Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001006.1 Hibiscus syriacus cultivar Beakdansim tig00002008_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: 126334
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:715 original size:30 final size:30
Alignment explanation
Indices: 679--740 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
669 GAATACCGAT
679 TTGGGTAGTTTTACTTATCTTATTTTTTAA
1 TTGGGTAGTTTTACTTATCTTATTTTTTAA
709 TTGGGTAGTTTTACTTATCTTATTTTTTAA
1 TTGGGTAGTTTTACTTATCTTATTTTTTAA
739 TT
1 TT
741 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGGGTAGTTTTACTTATCTTATTTTTTAA
Found at i:736 original size:16 final size:16
Alignment explanation
Indices: 717--752 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
707 AATTGGGTAG
*
717 TTTTACTTATCTTATT
1 TTTTAATTATCTTATT
*
733 TTTTAATTATTTTATT
1 TTTTAATTATCTTATT
749 TTTT
1 TTTT
753 TCTGTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTAATTATCTTATT
Found at i:5744 original size:17 final size:18
Alignment explanation
Indices: 5712--5749 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
5702 ATATTCATAA
5712 TAATTTAAAAAATTTAAT
1 TAATTTAAAAAATTTAAT
*
5730 TAATTT-AAAATTTTAAT
1 TAATTTAAAAAATTTAAT
5747 TAA
1 TAA
5750 ACAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTAAAAAATTTAAT
Found at i:5762 original size:2 final size:2
Alignment explanation
Indices: 5755--5783 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5745 ATTAAACAAT
5755 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 T
5784 GTAATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19667 original size:2 final size:2
Alignment explanation
Indices: 19614--19649 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19604 AATAAGATAC
19614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19650 CCTGCCAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23907 original size:17 final size:16
Alignment explanation
Indices: 23885--23921 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
23875 CTATTAGAAA
23885 AATTCATATAAATAAAT
1 AATTCATATAAAT-AAT
*
23902 AATTCATGTAAATAAT
1 AATTCATATAAATAAT
23918 AATT
1 AATT
23922 ACACATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTCATATAAATAAT
Found at i:28824 original size:21 final size:22
Alignment explanation
Indices: 28772--28824 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
28762 GGATTTTTCT
*
28772 AAACCGGTTTTTTTACCGGATAAA
1 AAACCGG--TTTTTACCCGATAAA
*
28796 AAATCGGTTTTTACCCGA-AAA
1 AAACCGGTTTTTACCCGATAAA
*
28817 AACCCGGT
1 AAACCGGT
28825 CTGGGTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 9 0.36
22 10 0.40
24 6 0.24
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (22 bp):
AAACCGGTTTTTACCCGATAAA
Found at i:31125 original size:21 final size:21
Alignment explanation
Indices: 31101--31142 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31091 AGTTTATTTT
31101 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
* *
31122 TAAACTTTGTTTCACTTATCG
1 TAAACTTTATTTCAATTATCG
31143 AACTTGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:31179 original size:33 final size:33
Alignment explanation
Indices: 31137--31240 Score: 158
Period size: 33 Copynumber: 3.2 Consensus size: 33
31127 TTTGTTTCAC
31137 TTATCGAACTTGTAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGTAAGTTTTTAAGTATTTGAAT
31170 TTATCGAACTTGGT-AGTTTTTAAGTATTTGAAT
1 TTATCGAACTT-GTAAGTTTTTAAGTATTTGAAT
* * *
31203 TTATCGAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGTAAGTTTTTAAGTATTTGAAT
31235 TTATCG
1 TTATCG
31241 TAAACTTTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
32 7 0.11
33 57 0.86
34 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGTAAGTTTTTAAGTATTTGAAT
Found at i:33863 original size:2 final size:2
Alignment explanation
Indices: 33856--33882 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33846 ACTAAATGTT
33856 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 T
33883 TTCCCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34310 original size:2 final size:2
Alignment explanation
Indices: 34303--34330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34293 TGGAAAAGAA
34303 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
34331 TGGACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41022 original size:14 final size:14
Alignment explanation
Indices: 41003--41036 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40993 AAAATCCCAC
41003 TTTCTCCTCTCTCT
1 TTTCTCCTCTCTCT
* *
41017 TTTCTCCTTTTTCT
1 TTTCTCCTCTCTCT
41031 TTTCTC
1 TTTCTC
41037 TATACCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTCTCCTCTCTCT
Found at i:41839 original size:13 final size:13
Alignment explanation
Indices: 41807--41832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41797 CTTAACTGTG
41807 AATTTTAATTTTT
1 AATTTTAATTTTT
41820 AATTTTAATTTTT
1 AATTTTAATTTTT
41833 TTTTTTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:46578 original size:22 final size:24
Alignment explanation
Indices: 46553--46599 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
46543 GAGTGTGACC
46553 TTTTCAATATAT-TTT-TTTATAG
1 TTTTCAATATATCTTTATTTATAG
*
46575 TTTTCAATTTATCTTTATTTATAG
1 TTTTCAATATATCTTTATTTATAG
46599 T
1 T
46600 ATTAAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 3 0.14
24 8 0.36
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTTCAATATATCTTTATTTATAG
Found at i:49688 original size:59 final size:59
Alignment explanation
Indices: 49625--49740 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
49615 AATAAATGAT
* * *
49625 TTTTTTATTATAAAATATTATTTTGTTAAGTATTTT-GATTATTATAAGTTATAAAATAA
1 TTTTTGATTATAAAATATTATTTTGTTAAGT-TTTTCAATTATTAGAAGTTATAAAATAA
*** *
49684 TTTTTGATTATATGGTATTATTTTGTTGAGTTTTTCAATTATTAGAAGTTATAAAAT
1 TTTTTGATTATAAAATATTATTTTGTTAAGTTTTTCAATTATTAGAAGTTATAAAAT
49741 GATCATCAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
58 4 0.08
59 45 0.92
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (59 bp):
TTTTTGATTATAAAATATTATTTTGTTAAGTTTTTCAATTATTAGAAGTTATAAAATAA
Found at i:50389 original size:19 final size:19
Alignment explanation
Indices: 50365--50417 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
50355 AATGACCAAT
*
50365 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAAAA
50384 AAAATCGCAACGCGAAAAA
1 AAAATCGCAACGCGAAAAA
50403 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
50418 TCCCCAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAAAA
Found at i:50469 original size:21 final size:20
Alignment explanation
Indices: 50442--50540 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
50432 AATCAGTTTC
50442 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
50463 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
50484 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
50504 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
50525 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
50541 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:50556 original size:40 final size:40
Alignment explanation
Indices: 50507--50661 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
50497 CGATTTTCCA
* ** *
50507 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
50547 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
50587 TAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
50627 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
50662 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:50569 original size:20 final size:20
Alignment explanation
Indices: 50507--50660 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
50497 CGATTTTCCA
* ** *
50507 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
50527 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
50547 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50567 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
50587 TAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
50607 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
50627 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
50648 AAATCGCAACGCG
1 AAATCGCAACGCG
50661 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:51082 original size:33 final size:33
Alignment explanation
Indices: 51043--51127 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
51033 TTCACTTAGA
* * *
51043 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTATCTCGTTGCGAT
51076 TTTCATTTCGCGTTGCGATTATCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTATCTCGTTGCGAT
*
51109 TGTCATTTCGCGTTGCGAT
1 TTTCATTTCGCGTTGCGAT
51128 CTTCATTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTATCTCGTTGCGAT
Found at i:51091 original size:19 final size:19
Alignment explanation
Indices: 51067--51136 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
51057 ACGATTCTGT
51067 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51086 CGTTGCGA--TT-A--TCT
1 CGTTGCGATTTTCATTTCG
*
51100 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51119 CGTTGCGATCTTCATTTC
1 CGTTGCGATTTTCATTTC
51137 AACCAAAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 10 0.24
16 2 0.05
17 3 0.07
19 26 0.63
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:52993 original size:93 final size:93
Alignment explanation
Indices: 52834--53209 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
52824 TAGATTGCTT
*
52834 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52899 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52927 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52992 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53020 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
53085 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53113 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
53178 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
53205 AGTAA
1 AGTAA
53210 TGCAATCCAT
Statistics
Matches: 281, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 275 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:53297 original size:19 final size:19
Alignment explanation
Indices: 53257--53385 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
53247 TAGTTTACTT
* *
53257 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
53277 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
53296 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
53315 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
53329 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
53348 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
53362 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
53381 TCGCA
1 TCGCA
53386 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:53336 original size:33 final size:32
Alignment explanation
Indices: 53293--53385 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
53283 CGCGAAACCA
**
53293 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
53325 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
53358 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
53386 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:53383 original size:52 final size:52
Alignment explanation
Indices: 53257--53385 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
53247 TAGTTTACTT
**
53257 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
53309 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
53362 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
53386 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:53403 original size:19 final size:18
Alignment explanation
Indices: 53381--53480 Score: 99
Period size: 19 Copynumber: 5.8 Consensus size: 18
53371 GAAACCAAAA
53381 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
53400 TCGCGTTGCGA--TTC-TT
1 TCGC-TTGCGATTTTCATT
53416 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
53433 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
53449 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
53466 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
53481 AAGTTTCGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
14 12 0.18
16 15 0.22
17 15 0.22
19 26 0.38
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:53422 original size:14 final size:14
Alignment explanation
Indices: 53403--53459 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
53393 TTTCATTTCG
53403 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
53417 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
53434 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
53450 CGTTGCGATT
1 CGTTGCGATT
53460 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:53428 original size:33 final size:33
Alignment explanation
Indices: 53386--53478 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
53376 CAAAATCGCA
*
53386 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
53419 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
53452 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
53479 TTAAGTTTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:53493 original size:20 final size:19
Alignment explanation
Indices: 53381--53496 Score: 72
Period size: 19 Copynumber: 6.6 Consensus size: 19
53371 GAAACCAAAA
* *
53381 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
*
53400 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAATT
*
53416 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
* * *
53433 TCGCATTGCGA--TT-CTG
1 TCGCGTTGCGATTTTAATT
*
53449 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
53466 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTAA-TT
*
53486 TCGTGTTGCGA
1 TCGCGTTGCGA
53497 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 15 0.20
16 9 0.12
17 9 0.12
19 30 0.40
20 12 0.16
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:55437 original size:14 final size:14
Alignment explanation
Indices: 55418--55453 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
55408 ATTGTTTAAT
55418 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
55432 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
55446 TGATTTGT
1 TGATTTGT
55454 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:55584 original size:19 final size:19
Alignment explanation
Indices: 55560--55657 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
55550 AAAATTGACT
55560 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
55579 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
55598 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
55612 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
55631 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
55651 ATCGCAA
1 ATCGCAA
55658 CGGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:55689 original size:53 final size:53
Alignment explanation
Indices: 55560--55676 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
55550 AAAATTGACT
55560 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
55612 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
55665 ATCGCAATGCGA
1 ATCGCAATGCGA
55677 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:55694 original size:19 final size:19
Alignment explanation
Indices: 55666--55887 Score: 232
Period size: 19 Copynumber: 12.7 Consensus size: 19
55656 AACGGGAGAA
* *
55666 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
55685 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
55699 TCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
55718 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
55737 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
55756 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
55772 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
55789 TCGCATTGCGATTCTCATT
1 TCGCATTGCGATTTTCATT
*
55808 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
55824 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
55841 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
55859 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
55875 TCGCATTGCGATT
1 TCGCATTGCGATT
55888 CTCTCGTTGC
Statistics
Matches: 170, Mismatches: 12, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 33 0.19
16 19 0.11
17 14 0.08
18 3 0.02
19 89 0.52
20 12 0.07
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:55709 original size:33 final size:33
Alignment explanation
Indices: 55672--55804 Score: 194
Period size: 33 Copynumber: 3.9 Consensus size: 33
55662 AGAATCGCAA
*
55672 TGCGATTTTAATTTCGCATTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCAT
*
55705 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC---TCTCAT
*
55743 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCAT
55776 TGCGATTTTCATTTCGCATTGCGATTCTC
1 TGCGATTTTCATTTCGCATTGCGATTCTC
55805 ATTTCGCATT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
33 56 0.62
35 3 0.03
36 3 0.03
38 29 0.32
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCAT
Found at i:55729 original size:52 final size:52
Alignment explanation
Indices: 55666--55859 Score: 241
Period size: 52 Copynumber: 3.7 Consensus size: 52
55656 AACGGGAGAA
* * *
55666 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCG-ATTTTC-ATT-
1 TCGCATTGCGATTTTCATTTCGCATTGCGATT-T-TCATTGCGCA-TTGCGATTC
*
55718 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
* * * *
55770 TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
* *
55822 TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCAT
55860 GTTGGGATTT
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
50 10 0.08
51 5 0.04
52 99 0.76
53 16 0.12
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
Found at i:55747 original size:71 final size:71
Alignment explanation
Indices: 55666--55820 Score: 274
Period size: 71 Copynumber: 2.2 Consensus size: 71
55656 AACGGGAGAA
*
55666 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATT
*
55731 TTCATT
66 CTCATT
* *
55737 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATT
55802 CTCATT
66 CTCATT
55808 TCGCATTGCGATT
1 TCGCATTGCGATT
55821 CTCTCGTTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 80 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATT
CTCATT
Found at i:55909 original size:33 final size:33
Alignment explanation
Indices: 55794--55901 Score: 164
Period size: 33 Copynumber: 3.2 Consensus size: 33
55784 TCATTTCGCA
*
55794 TTGCGATTCTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
55827 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
55861 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
55894 TTGCGATT
1 TTGCGATT
55902 GTAATTTCCG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.01
33 36 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:56481 original size:20 final size:20
Alignment explanation
Indices: 56453--56703 Score: 261
Period size: 20 Copynumber: 12.5 Consensus size: 20
56443 AAATTTCAGT
* *
56453 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
56473 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
56493 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
56513 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
56533 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
56553 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
56573 GTTGCGATTTTATGTATTATC
1 GTTGCGA-TTTACGGATTCTC
* *
56594 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
56614 GTTGCGATTAACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
56634 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
56654 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
56674 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
56694 GTTGCGATTT
1 GTTGCGATTT
56704 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
20 182 0.92
21 16 0.08
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:56617 original size:121 final size:121
Alignment explanation
Indices: 56471--56704 Score: 303
Period size: 121 Copynumber: 1.9 Consensus size: 121
56461 TTACAGATTC
* * * * *
56471 TCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGT
1 TCGTTGCGATTTACGGATTAGCGTTGCGATTAACAGATACACGTTGCGATTTACGGA-TACGCGT
* *
56535 TGCGATTTACG-GATTATCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
65 TGCGATTTACGTG-TTAGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGTATTA
*
56592 TCGTTGCGATTTACGGA-TACGCGTTGCGATTAACGGATACACGTTGCGATTTACGGATACGCGT
1 TCGTTGCGATTTACGGATTA-GCGTTGCGATTAACAGATACACGTTGCGATTTACGGATACGCGT
* * * * *
56656 TGCGATTTATGTGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATTTT
65 TGCGATTTACGTGTTAGCGTTGCGATTTACAGATACGCGTTGCGATTTT
56705 GGAAAATCGC
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
120 4 0.04
121 92 0.95
122 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (121 bp):
TCGTTGCGATTTACGGATTAGCGTTGCGATTAACAGATACACGTTGCGATTTACGGATACGCGTT
GCGATTTACGTGTTAGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGTATTA
Found at i:56720 original size:21 final size:21
Alignment explanation
Indices: 56690--56807 Score: 82
Period size: 21 Copynumber: 5.7 Consensus size: 21
56680 ATTTTCATAT
*
56690 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
56711 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
56732 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
56753 TCGCGTTGCGATTTTGGAAAC
1 TCGCATTGCGATTTTGGAAAA
* *
56774 T-G-ATTTGCGATTCTGG-AGA
1 TCGCA-TTGCGATTTTGGAAAA
*
56793 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
56808 TATTTCGCGT
Statistics
Matches: 72, Mismatches: 20, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.03
20 23 0.32
21 45 0.62
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:56763 original size:42 final size:43
Alignment explanation
Indices: 56670--56768 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
56660 ATTTATGTGT
* *
56670 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
56711 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
56753 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
56769 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:57787 original size:16 final size:16
Alignment explanation
Indices: 57739--57787 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
57729 TTTTTTAGTA
57739 ATTTATTTAATTATTTT
1 ATTTATTTAATT-TTTT
* * *
57756 ACTTGTTTAATATTTT
1 ATTTATTTAATTTTTT
*
57772 ATTTAATTAATTTTTT
1 ATTTATTTAATTTTTT
57788 TTGCAGATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
ATTTATTTAATTTTTT
Found at i:64250 original size:19 final size:20
Alignment explanation
Indices: 64226--64276 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
64216 AATGACCAAT
64226 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
64245 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
64265 AAAATCGCAACG
1 AAAATCGCAACG
64277 GTCAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:64270 original size:20 final size:20
Alignment explanation
Indices: 64226--64483 Score: 153
Period size: 20 Copynumber: 12.6 Consensus size: 20
64216 AATGACCAAT
* *
64226 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
64245 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
**
64265 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
64285 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
64306 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
64329 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
64349 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
64369 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
64389 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
64412 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
64432 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
64452 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
64472 AAAATCGCAACG
1 AAAATCGCAACG
64484 TTAAAAATAT
Statistics
Matches: 186, Mismatches: 41, Indels: 23
0.74 0.16 0.09
Matches are distributed among these distances:
18 1 0.01
19 18 0.10
20 124 0.67
21 14 0.08
23 29 0.16
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:64384 original size:40 final size:40
Alignment explanation
Indices: 64329--64481 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
64319 GATTTAGAAG
*
64329 AAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTAT
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
* * * *
64369 ATAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTT---AT
*
64412 AAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTAT
1 AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
* *
64452 AGAATCGCAATGCGATTGAGAAAATCGCAA
1 AAAATCGCAATGCGATTGAGAGAATCGCAA
64482 CGTTAAAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 62 0.64
43 35 0.36
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
AAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
Found at i:64418 original size:63 final size:60
Alignment explanation
Indices: 64331--64481 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 60
64321 TTTAGAAGAA
* * * * * * *
64331 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATATAATCGCAATGCGATTGAGAG
1 AATCGCAACGCGATTGAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
* * *
64391 AGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
1 AATCGCAACGCGA-TT-G-AGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
*
64454 AATCGCAATGCGATTGAGAAAATCGCAA
1 AATCGCAACGCGATTGAGAAAATCGCAA
64482 CGTTAAAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 23 0.30
61 3 0.04
62 3 0.04
63 47 0.62
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (60 bp):
AATCGCAACGCGATTGAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
Found at i:64422 original size:83 final size:83
Alignment explanation
Indices: 64310--64483 Score: 303
Period size: 83 Copynumber: 2.1 Consensus size: 83
64300 GCTTCCAAGT
* * *
64310 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATATAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
* *
64375 GCAATGCGATTGAGAGAG
66 GCAATGCGATTGAGAAAA
64393 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
64458 GCAATGCGATTGAGAAAA
66 GCAATGCGATTGAGAAAA
64476 TCGCAACG
1 TCGCAACG
64484 TTAAAAATAT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
GCAATGCGATTGAGAAAA
Found at i:64581 original size:6 final size:6
Alignment explanation
Indices: 64570--64613 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
64560 GACACGTATT
64570 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
64614 CGAGACGGCG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:65303 original size:6 final size:6
Alignment explanation
Indices: 65294--65321 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65284 CGTCTCGTCA
65294 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
65322 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (6 bp):
TGGTCG
Found at i:65433 original size:20 final size:20
Alignment explanation
Indices: 65408--65478 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
65398 ATCTTTTTAA
65408 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
65428 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* *
65448 CATTGTGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
65471 CGTTGCGA
1 CGTTGCGA
65479 ACTTGGAAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
20 23 0.61
22 2 0.05
23 13 0.34
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:75721 original size:24 final size:23
Alignment explanation
Indices: 75669--75722 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
75659 CAAAATAAAA
* *
75669 TAAAAAATTGTTTTTTTCTTCCC
1 TAAAAAATTGTTATTTTCTTACC
75692 TAAAAAAATTCAGTTATTTT-TTACC
1 T-AAAAAATT--GTTATTTTCTTACC
75717 TAAAAA
1 TAAAAA
75723 TCAAAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 13 0.50
25 5 0.19
26 7 0.27
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (23 bp):
TAAAAAATTGTTATTTTCTTACC
Found at i:84817 original size:26 final size:29
Alignment explanation
Indices: 84763--84817 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
84753 ATTTTTGGAC
*
84763 AATTATAAGGAACCAAATTATAATAAATTA
1 AATTATAAGGAACCAAATTAT-ACAAATTA
84793 AATTATAAGGAA-CAAA-TAT-CAAATT
1 AATTATAAGGAACCAAATTATACAAATT
84818 TTATCATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
28 3 0.12
29 4 0.17
30 12 0.50
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (29 bp):
AATTATAAGGAACCAAATTATACAAATTA
Found at i:86508 original size:33 final size:33
Alignment explanation
Indices: 86471--86541 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
86461 ACAATGCATA
*
86471 ATTTTCCTTTAAAACTGATTTGGTTTTTAATTG
1 ATTTTCCTTCAAAACTGATTTGGTTTTTAATTG
86504 ATTTTCCTTCAAAACTGATTTGGTTTTTAATTG
1 ATTTTCCTTCAAAACTGATTTGGTTTTTAATTG
86537 ATTTT
1 ATTTT
86542 ACACTACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (33 bp):
ATTTTCCTTCAAAACTGATTTGGTTTTTAATTG
Found at i:92043 original size:42 final size:42
Alignment explanation
Indices: 91981--92100 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
91971 TTTCCCCGAA
* *
91981 TTCCCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
92023 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
92065 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
92101 TGTAATTCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:92336 original size:22 final size:23
Alignment explanation
Indices: 92289--92349 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
92279 TAATTATTAA
* *
92289 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
92310 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
92333 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
92350 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:92345 original size:31 final size:31
Alignment explanation
Indices: 92300--92448 Score: 96
Period size: 31 Copynumber: 5.1 Consensus size: 31
92290 ATATTTAAAA
92300 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTT-TTAATATTTATAATAATATAATAT
*
92332 TATATTTTTAATA-TTAT-ATAAAAT-A-AT
1 TATATTTTTAATATTTATAATAATATAATAT
*
92359 CA-A---TT-ATA-TTATAATAATATAAGATAT
1 TATATTTTTAATATTTATAATAATAT-A-ATAT
92386 TATA-TTTTAAT-TTTAATAAT-ATATAATAAT
1 TATATTTTTAATATTT-ATAATAATATAAT-AT
*
92416 T-T-TTTTTATATATTTAATAATGA-ATAATAT
1 TATATTTTTA-ATATTT-ATAATAATATAATAT
92446 TAT
1 TAT
92449 TTATATATTT
Statistics
Matches: 96, Mismatches: 4, Indels: 35
0.71 0.03 0.26
Matches are distributed among these distances:
22 7 0.07
23 8 0.08
26 2 0.02
27 6 0.06
28 2 0.02
29 14 0.15
30 15 0.16
31 29 0.30
32 13 0.14
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TATATTTTTAATATTTATAATAATATAATAT
Found at i:92434 original size:28 final size:28
Alignment explanation
Indices: 92402--92465 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
92392 TTAATTTTAA
* *
92402 TAATATAT-AATAATTTTTTTTATATATT
1 TAATA-ATGAATAATATTATTTATATATT
92430 TAATAATGAATAATATTATTTATATATT
1 TAATAATGAATAATATTATTTATATATT
92458 TCAATAAT
1 T-AATAAT
92466 ATTTTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 24 0.75
29 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATAATGAATAATATTATTTATATATT
Found at i:92690 original size:20 final size:20
Alignment explanation
Indices: 92633--92682 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
92623 TTTCCAGATG
92633 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
92653 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
92673 TTTTCCAGAA
1 TTTTCCAGAA
92683 TTCAAATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:92694 original size:15 final size:15
Alignment explanation
Indices: 92665--92732 Score: 102
Period size: 15 Copynumber: 4.5 Consensus size: 15
92655 TTCCAGAAAT
**
92665 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
92680 G-AATTCAAATTTCCA
1 GTAATTCAAA-TTCCA
92695 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
92710 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
92725 GTAATTCA
1 GTAATTCA
92733 TTTTCTGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.12
15 35 0.71
16 8 0.16
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:94606 original size:48 final size:48
Alignment explanation
Indices: 94551--94648 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
94541 AACCAAGAGA
* *
94551 AAAATCCCAACAACCACCAAAACCAAAAGGGAAATAAGTGAAAAAGGG
1 AAAATCCCAACAACAACCAAAACCAAAAGGGAAATAAGAGAAAAAGGG
94599 AAAATCCCAACAACAACCAAAACCAAAAGGGAAATAAGAGAAAAAGGG
1 AAAATCCCAACAACAACCAAAACCAAAAGGGAAATAAGAGAAAAAGGG
94647 AA
1 AA
94649 GTATCAGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.59, C:0.19, G:0.16, T:0.05
Consensus pattern (48 bp):
AAAATCCCAACAACAACCAAAACCAAAAGGGAAATAAGAGAAAAAGGG
Found at i:96118 original size:23 final size:23
Alignment explanation
Indices: 96080--96127 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
96070 ATTTTGGTAC
* *
96080 CAGGGATTTATTGCGGTTGTGGT
1 CAGGGATATATCGCGGTTGTGGT
96103 CAGGGATATATCGCGGTTGTGGT
1 CAGGGATATATCGCGGTTGTGGT
96126 CA
1 CA
96128 TGTTTCCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.12, G:0.38, T:0.33
Consensus pattern (23 bp):
CAGGGATATATCGCGGTTGTGGT
Found at i:96463 original size:18 final size:18
Alignment explanation
Indices: 96440--96478 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96430 TCCTCGAATT
96440 AATATAACATG-ATTAAAA
1 AATATAACATGTA-TAAAA
*
96458 AATATATCATGTATAAAA
1 AATATAACATGTATAAAA
96476 AAT
1 AAT
96479 TAAATGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
AATATAACATGTATAAAA
Found at i:107484 original size:27 final size:27
Alignment explanation
Indices: 107446--107499 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
107436 AGAAGCAGTT
107446 GGTATGAAATTAAAGGCTACAATGAGC
1 GGTATGAAATTAAAGGCTACAATGAGC
107473 GGTATGAAATTAAAGGCTACAATGAGC
1 GGTATGAAATTAAAGGCTACAATGAGC
107500 AGCATGAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTATGAAATTAAAGGCTACAATGAGC
Found at i:107506 original size:27 final size:27
Alignment explanation
Indices: 107449--107507 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
107439 AGCAGTTGGT
* *
107449 ATGAAATTAAAGGCTACAATGAGCGGT
1 ATGAAATTAAAGGCTACAATGAGCAGC
107476 ATGAAATTAAAGGCTACAATGAGCAGC
1 ATGAAATTAAAGGCTACAATGAGCAGC
107503 ATGAA
1 ATGAA
107508 CAGCACCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (27 bp):
ATGAAATTAAAGGCTACAATGAGCAGC
Found at i:108748 original size:34 final size:34
Alignment explanation
Indices: 108710--108780 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
108700 ATCAATGCAC
108710 TATAGTTGGGGGACCATTTATGTACTTTATCCTA
1 TATAGTTGGGGGACCATTTATGTACTTTATCCTA
108744 TATAGTTGGGGGACCATTTATGTACTTTATCCTA
1 TATAGTTGGGGGACCATTTATGTACTTTATCCTA
108778 TAT
1 TAT
108781 TATATATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (34 bp):
TATAGTTGGGGGACCATTTATGTACTTTATCCTA
Found at i:116682 original size:25 final size:25
Alignment explanation
Indices: 116636--116698 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
116626 TTTTTTAAAT
* *
116636 TAAATTATTATAATTTTAATATTTA
1 TAAATTATTATAATTATAATATATA
*
116661 TAAATTATTTTAA-TATATATATATA
1 TAAATTATTATAATTATA-ATATATA
116686 TAAA-TATATATAA
1 TAAATTAT-TATAA
116699 ATGTTTCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAAATTATTATAATTATAATATATA
Found at i:116753 original size:17 final size:18
Alignment explanation
Indices: 116725--116763 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
116715 AGATCCAGGT
116725 TTGAACTCGAGTTCGAGC
1 TTGAACTCGAGTTCGAGC
*
116743 TTGAA-TCGAGTTCGAGT
1 TTGAACTCGAGTTCGAGC
116760 TTGA
1 TTGA
116764 GCTTCAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (18 bp):
TTGAACTCGAGTTCGAGC
Found at i:116765 original size:23 final size:23
Alignment explanation
Indices: 116730--116786 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
116720 CAGGTTTGAA
* *
116730 CTCGAGTTCGAGCTTGAATCGAG
1 CTCGAGTTTGAGCTTCAATCGAG
* *
116753 TTCGAGTTTGAGCTTCAATCGGG
1 CTCGAGTTTGAGCTTCAATCGAG
116776 CT-GAGTTTGAG
1 CTCGAGTTTGAG
116787 AATGTTCAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.32
Consensus pattern (23 bp):
CTCGAGTTTGAGCTTCAATCGAG
Found at i:118028 original size:12 final size:12
Alignment explanation
Indices: 117999--118032 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
117989 TTAGTTTATA
117999 TTTTTAAATTTT
1 TTTTTAAATTTT
*
118011 TATTTTAAGTTTT
1 T-TTTTAAATTTT
118024 TTTTTAAAT
1 TTTTTAAAT
118033 ATGATCAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTAAATTTT
Found at i:120652 original size:30 final size:31
Alignment explanation
Indices: 120618--120692 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
120608 TTGAAGAAGC
*
120618 AAAGAAAGAAGAAACT-ATTGCTGAAGCTGA
1 AAAGAAAGAAGAAACTCATTACTGAAGCTGA
* *
120648 AAAGAAAGATG-AAGTCATTACTGAAGCTGA
1 AAAGAAAGAAGAAACTCATTACTGAAGCTGA
*
120678 AAAGGAAGGAAGAAA
1 AAA-GAAAGAAGAAA
120693 AGTAGAGTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 26 0.70
31 6 0.16
32 2 0.05
ACGTcount: A:0.52, C:0.08, G:0.25, T:0.15
Consensus pattern (31 bp):
AAAGAAAGAAGAAACTCATTACTGAAGCTGA
Found at i:120846 original size:70 final size:70
Alignment explanation
Indices: 120770--120909 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
120760 ACGGGGGCTG
* * **
120770 AAAAGAAAGAATCATAGGTAAACGAAGTTAAACTGGAGGCCCCCGGTGTTTCAAAAGGCTAATGA
1 AAAAGAAAGAATCATAGGTAAACGAAGTTAAACTAGAGGCCCCCGGTGTTTCAAAAAGAAAATGA
120835 TAGAT
66 TAGAT
* * *
120840 AAAAGAAAGAATCCTAGGTAAACGAAGTTAAACTAGAGGTCCCCGTTGTTTCAAAAAGAAAATGA
1 AAAAGAAAGAATCATAGGTAAACGAAGTTAAACTAGAGGCCCCCGGTGTTTCAAAAAGAAAATGA
120905 TAGAT
66 TAGAT
120910 CAAATACATG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (70 bp):
AAAAGAAAGAATCATAGGTAAACGAAGTTAAACTAGAGGCCCCCGGTGTTTCAAAAAGAAAATGA
TAGAT
Done.