Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007595.1 Hibiscus syriacus cultivar Beakdansim tig00021910_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: 82084
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3516 original size:23 final size:22
Alignment explanation
Indices: 3490--3553 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
3480 TAGCTCATAT
3490 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
3513 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
3536 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
3554 TATAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:3727 original size:101 final size:100
Alignment explanation
Indices: 3569--3782 Score: 358
Period size: 101 Copynumber: 2.1 Consensus size: 100
3559 TAATATCCAT
* *
3569 AAGGACCACATATCATCCTTAAGAATTATATACATATACCAAGGATCATGTATGTGTCTCACCAG
1 AAGGACCACATATCATCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAG
*
3634 ACCT-CACATGTTCCAAAGAATATATATATGTCCCG
66 ACCTACACATGTTCC-AAGAATACATATATGTCCCG
3669 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCA-TCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
3734 GACCTCACACATGTTCCAAGAATACATATATGTCCCG
65 GACCT-ACACATGTTCCAAGAATACATATATGTCCCG
*
3771 AATGACCACATA
1 AAGGACCACATA
3783 GACCCTCTAC
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
100 15 0.14
101 52 0.49
102 30 0.28
103 10 0.09
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (100 bp):
AAGGACCACATATCATCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAG
ACCTACACATGTTCCAAGAATACATATATGTCCCG
Found at i:4344 original size:21 final size:21
Alignment explanation
Indices: 4320--4362 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4310 TTCATATTCG
* *
4320 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4341 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4362 T
1 T
4363 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6627 original size:21 final size:23
Alignment explanation
Indices: 6573--6622 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6563 ATCGATACCC
*
6573 TTGAAGGGGAACCGATTCCCCCT
1 TTGAATGGGAACCGATTCCCCCT
* * *
6596 TTGAATAGGAACTGATTCCCTCT
1 TTGAATGGGAACCGATTCCCCCT
6619 TTGA
1 TTGA
6623 GGGAATCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (23 bp):
TTGAATGGGAACCGATTCCCCCT
Found at i:7083 original size:14 final size:13
Alignment explanation
Indices: 7055--7093 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7045 CTATGTGTAT
7055 TATTATTTTCAAA
1 TATTATTTTCAAA
7068 TATTATTTTCCAAA
1 TATTATTTT-CAAA
*
7082 TAGT-TTTTCAAA
1 TATTATTTTCAAA
7094 CATTGCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 7 0.29
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (13 bp):
TATTATTTTCAAA
Found at i:8951 original size:22 final size:21
Alignment explanation
Indices: 8926--8966 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8916 CAGAATGTCC
8926 AGAGGGAACCGATTCTCCCCCA
1 AGAGGGAACCGATTC-CCCCCA
* *
8948 AGAGGGTATCGATTCCCCC
1 AGAGGGAACCGATTCCCCC
8967 TGAATGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.17
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCCA
Found at i:11723 original size:12 final size:12
Alignment explanation
Indices: 11706--11745 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11696 GCTCGATTCA
11706 AGCTCGATTTTG
1 AGCTCGATTTTG
**
11718 AGCTCGA-TTCA
1 AGCTCGATTTTG
11729 AGCTCGATTTTG
1 AGCTCGATTTTG
11741 AGCTC
1 AGCTC
11746 AATTCAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (12 bp):
AGCTCGATTTTG
Found at i:11724 original size:23 final size:23
Alignment explanation
Indices: 11670--11758 Score: 124
Period size: 23 Copynumber: 3.8 Consensus size: 23
11660 AAAAATTCAG
* ** *
11670 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTCAAGCTCGA-TTTT
11694 GAGCTCGATTCAAGCTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
11717 GAGCTCGATTCAAGCTCGATTTT
1 GAGCTCGATTCAAGCTCGATTTT
*
11740 GAGCTCAATTCAAGCTCGA
1 GAGCTCGATTCAAGCTCGA
11759 ACTCGATTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
23 42 0.70
24 18 0.30
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCGATTTT
Found at i:11769 original size:17 final size:17
Alignment explanation
Indices: 11747--11779 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11737 TTTGAGCTCA
*
11747 ATTCAAGCTCGAACTCG
1 ATTCAAGATCGAACTCG
11764 ATTCAAGATCGAACTC
1 ATTCAAGATCGAACTC
11780 AAGCTCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (17 bp):
ATTCAAGATCGAACTCG
Found at i:14028 original size:23 final size:23
Alignment explanation
Indices: 13997--14062 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
13987 CCTTATATGC
13997 CACTTCGGTGCATTTCTACGCAG
1 CACTTCGGTGCATTTCTACGCAG
* * ***
14020 CACTACGGTGCAATTCTACATGG
1 CACTTCGGTGCATTTCTACGCAG
*
14043 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
14063 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCAG
Found at i:16147 original size:25 final size:26
Alignment explanation
Indices: 16119--16188 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 26
16109 ATAGTCGAGG
*
16119 GTTCTACGTGGTCCTATAGG-TATGT
1 GTTCTACGTGGTCCTACAGGATATGT
* *
16144 GTTCTACATGGTCCTACGGGACATATGT
1 GTTCTACGTGGTCCTACAGG--ATATGT
*
16172 GTTCTATGTGGTCCTAC
1 GTTCTACGTGGTCCTAC
16189 GGGACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.46
28 20 0.54
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
GTTCTACGTGGTCCTACAGGATATGT
Found at i:16175 original size:28 final size:28
Alignment explanation
Indices: 16139--16194 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
16129 GTCCTATAGG
16139 TATGTGTTCTACATGGTCCTACGGGACA
1 TATGTGTTCTACATGGTCCTACGGGACA
**
16167 TATGTGTTCTATGTGGTCCTACGGGACA
1 TATGTGTTCTACATGGTCCTACGGGACA
16195 AATTTCTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (28 bp):
TATGTGTTCTACATGGTCCTACGGGACA
Found at i:22065 original size:8 final size:8
Alignment explanation
Indices: 22052--22092 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
22042 CTCATTTTCA
22052 GAGAATTT
1 GAGAATTT
22060 GAGAATTT
1 GAGAATTT
*
22068 -AGAGTTT
1 GAGAATTT
*
22075 GGGAATTT
1 GAGAATTT
22083 GAGAATTT
1 GAGAATTT
22091 GA
1 GA
22093 AAGCTTATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:22391 original size:128 final size:128
Alignment explanation
Indices: 22163--22663 Score: 957
Period size: 128 Copynumber: 3.9 Consensus size: 128
22153 TAATCGGAGT
22163 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
22228 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
22291 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAAAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
22356 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
22419 ACTATTCACATGAATGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
22484 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
22547 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
22612 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
22664 AATCAGGTAA
Statistics
Matches: 364, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 364 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:23103 original size:34 final size:34
Alignment explanation
Indices: 23065--23165 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
23055 AAATTTAATG
*
23065 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * * *
23099 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
23133 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
23166 AACATTTATC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:23714 original size:21 final size:21
Alignment explanation
Indices: 23684--23777 Score: 138
Period size: 21 Copynumber: 4.5 Consensus size: 21
23674 TATGGTATAA
*
23684 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
23705 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
23726 AACCCTGCGGGCTCA-GAATGT
1 AACCCTGCGGGCT-AGGAATGT
*
23747 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
23768 AACCCTGCGG
1 AACCCTGCGG
23778 AGATGGCATA
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.04
21 60 0.90
22 4 0.06
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:23807 original size:21 final size:21
Alignment explanation
Indices: 23781--23828 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
23771 CCTGCGGAGA
*
23781 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
23802 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
23823 GGGCAT
1 TGGCAT
23829 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:25400 original size:34 final size:36
Alignment explanation
Indices: 25361--25434 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 36
25351 TACATTATAA
* *
25361 AAAATAAAAATTAATATAAAT-TCAACATTACTT-T
1 AAAATAAAAATAAATATAAATATCAACATTAATTAT
* *
25395 AAAATAAAAATAAATTTAAATATTAACATTAATTAT
1 AAAATAAAAATAAATATAAATATCAACATTAATTAT
25431 AAAA
1 AAAA
25435 AATATTACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 19 0.56
35 10 0.29
36 5 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (36 bp):
AAAATAAAAATAAATATAAATATCAACATTAATTAT
Found at i:25596 original size:30 final size:32
Alignment explanation
Indices: 25532--25610 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
25522 TTAATAATTC
*
25532 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAA
*
25566 TAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAATAATAATTACATAAATATTATTTAA
25596 TATAAAATATAATAA
1 TA-AAAA-ATAATAA
25611 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.15
31 4 0.10
32 8 0.20
33 18 0.45
34 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAATAATAATTACATAAATATTATTTAA
Found at i:26620 original size:34 final size:33
Alignment explanation
Indices: 26544--26650 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
26534 GTGGTAAGAA
* *
26544 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
26578 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
26613 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
26647 ATTT
1 ATTT
26651 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:26632 original size:36 final size:34
Alignment explanation
Indices: 26577--26655 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
26567 TTTAAATAGT
*
26577 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
26609 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
26643 TATTATTTATTTA
1 TATTATTTTTTTA
26656 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:26815 original size:17 final size:17
Alignment explanation
Indices: 26793--26846 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
26783 AATGTTAATA
26793 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
26810 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
26827 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
26844 TTT
1 TTT
26847 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:28404 original size:21 final size:21
Alignment explanation
Indices: 28374--28421 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
28364 GCAGGGGTAC
* *
28374 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
28395 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
28416 ATGCCA
1 ATGCCA
28422 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:28451 original size:21 final size:21
Alignment explanation
Indices: 28425--28518 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
28415 TATGCCATCT
* *
28425 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
28446 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
28467 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
28488 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
28509 CCGCAGGGTT
1 CCGCAGGGTT
28519 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:29099 original size:33 final size:35
Alignment explanation
Indices: 29040--29136 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 35
29030 AAATGTTTTT
*
29040 AAAATACAAATTATATTATTCGAAATTTAAA-ATA
1 AAAATAAAAATTATATTATTCGAAATTTAAATATA
* *
29074 AAAATAAAAATAATATTATTC-AAATTTAAATTTA
1 AAAATAAAAATTATATTATTCGAAATTTAAATATA
* *
29108 AAAA-ATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
29137 CATTAAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
33 22 0.40
34 33 0.60
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (35 bp):
AAAATAAAAATTATATTATTCGAAATTTAAATATA
Found at i:29752 original size:128 final size:128
Alignment explanation
Indices: 29524--30352 Score: 1622
Period size: 128 Copynumber: 6.5 Consensus size: 128
29514 TTTAAGTTAT
*
29524 TCCCCGAGTGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29589 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
29652 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29717 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
29780 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29845 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
29908 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29973 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
30036 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
*
30101 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTAATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
30164 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
*
30229 GCGCGCCCCCGGGAAAGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
30292 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
30353 ATAACTATTA
Statistics
Matches: 695, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 695 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:30424 original size:8 final size:8
Alignment explanation
Indices: 30411--30451 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
30401 TCACAATCTT
30411 TCAAATTC
1 TCAAATTC
30419 TCAAATTC
1 TCAAATTC
*
30427 TCAAACTC
1 TCAAATTC
30435 T-AAATTC
1 TCAAATTC
30442 TCAAATTC
1 TCAAATTC
30450 TC
1 TC
30452 TGAAAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAAATTC
Found at i:30441 original size:15 final size:16
Alignment explanation
Indices: 30411--30451 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
30401 TCACAATCTT
*
30411 TCAAATTCTCAAATTC
1 TCAAACTCTCAAATTC
30427 TCAAACTCT-AAATTC
1 TCAAACTCTCAAATTC
*
30442 TCAAATTCTC
1 TCAAACTCTC
30452 TGAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAACTCTCAAATTC
Found at i:33466 original size:12 final size:12
Alignment explanation
Indices: 33449--33487 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
33439 TACATAAATA
33449 TATTTAATATAT
1 TATTTAATATAT
*
33461 TATTTAATATAA
1 TATTTAATATAT
33473 TATTTAATATTAT
1 TATTTAATA-TAT
33486 TA
1 TA
33488 GTTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTAATATAT
Found at i:41272 original size:32 final size:31
Alignment explanation
Indices: 41215--41275 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
41205 ACGAATTTTC
41215 AAATATTATTAAAATATTTACTAAATTTTAT
1 AAATATTATTAAAATATTTACTAAATTTTAT
41246 AAATGATTA-TAAAATGATTTTA-TAAATTTT
1 AAAT-ATTATTAAAAT-A-TTTACTAAATTTT
41276 TATTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 10 0.37
32 13 0.48
33 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (31 bp):
AAATATTATTAAAATATTTACTAAATTTTAT
Found at i:45723 original size:17 final size:17
Alignment explanation
Indices: 45701--45754 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
45691 AATGTTAATA
45701 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
45718 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
45735 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
45752 TTT
1 TTT
45755 TTCTAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:47309 original size:21 final size:21
Alignment explanation
Indices: 47279--47326 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
47269 GCAGGGGTAC
* *
47279 ATGCCCAGCCCTCCACTTTAT
1 ATGCCAAGCCCACCACTTTAT
*
47300 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTTAT
47321 ATGCCA
1 ATGCCA
47327 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTTAT
Found at i:47356 original size:21 final size:21
Alignment explanation
Indices: 47330--47421 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
47320 TATGCCATCT
* *
47330 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
47351 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
47372 CCGCCA-GGTTAC-TGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
*
47392 CCCCA-GGTTACATGCCTAGC
1 CCGCAGGGTTACATGCCTAGC
47412 CCGCAGGGTT
1 CCGCAGGGTT
47422 TTATACCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
19 8 0.12
20 21 0.33
21 33 0.52
22 2 0.03
ACGTcount: A:0.17, C:0.36, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:47399 original size:19 final size:20
Alignment explanation
Indices: 47336--47418 Score: 96
Period size: 20 Copynumber: 4.1 Consensus size: 20
47326 ATCTCCGCAG
* * *
47336 GGTTACATTCCGAGCCCGCA
1 GGTTACATGCCTAGCCCCCA
*
47356 GGGTTACATTCCTAGCCCGCCA
1 -GGTTACATGCCTAGCCC-CCA
47378 GGTTAC-TGCCTAGCCCCCA
1 GGTTACATGCCTAGCCCCCA
*
47397 GGTTACATGCCTAGCCCGCA
1 GGTTACATGCCTAGCCCCCA
47417 GG
1 GG
47419 GTTTTATACC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.16
20 23 0.41
21 22 0.39
22 2 0.04
ACGTcount: A:0.18, C:0.36, G:0.25, T:0.20
Consensus pattern (20 bp):
GGTTACATGCCTAGCCCCCA
Found at i:48001 original size:33 final size:34
Alignment explanation
Indices: 47942--48038 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 34
47932 AAATGTTTTT
* *
47942 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
47976 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* *
48009 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
48039 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:48045 original size:34 final size:32
Alignment explanation
Indices: 47940--48045 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 32
47930 ATAAATGTTT
*
47940 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAATTT-AAA
* *
47974 TAAAAATAAAAATAATATTATTCAAATTTAAA
1 TTAAAATAAAAATTATATTATTCAAATTTAAA
* *
48006 TTTAAAATATAAATTATAGTATTCAAAATTTAACA
1 -TTAAAATAAAAATTATATTATTC-AAATTTAA-A
48041 TTAAA
1 TTAAA
48046 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (32 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAA
Found at i:48818 original size:128 final size:128
Alignment explanation
Indices: 48438--49066 Score: 1104
Period size: 128 Copynumber: 4.9 Consensus size: 128
48428 TTACCTGATT
48438 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
48503 TGATGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
48566 TACTGATATATCTAGTGTCCCCGAGGGA-ATTTAGCCGACATAATAGGGCAATGAT-A-ATATTC
1 TACTGATATATCTAGTGTCCCCGAGGGACA-TGAG-TGACATAATAGGGCAATGATAACATATTC
*
48628 TCTGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
64 TCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
48693 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
48758 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
48821 TACTGATATATCTAGTGTCCCCGAGGGA-ATTTAGCCGACATAATAGGGCAATGATAACATATTC
1 TACTGATATATCTAGTGTCCCCGAGGGACA-TGAG-TGACATAATAGGGCAATGATAACATATTC
*
48885 TCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
64 TCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
48950 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
49015 TGACGAAATAATGGAAGGCGCGTCCCTGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
49067 ACTCCGATTA
Statistics
Matches: 479, Mismatches: 14, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
126 19 0.04
127 104 0.22
128 213 0.44
129 142 0.30
130 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:49015 original size:257 final size:255
Alignment explanation
Indices: 48438--49066 Score: 1195
Period size: 257 Copynumber: 2.5 Consensus size: 255
48428 TTACCTGATT
48438 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
48503 TGATGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
48568 CTGATATATCTAGTGTCCCCGAGGGAATTTAGCCGACATAATAGGGCAATGATAATATTCTCTGA
131 CTGATATATCTAGTGTCCCCGAGGGAATTTAGCCGACATAATAGGGCAATGATAATATTCTCTGA
* *
48633 TGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
48693 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
48758 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
48823 CTGATATATCTAGTGTCCCCGAGGGAATTTAGCCGACATAATAGGGCAATGATAACATATTCTCT
131 CTGATATATCTAGTGTCCCCGAGGGAATTTAGCCGACATAATAGGGCAATGAT-A-ATATTCTCT
48888 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
194 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
48950 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
49015 TGACGAAATAATGGAAGGCGCGTCCCTGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGT
49067 ACTCCGATTA
Statistics
Matches: 366, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
255 181 0.49
256 1 0.00
257 184 0.50
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (255 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGAATTTAGCCGACATAATAGGGCAATGATAATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
Found at i:49154 original size:8 final size:8
Alignment explanation
Indices: 49137--49177 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
49127 TCACAATCTT
*
49137 TCAAAATC
1 TCAAATTC
49145 TCAAATTC
1 TCAAATTC
*
49153 TCAAACTC
1 TCAAATTC
49161 T-AAATTC
1 TCAAATTC
49168 TCAAATTC
1 TCAAATTC
49176 TC
1 TC
49178 TGAAAATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:49167 original size:15 final size:16
Alignment explanation
Indices: 49137--49177 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
49127 TCACAATCTT
49137 TCAAAATCTCAAATTC
1 TCAAAATCTCAAATTC
*
49153 TCAAACTCT-AAATTC
1 TCAAAATCTCAAATTC
*
49168 TCAAATTCTC
1 TCAAAATCTC
49178 TGAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (16 bp):
TCAAAATCTCAAATTC
Found at i:70014 original size:16 final size:17
Alignment explanation
Indices: 69983--70016 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
69973 TGTATCGTCG
*
69983 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
70000 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
70016 A
1 A
70017 TGTGAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:70496 original size:36 final size:37
Alignment explanation
Indices: 70421--70501 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
70411 CCCATTCCTA
*
70421 TTTTC-AATAAACATCTACCAAACTTTGAAAAACATT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACATT
*
70457 TTTTCAAAGAAACATTTACCAAACTTTGAAAAACA-T
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACATT
70493 TTTTCAAAG
1 TTTTCAAAG
70502 TTGGTTGCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 15 0.36
37 27 0.64
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAACATT
Found at i:71716 original size:24 final size:24
Alignment explanation
Indices: 71669--71718 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
71659 ATAAAGAACC
*
71669 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
71693 AAAATAAAGCTTAAACAT-CTATTA
1 AAAATAAA-CTTAAACATACCATTA
71717 AA
1 AA
71719 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Done.