Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001807.1 Hibiscus syriacus cultivar Beakdansim tig00003651_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: 96071
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:392 original size:2 final size:2
Alignment explanation
Indices: 385--417 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
375 AATAAAAAGA
385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
418 AACAAAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1489 original size:3 final size:3
Alignment explanation
Indices: 1481--1506 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1471 AAATAAACAT
1481 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
1507 GTATAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1591 original size:24 final size:24
Alignment explanation
Indices: 1564--1609 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1554 AATATGTATG
*
1564 TTATAAAAAAATACATTTTATATA
1 TTATAAAAAAATACATATTATATA
* *
1588 TTATATAAAATTACATATTATA
1 TTATAAAAAAATACATATTATA
1610 AATGGGGTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATAAAAAAATACATATTATATA
Found at i:2101 original size:85 final size:84
Alignment explanation
Indices: 1986--2821 Score: 1082
Period size: 84 Copynumber: 9.9 Consensus size: 84
1976 TACCATGTGG
* * * *
1986 TTGATAGGCCCTCGAGCTAAATGGAATCGAACTCGAAGGTGTTTGTTGACAGATAGCCCTTCTTC
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCCCTTC-TC
2051 -CCTTGAGCTATGCTGTAAAT
64 GCCTTGAGCTATGCTGTAAAT
* *
2071 TTGATAAGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCC-TCTTG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG-TTTTGTTGACAGATAGCCCTTCTCG
2135 CCTTGAGCTATGCTGTAAAT
65 CCTTGAGCTATGCTGTAAAT
* * *
2155 TTGATATACCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTTGTTGACAAATAACCCTTCT
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG---TTTTGTTGACAGATAGCCCTTCT
2220 CGCCTTGAGCTATGCTGTAAAT
63 CGCCTTGAGCTATGCTGTAAAT
* * *
2242 TTGATATGCCCTTGAGTTGAATGTAATCGAACTTGAAGGTTTTCATTGACAGATAGCCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTT-GTTGACAGATAGCCCTTCTCG
* *
2307 CCTTGAGCTATGCTATAAAC
65 CCTTGAGCTATGCTGTAAAT
* * * * *
2327 TTGATATG-ACTTGAGCTAAATGCAATCGAACTTGAAGGTTTCGTTGAC--ATAGCCCTTCTCGC
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCGC
*
2389 CTTGAGCTATGCTGTAAAC
66 CTTGAGCTATGCTGTAAAT
* * * * *
2408 TTGATATG-ACTTGAGCTAAATGCAATCGAACTTGAAGGTTTTCGTTGACATATAGCCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTT-GTTGACAGATAGCCCTTCTCG
2472 CCTTGAGCTATGCTGTAAAT
65 CCTTGAGCTATGCTGTAAAT
* * * *
2492 TTGATATGCTCTTGAGCTGAATGTAATCGAACTTGAAGGTTTATGCTGACAGATAACCCTTCT--
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTT-TGTTGACAGATAGCCCTTCTCG
* *
2555 CCTTGAGCTATGTTATAAAT
65 CCTTGAGCTATGCTGTAAAT
* * * * * *
2575 TTGATATGCCTTTCAGCTGAATGTAATTGAACTCGATGGTTTTCATTGACAGATAGCCCTTCTCT
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTT-GTTGACAGATAGCCCTTCTCG
*
2640 CATTGAGCTATGCTAG-AAAT
65 CCTTGAGCTATGCT-GTAAAT
*
2660 TTGATATG-ACTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG-TTTTGTTGACAGATAGCCCTTCTCG
2724 CCTTGAGCTATGCTGTAAAT
65 CCTTGAGCTATGCTGTAAAT
* * * *
2744 TTGATATGCCCTTGAGCTGAATCTAATC-AACTCGAAGGTTTTTGTTGACAGATAGACCTTATCT
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG-TTTTGTTGACAGATAGCCCTTCTCG
*
2808 CCTTGAGATATGCT
65 CCTTGAGCTATGCT
2822 TCGAAAAGTT
Statistics
Matches: 672, Mismatches: 61, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
81 73 0.11
82 7 0.01
83 77 0.11
84 247 0.37
85 188 0.28
86 20 0.03
87 60 0.09
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (84 bp):
TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCGC
CTTGAGCTATGCTGTAAAT
Found at i:3280 original size:16 final size:16
Alignment explanation
Indices: 3259--3304 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
3249 TGACTCTAAA
3259 ATGCAAAAAATTATGT
1 ATGCAAAAAATTATGT
3275 ATGCAAAAAATTATGT
1 ATGCAAAAAATTATGT
*
3291 ATGCGAAAAATTAT
1 ATGCAAAAAATTAT
3305 AAATGTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (16 bp):
ATGCAAAAAATTATGT
Found at i:4586 original size:13 final size:13
Alignment explanation
Indices: 4570--4605 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
4560 TAAGATTTTC
4570 TTTTTGAAAATCA
1 TTTTTGAAAATCA
4583 TTTTTG-AAATCA
1 TTTTTGAAAATCA
4595 TTTTTGAAAAT
1 TTTTTGAAAAT
4606 TACTCCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (13 bp):
TTTTTGAAAATCA
Found at i:6426 original size:19 final size:20
Alignment explanation
Indices: 6392--6432 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6382 TATAGTTTTC
*
6392 AAAACAACATAATTAAATCA
1 AAAACAACATAATTAAAACA
*
6412 AAAACAACA-ATTTAAAACA
1 AAAACAACATAATTAAAACA
6431 AA
1 AA
6433 CATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAACATAATTAAAACA
Found at i:6877 original size:21 final size:22
Alignment explanation
Indices: 6833--6883 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
6823 CTAGGGGTAC
6833 CGATACACATTCAAGGAATGTAT
1 CGATACACATTCAAGG-ATGTAT
*
6856 CGGTACACATTCAAGG-TGTAT
1 CGATACACATTCAAGGATGTAT
6877 CGATACA
1 CGATACA
6884 TAACAGGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
23 15 0.58
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (22 bp):
CGATACACATTCAAGGATGTAT
Found at i:8899 original size:12 final size:12
Alignment explanation
Indices: 8882--8906 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8872 ATGATGGTTC
8882 TCCAACGTCATG
1 TCCAACGTCATG
8894 TCCAACGTCATG
1 TCCAACGTCATG
8906 T
1 T
8907 GTATTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:13760 original size:99 final size:99
Alignment explanation
Indices: 13588--13773 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 99
13578 TTTTAATTTT
13588 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGATGGGGCGTTTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGATGGGGCGTTTAACCAATTGCTCTAGAGGGA
*
13653 CAGCTCAAGTTTTATTGTATATGTATTATAATCA
66 CAGCTCAAGCTTTATTGTATATGTATTATAATCA
* * *
13687 CCTTTATCAGGCTAGCTTAATCTTATCCATAAAG-TCGGGGCGTTTAATCAATTGCTCTAGAGTG
1 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGAT-GGGGCGTTTAACCAATTGCTCTAGAGGG
* *
13751 ATAGTTCAAGCTTTATTGTATAT
65 ACAGCTCAAGCTTTATTGTATAT
13774 ATATGATTAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 1 0.01
99 79 0.99
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (99 bp):
CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGATGGGGCGTTTAACCAATTGCTCTAGAGGGA
CAGCTCAAGCTTTATTGTATATGTATTATAATCA
Found at i:18272 original size:17 final size:16
Alignment explanation
Indices: 18250--18292 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
18240 AATAAAATTA
*
18250 TTAAATTAAAATGTGAC
1 TTAAATTAAAAAG-GAC
*
18267 TTAAATAAAAAAGGAC
1 TTAAATTAAAAAGGAC
18283 -TAAATTAAAA
1 TTAAATTAAAA
18293 GAAAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 11 0.48
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (16 bp):
TTAAATTAAAAAGGAC
Found at i:19352 original size:22 final size:22
Alignment explanation
Indices: 19326--19367 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19316 ATATGTATGT
19326 TATAAAAAATACAT-TTATATTA
1 TATAAAAAA-ACATATTATATTA
*
19348 TATAAAATAACATATTATAT
1 TATAAAAAAACATATTATAT
19368 AATGGGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAAAAAAACATATTATATTA
Found at i:19354 original size:20 final size:22
Alignment explanation
Indices: 19316--19367 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
19306 AATATACGTA
*
19316 ATATGTATGTTATAAAAAAT-AC
1 ATAT-TATATTATAAAAAATAAC
*
19338 AT-TTATATTATATAAAATAAC
1 ATATTATATTATAAAAAATAAC
19359 ATATTATAT
1 ATATTATAT
19368 AATGGGGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 5 0.19
22 8 0.31
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATTATATTATAAAAAATAAC
Found at i:20361 original size:12 final size:11
Alignment explanation
Indices: 20341--20372 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
20331 TTTTTTATAT
20341 TTGCATTCACA
1 TTGCATTCACA
20352 TTGACATTCACA
1 TTG-CATTCACA
20364 TTGCATTCA
1 TTGCATTCA
20373 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (11 bp):
TTGCATTCACA
Found at i:22132 original size:19 final size:19
Alignment explanation
Indices: 22110--22159 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22100 ACCTAACTCA
* *
22110 TTGACTTTGACCTGACCCG
1 TTGACTTTGACCCGACCAG
*
22129 TTGA-TTATGACCCGACTAG
1 TTGACTT-TGACCCGACCAG
22148 TTGACTTTGACC
1 TTGACTTTGACC
22160 AAAGTTGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (19 bp):
TTGACTTTGACCCGACCAG
Found at i:37175 original size:11 final size:11
Alignment explanation
Indices: 37161--37188 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37151 GAAAAAAAGA
37161 AAAAAAGGAAC
1 AAAAAAGGAAC
37172 AAAAAAGGAAC
1 AAAAAAGGAAC
37183 AAAAAA
1 AAAAAA
37189 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAC
Found at i:38684 original size:54 final size:54
Alignment explanation
Indices: 38508--39137 Score: 550
Period size: 54 Copynumber: 11.9 Consensus size: 54
38498 AGTTCCATAC
* * *
38508 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTCCGAGTTCCATAC
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* ** * *
38559 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAG-TTAT-T-GGAGTTCTATACT
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTA-AAT
*
38611 T-CCT-GAAGAAAGAGAGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * *
38664 TCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTCCGAGTTCCATAC
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * ** *
38715 TCCCTAGAGAAAGAGGAAGCGAACCCGTATGAAG-TTATAG---GAGTTCTATACT
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT-GTCCGAGTTCTA-AAT
* *
38767 T-CCT-GAAAAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACT
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTA-AAT
* * * *
38821 T-CCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * * * *
38874 TCCCTAGAGAAAGATGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * * * * *
38928 TCCCTATAGAAAGAGGGAGCGAACCTGTTTGAAGAAGCTGTCCGAGTTCCATAC
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * * * *
38982 TCCCTAGAGAAATAGGGAGCGAACCTGTTTGAAAAAGATGTTCGAGTTCTATACT
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTA-AAT
** * * ** *
39037 T-CCT-GAAGAAAGAGGGAGCGAACCCGTAAGAAGACGATTTTTTGAGTTCTATACT
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTCCGAGTTCTA-AAT
** *
39092 T-CCT-GAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGT
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGT
39138 CTCATACTCT
Statistics
Matches: 491, Mismatches: 63, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.00
51 145 0.30
52 7 0.01
53 10 0.02
54 273 0.56
55 54 0.11
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (54 bp):
TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
Found at i:38768 original size:156 final size:156
Alignment explanation
Indices: 38508--39137 Score: 793
Period size: 156 Copynumber: 4.0 Consensus size: 156
38498 AGTTCCATAC
38508 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGA
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGA
* * *
38573 GGGAGCGAACCCGTGTGAAGTTATTGGAGTTCTATACTTCCTGAAGAAAGAGAGAGCGAACCCGT
66 GGGAGCGAACCCGTATGAAGTTATAGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGT
38638 TTGAAGAAGATGTCCGAGTTCTAAAT
131 TTGAAGAAGATGTCCGAGTTCTAAAT
38664 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGA
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGA
* *
38729 GGAAGCGAACCCGTATGAAGTTATAGGAGTTCTATACTTCCTGAAAAAAGAGGGAGCGAACCCGT
66 GGGAGCGAACCCGTATGAAGTTATAGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGT
*
38794 TTGAAGAAGATGTCCGAGTTCTATACT
131 TTGAAGAAGATGTCCGAGTTCTA-AAT
*
38821 T-CCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGA
1 TCCCTAG-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTCCGAGTTCCATACTCCCTAGAGA
* * * * * *
38884 AAGATGGAGCGAACCCGTTTGAAG-AAGATGTTCGAGTTCCATACTCCCT-ATAGAAAGAGGGAG
62 AAGAGGGAGCGAACCCGTATGAAGTTATA-G---GAGTTCTATACTTCCTGA-AGAAAGAGGGAG
* * * * *
38947 CGAACCTGTTTGAAGAAGCTGTCCGAGTTCCATAC
122 CGAACCCGTTTGAAGAAGATGTCCGAGTTCTAAAT
* * * * *
38982 TCCCTAGAGAAATAGGGAGCGAACCTGTTTGAAAAAGATGTTCGAGTTCTATACTTCCT-GAAGA
1 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTG---AAGATGTCCGAGTTCCATACTCCCTAG-AGA
* * **
39046 AAGAGGGAGCGAACCCGTAAGAAGACGATTTTTTGAGTTCTATACTTCCTGAAGAAAGAGGGAGC
62 AAGAGGGAGCGAACCCGTATG-A-A-G-TTATAGGAGTTCTATACTTCCTGAAGAAAGAGGGAGC
** *
39111 GAACCCGTAAGAAGAAGATGTTCGAGT
123 GAACCCGTTTGAAGAAGATGTCCGAGT
39138 CTCATACTCT
Statistics
Matches: 412, Mismatches: 40, Indels: 37
0.84 0.08 0.08
Matches are distributed among these distances:
155 1 0.00
156 174 0.42
157 3 0.01
158 2 0.00
159 53 0.13
161 3 0.01
162 122 0.30
163 51 0.12
164 2 0.00
165 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (156 bp):
TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGA
GGGAGCGAACCCGTATGAAGTTATAGGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGT
TTGAAGAAGATGTCCGAGTTCTAAAT
Found at i:38920 original size:108 final size:108
Alignment explanation
Indices: 38484--39146 Score: 734
Period size: 108 Copynumber: 6.2 Consensus size: 108
38474 TAGTGAAGCG
* * *
38484 GAAGAAGATATTCAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGT
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
38546 CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--T
66 CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
38587 G-TGAAGTTATTGGAGTTCTATACTTCCT-GAAGAAAGAGAGAGCGAACCCGTTTGAAGAAGATG
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* * *
38650 TCCGAGTTCTAAATTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
65 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * **
38694 ---GAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGAAGCGAACCCGTATGAAG-TTATAG
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT-G
* * *
38755 ---GAGTTCTATACTTCCT-GAAAAAAGAGGGAGCGAACCCGTTT
65 TCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
* *
38796 GAAGAAGATGTCCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* *
38860 TTCGAGTTCCATACTCCCTAGAGAAAGATGGAGCGAACCCGTTT
65 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * *
38904 GAAGAAGATGTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCTGTTTGAAGAAGCTGT
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* *
38969 CCGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCTGTTT
66 CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * ** *
39012 GAAAAAGATGTTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTAAGAAGACGATT
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-T
* ** * * **
39076 TTTTGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTAA
64 GTCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTT
39121 GAAGAAGATGTTCGAG-TCTCATACTC
1 GAAGAAGATGTTCGAGTTCT-ATACTC
39147 TCTGAAAGAA
Statistics
Matches: 472, Mismatches: 65, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
101 2 0.00
102 78 0.17
103 1 0.00
104 3 0.01
105 140 0.30
106 3 0.01
107 1 0.00
108 188 0.40
109 56 0.12
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (108 bp):
GAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
CCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:39208 original size:38 final size:38
Alignment explanation
Indices: 39157--39232 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
39147 TCTGAAAGAA
*
39157 TAGGGAACAAACACGATTATTGAAGATTGTTCGAGTCT
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCT
39195 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCT
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCT
39233 CATACTCTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (38 bp):
TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCT
Found at i:39235 original size:93 final size:98
Alignment explanation
Indices: 39124--39399 Score: 357
Period size: 110 Copynumber: 2.8 Consensus size: 98
39114 CCCGTAAGAA
*
39124 GAAGA-TGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAAACACGATTATTGAAGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAGACACGATTATTGAAGATTGTT
39188 CGAGTCTTA-G-GGAACA-AAC-AC-AATTATT
66 CGAGTCTTACGAGGAACAGAACAACAAATTATT
39216 GAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAGACACGATTATTGAAGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAGACACGATTATTGAAGATTGTT
*
39281 CGAGTCTCATACTCTCTGAAGGAATAGGGAACAAACATAATTATT
66 CGAGTCT--TA----C-G-AGGAACA--GAAC-AACA-AATTATT
* * *
39326 GAAGATTGTTCGAGTTTCATACTCTCTGAAAGAATAGGGAGCAGACACTATTATTGAAGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAGACACGATTATTGAAGATTGTT
39391 CGAGTCTTA
66 CGAGTCTTA
39400 TACTCTCTAA
Statistics
Matches: 161, Mismatches: 5, Indels: 20
0.87 0.03 0.11
Matches are distributed among these distances:
92 5 0.03
93 65 0.40
95 2 0.01
101 1 0.01
103 5 0.03
106 3 0.02
108 4 0.02
110 76 0.47
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (98 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAACAGACACGATTATTGAAGATTGTT
CGAGTCTTACGAGGAACAGAACAACAAATTATT
Found at i:39279 original size:55 final size:55
Alignment explanation
Indices: 39195--39475 Score: 429
Period size: 55 Copynumber: 5.1 Consensus size: 55
39185 GTTCGAGTCT
39195 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
* * *
39250 TAGGGAACAGACACGATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAA
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
* *
39305 TAGGGAACAAACATAATTATTGAAGATTGTTCGAGTTTCATACTCTCTGAAAGAA
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
* * * *
39360 TAGGGAGCAGACACTATTATTGAAGATTGTTCGAGTCTTATACTCTCT-AAAGAAA
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAG-AA
* * * *
39415 TAGGGAGCATACACGATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAA
1 TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
39470 TAGGGA
1 TAGGGA
39476 GTGAACATGT
Statistics
Matches: 206, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
54 4 0.02
55 199 0.97
56 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (55 bp):
TAGGGAACAAACACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAA
Found at i:42561 original size:19 final size:19
Alignment explanation
Indices: 42537--42582 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
42527 TGACTTGTTG
42537 ACTTTGATC-CAACCCGTTA
1 ACTTTGA-CGCAACCCGTTA
* *
42556 ACTTTGACGCAACCTGTTG
1 ACTTTGACGCAACCCGTTA
42575 ACTTTGAC
1 ACTTTGAC
42583 CAGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (19 bp):
ACTTTGACGCAACCCGTTA
Found at i:46387 original size:50 final size:49
Alignment explanation
Indices: 46312--46669 Score: 358
Period size: 49 Copynumber: 7.3 Consensus size: 49
46302 AATGCCTAAC
* * ** *
46312 GGTGCATTTTTTGTAGAAAGGTGCCACTAATATAATTTAGATGACAAAG
1 GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
* * * * * * *
46361 GGTACATTTTTTGGCATAAAGGTGCCACAAATGCAAGTTAAATGCCTAAT
1 GGTGCA-TTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
* *
46411 GGTGCATTTTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGACAAAG
1 GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
* * * ***
46460 GGTGCATTTTTGGCAGAAAATGTACCACTAATGCAAGTTAAATG-CCTCG
1 GGTGCATTTTTGGCAG-AAAGGTGCCACTAATGCAAGTTAGATGACAAAG
* * * ** * *
46509 TAGTGCATTTCTGGTAGAAAGGTGTAACTAATGCAAGTTTGATGCCAAAG
1 -GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
*
46559 GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAT
1 GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
* * * * * * *
46608 GCTGCATTTTTGGCAGAAAAGTGCCATTAATGCAAGTTAAATGGCTAAC
1 GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
*
46657 AGTGCATTTTTGG
1 GGTGCATTTTTGG
46670 TATAAATGTG
Statistics
Matches: 247, Mismatches: 58, Indels: 8
0.79 0.19 0.03
Matches are distributed among these distances:
49 172 0.70
50 75 0.30
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (49 bp):
GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAG
Found at i:46470 original size:99 final size:98
Alignment explanation
Indices: 46299--46669 Score: 436
Period size: 99 Copynumber: 3.8 Consensus size: 98
46289 AAAACGAAAT
* * ** *
46299 TTAAATGCCTAACGGTGCATTTTTTGTAGAAAGGTGCCACTAATATAATTTAGATGACAAAGGGT
1 TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAGGGT
* * *
46364 ACATTTTTTGGCATAAAGGTGCCACAAATGCAAG
66 GCA-TTTTTGGCAAAAAGGTGCCACTAATGCAAG
*
46398 TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGACAAAGGGT
1 TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAGGGT
* *
46463 GCATTTTTGGCAGAAAATGTACCACTAATGCAAG
66 GCATTTTTGGCA-AAAAGGTGCCACTAATGCAAG
** * * ** * *
46497 TTAAATGCCTCGTAGTGCATTTCTGGTAGAAAGGTGTAACTAATGCAAGTTTGATGCCAAAGGGT
1 TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAGGGT
*
46562 GCATTTTTGGCAGAAAGGTGCCACTAATGCAAG
66 GCATTTTTGGCAAAAAGGTGCCACTAATGCAAG
* * * * * * * * * * **
46595 TTAGATGACAAATGCTGCATTTTTGGCAGAAAAGTGCCATTAATGCAAGTTAAATGGCTAACAGT
1 TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAGGGT
46660 GCATTTTTGG
66 GCATTTTTGG
46670 TATAAATGTG
Statistics
Matches: 231, Mismatches: 40, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
98 83 0.36
99 148 0.64
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (98 bp):
TTAAATGCCTAATGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAGGGT
GCATTTTTGGCAAAAAGGTGCCACTAATGCAAG
Found at i:50731 original size:36 final size:37
Alignment explanation
Indices: 50681--50764 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
50671 ATGAGAATAT
*
50681 GAAT-GAA-TTCAC-AAAATCAGATGATATATTGTTT
1 GAATGGAATTTCACAAAAATCAGATGATATATTGTTC
* *
50715 GCATGGAATTTCACAAAAATCAGATGATATCTTGTTC
1 GAATGGAATTTCACAAAAATCAGATGATATATTGTTC
50752 GAATGGAATTTCA
1 GAATGGAATTTCA
50765 ATTAGATAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 3 0.07
35 3 0.07
36 5 0.12
37 32 0.74
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (37 bp):
GAATGGAATTTCACAAAAATCAGATGATATATTGTTC
Found at i:54424 original size:34 final size:33
Alignment explanation
Indices: 54362--54425 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
54352 CAAAATTCAC
* *
54362 AAAATAAAATTATAAAAGAGAAGAAAAAGGGAA
1 AAAATAAAATTATAAAACAGAACAAAAAGGGAA
54395 AAAATAAGAATTA-AAAACAGAACATAAAAGG
1 AAAATAA-AATTATAAAACAGAACA-AAAAGG
54426 CCAACAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.69, C:0.03, G:0.16, T:0.12
Consensus pattern (33 bp):
AAAATAAAATTATAAAACAGAACAAAAAGGGAA
Found at i:58006 original size:41 final size:41
Alignment explanation
Indices: 57961--58045 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
57951 ACCTAAACAA
* *
57961 AAATCAAAGAAAAATAAGAAACGATACAAAAATGTTGAAAG
1 AAATCAAAGAAAAAGAAGAAACGATACAAAAACGTTGAAAG
* * *
58002 AAATCAAAGAAAAGGAAGAAATGATACAAGAACGTTGAAAG
1 AAATCAAAGAAAAAGAAGAAACGATACAAAAACGTTGAAAG
58043 AAA
1 AAA
58046 ATTTAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.62, C:0.07, G:0.18, T:0.13
Consensus pattern (41 bp):
AAATCAAAGAAAAAGAAGAAACGATACAAAAACGTTGAAAG
Found at i:59593 original size:16 final size:16
Alignment explanation
Indices: 59572--59622 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
59562 ATGGGTTTCA
59572 ATTATTTATTATTTAT
1 ATTATTTATTATTTAT
59588 ATTA-TTA-TA-TTA-
1 ATTATTTATTATTTAT
59600 ATTATTTATTATTCTAT
1 ATTATTTATTATT-TAT
59617 -TTATTT
1 ATTATTT
59623 TTCGGGCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
14 4 0.13
15 4 0.13
16 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATTTATTATTTAT
Found at i:59594 original size:12 final size:13
Alignment explanation
Indices: 59572--59611 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
59562 ATGGGTTTCA
59572 ATTAT-TTATTAT
1 ATTATATTATTAT
59584 -TTATATTATTAT
1 ATTATATTATTAT
59596 ATTA-ATTATT-T
1 ATTATATTATTAT
59607 ATTAT
1 ATTAT
59612 TCTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.36
12 13 0.52
13 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:72777 original size:49 final size:49
Alignment explanation
Indices: 72718--73137 Score: 553
Period size: 49 Copynumber: 8.6 Consensus size: 49
72708 AACCGATCTA
* ** *
72718 TAATGAAAGTTAAATGCATAACAGTGCATTTTTGACAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
72767 TAATGCAAGTTAAATGCAAAATGGTGCA-TTTTGGCATAAATGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
*
72815 TAATGCAAGTTAAATGCAAAATGGTGCATTTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
72864 TAATGTAAGTTAAATGCATAATGATGCATTTTTGGTAGAAAGGTGCCAT
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
72913 TAATGCAAGTTAAATGCATAAAGGTGCA-TTTTGGGAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
72961 TAATGCAAGTTAAATGCATAATAGTGCATTTTTGGCTGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
73010 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGATGCCAT
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
** * * *
73059 TAATGTGAGTTAAATGCATAACGGTGTA-TTTTGGCAGAAAGATGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
73107 TAACGACAA-TTAAATGTATAACT-GTGCATTT
1 TAATG-CAAGTTAAATGCATAA-TGGTGCATTT
73138 CGGTATAAAA
Statistics
Matches: 326, Mismatches: 40, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
48 126 0.39
49 200 0.61
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:73134 original size:97 final size:98
Alignment explanation
Indices: 72718--73137 Score: 539
Period size: 97 Copynumber: 4.3 Consensus size: 98
72708 AACCGATCTA
* *
72718 TAATGAAAGTTAAATGCATAACA-GTGCATTTTTGACAGAAAGGTGCCACTAATGCAAGTTAAAT
1 TAATGCAAGTTAAATGCATAA-ATGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* * * *
72782 GCAAAATGGTGCA-TTTTGGCATAAATGTGTCAC
65 GCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
*
72815 TAATGCAAGTTAAATGCA-AAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGTAAGTTAAAT
1 TAATGCAAGTTAAATGCATAAAT-GTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* * *
72879 GCATAATGATGCATTTTTGGTAGAAAGGTGCCAT
65 GCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
72913 TAATGCAAGTTAAATGCATAAAGGTGCA-TTTTGGGAGAAAGGTGCCACTAATGCAAGTTAAATG
1 TAATGCAAGTTAAATGCATAAATGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAATG
* *
72977 CATAATAGTGCATTTTTGGCTGAAAGGTGCCAC
66 CATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * **
73010 TAATGCAAGTTAAATGCAT-AATGGTGCATTTTTGGCAGAAAGATGCCATTAATGTGAGTTAAAT
1 TAATGCAAGTTAAATGCATAAAT-GTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* * *
73074 GCATAACGGTGTA-TTTTGGCAGAAAGATGCCAC
65 GCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
73107 TAACGACAA-TTAAATGTATAACTGTGCATTT
1 TAATG-CAAGTTAAATGCATAAATGTGCATTT
73138 CGGTATAAAA
Statistics
Matches: 283, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.00
96 4 0.01
97 192 0.68
98 83 0.29
99 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
TAATGCAAGTTAAATGCATAAATGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAATG
CATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:73134 original size:146 final size:145
Alignment explanation
Indices: 72718--73137 Score: 576
Period size: 146 Copynumber: 2.9 Consensus size: 145
72708 AACCGATCTA
** * *
72718 TAATGAAAGTTAAATGCATAACAGTGCATTTTTGACAGAAAGGTGCCACTAATGCAAGTTAAATG
1 TAATGAAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAAATG
* * * *
72783 CA-AAATGGTGCATTTTGGCATAAATGTGTCACTAATGCAAGTTAAATGCAAAATGGTGCATTTT
66 CATAAA-GGTGCATTTTGGCAGAAA-GTGCCACTAATGCAAGTTAAATGCATAATAGTGCATTTT
72847 TGGCAGAAAGGTGCCAC
129 TGGCAGAAAGGTGCCAC
* * *
72864 TAATGTAAGTTAAATGCATAATGATGCATTTTTGGTAGAAAGGTGCCATTAATGCAAGTTAAATG
1 TAATGAAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAAATG
*
72929 CATAAAGGTGCATTTTGGGAGAAAGGTGCCACTAATGCAAGTTAAATGCATAATAGTGCATTTTT
66 CATAAAGGTGCATTTTGGCAGAAA-GTGCCACTAATGCAAGTTAAATGCATAATAGTGCATTTTT
*
72994 GGCTGAAAGGTGCCAC
130 GGCAGAAAGGTGCCAC
* * **
73010 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGATGCCATTAATGTGAGTTAAATG
1 TAATGAAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAAATG
* * * *
73075 CATAACGGTGTATTTTGGCAGAAAGATGCCACTAACGACAA-TTAAATGTATAACT-GTGCATTT
66 CATAAAGGTGCATTTTGGCAGAAAG-TGCCACTAATG-CAAGTTAAATGCATAA-TAGTGCATTT
73138 CGGTATAAAA
Statistics
Matches: 245, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
145 1 0.00
146 237 0.97
147 7 0.03
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (145 bp):
TAATGAAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAAATG
CATAAAGGTGCATTTTGGCAGAAAGTGCCACTAATGCAAGTTAAATGCATAATAGTGCATTTTTG
GCAGAAAGGTGCCAC
Found at i:80944 original size:49 final size:49
Alignment explanation
Indices: 80874--81528 Score: 727
Period size: 49 Copynumber: 13.4 Consensus size: 49
80864 ATGAATGTTC
* * *
80874 AATGCATAACGGTGTATTTTTGGCTGAAAGGTGCCACTAATGCAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * *
80923 AATGCAAAATGGTGCAGTTTTGGTAGAAAGGTGCCACTAATGCAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* *
80972 ATTGCATAATGGTGCAATTTTGGCAGAAAGGTGCCACTAAT-CAAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGC-AAGTTA
* * * * *
81021 AATACATAATGGTGCATTTTTGGCAAAAAGGTGTCACCAATGCAACTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* *
81070 AATGCATAATGGTGCATTTTTGGCAGAAATGTGTCACTAATGCAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * *
81119 AATGCATAAAT-GTGCATTTTTGGAAAAAAGGTGTCACTAATGCAAGTTA
1 AATGCAT-AATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * *
81168 AATGCACAAAT-GTGCATTTTTGGCAGAAATGTGTCACTAATGCAAGTTA
1 AATGCA-TAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
81217 AATGCATAAAT-GTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTT-
1 AATGCAT-AATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * **
81265 AATGCATAATGGTGCATTTTTGGAAGAAATGTTTCACTAATGCAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * * * *
81314 AATTCATAATGGTTCATTTTTGGCAAAAAAGTACCACTAATGCAAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
* * * * * ***
81363 AATGCATAATGGTGCATTTTTTGAAAAAATGTTCCACTAATTTGAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
** *
81412 AATGTGT-ATCGGTGCA-TTTTGGCAGAAAGGTGCCACTAAT-AACAGTTA
1 AATGCATAAT-GGTGCATTTTTGGCAGAAAGGTGCCACTAATGCA-AGTTA
* * * * *
81460 AATGTATAACGGTGCA-TTTCGGCATATAAGGTGTCACTAATG-ACAGTTA
1 AATGCATAATGGTGCATTTTTGGCAGA-AAGGTGCCACTAATGCA-AGTTA
* **
81509 AATGTATAACAGTGCATTTT
1 AATGCATAATGGTGCATTTT
81529 GAAATAAAAT
Statistics
Matches: 526, Mismatches: 67, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.01
48 87 0.17
49 429 0.82
50 7 0.01
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (49 bp):
AATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTA
Found at i:88781 original size:5 final size:5
Alignment explanation
Indices: 88771--88796 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
88761 ATTCTTCTCA
88771 CTTCT CTTCT CTTCT CTTCT CTTCT C
1 CTTCT CTTCT CTTCT CTTCT CTTCT C
88797 GATTCCTCGT
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:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CTTCT
Found at i:92947 original size:104 final size:104
Alignment explanation
Indices: 92729--93017 Score: 305
Period size: 104 Copynumber: 2.8 Consensus size: 104
92719 TGCTATGTGT
* * *
92729 AAGAAGGGGATGGTTTCCAAAGCTGAATAA-ATCGTTAACACAATGATAAAGCAAGGTATTAAGC
1 AAGAAGGGGATGGTTTACAAAGCTGAA-AATATCGTTAACACAATGATAAAGCAAGGCATTGAGC
* *** * ** *
92793 CTGATGTTGTCTTGTATAACATATTGTTTATGCACTTTGC
65 CTAATGTTGTCACATATAACATATGGTGGATGCACATTGC
* * * *
92833 AAGAAGGGGATGGTTTGCAAAGCTGAAGATATCATTAACACAATGAGAAAGCAAGGCATTGAGCC
1 AAGAAGGGGATGGTTTACAAAGCTGAAAATATCGTTAACACAATGATAAAGCAAGGCATTGAGCC
* *
92898 TAATGTTGTCACATATACCATACTGGTGGATGCCCATTGC
66 TAATGTTGTCACATATAACATA-TGGTGGATGCACATTGC
* * * * * * *
92938 AAGGA-GGGATCGATTTACGAAGCT-AAAAGTATTGTTCACACAATGATAAATCAAGGCATTGCG
1 AAGAAGGGGAT-GGTTTACAAAGCTGAAAA-TATCGTTAACACAATGATAAAGCAAGGCATTGAG
93001 CCTAATGTTGTCACATA
64 CCTAATGTTGTCACATA
93018 CATCACTCTT
Statistics
Matches: 154, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
103 1 0.01
104 82 0.53
105 71 0.46
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (104 bp):
AAGAAGGGGATGGTTTACAAAGCTGAAAATATCGTTAACACAATGATAAAGCAAGGCATTGAGCC
TAATGTTGTCACATATAACATATGGTGGATGCACATTGC
Done.