
79068 TGGTACGGG-CATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
65 TGGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
* * * *
79127 CTTGGTCTGAATCTTGTCTTCTCAACATGATGTGGGTTCAGTCGCGCCCCAACAT
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTC-TGCCCCAACAT
79182 ATCACAACTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
123 43 0.27
124 116 0.73
125 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (124 bp):
CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTCTGCCCCAACATTATCTTACACT
GGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
Found at i:83072 original size:20 final size:21
Alignment explanation
Indices: 83047--83183 Score: 74
Period size: 21 Copynumber: 6.6 Consensus size: 21
83037 AATGTGAAGT
83047 GGTCTTCAT-GTCGTTATG-AA
1 GGTCTTC-TCGTCGTTATGAAA
83067 GGTCTTCTCGTCGTTATGAAA
1 GGTCTTCTCGTCGTTATGAAA
* * *
83088 GGTCCTCTCATC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
* *
83109 GGCCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
83130 GG-CATTCTCGTC-TTGATG-AA
1 GGTC-TTCTCGTCGTT-ATGAAA
* * *
83150 TGACATTCTCGTC-TTGATGAAT
1 GGTC-TTCTCGTCGTT-ATGAAA
*
83172 GCTCTTCTCGTC
1 GGTCTTCTCGTC
83184 CTTGGTACAA
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
19 1 0.01
20 21 0.21
21 75 0.76
22 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (21 bp):
GGTCTTCTCGTCGTTATGAAA
Found at i:83091 original size:21 final size:21
Alignment explanation
Indices: 83065--83183 Score: 109
Period size: 21 Copynumber: 5.7 Consensus size: 21
83055 TGTCGTTATG
83065 AAGGTCTTCTCGTCGTT-ATGA
1 AAGGTCTTCTCGTC-TTGATGA
* *
83086 AAGGTCCTCTCATCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
* *
83107 ATGGCCTTCTCGTCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
*
83128 ATGG-CATTCTCGTCTTGATG-
1 AAGGTC-TTCTCGTCTTGATGA
* *
83148 AATGACATTCTCGTCTTGATGA
1 AAGGTC-TTCTCGTCTTGATGA
* *
83170 ATGCTCTTCTCGTC
1 AAGGTCTTCTCGTC
83184 CTTGGTACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.06
21 75 0.91
22 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (21 bp):
AAGGTCTTCTCGTCTTGATGA
Found at i:83171 original size:42 final size:42
Alignment explanation
Indices: 83093--83172 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
83083 TGAAAGGTCC
* *
83093 TCTCATCTTGATGAATGGCCTTCTCGTCTTGATGAATGGCAT
1 TCTCATCTTGATGAATGACATTCTCGTCTTGATGAATGGCAT
*
83135 TCTCGTCTTGATGAATGACATTCTCGTCTTGATGAATG
1 TCTCATCTTGATGAATGACATTCTCGTCTTGATGAATG
83173 CTCTTCTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (42 bp):
TCTCATCTTGATGAATGACATTCTCGTCTTGATGAATGGCAT
Found at i:83180 original size:42 final size:42
Alignment explanation
Indices: 83071--83183 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
83061 TATGAAGGTC
* * * * * *
83071 TTCTCGTCGTT-ATGAAAGGTCCTCTCATCTTGATGAATGGCC
1 TTCTCGTC-TTGATGAATGCTCTTCTCGTCTTGATGAATGACA
*
83113 TTCTCGTCTTGATGAATGGC-ATTCTCGTCTTGATGAATGACA
1 TTCTCGTCTTGATGAAT-GCTCTTCTCGTCTTGATGAATGACA
83155 TTCTCGTCTTGATGAATGCTCTTCTCGTC
1 TTCTCGTCTTGATGAATGCTCTTCTCGTC
83184 CTTGGTACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.07
42 55 0.92
43 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (42 bp):
TTCTCGTCTTGATGAATGCTCTTCTCGTCTTGATGAATGACA
Found at i:89290 original size:8 final size:8
Alignment explanation
Indices: 89277--89304 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
89267 GATTAAAGTA
89277 TAATAGTT
1 TAATAGTT
89285 TAATAGTT
1 TAATAGTT
89293 TAATAGTT
1 TAATAGTT
89301 TAAT
1 TAAT
89305 GATTTGTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
TAATAGTT
Found at i:89968 original size:21 final size:21
Alignment explanation
Indices: 89924--89968 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
89914 TGATTCTGGG
* * *
89924 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
89945 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
89966 CAA
1 CAA
89969 ACGAACATAG
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:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:90842 original size:29 final size:30
Alignment explanation
Indices: 90748--90844 Score: 142
Period size: 30 Copynumber: 3.2 Consensus size: 30
90738 AAGGAACATA
90748 TGGATAGTTTACCGAGGATCTTTATGACCTC
1 TGGATAG-TTACCGAGGATCTTTATGACCTC
*
90779 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
* * *
90809 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
90838 TGGATAG
1 TGGATAG
90845 GTCCTTCGGG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.33
30 35 0.57
31 6 0.10
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:96305 original size:16 final size:15
Alignment explanation
Indices: 96261--96303 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
96251 AAATTAAGAA
*
96261 ATAAAATTTAATTTT
1 ATAAAATTTAAATTT
*
96276 ATTAATATTTAAATTT
1 A-TAAAATTTAAATTT
96292 ATAAAATTTAAA
1 ATAAAATTTAAA
96304 ATGAGATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAAAATTTAAATTT
Found at i:97183 original size:5 final size:5
Alignment explanation
Indices: 97175--97200 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
97165 TTTCTCTTAG
97175 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
97201 TAATAGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:100452 original size:22 final size:23
Alignment explanation
Indices: 100419--100462 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
100409 AATTGTTTAT
100419 ATTTATATTTT-AATCTAAATAAA
1 ATTTATATTTTAAAT-TAAATAAA
100442 ATTT-TATTTTAAATTAAATAA
1 ATTTATATTTTAAATTAAATAA
100463 GTCCTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATTTTAAATTAAATAAA
Found at i:101257 original size:15 final size:15
Alignment explanation
Indices: 101237--101266 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101227 TAATAATATG
101237 TTATGATTAAATTAA
1 TTATGATTAAATTAA
101252 TTATGATTAAATTAA
1 TTATGATTAAATTAA
101267 ATAGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TTATGATTAAATTAA
Found at i:101721 original size:16 final size:17
Alignment explanation
Indices: 101689--101721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101679 ATATATAGCT
101689 ATTAAAAATTATGGTAA
1 ATTAAAAATTATGGTAA
*
101706 ATTACAAATT-TGGTAA
1 ATTAAAAATTATGGTAA
101722 TTGAACTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (17 bp):
ATTAAAAATTATGGTAA
Done.