Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003649.1 Hibiscus syriacus cultivar Beakdansim tig00007755_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: 77573
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:796 original size:37 final size:37
Alignment explanation
Indices: 725--825 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
715 TATTGACTTA
*
725 TTCATCCATTAGGATGATAAATCCAATTACCGACTGG
1 TTCATCCATTAGGATGATAAATCCAACTACCGACTGG
* ** *
762 TTCATCTATTAGGATGATAAATTTAACTATCGACTGG
1 TTCATCCATTAGGATGATAAATCCAACTACCGACTGG
* * * *
799 TTTATCCCACTAGGATGGTAAACCCAA
1 TTCAT-CCATTAGGATGATAAATCCAA
826 TAACTGTATG
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
37 36 0.71
38 15 0.29
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (37 bp):
TTCATCCATTAGGATGATAAATCCAACTACCGACTGG
Found at i:2148 original size:29 final size:29
Alignment explanation
Indices: 2103--2178 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
2093 TGTTGAGTCG
2103 AACTATTAAAAGTTACAAAACGGTCCCTT
1 AACTATTAAAAGTTACAAAACGGTCCCTT
*
2132 AACTATTAAAAGGTACAAAACGGTCCCTT
1 AACTATTAAAAGTTACAAAACGGTCCCTT
2161 AACTATTAAAAGTTACAA
1 AACTATTAAAAGTTACAA
2179 TTTGAGTTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (29 bp):
AACTATTAAAAGTTACAAAACGGTCCCTT
Found at i:3292 original size:4 final size:4
Alignment explanation
Indices: 3283--3308 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3273 TTCTTTCCCT
3283 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
3309 CATGTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4182 original size:20 final size:20
Alignment explanation
Indices: 4159--4205 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4149 GTTTCCAAAT
*
4159 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
4179 TCGCAACGTGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
4199 TCGCAAC
1 TCGCAAC
4206 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:4222 original size:20 final size:20
Alignment explanation
Indices: 4199--4261 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
4189 AATCTGTAAA
4199 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
4219 TCGCAGCACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
4239 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
4259 TCG
1 TCG
4262 TAAAACGCGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.17
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:4444 original size:22 final size:22
Alignment explanation
Indices: 4419--4464 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
4409 CTACGGCAAC
*
4419 ATCCGTCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
4441 ATCCATCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
4463 AT
1 AT
4465 TTGTCTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.43, G:0.11, T:0.20
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACGAA
Found at i:4859 original size:19 final size:20
Alignment explanation
Indices: 4835--4888 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
4825 AAATCACAAC
4835 GCGATTTTC-GTTTCGAGTT
1 GCGATTTTCAGTTTCGAGTT
* *
4854 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCAGTTTCGAGTT
*
4874 GCGATTTTAAGTTTC
1 GCGATTTTCAGTTTC
4889 AGAAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGAGTT
Found at i:6564 original size:21 final size:21
Alignment explanation
Indices: 6537--6586 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
6527 GTTAGGGGAG
* *
6537 TTACGTGATGAGGTCCATGCT
1 TTACGTGAGGAGGTCCATACT
* *
6558 TTGCGTGAGGAGGTCGATACT
1 TTACGTGAGGAGGTCCATACT
6579 TTACGTGA
1 TTACGTGA
6587 AGACGATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCCATACT
Found at i:7136 original size:20 final size:20
Alignment explanation
Indices: 7113--7183 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
7103 ACACAGAAGT
*
7113 CAAATTCGCAATGCGATTTC
1 CAAATTCGCAATGTGATTTC
7133 CAAATTCGCAATGTGATTTC
1 CAAATTCGCAATGTGATTTC
* * *
7153 CAAATTTGCAACGTGATTTA
1 CAAATTCGCAATGTGATTTC
*
7173 TAAATTCGCAA
1 CAAATTCGCAA
7184 CACTGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (20 bp):
CAAATTCGCAATGTGATTTC
Found at i:7184 original size:20 final size:20
Alignment explanation
Indices: 7113--7245 Score: 92
Period size: 20 Copynumber: 6.6 Consensus size: 20
7103 ACACAGAAGT
* *
7113 CAAATTCGCAATGCGATTTC
1 CAAATTCGCAACGTGATTTC
*
7133 CAAATTCGCAATGTGATTTC
1 CAAATTCGCAACGTGATTTC
* *
7153 CAAATTTGCAACGTGATTTA
1 CAAATTCGCAACGTGATTTC
* *
7173 TAAATTCGCAACACTGAATTT-
1 CAAATTCGCAAC-GTG-ATTTC
* *
7194 CAAATTTGTAAC-TCGATTTC
1 CAAATTCGCAACGT-GATTTC
** *
7214 TGAATTCGCAAC-TCGATTTT
1 CAAATTCGCAACGT-GATTTC
*
7234 CGAATTCGCAAC
1 CAAATTCGCAAC
7246 ACGAATTTTA
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.05
20 73 0.78
21 11 0.12
22 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CAAATTCGCAACGTGATTTC
Found at i:7444 original size:15 final size:16
Alignment explanation
Indices: 7424--7456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7414 CCCATCTCTA
7424 TTATTT-TACATAATT
1 TTATTTCTACATAATT
*
7439 TTATTTCTATATAATT
1 TTATTTCTACATAATT
7455 TT
1 TT
7457 TCAATGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTCTACATAATT
Found at i:8250 original size:24 final size:24
Alignment explanation
Indices: 8199--8252 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
8189 GTATTCGAAA
* **
8199 TTTGATCTTGGTCAATTCTTGGAC
1 TTTGATCTTGGTCAATACTCAGAC
*
8223 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACTCAGAC
8247 TTTGAT
1 TTTGAT
8253 GATATTTCAG
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:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:10877 original size:20 final size:20
Alignment explanation
Indices: 10837--10877 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10827 AATCACAACA
*
10837 CGAATTTGACTTTCACTTTG
1 CGAATTTGACTTTCACGTTG
*
10857 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCACGTTG
10877 C
1 C
10878 AAAAGTGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (20 bp):
CGAATTTGACTTTCACGTTG
Found at i:10991 original size:25 final size:25
Alignment explanation
Indices: 10951--11000 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10941 AAATCAATTA
* *
10951 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATAGGTACATTATTTG
10976 AACATTGTTATAGGTACATTATTTG
1 AACATTGTTATAGGTACATTATTTG
11001 GAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTGTTATAGGTACATTATTTG
Found at i:12787 original size:29 final size:29
Alignment explanation
Indices: 12754--12810 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
12744 CAGATTTTTT
*
12754 GTTGCAATTGTTGTGAAAGTCAAATTCGC
1 GTTGCAATTGTTGTGAAAATCAAATTCGC
*
12783 GTTGCGATTGTTGTGAAAATCAAATTCG
1 GTTGCAATTGTTGTGAAAATCAAATTCG
12811 AAATGCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (29 bp):
GTTGCAATTGTTGTGAAAATCAAATTCGC
Found at i:12817 original size:29 final size:29
Alignment explanation
Indices: 12760--12818 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
12750 TTTTGTTGCA
* ***
12760 ATTGTTGTGAAAGTCAAATTCGCGTTGCG
1 ATTGTTGTGAAAATCAAATTCGAAATGCG
12789 ATTGTTGTGAAAATCAAATTCGAAATGCG
1 ATTGTTGTGAAAATCAAATTCGAAATGCG
12818 A
1 A
12819 AATCGCAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (29 bp):
ATTGTTGTGAAAATCAAATTCGAAATGCG
Found at i:13006 original size:13 final size:14
Alignment explanation
Indices: 12990--13022 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
12980 CTTCAATTAA
12990 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
13003 ACAAATCAACTTTT
1 ACAAATCAACTTTT
13017 ACAAAT
1 ACAAAT
13023 ACATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:14402 original size:21 final size:21
Alignment explanation
Indices: 14373--14445 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
14363 ATAAATCGGG
*
14373 CTCTCGAACGGTGGGAGAGAC
1 CTCTTGAACGGTGGGAGAGAC
* ** *
14394 CTCTTGAACGATGACAGGGAC
1 CTCTTGAACGGTGGGAGAGAC
*
14415 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGGTGGGAGAGAC
14436 CTCTTGAACG
1 CTCTTGAACG
14446 ACATATCATC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGAGAC
Found at i:14631 original size:19 final size:20
Alignment explanation
Indices: 14607--14644 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14597 TACACTTTCG
14607 CAACGCAAAAGT-AAATTCA
1 CAACGCAAAAGTCAAATTCA
*
14626 CAACGCGAAAGTCAAATTC
1 CAACGCAAAAGTCAAATTC
14645 GCATTGCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (20 bp):
CAACGCAAAAGTCAAATTCA
Found at i:14710 original size:29 final size:29
Alignment explanation
Indices: 14678--14734 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
14668 TTTCGCGTTT
* * *
14678 CGAATTTGTCTTTTGCAATAATCGCAACG
1 CGAATTTGACTTTCGCAACAATCGCAACG
*
14707 CGAATTTGACTTTCGCTACAATCGCAAC
1 CGAATTTGACTTTCGCAACAATCGCAAC
14735 AAAAAATCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (29 bp):
CGAATTTGACTTTCGCAACAATCGCAACG
Found at i:14915 original size:18 final size:18
Alignment explanation
Indices: 14892--14927 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14882 AAGCCGGTTG
*
14892 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
14910 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
14928 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:15168 original size:15 final size:16
Alignment explanation
Indices: 15136--15171 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15126 AAATCATTGA
15136 AAAATTATATAGAAAT
1 AAAATTATATAGAAAT
*
15152 AAAATTATGTA-AAAT
1 AAAATTATATAGAAAT
15167 AAAAT
1 AAAAT
15172 GCCTTCCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAATTATATAGAAAT
Found at i:17996 original size:14 final size:15
Alignment explanation
Indices: 17966--17998 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17956 AATAGAATAA
17966 ATAAATAGATATTAT
1 ATAAATAGATATTAT
*
17981 ATAAATATAT-TTAT
1 ATAAATAGATATTAT
17995 ATAA
1 ATAA
17999 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATAGATATTAT
Found at i:18101 original size:26 final size:25
Alignment explanation
Indices: 18062--18111 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18052 ACGTAATAAT
18062 AAAATAATAATAATTAAAATTAAAAG
1 AAAATAATAATAA-TAAAATTAAAAG
*
18088 AAAATAA-AAGTAATAATATTAAAA
1 AAAATAATAA-TAATAAAATTAAAA
18112 CTATTGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAATAATAATAATAAAATTAAAAG
Found at i:19464 original size:3 final size:3
Alignment explanation
Indices: 19456--19507 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
19446 ATATATATAT
* * *
19456 TAA TAA TAA TAA TAA TAA TATT TAG TAA TAA TAA -ATT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
19502 TAA TAA
1 TAA TAA
19508 AATTTAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:19484 original size:25 final size:27
Alignment explanation
Indices: 19438--19503 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
19428 TTTGGGCTTG
*
19438 TAATATATATATATATATTAATAAT-AA-
1 TAATA-ATA-ATATATAGTAATAATAAAT
*
19465 TAATAATAATATTTAGTAATAATAAATT
1 TAATAATAATATATAGTAATAATAAA-T
19493 TAATAATAATA
1 TAATAATAATA
19504 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 13 0.38
26 5 0.15
27 5 0.15
28 11 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
TAATAATAATATATAGTAATAATAAAT
Found at i:19769 original size:76 final size:76
Alignment explanation
Indices: 19635--20733 Score: 2054
Period size: 76 Copynumber: 14.5 Consensus size: 76
19625 GATGGAAATG
* * * *
19635 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
19700 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
19711 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
19776 CCCGAAGGCTT
66 CCCGAAGGCTT
19787 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
19852 CCCGAAGGCTT
66 CCCGAAGGCTT
19863 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
19928 CCCGAAGGCTT
66 CCCGAAGGCTT
19939 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
20004 CTCGAAGGCTT
66 CCCGAAGGCTT
20015 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20080 CCCGAAGGCTT
66 CCCGAAGGCTT
20091 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20156 CCCGAAGGCTT
66 CCCGAAGGCTT
20167 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20232 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
20243 TTTGGAAACATCATGCACTGAAGGACTTACAAATGACCTTAAGTCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20308 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
20319 TTCGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20384 CCCGAAGGCTT
66 CCCGAAGGCTT
*
20395 TTTGGAAACATCATGCACTGAAGAACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20460 CCCGAAGGCTT
66 CCCGAAGGCTT
*
20471 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20536 CCCGAAGGCTT
66 CCCGAAGGCTT
*
20547 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20612 CCCGAAGGCTT
66 CCCGAAGGCTT
*
20623 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
20688 CCCGAAGGCTT
66 CCCGAAGGCTT
20699 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
20734 TGGGAAATAG
Statistics
Matches: 998, Mismatches: 25, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 998 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:21216 original size:22 final size:22
Alignment explanation
Indices: 21189--21231 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21179 TTTATTTTTG
21189 AAAAGAGAATCTATCATCTTTA
1 AAAAGAGAATCTATCATCTTTA
21211 AAAAGAGAATCTATCATCTTT
1 AAAAGAGAATCTATCATCTTT
21232 GAAGAGTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAAGAGAATCTATCATCTTTA
Found at i:27990 original size:14 final size:14
Alignment explanation
Indices: 27973--28011 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
27963 TAAAAGTATG
27973 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
27987 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
28002 AATG-AAAATG
1 AATGCAAAATG
28012 CATGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:31158 original size:14 final size:15
Alignment explanation
Indices: 31128--31160 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31118 AATAGAATAA
31128 ATAAATAGATATTAT
1 ATAAATAGATATTAT
*
31143 ATAAATATAT-TTAT
1 ATAAATAGATATTAT
31157 ATAA
1 ATAA
31161 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATAGATATTAT
Found at i:31263 original size:26 final size:25
Alignment explanation
Indices: 31224--31273 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31214 ACGTAATAAT
31224 AAAATAATAATAATTAAAATTAAAAG
1 AAAATAATAATAA-TAAAATTAAAAG
*
31250 AAAATAA-AAGTAATAATATTAAAA
1 AAAATAATAA-TAATAAAATTAAAA
31274 CTATTGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAATAATAATAATAAAATTAAAAG
Found at i:32687 original size:3 final size:3
Alignment explanation
Indices: 32679--32730 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
32669 ATATATATAT
* * *
32679 TAA TAA TAA TAA TAA TAA TATT TAG TAA TAA TAA -ATT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
32725 TAA TAA
1 TAA TAA
32731 AATTTAAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:32692 original size:31 final size:36
Alignment explanation
Indices: 32657--32729 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
32647 TTTGGGCTTG
*
32657 TAATATATA-T-ATATATATATATTAATAATAATAATAA
1 TAATATATAGTAATA-ATAAAT-TTAATAATAATAAT-A
*
32694 TAATATTTAGTAATAATAAATTTAATAATAATAATA
1 TAATATATAGTAATAATAAATTTAATAATAATAATA
32730 AAATTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 1 0.03
37 22 0.69
38 6 0.19
39 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (36 bp):
TAATATATAGTAATAATAAATTTAATAATAATAATA
Found at i:32699 original size:25 final size:25
Alignment explanation
Indices: 32657--32726 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 25
32647 TTTGGGCTTG
*
32657 TAATATATATATATATATATATTAATAA
1 TAATA-ATA-ATA-ATATATAGTAATAA
*
32685 TAATAATAATAATATTTAGTAATAA
1 TAATAATAATAATATATAGTAATAA
32710 TAAATTTAATAATAATA
1 T-AA--TAATAATAATA
32727 ATAAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 13 0.35
26 5 0.14
27 3 0.08
28 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TAATAATAATAATATATAGTAATAA
Found at i:34043 original size:17 final size:18
Alignment explanation
Indices: 34011--34046 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34001 ACTCTTAGGT
34011 ATTTTATAAATCATTAAA
1 ATTTTATAAATCATTAAA
*
34029 ATTTT-TAAATTATTAAA
1 ATTTTATAAATCATTAAA
34046 A
1 A
34047 AATCAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTATAAATCATTAAA
Found at i:47372 original size:15 final size:15
Alignment explanation
Indices: 47352--47381 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47342 GATCTGTTTG
47352 ATCAACTGAAAGGCA
1 ATCAACTGAAAGGCA
*
47367 ATCAACTGAAGGGCA
1 ATCAACTGAAAGGCA
47382 TAACAGATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (15 bp):
ATCAACTGAAAGGCA
Found at i:53008 original size:16 final size:19
Alignment explanation
Indices: 52962--53009 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 19
52952 TAAGAAATAA
52962 GAGAAGAAAGAAAGGAAATG
1 GAGAAGAAAGAAAGGAAA-G
52982 GAGAAGAAAGAAAGGAAAG
1 GAGAAGAAAGAAAGGAAAG
53001 GAAGAAGAA
1 G-AGAAGAA
53010 TAAAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.02
Consensus pattern (19 bp):
GAGAAGAAAGAAAGGAAAG
Found at i:53330 original size:21 final size:20
Alignment explanation
Indices: 53296--53336 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
53286 ATAGAATGTT
* *
53296 ATTTTATGATTAATTGATTA
1 ATTTCATGATTAATTAATTA
53316 ATTTCATGAATTAATTAATTA
1 ATTTCATG-ATTAATTAATTA
53337 TAGGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTCATGATTAATTAATTA
Found at i:57082 original size:54 final size:54
Alignment explanation
Indices: 56940--57323 Score: 529
Period size: 54 Copynumber: 7.1 Consensus size: 54
56930 TTGCAAATGT
* * * * * ** *
56940 AGTGCCGATAC-GATAATTCACAAACTTATTATGAATTACGTGGGGTGCACACAC
1 AGTGCCAATACAGA-AATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
* * * *
56994 AGTGTCAATAC-GAAATTCACAAACTTATTATGAATTTCTTAAGTTGCACACAT
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
*
57047 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
*
57101 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
* * *
57155 AGTGCCAATACAAAAATTCATAAACGCATTGTGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
57209 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
** * ** *
57263 AGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCGTTGGGTTGCACACAT
1 AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTC-TTAAGTTGCACACAC
57318 AGTGCC
1 AGTGCC
57324 CATTCGGTAA
Statistics
Matches: 300, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
53 44 0.15
54 238 0.79
55 18 0.06
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (54 bp):
AGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAC
Found at i:59885 original size:17 final size:17
Alignment explanation
Indices: 59863--59967 Score: 88
Period size: 17 Copynumber: 6.1 Consensus size: 17
59853 AATTAAGATT
*
59863 TAGTTTAATAAATGAAC
1 TAGTTTAATCAATGAAC
* * *
59880 TAGTTTGATGAATAAAC
1 TAGTTTAATCAATGAAC
*
59897 TAGTTTAATTAATGAAC
1 TAGTTTAATCAATGAAC
* *
59914 TAACTTTATTCAATGAAC
1 T-AGTTTAATCAATGAAC
*
59932 T--TGTAATCTTGAATGAAC
1 TAGTTTAATC---AATGAAC
59950 TAGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
59967 T
1 T
59968 GCTTAGTTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.07
17 37 0.53
18 22 0.31
20 6 0.09
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:61961 original size:21 final size:22
Alignment explanation
Indices: 61921--61962 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61911 ATAATTAGTA
61921 ATAAAAAGAAATAACATCACAG
1 ATAAAAAGAAATAACATCACAG
* *
61943 ATAAAAATAAA-AACCTCACA
1 ATAAAAAGAAATAACATCACA
61963 CAATACTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.64, C:0.17, G:0.05, T:0.14
Consensus pattern (22 bp):
ATAAAAAGAAATAACATCACAG
Found at i:63623 original size:17 final size:17
Alignment explanation
Indices: 63601--63737 Score: 152
Period size: 17 Copynumber: 7.9 Consensus size: 17
63591 AATTAAGAGT
*
63601 TAGTTTAATAAATGAAC
1 TAGTTTAATTAATGAAC
* *
63618 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
63635 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
* *
63652 TAACTTTATTTAATGAAC
1 T-AGTTTAATTAATGAAC
*
63670 T--TGTAATCTTGAATGAAC
1 TAGTTTAA--TT-AATGAAC
*
63688 TAGTTTGATTAATGAAC
1 TAGTTTAATTAATGAAC
63705 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
63722 TATTTTAATTAATGAA
1 TAGTTTAATTAATGAA
63738 ATGCTTAGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.03
17 71 0.70
18 25 0.25
20 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:63752 original size:17 final size:17
Alignment explanation
Indices: 63732--63771 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
63722 TATTTTAATT
* *
63732 AATGAAATGCTTAGTTA
1 AATGAAATGCATAGCTA
*
63749 AATGAAGTGCATAGCTA
1 AATGAAATGCATAGCTA
63766 AATGAA
1 AATGAA
63772 CTACATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (17 bp):
AATGAAATGCATAGCTA
Found at i:63753 original size:34 final size:34
Alignment explanation
Indices: 63605--63754 Score: 108
Period size: 34 Copynumber: 4.4 Consensus size: 34
63595 AAGAGTTAGT
* * * * *
63605 TTAATAAATGAACTAGTTTGATGAATGAACTAGT
1 TTAATTAATGAACTAGTTTAATTAATGAAATAGC
* * * *
63639 TTAATTAATGAACTAACTTTATTTAATGAACTTG-
1 TTAATTAATGAACT-AGTTTAATTAATGAAATAGC
* * *
63673 -TAATCTTGAATGAACTAGTTTGATTAATGAACTAGT
1 TTAA--TT-AATGAACTAGTTTAATTAATGAAATAGC
*
63709 TTAATTAATGAACTATTTTAATTAATGAAAT-GC
1 TTAATTAATGAACTAGTTTAATTAATGAAATAGC
*
63742 TTAGTTAAATGAA
1 TTAATT-AATGAA
63755 GTGCATAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
33 9 0.10
34 41 0.44
35 33 0.35
36 8 0.09
37 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (34 bp):
TTAATTAATGAACTAGTTTAATTAATGAAATAGC
Found at i:65058 original size:17 final size:17
Alignment explanation
Indices: 65036--65105 Score: 88
Period size: 17 Copynumber: 4.1 Consensus size: 17
65026 AATTAAGAGT
*
65036 TAGTTTGATTAATGCAC
1 TAGTTTGATTAATGAAC
* *
65053 TAGTTTAATAAATGAAC
1 TAGTTTGATTAATGAAC
65070 TAGTTTGATTAATGAAC
1 TAGTTTGATTAATGAAC
*
65087 TAACTTT-ATTAATGAAC
1 T-AGTTTGATTAATGAAC
65104 TA
1 TA
65106 AATGCATGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 1 0.02
17 41 0.89
18 4 0.09
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:65074 original size:34 final size:34
Alignment explanation
Indices: 65036--65105 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
65026 AATTAAGAGT
* *
65036 TAGTTTGATTAATGCACT-AGTTTAATAAATGAAC
1 TAGTTTGATTAATGAACTAACTTT-ATAAATGAAC
*
65070 TAGTTTGATTAATGAACTAACTTTATTAATGAAC
1 TAGTTTGATTAATGAACTAACTTTATAAATGAAC
65104 TA
1 TA
65106 AATGCATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (34 bp):
TAGTTTGATTAATGAACTAACTTTATAAATGAAC
Found at i:67873 original size:23 final size:24
Alignment explanation
Indices: 67840--67889 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
67830 TCCCTCATTC
*
67840 TTTAAACTTTTTCTTTCTTT-TTT
1 TTTAAACTTTTTATTTCTTTATTT
* *
67863 TTTAAATTTTTTATTTTTTTATTT
1 TTTAAACTTTTTATTTCTTTATTT
67887 TTT
1 TTT
67890 TACTAACCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTAAACTTTTTATTTCTTTATTT
Found at i:69161 original size:17 final size:17
Alignment explanation
Indices: 69112--69187 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
69102 TGCATGAAAC
*
69112 AATTAA-GAATTAGTTT
1 AATTAATGAACTAGTTT
* * *
69128 GATTAATGCACTTGTTT
1 AATTAATGAACTAGTTT
*
69145 AATAAATGAACTAGTTT
1 AATTAATGAACTAGTTT
* *
69162 TATTAATGAACTAACTTT
1 AATTAATGAACT-AGTTT
69180 -ATTAATGA
1 AATTAATGA
69188 TCTAAATGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 5 0.11
17 38 0.81
18 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (17 bp):
AATTAATGAACTAGTTT
Found at i:69192 original size:17 final size:17
Alignment explanation
Indices: 69149--69192 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
69139 TTGTTTAATA
**
69149 AATGAACTAGTTTTATT
1 AATGAACTAACTTTATT
69166 AATGAACTAACTTTATT
1 AATGAACTAACTTTATT
*
69183 AATGATCTAA
1 AATGAACTAA
69193 ATGCATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (17 bp):
AATGAACTAACTTTATT
Found at i:69268 original size:17 final size:17
Alignment explanation
Indices: 69248--69289 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
69238 ACTACTTCCC
69248 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
69265 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
69282 TTAATGAA
1 TAAATGAA
69290 TAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:76811 original size:14 final size:15
Alignment explanation
Indices: 76788--76820 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76778 AAAAAATAAC
76788 ATATTAAAT-AAATA
1 ATATTAAATAAAATA
*
76802 ATATTTAATAAAATA
1 ATATTAAATAAAATA
76817 ATAT
1 ATAT
76821 GAGACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAAATAAAATA
Found at i:77545 original size:19 final size:20
Alignment explanation
Indices: 77509--77546 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
77499 ACATTCCAAG
**
77509 CATCTAATATCATTCTAAAC
1 CATCTAATATCAAACTAAAC
77529 CATC-AATATCAAACTAAA
1 CATCTAATATCAAACTAAA
77547 AAAAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (20 bp):
CATCTAATATCAAACTAAAC
Done.