Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003597.1 Hibiscus syriacus cultivar Beakdansim tig00007600_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: 42146
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:369 original size:2 final size:2
Alignment explanation
Indices: 356--402 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
346 TTTTAAGAAA
356 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
396 AT AT AT A
1 AT AT AT A
403 AGATATTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:652 original size:27 final size:26
Alignment explanation
Indices: 605--671 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
595 ATGTCCTTTC
605 TTAATTTAAAAATAAACAAATAT-TA
1 TTAATTTAAAAATAAACAAATATATA
**
630 TTAATTTATAAAATTAATTAAATATATA
1 TTAATTTA-AAAA-TAAACAAATATATA
658 TATAA--TAAAAATAA
1 T-TAATTTAAAAATAA
672 TAATAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 11 0.31
26 8 0.22
27 11 0.31
28 3 0.08
29 3 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAATTTAAAAATAAACAAATATATA
Found at i:677 original size:15 final size:17
Alignment explanation
Indices: 649--681 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
639 AAAATTAATT
649 AAATATATATATAATAA
1 AAATATATATATAATAA
666 AAATA-ATA-ATAATAA
1 AAATATATATATAATAA
681 A
1 A
682 TTACTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATATATATAATAA
Found at i:1080 original size:14 final size:14
Alignment explanation
Indices: 1061--1088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1051 CATGTGGGAA
1061 ATCACCAAAACGAC
1 ATCACCAAAACGAC
1075 ATCACCAAAACGAC
1 ATCACCAAAACGAC
1089 GTCGTTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.36, G:0.07, T:0.07
Consensus pattern (14 bp):
ATCACCAAAACGAC
Found at i:1980 original size:3 final size:3
Alignment explanation
Indices: 1972--2038 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
1962 GCCTGTTTTG
* * *
1972 TAA TAA TAA TATT TAT TAA TAA TAA TAA TAA TAA TTA TAA TAA -ATA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
2018 TAA TTA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2039 AAGTAAAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 1 0.02
3 49 0.92
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2861 original size:27 final size:28
Alignment explanation
Indices: 2821--2873 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
2811 TAAATTTGTT
2821 TTAATTATTAAATT-TAA-ATTTTTTAA
1 TTAATTATTAAATTCTAATATTTTTTAA
*
2847 TTAATTTATTTAATTCTAATATTTTTT
1 TTAA-TTATTAAATTCTAATATTTTTT
2874 TACTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 9 0.39
28 3 0.13
29 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TTAATTATTAAATTCTAATATTTTTTAA
Found at i:4621 original size:34 final size:34
Alignment explanation
Indices: 4561--4630 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
4551 ATATATAATA
* * *
4561 TATATATATATCAAGTATTAATAAATA-AATAAGC
1 TATATATACACCAAATATTAATAAATAGAA-AAGC
4595 TATATATACACCAAATACTTAA-AAATAGAAAAGC
1 TATATATACACCAAATA-TTAATAAATAGAAAAGC
4629 TA
1 TA
4631 CCCTCCCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 25 0.81
35 6 0.19
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (34 bp):
TATATATACACCAAATATTAATAAATAGAAAAGC
Found at i:4986 original size:20 final size:18
Alignment explanation
Indices: 4970--5048 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
4960 TAAAATATTA
4970 AATAAATATATATAATAAT
1 AATAAA-ATATATAATAAT
4989 AATAAAATATAGTAA-AA-
1 AATAAAATATA-TAATAAT
*
5006 AAT-AAATGATA-ATTTAAT
1 AATAAAAT-ATATA-ATAAT
*
5024 -ATATATATATATAATAAT
1 AATA-AAATATATAATAAT
5042 AATAAAA
1 AATAAAA
5049 AAAATGAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 10 0.21
18 16 0.34
19 16 0.34
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAAAATATATAATAAT
Found at i:5500 original size:37 final size:37
Alignment explanation
Indices: 5418--5519 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
5408 GTGCTTGTGG
* * * * * *
5418 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* * *
5455 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
5492 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
5520 TAGGACGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:6373 original size:105 final size:105
Alignment explanation
Indices: 6065--6728 Score: 953
Period size: 105 Copynumber: 6.3 Consensus size: 105
6055 GCATTGTTCC
* * ** *
6065 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
6129 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6171 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
6231 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6271 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
6336 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCTTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6376 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
6441 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
6481 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTAACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
6546 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6586 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * **
6651 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTTTGTTGTCTCG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
* * * * *
6693 AGTGTCACGATATCCTCCGTCGTGGAGTTGAAATTG
1 -GAGTC-CAATATCCTTCGTTGTGAAGTTGAAATTG
6729 CGGATGTTTG
Statistics
Matches: 515, Mismatches: 33, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
100 85 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 307 0.60
106 80 0.16
107 1 0.00
108 4 0.01
109 25 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:6955 original size:36 final size:36
Alignment explanation
Indices: 6902--6970 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
6892 AGAGAAATTG
*
6902 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTA
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAACTA
* *
6938 TCTCAAGTGAGATAAAATTCATTTCAAGGGAAA
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAA
6971 TGTTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TCTCAAGGGAGACAAAATTCATTTCAAGGGAAACTA
Found at i:7080 original size:104 final size:104
Alignment explanation
Indices: 6870--7187 Score: 516
Period size: 104 Copynumber: 3.1 Consensus size: 104
6860 TTCGTTAAAT
* ** * *
6870 TGTTTTCAAAGTTTATGTTTGGAGAGAAATTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
6932 AAACTATCTCAAGTGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
6971 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTTTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
7036 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
7075 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
7140 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
7179 TGTTTTCAA
1 TGTTTTCAA
7188 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
101 45 0.22
103 3 0.01
104 153 0.76
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:7144 original size:39 final size:39
Alignment explanation
Indices: 7090--7164 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
7080 TCAATGTTTA
* *
7090 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
7129 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
7165 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:7405 original size:72 final size:75
Alignment explanation
Indices: 7271--7432 Score: 190
Period size: 72 Copynumber: 2.2 Consensus size: 75
7261 AAAAAACAGC
* ** *
7271 CTTGAGTGAAATGAAATGTCTTCTTTCGAGTGAAAATGGTCTCAAGCAAGACAAATCTTGTTTTA
1 CTTGAGTGAAAT-AAA-GTCTTCTTTCGAGTAAAAACAGTCTCAAGCAAGACAAATCATGTTTTA
*
7336 AGAAAAA-TAAT
64 AGAAAAACAAAT
**
7347 CTTGAGTGAAATAAA-TCTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAA
1 CTTGAGTGAAATAAAGTCTTCTTTCGAGTAAAAACAGTCTCAAGCAAGACAAA-TCATGTTTTAA
7409 GAAAAACAAAT
65 GAAAAACAAAT
*
7420 -TTGAGTGAGATAA
1 CTTGAGTGAAATAA
7433 TCATCTGCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
72 45 0.59
73 16 0.21
75 3 0.04
76 12 0.16
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (75 bp):
CTTGAGTGAAATAAAGTCTTCTTTCGAGTAAAAACAGTCTCAAGCAAGACAAATCATGTTTTAAG
AAAAACAAAT
Found at i:8883 original size:183 final size:183
Alignment explanation
Indices: 8573--9109 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
8563 ATCAGGTTTA
* * *
8573 ACTGAAGGGATCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGAAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
8638 GCCAAGTGTCTGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
8702 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
8756 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
8821 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGATTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
8886 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGATTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
8939 ACTGAAGGGTTCATCTCATCAAAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
9004 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
9069 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
9110 CGGATTTAAT
Statistics
Matches: 341, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 340 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:14902 original size:22 final size:21
Alignment explanation
Indices: 14863--14903 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14853 ATAAAAATAA
*
14863 TATAAATATATAATATAAAGT
1 TATAAATATATAACATAAAGT
*
14884 TATAAGATATATTACATAAA
1 TATAA-ATATATAACATAAA
14904 TAAAGAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
TATAAATATATAACATAAAGT
Found at i:15087 original size:18 final size:19
Alignment explanation
Indices: 15057--15093 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15047 AAAGAAATAT
15057 ATATATAATAAT-AATAAA
1 ATATATAATAATAAATAAA
15075 ATATAGTAA-AATAAATAAA
1 ATATA-TAATAATAAATAAA
15094 TGAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
ATATATAATAATAAATAAA
Found at i:15094 original size:18 final size:18
Alignment explanation
Indices: 15051--15145 Score: 53
Period size: 18 Copynumber: 5.4 Consensus size: 18
15041 AATATTAAAG
*
15051 AAATATATATATAATAAT
1 AAATAAATATATAATAAT
15069 -AATAAAATATAGTAA-AAT
1 AAAT-AAATATA-TAATAAT
15087 AAATAAATGA-A-AATAATT
1 AAATAAAT-ATATAATAA-T
* *
15105 TAATATATATAT-AT-AT
1 AAATAAATATATAATAAT
*
15121 ACATATAATA-ATAATAA-
1 AAATA-AATATATAATAAT
15138 AAATAAAT
1 AAATAAAT
15146 GAATAAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 24
0.66 0.08 0.27
Matches are distributed among these distances:
16 11 0.19
17 16 0.27
18 25 0.42
19 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATAAATATATAATAAT
Found at i:15578 original size:37 final size:37
Alignment explanation
Indices: 15520--15616 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
15510 GGATCCTATC
* * *
15520 TTTAGGAATTTAAATCTTAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCTTAGTAAAACTCTATCATATT
* * * *
15557 TTTAGGAGTTTGAATCCTAGTAAAATTTTATCCTATT
1 TTTAGGAGTTTGAATCTTAGTAAAACTCTATCATATT
15594 TTTAGGAGTTTGAATCTTAGTAA
1 TTTAGGAGTTTGAATCTTAGTAA
15617 GACGAAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCTTAGTAAAACTCTATCATATT
Found at i:16823 original size:333 final size:333
Alignment explanation
Indices: 16217--16878 Score: 1324
Period size: 333 Copynumber: 2.0 Consensus size: 333
16207 GTTGCCGAGA
16217 TGGACGGACCAGGTGAGAATTACTTCCGAAAGCCTGTTGGAAGGGACTCATGATGATGGCTACAG
1 TGGACGGACCAGGTGAGAATTACTTCCGAAAGCCTGTTGGAAGGGACTCATGATGATGGCTACAG
16282 TTGGAGAAATATGAGCAAAAAGACATCATATTTCATGTTTTTCGACTAATTCTTTTTCACAATCG
66 TTGGAGAAATATGAGCAAAAAGACATCATATTTCATGTTTTTCGACTAATTCTTTTTCACAATCG
16347 AAATAAAGGGTAAAGGTAAATGTAGAACCCGGGCTCAAGTGACCAGATTAGCTGGTTGCATCTGT
131 AAATAAAGGGTAAAGGTAAATGTAGAACCCGGGCTCAAGTGACCAGATTAGCTGGTTGCATCTGT
16412 TCAAGCTAGCATTGTTTTTCGCCAGGATCTATTGTACAATACACAAGTCTCTTCCAATTTCATGT
196 TCAAGCTAGCATTGTTTTTCGCCAGGATCTATTGTACAATACACAAGTCTCTTCCAATTTCATGT
16477 TGAGTGTAAGACATTGCTTCTGATAACAAGTTTTGGCATTTGTTCTAATTGCAGTTGCAATAATA
261 TGAGTGTAAGACATTGCTTCTGATAACAAGTTTTGGCATTTGTTCTAATTGCAGTTGCAATAATA
16542 TGAGTGCT
326 TGAGTGCT
16550 TGGACGGACCAGGTGAGAATTACTTCCGAAAGCCTGTTGGAAGGGACTCATGATGATGGCTACAG
1 TGGACGGACCAGGTGAGAATTACTTCCGAAAGCCTGTTGGAAGGGACTCATGATGATGGCTACAG
16615 TTGGAGAAATATGAGCAAAAAGACATCATATTTCATGTTTTTCGACTAATTCTTTTTCACAATCG
66 TTGGAGAAATATGAGCAAAAAGACATCATATTTCATGTTTTTCGACTAATTCTTTTTCACAATCG
16680 AAATAAAGGGTAAAGGTAAATGTAGAACCCGGGCTCAAGTGACCAGATTAGCTGGTTGCATCTGT
131 AAATAAAGGGTAAAGGTAAATGTAGAACCCGGGCTCAAGTGACCAGATTAGCTGGTTGCATCTGT
16745 TCAAGCTAGCATTGTTTTTCGCCAGGATCTATTGTACAATACACAAGTCTCTTCCAATTTCATGT
196 TCAAGCTAGCATTGTTTTTCGCCAGGATCTATTGTACAATACACAAGTCTCTTCCAATTTCATGT
16810 TGAGTGTAAGACATTGCTTCTGATAACAAGTTTTGGCATTTGTTCTAATTGCAGTTGCAATAATA
261 TGAGTGTAAGACATTGCTTCTGATAACAAGTTTTGGCATTTGTTCTAATTGCAGTTGCAATAATA
16875 TGAG
326 TGAG
16879 AGTGCGAACA
Statistics
Matches: 329, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
333 329 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (333 bp):
TGGACGGACCAGGTGAGAATTACTTCCGAAAGCCTGTTGGAAGGGACTCATGATGATGGCTACAG
TTGGAGAAATATGAGCAAAAAGACATCATATTTCATGTTTTTCGACTAATTCTTTTTCACAATCG
AAATAAAGGGTAAAGGTAAATGTAGAACCCGGGCTCAAGTGACCAGATTAGCTGGTTGCATCTGT
TCAAGCTAGCATTGTTTTTCGCCAGGATCTATTGTACAATACACAAGTCTCTTCCAATTTCATGT
TGAGTGTAAGACATTGCTTCTGATAACAAGTTTTGGCATTTGTTCTAATTGCAGTTGCAATAATA
TGAGTGCT
Found at i:19189 original size:10 final size:10
Alignment explanation
Indices: 19176--19279 Score: 64
Period size: 10 Copynumber: 10.4 Consensus size: 10
19166 ACCACGACCA
*
19176 CGAGCCGAGC
1 CGAGCCGTGC
*
19186 CGAGTCGTGC
1 CGAGCCGTGC
*
19196 CGTGCCGTGC
1 CGAGCCGTGC
* **
19206 CGTGCCGTAT
1 CGAGCCGTGC
* * **
19216 CGTGTCGTTT
1 CGAGCCGTGC
*
19226 CGTGCCGTGC
1 CGAGCCGTGC
* *
19236 CGTGCCGTGT
1 CGAGCCGTGC
*
19246 CGTGCCGTGC
1 CGAGCCGTGC
*
19256 CGTGCCGTGC
1 CGAGCCGTGC
*
19266 CGTGCCGTGC
1 CGAGCCGTGC
19276 CGAG
1 CGAG
19280 ACGAGACGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 80 1.00
ACGTcount: A:0.05, C:0.35, G:0.38, T:0.22
Consensus pattern (10 bp):
CGAGCCGTGC
Found at i:19199 original size:5 final size:5
Alignment explanation
Indices: 19191--19277 Score: 120
Period size: 5 Copynumber: 17.4 Consensus size: 5
19181 CGAGCCGAGT
** * **
19191 CGTGC CGTGC CGTGC CGTGC CGTAT CGTGT CGTTT CGTGC CGTGC CGTGC
1 CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC
*
19241 CGTGT CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CG
1 CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CGTGC CG
19278 AGACGAGACG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.01, C:0.36, G:0.38, T:0.25
Consensus pattern (5 bp):
CGTGC
Found at i:25876 original size:877 final size:877
Alignment explanation
Indices: 24183--25937 Score: 3384
Period size: 877 Copynumber: 2.0 Consensus size: 877
24173 CTTGAACAGG
24183 ACGTAGTCAAGATCAAGTTGCTCGAAGAATATCAGGATTCTTTGGGACCACCTTCTATAATTCTT
1 ACGTAGTCAAGATCAAGTTGCTCGAAGAATATCAGGATTCTTTGGGACCACCTTCTATAATTCTT
24248 TCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCAAAGGTGTTGACATGATTG
66 TCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCAAAGGTGTTGACATGATTG
24313 CAGTATATAGAATTCGTTTCTAAATTATTGGATATATGAACTGCAAAACTACACCGTTAGCACTG
131 CAGTATATAGAATTCGTTTCTAAATTATTGGATATATGAACTGCAAAACTACACCGTTAGCACTG
*
24378 ACTGGAAATATAAACAGTAATTAAAAGGAACAGATTCGTAAACCGTGTCGTGGTATAATCACTGC
196 ACTGAAAATATAAACAGTAATTAAAAGGAACAGATTCGTAAACCGTGTCGTGGTATAATCACTGC
24443 CTTAGAAACGAATTCGCCCCGATGTGTGTAATCGCTGAAGTAGGCGGACCGTCACCCGAGGTTAA
261 CTTAGAAACGAATTCGCCCCGATGTGTGTAATCGCTGAAGTAGGCGGACCGTCACCCGAGGTTAA
24508 CACGGTCGCTCCGAATTCCGTACACCCGAAATCGGAGTGGACTGTCGGTGGTATTGCTCTTCTTA
326 CACGGTCGCTCCGAATTCCGTACACCCGAAATCGGAGTGGACTGTCGGTGGTATTGCTCTTCTTA
24573 TCGGAAAGCACACAAAGAGAATATTTAGAAAACACTTGGAGAGTGAATTCTGAATGTTGAGAGTG
391 TCGGAAAGCACACAAAGAGAATATTTAGAAAACACTTGGAGAGTGAATTCTGAATGTTGAGAGTG
24638 AGTTGAGAAGCTGAATATAGCCCTCTATTTATATGCTAGAAATAGGGTTAAAATCGTCCATAAAA
456 AGTTGAGAAGCTGAATATAGCCCTCTATTTATATGCTAGAAATAGGGTTAAAATCGTCCATAAAA
* *
24703 TTTCAGGATTAAATCTCTTCTTTTGTAACAGCTGAAACGTCTAGATTAACCTGACTCAAAAATAG
521 TTTCAGGATTAAATCTCTTCTTTTGTAACAACTGAAACGTCTAGATGAACCTGACTCAAAAATAG
*
24768 TCCAGGTTCATTGCATCATTATTCAACTGTTATAACTCCCGAAATTATATCATGTAACCCCTGGA
586 TACAGGTTCATTGCATCATTATTCAACTGTTATAACTCCCGAAATTATATCATGTAACCCCTGGA
24833 ATTAAATCAAATAACTCCTGTAACTTCTGATATTAACAGCTTGTCTCCTCTGTACAAAGCTAGAA
651 ATTAAATCAAATAACTCCTGTAACTTCTGATATTAACAGCTTGTCTCCTCTGTACAAAGCTAGAA
24898 ATCAGTCCAGATACATCTTAACATTTTTGATTTAATTTAGGAAAAGCTGTTTAATTTTTGATAAC
716 ATCAGTCCAGATACATCTTAACATTTTTGATTTAATTTAGGAAAAGCTGTTTAATTTTTGATAAC
24963 TCTCATAAACCAGCTATTATCATTTGAAATTAAACAGTCCTCAGCAGCTTATAAATATCAGTTGA
781 TCTCATAAACCAGCTATTATCATTTGAAATTAAACAGTCCTCAGCAGCTTATAAATATCAGTTGA
*
25028 AATCTTTCACATTTTTCCATTTGTTTCTTTCA
846 AATCTTTCACATTTTTCCATTTGTCTCTTTCA
*
25060 ACGTAGTCAAGATCAAGTTGCTCGAAGAATATCAGGATTCTTTGGGACCACGTTCTATAATTCTT
1 ACGTAGTCAAGATCAAGTTGCTCGAAGAATATCAGGATTCTTTGGGACCACCTTCTATAATTCTT
25125 TCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCAAAGGTGTTGACATGATTG
66 TCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCAAAGGTGTTGACATGATTG
25190 CAGTATATAGAATTCGTTTCTAAATTATTGGATATATGAACTGCAAAACTACACCGTTAGCACTG
131 CAGTATATAGAATTCGTTTCTAAATTATTGGATATATGAACTGCAAAACTACACCGTTAGCACTG
25255 ACTGAAAATATAAACAGTAATTAAAAGGAACAGATTCGTAAACCGTGTCGTGGTATAATCACTGC
196 ACTGAAAATATAAACAGTAATTAAAAGGAACAGATTCGTAAACCGTGTCGTGGTATAATCACTGC
*
25320 CTTAGAAACGAATTCGCCCCGATGTGTGTAATCGCTGAAGTAGGCGGACCGTCCCCCGAGGTTAA
261 CTTAGAAACGAATTCGCCCCGATGTGTGTAATCGCTGAAGTAGGCGGACCGTCACCCGAGGTTAA
*
25385 CACGGTCGCTCCGAATTCTGTACACCCGAAATCGGAGTGGACTGTCGGTGGTATTGCTCTTCTTA
326 CACGGTCGCTCCGAATTCCGTACACCCGAAATCGGAGTGGACTGTCGGTGGTATTGCTCTTCTTA
* *
25450 TCGGAAAGCACACAGATAGAATATTTAGAAAACACTTGGAGAGTGAATTCTGAATGTTGAGAGTG
391 TCGGAAAGCACACAAAGAGAATATTTAGAAAACACTTGGAGAGTGAATTCTGAATGTTGAGAGTG
*
25515 AGTTGAGAAGCTGAATATAGCCCTCTATTTATATGCTAGAAATAGGGTTAAAATCGTCTATAAAA
456 AGTTGAGAAGCTGAATATAGCCCTCTATTTATATGCTAGAAATAGGGTTAAAATCGTCCATAAAA
25580 TTTCAGGATTAAATCTCTTCTTTTGTAACAACTGAAACGTCTAGATGAACCTGACTCAAAAATAG
521 TTTCAGGATTAAATCTCTTCTTTTGTAACAACTGAAACGTCTAGATGAACCTGACTCAAAAATAG
25645 TACAGGTTCATTGCATCATTATTCAACTGTTATAACTCCCGAAATTATATCATGTAACCCCTGGA
586 TACAGGTTCATTGCATCATTATTCAACTGTTATAACTCCCGAAATTATATCATGTAACCCCTGGA
*
25710 ATTAAATCAAATAACTCCTGTAACTTCTGATATTAACAGCTTGTCTCCTCTGTACAAAGCTGGAA
651 ATTAAATCAAATAACTCCTGTAACTTCTGATATTAACAGCTTGTCTCCTCTGTACAAAGCTAGAA
25775 ATCAGTCCAGATACATCTTAACATTTTTGATTTAATTTAGGAAAAGCTGTTTAATTTTTGATAAC
716 ATCAGTCCAGATACATCTTAACATTTTTGATTTAATTTAGGAAAAGCTGTTTAATTTTTGATAAC
* *
25840 TCTCATAAACCAGTTGTTATCATTTGAAATTAAACAGTCCTCAGCAGCTTATAAATATCAGTTGA
781 TCTCATAAACCAGCTATTATCATTTGAAATTAAACAGTCCTCAGCAGCTTATAAATATCAGTTGA
25905 AATCTTTCACATTTTTCCATTTGTCTCTTTCA
846 AATCTTTCACATTTTTCCATTTGTCTCTTTCA
25937 A
1 A
25938 AGAGAAATTT
Statistics
Matches: 864, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
877 864 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (877 bp):
ACGTAGTCAAGATCAAGTTGCTCGAAGAATATCAGGATTCTTTGGGACCACCTTCTATAATTCTT
TCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCAAAGGTGTTGACATGATTG
CAGTATATAGAATTCGTTTCTAAATTATTGGATATATGAACTGCAAAACTACACCGTTAGCACTG
ACTGAAAATATAAACAGTAATTAAAAGGAACAGATTCGTAAACCGTGTCGTGGTATAATCACTGC
CTTAGAAACGAATTCGCCCCGATGTGTGTAATCGCTGAAGTAGGCGGACCGTCACCCGAGGTTAA
CACGGTCGCTCCGAATTCCGTACACCCGAAATCGGAGTGGACTGTCGGTGGTATTGCTCTTCTTA
TCGGAAAGCACACAAAGAGAATATTTAGAAAACACTTGGAGAGTGAATTCTGAATGTTGAGAGTG
AGTTGAGAAGCTGAATATAGCCCTCTATTTATATGCTAGAAATAGGGTTAAAATCGTCCATAAAA
TTTCAGGATTAAATCTCTTCTTTTGTAACAACTGAAACGTCTAGATGAACCTGACTCAAAAATAG
TACAGGTTCATTGCATCATTATTCAACTGTTATAACTCCCGAAATTATATCATGTAACCCCTGGA
ATTAAATCAAATAACTCCTGTAACTTCTGATATTAACAGCTTGTCTCCTCTGTACAAAGCTAGAA
ATCAGTCCAGATACATCTTAACATTTTTGATTTAATTTAGGAAAAGCTGTTTAATTTTTGATAAC
TCTCATAAACCAGCTATTATCATTTGAAATTAAACAGTCCTCAGCAGCTTATAAATATCAGTTGA
AATCTTTCACATTTTTCCATTTGTCTCTTTCA
Found at i:27541 original size:14 final size:13
Alignment explanation
Indices: 27516--27540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27506 TAATATTTTT
27516 AATTTTTAAAAAC
1 AATTTTTAAAAAC
27529 AATTTTTAAAAA
1 AATTTTTAAAAA
27541 AATATATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTTTAAAAAC
Found at i:33112 original size:21 final size:21
Alignment explanation
Indices: 33083--33135 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
33073 ATTCTGACTA
33083 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
33104 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
33125 TCGCAATGCGA
1 TCGCATTGCGA
33136 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:33150 original size:20 final size:20
Alignment explanation
Indices: 33125--33237 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
33115 TTTTCCTAAT
33125 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
33145 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
33165 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
33185 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
33205 TCACAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
33225 TCGCAATGCGAAT
1 TCGCAATGCGAAT
33238 CTGACTATCG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:33247 original size:20 final size:20
Alignment explanation
Indices: 33224--33311 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
33214 GAATATGTAA
*
33224 ATCGCAATGCGAATCTGACT
1 ATCGCAATGAGAATCTGACT
*
33244 ATCGCAATGCGAATCTGACT
1 ATCGCAATGAGAATCTGACT
* *
33264 ATCGCAACGAGATTCTGACT
1 ATCGCAATGAGAATCTGACT
*
33284 ATCGCAATGAGATTCTGACT
1 ATCGCAATGAGAATCTGACT
33304 ATCGCAAT
1 ATCGCAAT
33312 ACTGAATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGAGAATCTGACT
Found at i:33252 original size:40 final size:40
Alignment explanation
Indices: 33125--33292 Score: 152
Period size: 40 Copynumber: 4.2 Consensus size: 40
33115 TTTTCCTAAT
33125 TCGCAATGCGAATACGTAAATCGCAATGCG-AT-T-ACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGAC-T--A
* *
33165 TCGCAATGTGAATACGTAAATCGCAATGCGAATAC-GTA-AA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTG-ACTA
* *
33205 TCACAATGCGAATATGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
* * * *
33245 TCGCAATGCGAAT-C-TGACTATCGCAACGAGATTCTGACTA
1 TCGCAATGCGAATACGT-A-AATCGCAATGCGAATCTGACTA
33285 TCGCAATG
1 TCGCAATG
33293 AGATTCTGAC
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 100 0.93
41 2 0.02
44 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
Found at i:34179 original size:24 final size:24
Alignment explanation
Indices: 34152--34205 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34142 GTATTCGAAA
34152 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
34176 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
34200 TTTGAT
1 TTTGAT
34206 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:36883 original size:21 final size:21
Alignment explanation
Indices: 36857--36901 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36847 GATTTCTGGG
* *
36857 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
36878 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
36899 CAA
1 CAA
36902 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:36946 original size:45 final size:45
Alignment explanation
Indices: 36882--36986 Score: 192
Period size: 45 Copynumber: 2.3 Consensus size: 45
36872 CCCATTCAAG
36882 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
1 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
*
36927 GGGAACCGATACCCCTTCAAATGACAGAATTCCAGAATGTCTTGA
1 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
*
36972 GGGAATCGATACCCC
1 GGGAACCGATACCCC
36987 CATAGTAGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (45 bp):
GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
Found at i:37507 original size:2 final size:2
Alignment explanation
Indices: 37500--37540 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
37490 CATGAGTTAG
37500 AT AT AT AT 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 AT AT AT AT A
37541 GGAATTGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38229 original size:31 final size:31
Alignment explanation
Indices: 38191--38268 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
38181 AGAGTCGAGG
*
38191 GTTTACCTATGTCTTTCGAGACATATGGACA
1 GTTTACCTAGGTCTTTCGAGACATATGGACA
* *
38222 GTTTACCTAGGT-TCTTCGGGACCTATGGACA
1 GTTTACCTAGGTCT-TTCGAGACATATGGACA
*
38253 GTTTACCGAGGTCTTT
1 GTTTACCTAGGTCTTT
38269 ATGACCTCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 1 0.02
31 39 0.95
32 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (31 bp):
GTTTACCTAGGTCTTTCGAGACATATGGACA
Found at i:38334 original size:28 final size:29
Alignment explanation
Indices: 38241--38341 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
38231 GGTTCTTCGG
* *
38241 GACCTATGGACAGTTTACCGAGGTCTTTAT
1 GACCTCTGGATAG-TTACCGAGGTCTTTAT
*
38271 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGG-TCTTTAT
* *
38301 GACCTCTGGATAGTTACTG-GGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGTCTTTAT
38329 GACCTCTGGATAG
1 GACCTCTGGATAG
38342 GTCTTTCGGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 19 0.29
29 11 0.17
30 36 0.55
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (29 bp):
GACCTCTGGATAGTTACCGAGGTCTTTAT
Found at i:41619 original size:21 final size:21
Alignment explanation
Indices: 41586--41626 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41576 TTCTGGGCAA
* *
41586 GGGAATCGGTACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
41607 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
41627 ACGACAGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:41671 original size:45 final size:45
Alignment explanation
Indices: 41607--41711 Score: 201
Period size: 45 Copynumber: 2.3 Consensus size: 45
41597 CCCATTCAAG
41607 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
1 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
41652 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
1 GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
*
41697 GGGAATCGATACCCC
1 GGGAACCGATACCCC
41712 CATAGTAGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (45 bp):
GGGAACCGATACCCCTTCAAACGACAGAATTCCAGAATGTCTTGA
Done.