Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003518.1 Hibiscus syriacus cultivar Beakdansim tig00007437_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: 126981
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:10957 original size:18 final size:18
Alignment explanation
Indices: 10919--11045 Score: 88
Period size: 17 Copynumber: 7.1 Consensus size: 18
10909 TATTTTGCTT
10919 AAAGAAGAAATAAAAGAGA
1 AAAGAAGAAA-AAAAGAGA
*
10938 AAAGAAGAAAAAATGAGA
1 AAAGAAGAAAAAAAGAGA
*
10956 AAA-AAG-AAAAATGATGGA
1 AAAGAAGAAAAAAAGA--GA
10974 AAA-AACGAAAAGAAA-A-A
1 AAAGAA-GAAAA-AAAGAGA
* *
10991 AAACTAAGAGAAAAAGAGA
1 AAA-GAAGAAAAAAAGAGA
* *
11010 AAA-ATGGAAAAAAGAGA
1 AAAGAAGAAAAAAAGAGA
*
11027 AAA-ATGAAAAAAAGAGA
1 AAAGAAGAAAAAAAGAGA
11044 AA
1 AA
11046 TAAAAGGAGG
Statistics
Matches: 92, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.09
17 39 0.42
18 22 0.24
19 17 0.18
20 4 0.04
21 2 0.02
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (18 bp):
AAAGAAGAAAAAAAGAGA
Found at i:10966 original size:8 final size:8
Alignment explanation
Indices: 10923--11041 Score: 60
Period size: 9 Copynumber: 13.5 Consensus size: 8
10913 TTGCTTAAAG
10923 AAGAAATAA
1 AAGAAA-AA
10932 AAGAGAAAA
1 AAGA-AAAA
10941 GAAGAAAAA
1 -AAGAAAAA
*
10950 ATGAGAAAA
1 AAGA-AAAA
10959 AAGAAAAA
1 AAGAAAAA
*
10967 TGATGGAAAAA
1 --A-AGAAAAA
*
10978 ACGAAAAGA
1 AAGAAAA-A
10987 AA-AAAAA
1 AAGAAAAA
*
10994 CTAAGAGAAA
1 --AAGAAAAA
11004 AAGAGAAAA
1 AAGA-AAAA
* *
11013 ATGGAAAA
1 AAGAAAAA
11021 AAGAGAAAA
1 AAGA-AAAA
*
11030 ATGAAAAA
1 AAGAAAAA
11038 AAGA
1 AAGA
11042 GAAATAAAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
7 1 0.01
8 33 0.39
9 34 0.40
10 11 0.13
11 6 0.07
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (8 bp):
AAGAAAAA
Found at i:11017 original size:44 final size:43
Alignment explanation
Indices: 10936--11038 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 43
10926 AAATAAAAGA
*
10936 GAAAAGAAGAAAAAATGAGAAAAAAGAAAAATGATGGAAAAAAC
1 GAAAAGAAGAAAAAATAAGAAAAAAGAAAAA-GATGGAAAAAAC
10980 GAAAAGAA-AAAAAACTAAGAGAAAAAGAGAAAA-ATGGAAAAAA-
1 GAAAAGAAGAAAAAA-TAAGA-AAAAAGA-AAAAGATGGAAAAAAC
11023 GAGAAA-AATGAAAAAA
1 GA-AAAGAA-GAAAAAA
11039 AGAGAAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
43 10 0.19
44 25 0.48
45 13 0.25
46 4 0.08
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (43 bp):
GAAAAGAAGAAAAAATAAGAAAAAAGAAAAAGATGGAAAAAAC
Found at i:12246 original size:51 final size:51
Alignment explanation
Indices: 12184--12487 Score: 403
Period size: 51 Copynumber: 5.9 Consensus size: 51
12174 AAACAATTTT
*
12184 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
12235 GTTGAATATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
12286 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * * * * *
12337 GTTGAAGATCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGAACACGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACAAGTTC
* * ** *
12388 GTTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * *
12439 ATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 GTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
12488 CCGTTTTATT
Statistics
Matches: 225, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.00
51 188 0.84
52 2 0.01
54 2 0.01
55 32 0.14
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:12310 original size:102 final size:102
Alignment explanation
Indices: 12181--12544 Score: 431
Period size: 102 Copynumber: 3.5 Consensus size: 102
12171 AGCAAACAAT
12181 TTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAATATTG
1 TTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAATATTG
* * *
12246 AGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG
66 AGTTCTATACTCTCTGAACGAATAGGGAGCGGACACG
* * * *
12283 TTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATCG
1 TTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAATATTG
* * *
12348 AGTTCTATACTCCCTGAACGGATAGGGAGCGAACACG
66 AGTTCTATACTCTCTGAACGAATAGGGAGCGGACACG
* * ** ** *
12385 TTTGTTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGATTT
1 TTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTG-A-A-TA
* * *
12450 TTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG
63 TT-GAGTTCTATACTCTCTGAACGAATAGGGAGCGGACACG
* * * *
12491 TTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACA
1 -TTTGTTGAAGATTG----AGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
12545 CATTTTATGA
Statistics
Matches: 220, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
102 143 0.65
103 1 0.00
104 1 0.00
105 1 0.00
106 32 0.15
107 12 0.05
111 30 0.14
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (102 bp):
TTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAATATTG
AGTTCTATACTCTCTGAACGAATAGGGAGCGGACACG
Found at i:12477 original size:55 final size:53
Alignment explanation
Indices: 12181--12594 Score: 381
Period size: 51 Copynumber: 7.9 Consensus size: 53
12171 AGCAAACAAT
* *
12181 TTTGTTGAAGA-TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
* * * *
12232 TTCGTTGAATA-TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
* *
12283 TTCGTTGAAGA-TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
* * * *
12334 TTCGTTGAAGA--TCGAGTTCTATACTCCCTGAACGG-ATAGGGAGC-GAACACG
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACCA-G
* * *
12385 TTTGTTAAAGA-TT-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTG
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
* * * *
12436 TTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG
1 TTTGTTGAAGA--TTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
* * * * * *
12491 TTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACA-
1 -TTTGTTGAAGA-T-TTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC-CAG
*
12547 TTT-TATGAAGATTGCTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 TTTGT-TGAAGATT--TCGAGTCCTATACTCT-CTGAAGGAATAGGGAGC
12595 AGGCTCGTCA
Statistics
Matches: 316, Mismatches: 30, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
50 5 0.02
51 181 0.57
52 6 0.02
53 1 0.00
54 5 0.02
55 73 0.23
56 44 0.14
57 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (53 bp):
TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG
Found at i:12522 original size:56 final size:56
Alignment explanation
Indices: 12398--12594 Score: 240
Period size: 55 Copynumber: 3.6 Consensus size: 56
12388 GTTAAAGATT
* * * * *
12398 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTG-TTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
12453 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * * * *
12509 AAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTA-TGAAGATTGCTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
*
12564 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGC
12595 AGGCTCGTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
54 1 0.01
55 70 0.56
56 52 0.42
57 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (56 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
Found at i:12624 original size:55 final size:54
Alignment explanation
Indices: 12399--12624 Score: 185
Period size: 55 Copynumber: 4.1 Consensus size: 54
12389 TTAAAGATTG
* * * * *
12399 AGTCCTATACTCTCTGAAAGAATAGGGAGC-GG-ACCTGTTTATTGAAGATTTTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGGCA-C-GTTT-TTGAAGATTGTTCA
*
12454 AGT-TCTATACTCTCTGAAGGAATAGAGAGC-GGACCCGTTTTATTGAAGATTGTTCA
1 AGTCT-TATACTCTCTGAAGGAATAGAGAGCAGG-CACG-TTT-TTGAAGATTGTTCA
* * * * *
12510 AGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGCTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGGCACGTTTT-TGAAGATTGTTCA
* * *
12565 AGTCTTATACT-TCCTGAAGGAATAGGGAGCAGGCTCGTCATTTGAAGA-TGTTTCA
1 AGTCTTATACTCT-CTGAAGGAATAGAGAGCAGGCACGT-TTTTGAAGATTG-TTCA
12620 AGTCT
1 AGTCT
12625 CATTTATCCT
Statistics
Matches: 141, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
54 4 0.03
55 87 0.62
56 48 0.34
57 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (54 bp):
AGTCTTATACTCTCTGAAGGAATAGAGAGCAGGCACGTTTTTGAAGATTGTTCA
Found at i:17579 original size:24 final size:24
Alignment explanation
Indices: 17545--17598 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
17535 CTGAAAAATC
17545 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
17569 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
17593 ATCAAA
1 ATCAAA
17599 TTTCGAATAC
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:18474 original size:20 final size:19
Alignment explanation
Indices: 18461--18604 Score: 135
Period size: 20 Copynumber: 7.2 Consensus size: 19
18451 CAGAATCTCG
*
18461 TTGCGATTTACAGATTCGCA
1 TTGCGATTTAC-GAATCGCA
*
18481 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACG-AATCGCA
18501 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACG-AATCGCA
18521 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACG-AATCGCA
* *
18541 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACG-AATCGCA
* * * *
18561 TTACGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGAA-TCGCA
*
18582 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACG-AATCGCA
18602 TTG
1 TTG
18605 AGAATTAGGA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 92 0.87
21 13 0.12
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGCGATTTACGAATCGCA
Found at i:18505 original size:40 final size:40
Alignment explanation
Indices: 18461--18604 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
18451 CAGAATCTCG
18461 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGTATTCGCA
* *
18501 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
* * * ** *
18541 TTGCGATTTACGTATTCGTATTACGATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGA-TTTACGTATTCGCA
18582 TTGCGATTTACGTATTCGCATTG
1 TTGCGATTTACGTATTCGCATTG
18605 AGAATTAGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 59 0.66
41 30 0.33
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
Found at i:18525 original size:60 final size:61
Alignment explanation
Indices: 18461--18604 Score: 202
Period size: 60 Copynumber: 2.4 Consensus size: 61
18451 CAGAATCTCG
* **
18461 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAA-TCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGTATTCGCATTACGATTTACCAAATTCGCA
* * * *
18521 TTGCGATTTACGTAATCGCATTGCGATTTACGTATTCGTATTACGATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGATTTACCAAATTCGCA
18582 TTGCGATTTACGTATTCGCATTG
1 TTGCGATTTACGTATTCGCATTG
18605 AGAATTAGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.01
60 47 0.64
61 26 0.35
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (61 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGATTTACCAAATTCGCA
Found at i:27084 original size:148 final size:150
Alignment explanation
Indices: 26807--27104 Score: 424
Period size: 148 Copynumber: 2.0 Consensus size: 150
26797 GCATTCGTCC
* *
26807 TAGGATAATTTTGTTTCCCTTCTTTCATCTCTTTAAGTTACTTTCTGAGAAGCCCGCAAATGTCA
1 TAGGATAATTTTGCTTCCCTTCTTCCATCTCTTTAAGTTACTTTCTGAGAAGCCCGCAAATGTCA
* * *
26872 ATTCTTGTTTTTCTGTTTCTTCCAGTTTAGGGGGACACTTTGGTTTGGTTGATAAGTGTGCTTCT
66 A-T-TTGTTTTTATGTTTCTTCCAGTTTAGGGGGACACTTTGGTGTGGTTGATAAGTGTACTTCT
26937 T-ATCAAGAAAAAATCCTATCG
129 TAATCAAGAAAAAATCCTATCG
* * *
26958 TAGGATGATTTTGCTTCCCTT-TTCCATCTTTTTATGTTACTGTTCTGAGAAGCCCGCAAATGTC
1 TAGGATAATTTTGCTTCCCTTCTTCCATCTCTTTAAGTTACT-TTCTGAGAAGCCCGCAAATGTC
* *
27022 AA-TTGTTTTTATGTTTGTTCCAGTTTATGGGGACACTTTGGTGTGGTTGATAAGTCG-ACTTCT
65 AATTTGTTTTTATGTTTCTTCCAGTTTAGGGGGACACTTTGGTGTGGTTGATAAGT-GTACTTCT
* *
27085 TAATCAAGATAAATTCCTAT
129 TAATCAAGAAAAAATCCTAT
27105 TCTTTTTTGA
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
148 55 0.42
149 17 0.13
150 17 0.13
151 43 0.33
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (150 bp):
TAGGATAATTTTGCTTCCCTTCTTCCATCTCTTTAAGTTACTTTCTGAGAAGCCCGCAAATGTCA
ATTTGTTTTTATGTTTCTTCCAGTTTAGGGGGACACTTTGGTGTGGTTGATAAGTGTACTTCTTA
ATCAAGAAAAAATCCTATCG
Found at i:27709 original size:211 final size:211
Alignment explanation
Indices: 27345--27764 Score: 804
Period size: 211 Copynumber: 2.0 Consensus size: 211
27335 CATTTAAAAA
27345 AAAAAATTATTTTCCTTCTATTATCATTTTTTCACATATTTTCTTTGCTGCAGAGTGAAGGTTCA
1 AAAAAATTATTTTCCTTCTATTATCATTTTTTCACATATTTTCTTTGCTGCAGAGTGAAGGTTCA
* *
27410 GCTGTGTGGATTGCTCCCCCTGGTCGAGACATATCCAGTCTGCCAGCTAGTTCATTCTATAACCT
66 GCTGTGTGGATTGCTCCCCCTGGTCGAGACACATCCAGGCTGCCAGCTAGTTCATTCTATAACCT
27475 TCCTCCTCAGAGTCAGAATGTGACGTTTGCTCCAACACAGGTTGGTCCTGGCTCCTTTTCTGGTA
131 TCCTCCTCAGAGTCAGAATGTGACGTTTGCTCCAACACAGGTTGGTCCTGGCTCCTTTTCTGGTA
27540 TCTATCATCCACAATT
196 TCTATCATCCACAATT
*
27556 AAAAAATTCTTTTCCTTCTATTATCATTTTTTCACATATTTTCTTTGCTGCAGAGTGAAGGTTCA
1 AAAAAATTATTTTCCTTCTATTATCATTTTTTCACATATTTTCTTTGCTGCAGAGTGAAGGTTCA
*
27621 GCTGTGTGGATTGCTCCCCCTGGTCGAGACACATCCAGGCTGCCATCTAGTTCATTCTATAACCT
66 GCTGTGTGGATTGCTCCCCCTGGTCGAGACACATCCAGGCTGCCAGCTAGTTCATTCTATAACCT
27686 TCCTCCTCAGAGTCAGAATGTGACGTTTGCTCCAACACAGGTTGGTCCTGGCTCCTTTTCTGGTA
131 TCCTCCTCAGAGTCAGAATGTGACGTTTGCTCCAACACAGGTTGGTCCTGGCTCCTTTTCTGGTA
27751 TCTATCATCCACAA
196 TCTATCATCCACAA
27765 GGAGTAGCAG
Statistics
Matches: 205, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
211 205 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (211 bp):
AAAAAATTATTTTCCTTCTATTATCATTTTTTCACATATTTTCTTTGCTGCAGAGTGAAGGTTCA
GCTGTGTGGATTGCTCCCCCTGGTCGAGACACATCCAGGCTGCCAGCTAGTTCATTCTATAACCT
TCCTCCTCAGAGTCAGAATGTGACGTTTGCTCCAACACAGGTTGGTCCTGGCTCCTTTTCTGGTA
TCTATCATCCACAATT
Found at i:28090 original size:2 final size:2
Alignment explanation
Indices: 28083--28120 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
28073 AGGCCACAAA
28083 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
28121 CCAATGGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30438 original size:2 final size:2
Alignment explanation
Indices: 30431--30455 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30421 ACATCCGTCC
30431 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 A
30456 CTATTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32433 original size:29 final size:29
Alignment explanation
Indices: 32345--32439 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 29
32335 TCTTATTTGC
*
32345 TGAAAATTTGAGAGCCAAGTAAACATCAG
1 TGAAAATTTGAAAGCCAAGTAAACATCAG
* *
32374 TGACACATTTCCTTCAAAG--AAGTTAGAACATCAG
1 TGA-A-A-AT--TTGAAAGCCAAG-TA-AACATCAG
32408 TGAAAATTTGAAAGCCAAGTAAACATCAG
1 TGAAAATTTGAAAGCCAAGTAAACATCAG
32437 TGA
1 TGA
32440 CACATTTGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
29 20 0.38
30 3 0.06
31 5 0.10
32 5 0.10
33 3 0.06
34 16 0.31
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (29 bp):
TGAAAATTTGAAAGCCAAGTAAACATCAG
Found at i:40378 original size:18 final size:20
Alignment explanation
Indices: 40343--40380 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40333 CACGGAATGT
40343 AAGATTATCAGTGAGAATAA
1 AAGATTATCAGTGAGAATAA
40363 AAGATTATC-G-GAGAATAA
1 AAGATTATCAGTGAGAATAA
40381 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (20 bp):
AAGATTATCAGTGAGAATAA
Found at i:42223 original size:12 final size:11
Alignment explanation
Indices: 42208--42241 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
42198 TTTAAACCGA
42208 TATTGGGCCAGG
1 TATTGGGCC-GG
*
42220 TATTGGGTCGG
1 TATTGGGCCGG
42231 TATTGGGCCGG
1 TATTGGGCCGG
42242 GAATCGGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.12, C:0.15, G:0.44, T:0.29
Consensus pattern (11 bp):
TATTGGGCCGG
Found at i:42315 original size:24 final size:24
Alignment explanation
Indices: 42255--42302 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42245 TCGGGCCGGG
*
42255 TATATGTATATATTTAAATTAAATA
1 TATATTTAT-TATTTAAATTAAATA
*
42280 TATATTTTTTATTTAAATTAAAT
1 TATATTTATTATTTAAATTAAAT
42303 TTATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTTATTATTTAAATTAAATA
Found at i:42361 original size:12 final size:13
Alignment explanation
Indices: 42345--42389 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
42335 TTTAATATTT
42345 ATCGGGTCGGGT-
1 ATCGGGTCGGGTA
*
42357 ATCGGGACGGGTA
1 ATCGGGTCGGGTA
*
42370 ATCGGGGCGGGTA
1 ATCGGGTCGGGTA
42383 ATCGGGT
1 ATCGGGT
42390 AATCGGGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.16, G:0.49, T:0.20
Consensus pattern (13 bp):
ATCGGGTCGGGTA
Found at i:48058 original size:27 final size:28
Alignment explanation
Indices: 48003--48058 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
47993 TGTTTATATT
**
48003 TTTGAATAAATGCCCCAAACCCTTTAAA
1 TTTGAATAAATGCCCCAAACCCTAAAAA
48031 TTTG-ATAAA-GCCCCAAACCCCTAAAAA
1 TTTGAATAAATGCCCCAAA-CCCTAAAAA
48058 T
1 T
48059 GATAGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 13 0.52
28 4 0.16
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (28 bp):
TTTGAATAAATGCCCCAAACCCTAAAAA
Found at i:48955 original size:35 final size:35
Alignment explanation
Indices: 48913--49056 Score: 225
Period size: 35 Copynumber: 4.1 Consensus size: 35
48903 GAGGGACCTA
* * * *
48913 ACTTTTTGTTTGAGGGTTGAAAAGGATAGTCTCCC
1 ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
*
48948 ACTTTTTGTTTGAGGATTGAAAAGGATACTCTACC
1 ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
48983 ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
1 ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
* *
49018 GCTTTCTGTTTGAGGATTGAAAAGGATACTCTCCC
1 ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
49053 ACTT
1 ACTT
49057 AGCCCATTGT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (35 bp):
ACTTTCTGTTTGAGGATTGAAAAGGATACTCTACC
Found at i:61485 original size:2 final size:2
Alignment explanation
Indices: 61478--61516 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
61468 CTTGTGAAAT
61478 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61517 TACGTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63068 original size:117 final size:117
Alignment explanation
Indices: 62898--63189 Score: 417
Period size: 117 Copynumber: 2.5 Consensus size: 117
62888 TTTCCCGAAA
** *
62898 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGTAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* * * *
62962 TAAAGTCTCCATCCAGTCGCTTTCA-TCACTACAATGTGTAGGTTCCTCAGAAC
65 TAAAGTCCCCATCCAGTCAC-TCCACTCACTACAATGTGTAGGTTCCCCAGAAC
* * * *
63015 CATACACCCACCTGCACACCAGTAAAGACTTACCCTAAGCACACAGCAAAGGAGTCTACAGTTAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
**
63080 AACTTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
66 AAAGTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
* *
63132 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACATCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
63190 AAATACTTTC
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
116 4 0.03
117 151 0.97
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AAAGTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:64079 original size:10 final size:10
Alignment explanation
Indices: 64064--64089 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
64054 TTTAATAGTC
64064 GGTCAAAGGT
1 GGTCAAAGGT
64074 GGTCAAAGGT
1 GGTCAAAGGT
64084 GGTCAA
1 GGTCAA
64090 CAAACTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.38, T:0.19
Consensus pattern (10 bp):
GGTCAAAGGT
Found at i:64147 original size:29 final size:28
Alignment explanation
Indices: 64111--64261 Score: 137
Period size: 29 Copynumber: 5.3 Consensus size: 28
64101 TCATTTACAG
*
64111 AAATAGCACCCTTTTTAAAAT-AATTACCA
1 AAATAGCA-CCTTTTTAAATTAAATT-CCA
* *
64140 AAATAGCAACTTTTCAAATTAAATTCCTA
1 AAATAGCACCTTTTTAAATTAAATTCC-A
* *
64169 AAATAGCACATTTTCAAATTAAATTCCTA
1 AAATAGCACCTTTTTAAATTAAATTCC-A
**
64198 AAATAGCA-CTTTTCGAA-TAAATTCCCA
1 AAATAGCACCTTTTTAAATTAAATT-CCA
* * *
64225 AAATAGCAGCATTTTTGAATTAATTTCCA
1 AAATAGCA-CCTTTTTAAATTAAATTCCA
64254 AAATAGCA
1 AAATAGCA
64262 TATTTCGAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
27 15 0.14
28 20 0.19
29 66 0.62
30 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (28 bp):
AAATAGCACCTTTTTAAATTAAATTCCA
Found at i:64257 original size:56 final size:55
Alignment explanation
Indices: 64111--64277 Score: 192
Period size: 56 Copynumber: 2.9 Consensus size: 55
64101 TCATTTACAG
* * * * *
64111 AAATAGCACCCTTTTTAAAATAATTACCAAAATAGCAACTTTTCAAATTAAATTCCTA
1 AAATAGCA-CATTTTTAAATTAATTTCCAAAATAGC-ACTTTTCGAA-TAAATTCCCA
* *
64169 AAATAGCACATTTTCAAATTAAATTCCTAAAATAGCACTTTTCGAATAAATTCCCA
1 AAATAGCACATTTTTAAATTAATTTCC-AAAATAGCACTTTTCGAATAAATTCCCA
* *
64225 AAATAGCAGCATTTTTGAATTAATTTCCAAAATAGCA-TATTTCGAATTAATTC
1 AAATAGCA-CATTTTTAAATTAATTTCCAAAATAGCACT-TTTCGAATAAATTC
64278 TCAGTTTTTA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
55 1 0.01
56 39 0.41
57 39 0.41
58 16 0.17
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (55 bp):
AAATAGCACATTTTTAAATTAATTTCCAAAATAGCACTTTTCGAATAAATTCCCA
Found at i:70633 original size:117 final size:117
Alignment explanation
Indices: 70463--70754 Score: 426
Period size: 117 Copynumber: 2.5 Consensus size: 117
70453 TTTCCCGAAA
** *
70463 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGTAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* * * *
70527 TAACGTCTCCATCCAGTCGCTTTCA-TCACTACAATATGTAGGTTCCTCAGAAC
65 TAACGTCCCCATCCAGTCAC-TCCACTCACTACAATATGTAGGTTCCCCAGAAC
* *
70580 CATACACCCACCTGCACACCAGTAAAGACTTACCCTAAGCACACAGCAAAGGAGTCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
* *
70645 AACTTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
66 AACGTCCCCATCCAGTCACTCCACTCACTACAATATGTAGGTTCCCCAGAAC
* * *
70697 CATACACCCACCTGCACACTAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
70755 AAATACTTTC
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
116 4 0.03
117 153 0.97
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACGTCCCCATCCAGTCACTCCACTCACTACAATATGTAGGTTCCCCAGAAC
Found at i:71295 original size:2 final size:2
Alignment explanation
Indices: 71288--71321 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
71278 TACCTTAATA
71288 AT 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
71322 TAAATCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71755 original size:28 final size:29
Alignment explanation
Indices: 71717--71844 Score: 151
Period size: 29 Copynumber: 4.6 Consensus size: 29
71707 TTTTTAAAAT
* *
71717 AATTACCAAAATAACA-ACTTTTCGAATTA
1 AATTCCCAAAATAGCACA-TTTTCGAATTA
* *
71746 AATT-CTAAAATA--TCATTTTCGAATTA
1 AATTCCCAAAATAGCACATTTTCGAATTA
*
71772 AATTCCCAAAATAGCACTTTTTCGAA-TA
1 AATTCCCAAAATAGCACATTTTCGAATTA
71800 AATTCCCAAAATAGCAACATTTTCGAATT-
1 AATTCCCAAAATAGC-ACATTTTCGAATTA
71829 AATTCCCAAAATAGCA
1 AATTCCCAAAATAGCA
71845 TCTTTGTACT
Statistics
Matches: 87, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.17
27 8 0.09
28 25 0.29
29 38 0.44
30 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (29 bp):
AATTCCCAAAATAGCACATTTTCGAATTA
Found at i:71794 original size:55 final size:55
Alignment explanation
Indices: 71716--71849 Score: 157
Period size: 55 Copynumber: 2.4 Consensus size: 55
71706 CTTTTTAAAA
* * * *
71716 TAATTACCAAAATAACAAC-TTTTCGAATTAAATT-CTAAAAT-ATCATTTTCGAAT
1 TAATTCCCAAAATAGC-ACTTTTTCGAA-TAAATTCCCAAAATAAACATTTTCGAAT
71770 TAAATTCCCAAAATAGCACTTTTTCGAATAAATTCCCAAAATAGCAACATTTTCGAAT
1 T-AATTCCCAAAATAGCACTTTTTCGAATAAATTCCCAAAATA--AACATTTTCGAAT
71828 TAATTCCCAAAATAGCATCTTT
1 TAATTCCCAAAATAGCA-CTTT
71850 GTACTTTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
54 9 0.13
55 27 0.39
57 16 0.23
58 17 0.25
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (55 bp):
TAATTCCCAAAATAGCACTTTTTCGAATAAATTCCCAAAATAAACATTTTCGAAT
Found at i:76897 original size:21 final size:21
Alignment explanation
Indices: 76868--76920 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
76858 ATTCTGACTA
76868 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
76889 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
76910 TCGCAATGCGA
1 TCGCATTGCGA
76921 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:76935 original size:20 final size:20
Alignment explanation
Indices: 76910--77036 Score: 166
Period size: 20 Copynumber: 6.3 Consensus size: 20
76900 TTTTCCTAAT
76910 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
76930 TCGCAATACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
76951 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
76971 TCGCAATGCTATTACGTAAA
1 TCGCAATGCGAATACGTAAA
76991 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
77011 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
77031 TCGCAA
1 TCGCAA
77037 CGAGATTCTG
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 75 0.82
21 15 0.16
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:77046 original size:20 final size:20
Alignment explanation
Indices: 76986--77046 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
76976 ATGCTATTAC
* *
76986 GTAAATCGCAATGCGAATAC-
1 GTAAATCGCAACGAGAAT-CT
* *
77006 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
77026 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
77046 G
1 G
77047 ACTATCGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:77925 original size:24 final size:24
Alignment explanation
Indices: 77898--77951 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
77888 GTATTCGAAA
77898 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
77922 TTTGTTCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
77946 TTTGAT
1 TTTGAT
77952 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:80910 original size:30 final size:30
Alignment explanation
Indices: 80705--80893 Score: 335
Period size: 30 Copynumber: 6.3 Consensus size: 30
80695 GAAGGACCTA
* *
80705 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
80734 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
80764 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
80794 TCCAGAGGTCATAAAGATCATCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
80824 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
80854 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
80884 TCCATAGGTC
1 TCCAGAGGTC
80894 CCGAAGAACC
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.10
30 138 0.90
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:82096 original size:21 final size:21
Alignment explanation
Indices: 82066--82110 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
82056 ATTCTGTCGT
* *
82066 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
82087 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
82108 TTG
1 TTG
82111 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:84891 original size:2 final size:2
Alignment explanation
Indices: 84884--84937 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
84874 TGCACCTTTC
84884 AT AT AT AT AT 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
*
84926 AT AT AT AC AT AT
1 AT AT AT AT AT AT
84938 CCACGCATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85264 original size:30 final size:30
Alignment explanation
Indices: 85209--85306 Score: 164
Period size: 30 Copynumber: 3.3 Consensus size: 30
85199 GAAGGACCTA
*
85209 TCCAGAGGTCACAAAGA-CC-CGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
85237 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
85267 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
85297 TCCATAGGTC
1 TCCAGAGGTC
85307 CCGAAGAACC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 16 0.24
29 2 0.03
30 48 0.73
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:85323 original size:60 final size:58
Alignment explanation
Indices: 85209--85323 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 58
85199 GAAGGACCTA
* * *
85209 TCCAGAGGTCACAAAGACCCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCACAAAGACCCGGTAACTGTCCAGAGGTCACAAAGAACCTAGGTAACTG
* * * *
85267 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 TCCAGAGGTCACAAAGA-CC-CGGTAACTGTCCAGAGGTCACAAAGAACCTAGGTAA
85324 ACTTTCCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 16 0.33
59 2 0.04
60 30 0.62
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.20
Consensus pattern (58 bp):
TCCAGAGGTCACAAAGACCCGGTAACTGTCCAGAGGTCACAAAGAACCTAGGTAACTG
Found at i:86502 original size:21 final size:21
Alignment explanation
Indices: 86472--86516 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
86462 ATTCTGTCGT
* *
86472 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
86493 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
86514 TTG
1 TTG
86517 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:89304 original size:2 final size:2
Alignment explanation
Indices: 89297--89346 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
89287 TGCACCTTTC
89297 AT AT AT AT AT 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
*
89339 AT AC AT AT
1 AT AT AT AT
89347 CCACGCATAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89682 original size:59 final size:60
Alignment explanation
Indices: 89619--89776 Score: 266
Period size: 59 Copynumber: 2.7 Consensus size: 60
89609 GAAGGACCTA
* * *
89619 TCCAGAGGTCACAAAGA-CCCCGGTAACTTTCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
89678 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA-GTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
*
89737 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTC
89777 CCGAAGAACC
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
59 74 0.80
60 19 0.20
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (60 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:89793 original size:30 final size:30
Alignment explanation
Indices: 89619--89776 Score: 266
Period size: 30 Copynumber: 5.3 Consensus size: 30
89609 GAAGGACCTA
* * *
89619 TCCAGAGGTCACAAAGA-CCCCGGTAACTT
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
89648 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
89678 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
89708 TCCAGA-GTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
89737 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
89767 TCCATAGGTC
1 TCCAGAGGTC
89777 CCGAAGAACC
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
29 45 0.37
30 78 0.63
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:89793 original size:89 final size:89
Alignment explanation
Indices: 89619--89793 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
89609 GAAGGACCTA
*
89619 TCCAGAGGTCACAAAGACCCCGGTAACTTTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
1 TCCAGAGGTCACAAAGACCCCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
* * *
89684 GGTCATAAAGATCCTCGGTAACTG
66 GGTCACAAAGAACCTAGGTAACTG
* * *
89708 TCCAGA-GTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAT
1 TCCAGAGGTCACAAAGA-CCCCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAG
* *
89772 AGGTCCCGAAGAACCTAGGTAA
65 AGGTCACAAAGAACCTAGGTAA
89794 ACTTTCCATA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
88 9 0.12
89 67 0.88
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (89 bp):
TCCAGAGGTCACAAAGACCCCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
GGTCACAAAGAACCTAGGTAACTG
Found at i:90977 original size:21 final size:21
Alignment explanation
Indices: 90947--90991 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
90937 ATTCTGTCGT
* *
90947 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
90968 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
90989 TTG
1 TTG
90992 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:92633 original size:21 final size:21
Alignment explanation
Indices: 92604--92700 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
92594 GGGAAGGACT
* * *
92604 TCTTCAACGATGACAGTGGCC
1 TCTTGAACGATGAGAGGGGCC
* * *
92625 TCTTGAACGGTGGGAGGGGAC
1 TCTTGAACGATGAGAGGGGCC
** *
92646 TCTTGAGGGATGATAGGGGCC
1 TCTTGAACGATGAGAGGGGCC
*
92667 TCTTGAACGAT-AGGGGAGGCC
1 TCTTGAACGATGAGAGG-GGCC
92688 TCTTGAACGATGA
1 TCTTGAACGATGA
92701 TAGGTGAGTC
Statistics
Matches: 58, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.05
21 54 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
TCTTGAACGATGAGAGGGGCC
Found at i:92691 original size:42 final size:42
Alignment explanation
Indices: 92593--92704 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
92583 TCTAGAATGT
* * * *
92593 TGGGA-AGGACTTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGGAC-TCTTGAACGATGATAGGGGCCTCTTGAACGA
* **
92635 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
*
92677 TAGGG-GAGGCCTCTTGAACGATGATAGG
1 T-GGGAGAGGACTCTTGAACGATGATAGG
92705 TGAGTCGGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 50 0.88
43 7 0.12
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:93207 original size:20 final size:20
Alignment explanation
Indices: 93184--93319 Score: 93
Period size: 20 Copynumber: 7.5 Consensus size: 20
93174 GAAACTTAAA
*
93184 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
93204 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
93224 ATCGCAA--CG-AGA-GA--
1 ATCGCAACGCGAAAATGACT
* **
93238 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
93257 ATCGCAA--C-AACAA--A--
1 ATCGCAACGCGAA-AATGACT
93271 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
93291 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
93311 ATCGCAACG
1 ATCGCAACG
93320 AGAGAATCGC
Statistics
Matches: 95, Mismatches: 7, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
14 14 0.15
16 10 0.11
17 8 0.08
18 5 0.05
19 7 0.07
20 51 0.54
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:93261 original size:33 final size:33
Alignment explanation
Indices: 93204--93284 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
93194 GAAAATGACT
** * * *
93204 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
93238 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
93271 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
93285 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:93387 original size:20 final size:20
Alignment explanation
Indices: 93362--93507 Score: 196
Period size: 20 Copynumber: 7.6 Consensus size: 20
93352 GCGATTCTTT
** *
93362 CATTGCGATAGTCAAATTCA
1 CATTGCGATAGTCATTTTCG
93382 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
93402 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
93422 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
93438 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
93456 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
93476 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
93496 CATTGCGATAGT
1 CATTGCGATAGT
93508 AAACTATTCT
Statistics
Matches: 114, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
18 6 0.05
20 95 0.83
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:93387 original size:34 final size:34
Alignment explanation
Indices: 93348--93449 Score: 105
Period size: 40 Copynumber: 2.8 Consensus size: 34
93338 TTTCATTTCG
93348 CATTGCGATTCTTTCATTGCGATAGTCAAATTCA
1 CATTGCGATTCTTTCATTGCGATAGTCAAATTCA
** *
93382 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCG
1 CATTGCGAT--TC--TTT--CATTGCGATAGTCAAATTCA
* *
93422 CATTGCGATTCTCTCGTTGCGATAGTCA
1 CATTGCGATTCTTTCATTGCGATAGTCA
93450 TTTTCGCGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
34 22 0.39
36 4 0.07
38 5 0.09
40 26 0.46
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (34 bp):
CATTGCGATTCTTTCATTGCGATAGTCAAATTCA
Found at i:93446 original size:74 final size:74
Alignment explanation
Indices: 93326--93504 Score: 261
Period size: 74 Copynumber: 2.4 Consensus size: 74
93316 AACGAGAGAA
* ** *
93326 TCGCAATGCGATTTTCA-TTTCGCATTGCGATTCTTTCATTGCGATAGTCAAATTCACATTGCGA
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCACATTGCGA
93390 TAGTCATTT
66 TAGTCATTT
* ** * *
93399 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGA
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCACATTGCGA
93464 TAGTCATTT
66 TAGTCATTT
*
93473 TCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGAT
93505 AGTAAACTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 14 0.15
74 81 0.85
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (74 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCACATTGCGA
TAGTCATTT
Found at i:95403 original size:20 final size:20
Alignment explanation
Indices: 95380--95433 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
95370 GAAACTTTAA
*
95380 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
95400 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
95420 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
95434 TGAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:95502 original size:20 final size:20
Alignment explanation
Indices: 95457--95505 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
95447 GCGATTCTCT
95457 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
* ** *
95477 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCA
95497 CGTTGCGAT
1 CGTTGCGAT
95506 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:96119 original size:20 final size:20
Alignment explanation
Indices: 96096--96189 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
96086 CGATAGTCAG
96096 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
96116 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* **
96136 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
96157 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
96177 ATTCGCATTGCGA
1 ATTCGCATTGCGA
96190 ATTAGGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 49 0.75
21 16 0.25
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:96173 original size:41 final size:40
Alignment explanation
Indices: 96096--96189 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 40
96086 CGATAGTCAG
**
96096 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACAAATTCGCATTGCGATTTACGT
* *
96136 ATTCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACGT
96177 ATTCGCATTGCGA
1 ATTCGCATTGCGA
96190 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACAAATTCGCATTGCGATTTACGT
Found at i:96219 original size:22 final size:21
Alignment explanation
Indices: 96189--96231 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
96179 TCGCATTGCG
96189 AATTAGGAAAATCGCAACGCGA
1 AATTAGG-AAATCGCAACGCGA
* *
96211 AATTGGGAAATCGCAATGCGA
1 AATTAGGAAATCGCAACGCGA
96232 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (21 bp):
AATTAGGAAATCGCAACGCGA
Found at i:100953 original size:31 final size:31
Alignment explanation
Indices: 100914--100997 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
100904 CAGTCCACAG
* *
100914 ATCCCGAAGAGCCTAGGTAAACAATCCATAT
1 ATCCCGAAGAACATAGGTAAACAATCCATAT
*
100945 GTCCCGAAGAACATAGGTAAACAATCCATAT
1 ATCCCGAAGAACATAGGTAAACAATCCATAT
*
100976 ATCCCGAAAAACATAGGTAAAC
1 ATCCCGAAGAACATAGGTAAAC
100998 CCTCGACCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (31 bp):
ATCCCGAAGAACATAGGTAAACAATCCATAT
Found at i:105746 original size:765 final size:765
Alignment explanation
Indices: 104276--106574 Score: 4436
Period size: 765 Copynumber: 3.0 Consensus size: 765
104266 TACTAAACTG
*
104276 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCATATG
1 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATG
104341 CTTTTGGAAAGTTTGTCAACCTGTAGTCTACCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
66 CTTTTGGAAAGTTTGTCAACCTGTAGTCTACCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
104406 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
131 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
104471 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
196 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
* * *
104536 ACAATTGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTAGGGAAATTAAA
261 ACAATCGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
*
104601 TAGGTTTGTCAAGCCACTTCACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
326 TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
104666 ATGCTATGGCAAAATGGAATAGCTGATGTAGAAATGGAATGATGGTAGAGTGATGGTAATTGAAA
391 ATGCTATGGCAAAATGGAATAGCTGATGTAGAAATGGAATGATGGTAGAGTGATGGTAATTGAAA
104731 ATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATGT
456 ATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATGT
104796 AAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGAG
521 AAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGAG
104861 TGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCCT
586 TGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCCT
104926 GCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGATG
651 GCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGATG
*
104991 CCCTGGCAAAACTGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
716 CCCTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
*
105041 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATA
1 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATG
*
105106 CTTTTGGAAAGTTTGTCAACCTGTAGTCTTCCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
66 CTTTTGGAAAGTTTGTCAACCTGTAGTCTACCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
*
105171 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGGTGAATTGTGTGACTTCCTCAATAGTGTA
131 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
105236 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
196 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
105301 ACAATCGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
261 ACAATCGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
105366 TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
326 TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
*
105431 ATGCTATGGCAAAATGGAATAGCTGATGTAGAAATGGAATGGTGGTAGAGTGATGGTAATTGAAA
391 ATGCTATGGCAAAATGGAATAGCTGATGTAGAAATGGAATGATGGTAGAGTGATGGTAATTGAAA
105496 ATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATGT
456 ATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATGT
105561 AAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGAG
521 AAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGAG
*
105626 TGGAATGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCCT
586 TGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCCT
105691 GCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGATG
651 GCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGATG
*
105756 CACTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
716 CCCTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
105806 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATG
1 GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATG
* *
105871 CTTTTGGAAAGTTTGTCAACCTGTAGTCTGCCGTGCTCTTTTCATCCATGTAATAGTTTATGTCG
66 CTTTTGGAAAGTTTGTCAACCTGTAGTCTACCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
105936 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
131 TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
106001 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
196 TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
*
106066 ACAATCGAACAAGTAATAAAATGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
261 ACAATCGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
106131 TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
326 TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
* *
106196 ATGCTATGGCAAAAATGGAATAGCTGATGTAGAAATTGAATAATGGTAGAGTGATGGTAATTGAA
391 ATGCTATGGC-AAAATGGAATAGCTGATGTAGAAATGGAATGATGGTAGAGTGATGGTAATTGAA
106261 AATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATG
455 AATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATG
106326 TAAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGA
520 TAAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGA
106391 GTGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCC
585 GTGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCC
106456 TGCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGAT
650 TGCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGAT
106521 GCCCTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
715 GCCCTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
106572 GTT
1 GTT
106575 AATAGGATAT
Statistics
Matches: 1511, Mismatches: 22, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
765 1148 0.76
766 363 0.24
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (765 bp):
GTTTCTATATGTACATATGTACTGTTACATTGCCTTCTAGGAATATTTTTCAATACTTCCAGATG
CTTTTGGAAAGTTTGTCAACCTGTAGTCTACCGTGCTCTTTTTATCCATGTAATAGTTTATGTCG
TTTGCTAACGTTTTTATTTAACATCGATGACGTATGATGAATTGTGTGACTTCCTCAATAGTGTA
TTTGATGATACCTGTCCGCTCTTTGTGAGTACTAAAATATGATGTGGATATGTGTGCAAGTATAC
ACAATCGAACAAGTAATAAAGTGATAAGTCGAGTATCGTCTCCACAGGGAATTGGGGAAATCAAA
TAGGTTTGTCAAGCCACTTTACTTTGTCACCTAAGTAAAGTTAGTGATGGTATGTACAAATGAGA
ATGCTATGGCAAAATGGAATAGCTGATGTAGAAATGGAATGATGGTAGAGTGATGGTAATTGAAA
ATGTTGTGGCAAATTAAATTGTAATACGTGCAAGCAAATGGAAATGTCAAGGCAAAATAAAATGT
AAATATACGATTTAATAAATATAGGACTTTAGCTTTTTCAAATGACAAGCAGCAATGGGAATGAG
TGGAAGGAGTCACAAGGAAAATCTAAGTCCATGTCTCTGAATGGTGTTTCTTCTAAGCTTACCCT
GCCCGACAGAGTCTACTGAAATGCCCTATGCTATCTCTAGTAAGGGACTCGACAGATTAAAGATG
CCCTGGCAAAACCGATTGGCGTAAGCCCTTGCAGTGACCCTATTGGTTCA
Found at i:107794 original size:20 final size:20
Alignment explanation
Indices: 107757--107799 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
107747 AATCCACCAC
107757 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGCTTCTAA
* * *
107777 ATGCATCTATATGGTTCTAA
1 ATGCAACTAAATGCTTCTAA
107797 ATG
1 ATG
107800 GGCCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGCTTCTAA
Done.