Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014874.1 Kokia drynarioides strain JFW-HI SEQ_129917, 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: 125808
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Warning! 20 characters in sequence are not A, C, G, or T
Found at i:5940 original size:27 final size:27
Alignment explanation
Indices: 5902--5966 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
5892 GCATCCGATT
5902 TGCCTTTGTGGTGTACTCTGAATGGAA
1 TGCCTTTGTGGTGTACTCTGAATGGAA
*
5929 TGCCTTTGTGGTGTATTCTGAATGGAA
1 TGCCTTTGTGGTGTACTCTGAATGGAA
5956 TGCCTTTGTGG
1 TGCCTTTGTGG
5967 CGAGTTTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.15, C:0.14, G:0.31, T:0.40
Consensus pattern (27 bp):
TGCCTTTGTGGTGTACTCTGAATGGAA
Found at i:6338 original size:50 final size:50
Alignment explanation
Indices: 6263--6363 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
6253 TATTATGTTC
6263 ACCTATGAATGTGATTGTGAATATTAGTTCTGGGTTAAGTATGCGTATGA
1 ACCTATGAATGTGATTGTGAATATTAGTTCTGGGTTAAGTATGCGTATGA
6313 ACCTATGAATGTGATTGTGAATATTAGTTCTGGGTTAAGTATGCGTATGA
1 ACCTATGAATGTGATTGTGAATATTAGTTCTGGGTTAAGTATGCGTATGA
6363 A
1 A
6364 GTGATATTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.38
Consensus pattern (50 bp):
ACCTATGAATGTGATTGTGAATATTAGTTCTGGGTTAAGTATGCGTATGA
Found at i:10606 original size:21 final size:22
Alignment explanation
Indices: 10566--10606 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10556 ACTAGGGCAA
*
10566 AAAAAAAATCAAGTATCAAATT
1 AAAAAAAATCAAGTAGCAAATT
*
10588 AAAAAAAATCGA-TAGCAAA
1 AAAAAAAATCAAGTAGCAAA
10607 GTGAACGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAAAATCAAGTAGCAAATT
Found at i:13499 original size:33 final size:31
Alignment explanation
Indices: 13437--13522 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
13427 GCAATTTTTT
*
13437 TTTTATTTTTCTATTGTAATTTTAATTATTG
1 TTTTATTTTTCTATTGTAATTTTAATTATTA
* * *
13468 TTTTATTTTTTTTTTGTATATTTTCAGTTATTA
1 TTTTATTTTTCTATTGTA-ATTTT-AATTATTA
*
13501 TGTTATTTTTCTA-T-TAATTTTA
1 TTTTATTTTTCTATTGTAATTTTA
13523 GTAAAATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 1 0.02
30 5 0.11
31 18 0.39
32 6 0.13
33 16 0.35
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (31 bp):
TTTTATTTTTCTATTGTAATTTTAATTATTA
Found at i:13863 original size:7 final size:7
Alignment explanation
Indices: 13851--13892 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
13841 TCTTGAACTA
13851 ATGTCAC
1 ATGTCAC
13858 ATGTCAC
1 ATGTCAC
13865 ATGTCAC
1 ATGTCAC
13872 ATGTCAC
1 ATGTCAC
13879 ATGTCAC
1 ATGTCAC
13886 ATGTCAC
1 ATGTCAC
13893 GATCTATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
ATGTCAC
Found at i:15004 original size:41 final size:41
Alignment explanation
Indices: 14957--15054 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
14947 CAAAAGGTAA
** ** *
14957 AGCATTAGCGGCGCTTATGGGAAAGCGTCGCTAAAAGTCAG
1 AGCATTAGCGGCGCTTATGAAAAAGCCCCGCTAAAAATCAG
**
14998 AGCATTAGCGGTTCTTATGAAAAAGCCCCGCTAAAAATCAG
1 AGCATTAGCGGCGCTTATGAAAAAGCCCCGCTAAAAATCAG
15039 AGCATTAGCGGCGCTT
1 AGCATTAGCGGCGCTT
15055 TTTCAGGCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTATGAAAAAGCCCCGCTAAAAATCAG
Found at i:17053 original size:16 final size:16
Alignment explanation
Indices: 17017--17058 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
17007 TAAACGAAAA
*
17017 AAGAAGGAAGA-AAAG
1 AAGAAGGAAAACAAAG
17032 -AGAAGGAAAACAAAG
1 AAGAAGGAAAACAAAG
*
17047 AAGAAGGGAAAC
1 AAGAAGGAAAAC
17059 TATAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 10 0.43
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (16 bp):
AAGAAGGAAAACAAAG
Found at i:17447 original size:17 final size:18
Alignment explanation
Indices: 17425--17460 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17415 TAAATGAGTT
17425 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
17442 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
17460 A
1 A
17461 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:17984 original size:9 final size:9
Alignment explanation
Indices: 17949--17990 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
17939 ATAAATTTTA
17949 TTATTAT-T
1 TTATTATAT
17957 TTATTA-AT
1 TTATTATAT
*
17965 ATTAATATAT
1 -TTATTATAT
17975 TTATTATAT
1 TTATTATAT
17984 TTATTAT
1 TTATTAT
17991 TATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
9 20 0.69
10 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATTATAT
Found at i:18747 original size:6 final size:6
Alignment explanation
Indices: 18736--18802 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
18726 TTTAAATGAT
* * *
18736 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTTAAA -ATAAA CTTAAT
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
18782 TTTAAA -ATAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTA
18803 TTGGGTCCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 35 0.71
7 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:18760 original size:17 final size:17
Alignment explanation
Indices: 18738--18802 Score: 103
Period size: 17 Copynumber: 3.8 Consensus size: 17
18728 TAAATGATTT
*
18738 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
18755 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
18772 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
18789 TAAATTTAAATTTA
1 TAAATTTAAATTTA
18803 TTGGGTCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:18785 original size:23 final size:23
Alignment explanation
Indices: 18734--18787 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
18724 TATTTAAATG
*
18734 ATTTTAAATTTAAATTTATAATA
1 ATTTTAAATTTAAATATATAATA
*
18757 AATTTAAATTTAAA-ATA-AACTTA
1 ATTTTAAATTTAAATATATAA--TA
18780 ATTTTAAA
1 ATTTTAAA
18788 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 22 0.85
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTAAATTTAAATATATAATA
Found at i:20549 original size:23 final size:23
Alignment explanation
Indices: 20515--20639 Score: 157
Period size: 23 Copynumber: 5.4 Consensus size: 23
20505 TGTTGGGCAA
*
20515 CAGAGAGCACACACAGTGCTAAAT
1 CAGAGAGCACACAAAGTGCT-AAT
* *
20539 -AGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
20561 CAAAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
20584 CAGAGAGCACACAAAATGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
20607 CAGAGAGCACAC--AGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
20628 AACAGAGAGCAC
1 --CAGAGAGCAC
20640 GCTAGTGTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
21 8 0.09
22 3 0.03
23 78 0.88
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:24698 original size:14 final size:15
Alignment explanation
Indices: 24668--24698 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24658 ATAATCACTA
24668 AAAATAATTATATTT
1 AAAATAATTATATTT
24683 AAAATAATTA-ATTT
1 AAAATAATTATATTT
24697 AA
1 AA
24699 TTTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAATTATATTT
Found at i:25808 original size:11 final size:11
Alignment explanation
Indices: 25781--25813 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25771 TCCAAAATTT
25781 ATATTTTTATA
1 ATATTTTTATA
25792 AT-TTTTTATA
1 ATATTTTTATA
*
25802 GTATTTTTATA
1 ATATTTTTATA
25813 A
1 A
25814 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:25822 original size:21 final size:21
Alignment explanation
Indices: 25782--25822 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25772 CCAAAATTTA
* * *
25782 TATTTTTATAATTTTTTATAG
1 TATTTTTATAAATATATATAG
25803 TATTTTTATAAATATATATA
1 TATTTTTATAAATATATATA
25823 TTTTTAATTT
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:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTTATAAATATATATAG
Found at i:26840 original size:12 final size:12
Alignment explanation
Indices: 26825--26869 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
26815 ATAACATCAA
*
26825 AACAACCAAAAT
1 AACAACAAAAAT
26837 AACAACAAAAAT
1 AACAACAAAAAT
* *
26849 AATAACAAAAAC
1 AACAACAAAAAT
*
26861 AGCAACAAA
1 AACAACAAA
26870 GCAGTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.71, C:0.20, G:0.02, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:26922 original size:23 final size:22
Alignment explanation
Indices: 26896--26941 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
26886 TCAGAAGAGC
26896 AAAAAATAGCAACCAAAACAATA
1 AAAAAATAGC-ACCAAAACAATA
*
26919 AAAAAATAGCACTAAAACAATA
1 AAAAAATAGCACCAAAACAATA
26941 A
1 A
26942 TATAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.70, C:0.15, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAAAATAGCACCAAAACAATA
Found at i:27593 original size:16 final size:16
Alignment explanation
Indices: 27572--27602 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27562 TTCAATGTAA
27572 TATTTTTATGAAATAT
1 TATTTTTATGAAATAT
27588 TATTTTTATGAAATA
1 TATTTTTATGAAATA
27603 ATTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTTTTATGAAATAT
Found at i:38146 original size:17 final size:17
Alignment explanation
Indices: 38113--38162 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
38103 CAAACACAAT
*
38113 TGCGAGCTCATCCAAACT
1 TGCGAGCTCA-CCAAACA
*
38131 TGTGAGCTCACCAAACA
1 TGCGAGCTCACCAAACA
38148 TGCGAGCTCAACCAA
1 TGCGAGCTC-ACCAA
38163 GATGTGACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (17 bp):
TGCGAGCTCACCAAACA
Found at i:41196 original size:45 final size:46
Alignment explanation
Indices: 41118--41211 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
41108 GGCAATAACA
* * *
41118 ATTAGAGTTTTAGTTTTATTTATTTTCTTTATTATA-TCAGGTTTTT
1 ATTAAAGTTTTAGTTTTACTTATTTTCTCTATTATACT-AGGTTTTT
41164 ATTAAAGTTTTAG-TTTACTTATTTTCTCTATTATACTAGGTTTTT
1 ATTAAAGTTTTAGTTTTACTTATTTTCTCTATTATACTAGGTTTTT
41209 ATT
1 ATT
41212 TCATTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 31 0.70
46 13 0.30
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (46 bp):
ATTAAAGTTTTAGTTTTACTTATTTTCTCTATTATACTAGGTTTTT
Found at i:43476 original size:21 final size:20
Alignment explanation
Indices: 43436--43490 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
43426 AAAAATTATA
*
43436 TTATTTTTTTGGTGCAGTTT
1 TTATTATTTTGGTGCAGTTT
**
43456 CTTATTATTTTGGTGTTGTTT
1 -TTATTATTTTGGTGCAGTTT
* *
43477 TTACTGTTTTGGTG
1 TTATTATTTTGGTG
43491 ATATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.09, C:0.05, G:0.22, T:0.64
Consensus pattern (20 bp):
TTATTATTTTGGTGCAGTTT
Found at i:43520 original size:12 final size:12
Alignment explanation
Indices: 43483--43537 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
43473 GTTTTTACTG
*
43483 TTTTGGTGATA-
1 TTTTGTTGATAT
* *
43494 TTTTATTGTTAT
1 TTTTGTTGATAT
*
43506 TTTTGTTGATGT
1 TTTTGTTGATAT
*
43518 TTTTGTTGCTAT
1 TTTTGTTGATAT
43530 TTTTGTTG
1 TTTTGTTG
43538 TTTTTATTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.11, C:0.02, G:0.20, T:0.67
Consensus pattern (12 bp):
TTTTGTTGATAT
Found at i:43547 original size:12 final size:12
Alignment explanation
Indices: 43494--43576 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 12
43484 TTTGGTGATA
*
43494 TTTTATTGTTAT
1 TTTTATTGTTGT
* *
43506 TTTTGTTGATG-
1 TTTTATTGTTGT
43517 -TTT-TTGTTGCT
1 TTTTATTGTTG-T
*
43528 ATTT-TTGTTGT
1 TTTTATTGTTGT
43539 TTTTATTGTTG-
1 TTTTATTGTTGT
** *
43550 TTTTGCTGTTAT
1 TTTTATTGTTGT
*
43562 TTTTACTGTTGT
1 TTTTATTGTTGT
43574 TTT
1 TTT
43577 GGTTATTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
9 5 0.09
10 3 0.05
11 12 0.21
12 36 0.64
ACGTcount: A:0.08, C:0.04, G:0.17, T:0.71
Consensus pattern (12 bp):
TTTTATTGTTGT
Found at i:43564 original size:23 final size:22
Alignment explanation
Indices: 43481--43592 Score: 88
Period size: 23 Copynumber: 5.0 Consensus size: 22
43471 TTGTTTTTAC
*
43481 TGTTTTG-GTGATATTTTATTGT
1 TGTTTTGTGTTAT-TTTTATTGT
* *
43503 TATTTT-TGTTGATGTTT-TTGT
1 TGTTTTGTGTT-ATTTTTATTGT
* *
43524 TGCTATTTTTGTTGTTTTTATTGT
1 TG-T-TTTGTGTTATTTTTATTGT
*
43548 TGTTTTGCTGTTATTTTTACTGT
1 TGTTTTG-TGTTATTTTTATTGT
*
43571 TGTTTTG-GTTATTTTTTTTGT
1 TGTTTTGTGTTATTTTTATTGT
43592 T
1 T
43593 TGGATGTTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
21 18 0.25
22 14 0.19
23 30 0.42
24 10 0.14
ACGTcount: A:0.09, C:0.03, G:0.19, T:0.70
Consensus pattern (22 bp):
TGTTTTGTGTTATTTTTATTGT
Found at i:60060 original size:61 final size:59
Alignment explanation
Indices: 59988--60103 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 59
59978 TTATTTATTT
59988 AAAAAAATAAAATGTATTTCGAGTTGGAATCGGCTTACTTACAAAAAATATATTTTTTGAA
1 AAAAAAATAAAATGTATTTCGAGTTGGAATCGGCTTACTTAC-AAAAATAT-TTTTTTGAA
*
60049 AAAAAAATAAAATTTATTTCGAGTTGGAATCGGCTTACTTACAAAAATATTTTTT
1 AAAAAAATAAAATGTATTTCGAGTTGGAATCGGCTTACTTACAAAAATATTTTTT
60104 GATAGAAAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
59 5 0.09
60 8 0.15
61 41 0.76
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAAAATAAAATGTATTTCGAGTTGGAATCGGCTTACTTACAAAAATATTTTTTTGAA
Found at i:65222 original size:18 final size:17
Alignment explanation
Indices: 65199--65242 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
65189 ATTTTAAGGA
*
65199 TTAAATTTATTATTAACC
1 TTAAATTT-TTATTAAAC
65217 TTAAATATTTTATTAAAC
1 TTAAAT-TTTTATTAAAC
65235 -TAAATTTT
1 TTAAATTTT
65243 AGATTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 14 0.58
19 2 0.08
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTTTATTAAAC
Found at i:65627 original size:28 final size:28
Alignment explanation
Indices: 65595--65653 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
65585 ATTGTAATAG
65595 TTTCATAAAAGAGAACATCAAATATTAT
1 TTTCATAAAAGAGAACATCAAATATTAT
65623 TTTCATAAAAGAGAACATCAAATATTAT
1 TTTCATAAAAGAGAACATCAAATATTAT
65651 TTT
1 TTT
65654 TCAATGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (28 bp):
TTTCATAAAAGAGAACATCAAATATTAT
Found at i:65919 original size:17 final size:17
Alignment explanation
Indices: 65897--65938 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
65887 CTCCCATAAC
*
65897 CTTTAATATTTCATCTT
1 CTTTAATATTTCATATT
*
65914 CTTTAATATTTTATATT
1 CTTTAATATTTCATATT
65931 CTTGTAAT
1 CTT-TAAT
65939 TACTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (17 bp):
CTTTAATATTTCATATT
Found at i:71592 original size:81 final size:81
Alignment explanation
Indices: 71480--72433 Score: 1262
Period size: 81 Copynumber: 11.8 Consensus size: 81
71470 TGCCTTTAAA
* *
71480 AATGTCATCGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
*
71545 AGCACCTAATGGTTTT
66 AGCACCTAGTGGTTTT
* * *
71561 AATGTCATCGTGAAGCGAGAAACTCCGGGAGGGCCAAATCCTCTTCACAATTCTAATCCTCCGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* * *
71626 GGCACCTAATGCTTTT
66 AGCACCTAGTGGTTTT
* *
71642 AATGTCATCGTGAAGTGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCTGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
*
71707 AGCACCTAGTAGTTTT
66 AGCACCTAGTGGTTTT
* * *
71723 AATGTCATCGTGAAGTGAGAAACTCCGAGAGGGCCAAATCCTCTTCATAATTCTAATCCTCCGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* * *
71788 GGCACCTGGTGATTTT
66 AGCACCTAGTGGTTTT
* * * *
71804 AATGTCATCGTGAAGTGAAAAACTCTGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
*
71869 AGCACCTAGTAGTTTT
66 AGCACCTAGTGGTTTT
* * * * * *
71885 AATGTCATCATGAAGCGAGAAACTTCAGGAGGGCCAAATCCTCTTCACAATTCTAATCCTCCGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
71950 AGCACCTAGTGGTTTT
66 AGCACCTAGTGGTTTT
* * * * *
71966 AATGTTATTGTGAAGAGAGAAACTCCGGGA-GAGCCAAATCCTCTTCACAATTTTAGTCCTCCGC
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGA-CCAAATCCTCTTCATAATTCTAATCCTCCGC
72030 AAGCACCTAGTGGTTTT
65 AAGCACCTAGTGGTTTT
* * * *
72047 AATGTTATCATGAAGCGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGTA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* *
72112 AGCACCTAGTGATTTA
66 AGCACCTAGTGGTTTT
** * *
72128 AACATCATCGTGAAGAGAGAAACTCCGGAAGGACCAAATCCTCTTCATAATTCTAATCCTTCGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* *
72193 AGCTCCTAATGGTTTT
66 AGCACCTAGTGGTTTT
* * * * *
72209 AATGTCATTGCGAAGAGAGAAACTCCGGGAGGACTAAATCTTCTTCATAATTCTAATCCTCCGTA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* * *
72274 GGCACCTAGTAGTTTA
66 AGCACCTAGTGGTTTT
* * ** *
72290 AATATCATTGTGAAGAGAGAAACTCCTTGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
* * **
72355 GGCACCTACTAATTTT
66 AGCACCTAGTGGTTTT
* * * * * * *
72371 AAAGTCATCATGAAGAGAGAAACTCTGGGACGATCAAATCCTCTTCATAACTCTAATCTTCCG
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCG
72434 TTAGCTCTGA
Statistics
Matches: 763, Mismatches: 108, Indels: 4
0.87 0.12 0.00
Matches are distributed among these distances:
80 1 0.00
81 760 1.00
82 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (81 bp):
AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCGCA
AGCACCTAGTGGTTTT
Found at i:73072 original size:8 final size:8
Alignment explanation
Indices: 73055--73089 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
73045 AATATTTATA
73055 TTTAATTAT
1 TTTAA-TAT
73064 TTTAATA-
1 TTTAATAT
73071 TTTAATAT
1 TTTAATAT
73079 TTTAATAT
1 TTTAATAT
73087 TTT
1 TTT
73090 TTATTTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 13 0.52
9 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTAATAT
Found at i:73079 original size:15 final size:16
Alignment explanation
Indices: 73052--73088 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
73042 AAAAATATTT
73052 ATATTTAATTATTTTA
1 ATATTTAATTATTTTA
73068 ATATTTAA-TATTTTA
1 ATATTTAATTATTTTA
73083 ATATTT
1 ATATTT
73089 TTTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTTAATTATTTTA
Found at i:73094 original size:15 final size:15
Alignment explanation
Indices: 73052--73095 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
73042 AAAAATATTT
73052 ATATTTAATTATTTTA
1 ATATTT-ATTATTTTA
*
73068 ATATTTAATATTTTA
1 ATATTTATTATTTTA
*
73083 ATATTTTTTATTT
1 ATATTTATTATTT
73096 ATTGAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTATTATTTTA
Found at i:83969 original size:9 final size:9
Alignment explanation
Indices: 83955--83982 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
83945 ATTCAGAATT
83955 TCTAATTAA
1 TCTAATTAA
83964 TCTAATTAA
1 TCTAATTAA
83973 TCTAATTAA
1 TCTAATTAA
83982 T
1 T
83983 ACAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (9 bp):
TCTAATTAA
Found at i:88633 original size:24 final size:23
Alignment explanation
Indices: 88605--88679 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
88595 GTATATTGGT
88605 TAACCATTTTGGGCTCGTAAGAGC
1 TAACCATTTTGGGCTCGT-AGAGC
*
88629 TAACC-TTTCTAGGCTCGTAGAAGC
1 TAACCATTT-TGGGCTCGTAG-AGC
* *
88653 TAACCATCTTGGGCTTGTGAGAGC
1 TAACCATTTTGGGCTCGT-AGAGC
88677 TAA
1 TAA
88680 TTTTGTCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 5 0.12
24 34 0.79
25 4 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
TAACCATTTTGGGCTCGTAGAGC
Found at i:88666 original size:48 final size:49
Alignment explanation
Indices: 88605--88704 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 49
88595 GTATATTGGT
*
88605 TAACCATTTTGGGCTCGTAAGAGCTAACCTT-TCTAGGCTCGTA-GAAGC
1 TAACCATCTTGGGCTCGTAAGAGCTAACCTTGTCTAGGCTCGTATG-AGC
* * **
88653 TAACCATCTTGGGCTTGTGAGAGCTAATTTTGTCTAGGCTCGTATGAGC
1 TAACCATCTTGGGCTCGTAAGAGCTAACCTTGTCTAGGCTCGTATGAGC
88702 TAA
1 TAA
88705 AATCTGGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 26 0.58
49 18 0.40
50 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (49 bp):
TAACCATCTTGGGCTCGTAAGAGCTAACCTTGTCTAGGCTCGTATGAGC
Found at i:90702 original size:524 final size:526
Alignment explanation
Indices: 89649--90703 Score: 1772
Period size: 524 Copynumber: 2.0 Consensus size: 526
89639 TGAATAGTGA
* *
89649 TAAATGAATAGTAAGACATCGAAACCCTAACCGATGACAATTTACGAGTTTTGAGTATTACAAAA
1 TAAATGAATAGTAAGACACCGAAACCCTAACCGACGACAATTTACGAGTTTTGAGTATTACAAAA
* * *
89714 AATAGCCAATATACATGCCACATAACTGAAGTAAAAACGATTTCAAAATCTATCGAAACTAAAGC
66 AATAGCCAATATACATGCCACATAACTGAAGTAAAAACGATTTCAAAATCTACCAAAACTAAAAC
* * * *
89779 TTGATAGTGTGAGCCTTCCTGTTGATCCGACAACATTGTTTCGTAAAACGTCAAATACAAAAAAA
131 TTGATAGTGTGAGCCTTACAGTTGATCCGACAACATTGTTCCGTAAAACGGCAAATAC--AAAAA
89844 AAGAAATGAAACAGAGTAAGCTTTATGGAAGCTTACTAAGTTCATATAAAAACATATACATTAAC
194 AAGAAATGAAACAGAGTAAGCTTTATGGAAGCTTACTAAGTTCATATAAAAACATATACATTAAC
*
89909 ATACATTATAAACCAAAAATACAATTATATAACTAAGTTTCATGGCATTTTAAATCCTAACATTT
259 ATACATTATAAACCAAAAATACAATTATATAACTAACTTTCATGGCATTTTAAATCCTAACATTT
*
89974 CATTCCACAAGAAACAAGTGAGACTTTCTTATAATCATGTAACAAGACAATCAATGTAACATTTC
324 CATTCCACAAGAAACAAGTGACACTTTCTTATAATCATGTAACAAGACAATCAATGTAACATTTC
90039 AATCAACTCAATCCAAGTATTCAATACTTATTCAAATCAACAAGTCATTCACTTCTTTTATTTAA
389 AATCAACTCAATCCAAGTATTCAATACTTATTCAAATCAACAAGTCATTCACTTCTTTTATTTAA
* *
90104 TCAAATCAACTCGATGACCAATAGTAAAATAATTTAGATACACAGTTTATAGTAACAATGAGCAC
454 TCAAATCAACTCGATGACCAATAATAAAATAATTTAGATACACAGTTTATAGTAACAAGGAGCAC
*
90169 CGAGGTGC
519 CAAGGTGC
* * * ** * * *
90177 TAAATGAATAGTAAGACACCGGAACCTTAACTGACGACGGTTTACGGGTTTTGGGTGTTAC-AAA
1 TAAATGAATAGTAAGACACCGAAACCCTAACCGACGACAATTTACGAGTTTTGAGTATTACAAAA
* * *
90241 AATAGCCTATATACATGCCACATAACTGAAGTAAAGACGATTTCAAAATGTACCAAAACTAAAAC
66 AATAGCCAATATACATGCCACATAACTGAAGTAAAAACGATTTCAAAATCTACCAAAACTAAAAC
*
90306 TTGATAGTGTGAGCCTTACAGTTGATCCGACAACATTGTTCCGTAAAATGGCAAATAC-AAAAAA
131 TTGATAGTGTGAGCCTTACAGTTGATCCGACAACATTGTTCCGTAAAACGGCAAATACAAAAAAA
* * *
90370 GAAATGAAATAGAGTAAGCTTTATGGAAGCTTAGTAAGTTCATATAAAAACATATACATTAACTT
196 GAAATGAAACAGAGTAAGCTTTATGGAAGCTTACTAAGTTCATATAAAAACATATACATTAACAT
*
90435 ACCTTATAAACCAAAAATACAATTATATAACTAACTTTCATGGCATTTTAAATCCTAACATTTCA
261 ACATTATAAACCAAAAATACAATTATATAACTAACTTTCATGGCATTTTAAATCCTAACATTTCA
*
90500 TTCCACAAGAAACAAGTGACACTTTCTTATAATGATGTAACAAGACAATCAATGTAACATTTCAA
326 TTCCACAAGAAACAAGTGACACTTTCTTATAATCATGTAACAAGACAATCAATGTAACATTTCAA
90565 TCAACTCAATCCAAGTATTCAATACTTATTCAAATCAACAAGTCATTCACTTCTTTTATTTAATC
391 TCAACTCAATCCAAGTATTCAATACTTATTCAAATCAACAAGTCATTCACTTCTTTTATTTAATC
* * *
90630 AAATCTACTCGATGACCAATAATAAAATAATTTAGATACACGGTTTATAGTAGCAAGGAGCACCA
456 AAATCAACTCGATGACCAATAATAAAATAATTTAGATACACAGTTTATAGTAACAAGGAGCACCA
90695 AGGTGC
521 AGGTGC
90701 TAA
1 TAA
90704 TCAAGGGCAC
Statistics
Matches: 493, Mismatches: 34, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
524 327 0.66
527 115 0.23
528 51 0.10
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.29
Consensus pattern (526 bp):
TAAATGAATAGTAAGACACCGAAACCCTAACCGACGACAATTTACGAGTTTTGAGTATTACAAAA
AATAGCCAATATACATGCCACATAACTGAAGTAAAAACGATTTCAAAATCTACCAAAACTAAAAC
TTGATAGTGTGAGCCTTACAGTTGATCCGACAACATTGTTCCGTAAAACGGCAAATACAAAAAAA
GAAATGAAACAGAGTAAGCTTTATGGAAGCTTACTAAGTTCATATAAAAACATATACATTAACAT
ACATTATAAACCAAAAATACAATTATATAACTAACTTTCATGGCATTTTAAATCCTAACATTTCA
TTCCACAAGAAACAAGTGACACTTTCTTATAATCATGTAACAAGACAATCAATGTAACATTTCAA
TCAACTCAATCCAAGTATTCAATACTTATTCAAATCAACAAGTCATTCACTTCTTTTATTTAATC
AAATCAACTCGATGACCAATAATAAAATAATTTAGATACACAGTTTATAGTAACAAGGAGCACCA
AGGTGC
Found at i:90878 original size:40 final size:40
Alignment explanation
Indices: 90834--91006 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
90824 AGGAGCACCA
** *
90834 TAATGCTAACAGGAGTATAAAAGTACTATCAGAAGAATCG
1 TAATGCTAACAGGAGTACGAAAGTACTATCAGAAGCATCG
* *
90874 TAATGCTAACAGGAGTACGAAAGTACTATAAGGAGCA-CTG
1 TAATGCTAACAGGAGTACGAAAGTACTATCAGAAGCATC-G
* * * *
90914 TAGTGCTAAAAGGATTACGAAAGTACTATCAAAAGCATCG
1 TAATGCTAACAGGAGTACGAAAGTACTATCAGAAGCATCG
* * * * *
90954 T-ATGCTAACAAGAGTATGAAAGTATTATCAGGAGCACCG
1 TAATGCTAACAGGAGTACGAAAGTACTATCAGAAGCATCG
*
90993 TAGTGCTAACAGGA
1 TAATGCTAACAGGA
91007 TAAATGCACA
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
39 31 0.29
40 76 0.70
41 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (40 bp):
TAATGCTAACAGGAGTACGAAAGTACTATCAGAAGCATCG
Found at i:90996 original size:79 final size:80
Alignment explanation
Indices: 90819--91007 Score: 245
Period size: 79 Copynumber: 2.4 Consensus size: 80
90809 CATGAATATG
* * * * * *
90819 CTATTAGGAGCACCATAATGCTAACAGGAGTATAAAAGTACTATCAGAAGAATCGTAATGCTAAC
1 CTATAAGGAGCACCGTAGTGCTAACAGGATTACAAAAGTACTATCAAAAGAATCGTAATGCTAAC
*
90884 AGGAGTACGAAAGTA
66 AAGAGTACGAAAGTA
* * * *
90899 CTATAAGGAGCACTGTAGTGCTAAAAGGATTACGAAAGTACTATCAAAAGCATCGT-ATGCTAAC
1 CTATAAGGAGCACCGTAGTGCTAACAGGATTACAAAAGTACTATCAAAAGAATCGTAATGCTAAC
*
90963 AAGAGTATGAAAGTA
66 AAGAGTACGAAAGTA
* *
90978 TTATCAGGAGCACCGTAGTGCTAACAGGAT
1 CTATAAGGAGCACCGTAGTGCTAACAGGAT
91008 AAATGCACAT
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
79 47 0.51
80 46 0.49
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (80 bp):
CTATAAGGAGCACCGTAGTGCTAACAGGATTACAAAAGTACTATCAAAAGAATCGTAATGCTAAC
AAGAGTACGAAAGTA
Found at i:95950 original size:16 final size:18
Alignment explanation
Indices: 95919--95951 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
95909 GAGAATTGTA
95919 TTTATGTTTTGAGGGTTC
1 TTTATGTTTTGAGGGTTC
95937 TTTAT-TTTTG-GGGTT
1 TTTATGTTTTGAGGGTT
95952 TAGTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.09, C:0.03, G:0.27, T:0.61
Consensus pattern (18 bp):
TTTATGTTTTGAGGGTTC
Found at i:96094 original size:32 final size:32
Alignment explanation
Indices: 96053--96117 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
96043 TTTTTCCATG
96053 TTAAATTTGTATGTTCAATTTCTCAATTTCTT
1 TTAAATTTGTATGTTCAATTTCTCAATTTCTT
96085 TTAAATTTGTATGTTCAATTTCTCAATTTCTT
1 TTAAATTTGTATGTTCAATTTCTCAATTTCTT
96117 T
1 T
96118 CGCTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (32 bp):
TTAAATTTGTATGTTCAATTTCTCAATTTCTT
Found at i:96732 original size:34 final size:34
Alignment explanation
Indices: 96694--96769 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
96684 AGCAAACAAC
* *
96694 ATTTGGGTAAGGTAAAAGGTAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
*
96728 ATTTGAGTAAGATAAAAGATAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
96762 ATTTGGGT
1 ATTTGGGT
96770 TTAATTTACG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (34 bp):
ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
Found at i:107137 original size:16 final size:16
Alignment explanation
Indices: 107118--107161 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
107108 AGAACAACTC
*
107118 TTGTTTAGAATAGTTA
1 TTGTTTAGAATAATTA
*
107134 TTGTTTAGAACAATTA
1 TTGTTTAGAATAATTA
107150 TTGTTTGAGAAT
1 TTGTTT-AGAAT
107162 CTACATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
TTGTTTAGAATAATTA
Found at i:122760 original size:18 final size:18
Alignment explanation
Indices: 122720--122760 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
122710 TATTATATAA
*
122720 TATTTAAATATATAATTT
1 TATTTAAATACATAATTT
* *
122738 AATTTAAATACATATTTT
1 TATTTAAATACATAATTT
122756 TATTT
1 TATTT
122761 TAACTAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAAATACATAATTT
Found at i:122760 original size:23 final size:22
Alignment explanation
Indices: 122734--122810 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 22
122724 TAAATATATA
122734 ATTTAATTTAAATACATATTTTT
1 ATTTAATTTAAATAC-TATTTTT
*
122757 ATTTTAA-CTAATATATTCTATTTTT
1 A-TTTAATTTAA-ATA--CTATTTTT
122782 ATTTAATTTTAAA-ACGTATTTTT
1 ATTTAA-TTTAAATAC-TATTTTT
122805 ATTTAA
1 ATTTAA
122811 ACTCTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
22 1 0.02
23 17 0.38
24 14 0.31
25 9 0.20
26 4 0.09
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (22 bp):
ATTTAATTTAAATACTATTTTT
Found at i:122770 original size:18 final size:20
Alignment explanation
Indices: 122729--122780 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
122719 ATATTTAAAT
* *
122729 ATATAATTTAATTTAAATAC
1 ATATATTTTATTTTAAATAC
*
122749 ATAT-TTTTATTTTAACTA-
1 ATATATTTTATTTTAAATAC
*
122767 ATATATTCTATTTT
1 ATATATTTTATTTT
122781 TATTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATATTTTATTTTAAATAC
Found at i:123039 original size:18 final size:19
Alignment explanation
Indices: 122998--123045 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
122988 TTATTTTTAA
*
122998 AAATTAAAATAGAATATAT
1 AAATTAAAATAGAAAATAT
*
123017 TAATTAAAAT-GAAAATAT
1 AAATTAAAATAGAAAATAT
*
123035 AAATTTAAATA
1 AAATTAAAATA
123046 TTATATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
AAATTAAAATAGAAAATAT
Done.