Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008535.1 Hibiscus syriacus cultivar Beakdansim tig00111421_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: 52742
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:947 original size:17 final size:19
Alignment explanation
Indices: 922--960 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
912 ATATCTGTAT
922 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
940 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
959 TA
1 TA
961 AGTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:7002 original size:2 final size:2
Alignment explanation
Indices: 6995--7025 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6985 TCTATATTCT
6995 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7026 CAATAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9845 original size:2 final size:2
Alignment explanation
Indices: 9838--9869 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9828 TAATTCATTC
9838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9870 GTTATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10085 original size:17 final size:17
Alignment explanation
Indices: 10031--10085 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
10021 ATATAATGGG
*
10031 ATTTT-TATTTTTGTAA
1 ATTTTATATTTTTATAA
* *
10047 TTTTTACA-TTTTATATA
1 ATTTTATATTTTTATA-A
*
10064 GTTTTATATTTTTATAA
1 ATTTTATATTTTTATAA
10081 ATTTT
1 ATTTT
10086 TTAATATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 10 0.33
17 13 0.43
18 7 0.23
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
ATTTTATATTTTTATAA
Found at i:11431 original size:20 final size:20
Alignment explanation
Indices: 11379--11434 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
11369 AAAGGTTCCA
*
11379 AAATCGCAACGCAAATAGGT
1 AAATCGCAACGCGAATAGGT
*
11399 AAATCGCAACGCGAATGGGT
1 AAATCGCAACGCGAATAGGT
11419 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
11435 TTTAGTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (20 bp):
AAATCGCAACGCGAATAGGT
Found at i:11513 original size:57 final size:57
Alignment explanation
Indices: 11437--11584 Score: 260
Period size: 57 Copynumber: 2.6 Consensus size: 57
11427 ACGCGAATTT
*
11437 TAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
* *
11494 TAGTACTGTTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATCGCGTTGCGA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
*
11551 TAGTACTGTTTACCTACATCGGTAATTAGCGTTG
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTG
11585 TGAACTAAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 86 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (57 bp):
TAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
Found at i:11615 original size:20 final size:20
Alignment explanation
Indices: 11590--11689 Score: 110
Period size: 20 Copynumber: 5.0 Consensus size: 20
11580 CGTTGTGAAC
*
11590 TAAACAGTACTATTACAATG
1 TAAACAGTACTATCACAATG
*
11610 TAAACAGTACTATCGCAATG
1 TAAACAGTACTATCACAATG
* *
11630 TAAATAGTAATATCACAATG
1 TAAACAGTACTATCACAATG
* * * *
11650 TAAATATTAATATCGCAATG
1 TAAACAGTACTATCACAATG
* *
11670 TAAACATTACTATCGCAATG
1 TAAACAGTACTATCACAATG
11690 AGTTTTTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (20 bp):
TAAACAGTACTATCACAATG
Found at i:11705 original size:20 final size:20
Alignment explanation
Indices: 11682--11727 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11672 AACATTACTA
* *
11682 TCGCAATGAGTTTTTCAAAT
1 TCGCAAAGAGATTTTCAAAT
11702 TCGCAAAGAGATTTTCAAAT
1 TCGCAAAGAGATTTTCAAAT
11722 TCGCAA
1 TCGCAA
11728 CGTTAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
TCGCAAAGAGATTTTCAAAT
Found at i:11792 original size:68 final size:65
Alignment explanation
Indices: 11702--11877 Score: 242
Period size: 57 Copynumber: 2.8 Consensus size: 65
11692 TTTTTCAAAT
* * *
11702 TCGCAAAGAGATTTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACGCAATGTAAACAGTA
1 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAA--CAA-GTAAACAGTA
11767 CTA
63 CTA
11770 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCG--ATA--T----AAGTAAACAGTACTA
1 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAAGTAAACAGTACTA
11827 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACA
1 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACA
11878 CAACTATCGC
Statistics
Matches: 97, Mismatches: 3, Indels: 19
0.82 0.03 0.16
Matches are distributed among these distances:
57 51 0.53
58 2 0.02
59 3 0.03
61 1 0.01
64 1 0.01
65 1 0.01
66 3 0.03
68 35 0.36
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (65 bp):
TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAAGTAAACAGTACTA
Found at i:11845 original size:57 final size:57
Alignment explanation
Indices: 11757--11899 Score: 241
Period size: 57 Copynumber: 2.5 Consensus size: 57
11747 TAAACGCAAT
11757 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAA
*
11814 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAG
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAA
** * *
11871 GTAAACACAACTATCGCAACGCGAATTTC
1 GTAAACAGTACTATCGCAATGCGATTTTC
11900 TGAAACTGAG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 81 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (57 bp):
GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAA
Found at i:11969 original size:29 final size:30
Alignment explanation
Indices: 11918--11977 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
11908 AGTTGCGAAT
* * *
11918 TTGTGAAATTGCGCGTTGCGAATTTGGAAA
1 TTGTGAAAATGCGCATTGCGAATTTGAAAA
11948 TTGTGAAAAT-CGCATTGCGAATTTGAAAA
1 TTGTGAAAATGCGCATTGCGAATTTGAAAA
11977 T
1 T
11978 CCCGTTGCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (30 bp):
TTGTGAAAATGCGCATTGCGAATTTGAAAA
Found at i:11985 original size:20 final size:21
Alignment explanation
Indices: 11946--11987 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11936 CGAATTTGGA
*
11946 AATTGTGAAAATCGCATTGCG
1 AATTGTGAAAATCCCATTGCG
*
11967 AATT-TGAAAATCCCGTTGCG
1 AATTGTGAAAATCCCATTGCG
11987 A
1 A
11988 TTTACATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (21 bp):
AATTGTGAAAATCCCATTGCG
Found at i:12171 original size:15 final size:15
Alignment explanation
Indices: 12153--12188 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12143 TTACCATTAA
*
12153 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
12168 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
*
12183 ACTAAA
1 ATTAAA
12189 CATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:15414 original size:8 final size:9
Alignment explanation
Indices: 15401--15442 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
15391 TCGATTCATG
15401 TCAATTTT-
1 TCAATTTTC
15409 TCAATTTTC
1 TCAATTTTC
*
15418 TCAATTTCC
1 TCAATTTTC
*
15427 TCAATTTCC
1 TCAATTTTC
15436 TCAATTT
1 TCAATTT
15443 CGTTGCTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCAATTTTC
Found at i:15423 original size:9 final size:9
Alignment explanation
Indices: 15409--15443 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
15399 TGTCAATTTT
*
15409 TCAATTTTC
1 TCAATTTCC
15418 TCAATTTCC
1 TCAATTTCC
15427 TCAATTTCC
1 TCAATTTCC
15436 TCAATTTC
1 TCAATTTC
15444 GTTGCTCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (9 bp):
TCAATTTCC
Found at i:20775 original size:36 final size:36
Alignment explanation
Indices: 20735--20804 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
20725 TTAAAATATA
20735 AAAATTATTTATTTTATAGAAAGCTCAATAAATCTT
1 AAAATTATTTATTTTATAGAAAGCTCAATAAATCTT
20771 AAAATTATTTATTTTATAGAAAGCTCAATAAATC
1 AAAATTATTTATTTTATAGAAAGCTCAATAAATC
20805 CAGGCAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (36 bp):
AAAATTATTTATTTTATAGAAAGCTCAATAAATCTT
Found at i:22895 original size:20 final size:20
Alignment explanation
Indices: 22866--23121 Score: 198
Period size: 20 Copynumber: 12.7 Consensus size: 20
22856 GATTTTTCAG
* * *
22866 AATCGTAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
22886 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
22906 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
22925 CTATCGCAACGAGTATCCGTTA
1 -AATCGCAACGCGAATACG-TA
* *
22947 AATCGCAACGCGTATTCGTA
1 AATCGCAACGCGAATACGTA
22967 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
22988 AATCACAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
* *
23008 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
23028 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
23048 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * *
23068 AATCGTAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
23088 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
23109 AATCGCAACGCGA
1 AATCGCAACGCGA
23122 TTTTTAAAGC
Statistics
Matches: 191, Mismatches: 32, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 139 0.73
21 47 0.25
22 1 0.01
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:22958 original size:41 final size:41
Alignment explanation
Indices: 22904--23123 Score: 184
Period size: 41 Copynumber: 5.4 Consensus size: 41
22894 CGCGAACATA
*
22904 TAAATCGCAACGCGATTCTG-ACTATCGCAACGAGTATCCGT
1 TAAATCGCAACGCGATTCTGTA-AATCGCAACGAGTATCCGT
** *
22945 TAAATCGCAACGCGTATTC-GTAAATCGCAACGACAATACGT
1 TAAATCGCAACGCG-ATTCTGTAAATCGCAACGAGTATCCGT
* * *
22986 AAAATCACAACGCG-TATCTGTAAATCGCAACGCGTATCCG-
1 TAAATCGCAACGCGAT-TCTGTAAATCGCAACGAGTATCCGT
* * * *
23026 TAAATCGCAATGCGAATAC-GTAAATCGCAACGAGAATACG-
1 TAAATCGCAACGCG-ATTCTGTAAATCGCAACGAGTATCCGT
* * * ** *
23066 TAAATCGTAATGCG-TATCCGTAAATCGCAACGACAATACGT
1 TAAATCGCAACGCGAT-TCTGTAAATCGCAACGAGTATCCGT
*
23107 AAAATCGCAACGCGATT
1 TAAATCGCAACGCGATT
23124 TTTAAAGCGC
Statistics
Matches: 146, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 64 0.44
41 72 0.49
42 7 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
TAAATCGCAACGCGATTCTGTAAATCGCAACGAGTATCCGT
Found at i:23728 original size:20 final size:20
Alignment explanation
Indices: 23678--23774 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
23668 TTCTAAACTT
*
23678 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
**
23698 AAAATTACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
23718 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
23739 AAAATCGCAACACG-AAATG
1 AAAATCGCAACACGAAAATG
*
23758 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
23775 CCAAAATCGC
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 18 0.29
20 29 0.46
21 16 0.25
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:23757 original size:19 final size:19
Alignment explanation
Indices: 23678--23785 Score: 99
Period size: 19 Copynumber: 5.5 Consensus size: 19
23668 TTCTAAACTT
*
23678 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACG-AAATG
**
23698 AAAATTACAACACGAAAATG
1 AAAATCGCAACACG-AAATG
** *
23718 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-A-CGAAATG
23739 AAAATCGCAACACGAAATG
1 AAAATCGCAACACGAAATG
* **
23758 AAAATCGCAACGCGAAACC
1 AAAATCGCAACACGAAATG
23777 AAAATCGCA
1 AAAATCGCA
23786 TTGCGATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
19 31 0.43
20 25 0.35
21 15 0.21
22 1 0.01
ACGTcount: A:0.52, C:0.20, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACACGAAATG
Found at i:23858 original size:40 final size:39
Alignment explanation
Indices: 23781--23900 Score: 161
Period size: 40 Copynumber: 3.1 Consensus size: 39
23771 GAAACCAAAA
23781 TCGCATTGCGATTTTCATT-TCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTCTCTCGTTGCGATTTTCATT
* **
23819 TCGCGTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATT
1 TCGCATTGCGATTTTCA-TTCTCTCGTTGCGATTTTCATT
* **
23859 TCCGCTTTGCGATAGTCATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATTCTCTCGTTGCGATTTTCATT
23899 TC
1 TC
23901 AACCAAAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
38 16 0.23
39 3 0.04
40 39 0.55
41 13 0.18
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.47
Consensus pattern (39 bp):
TCGCATTGCGATTTTCATTCTCTCGTTGCGATTTTCATT
Found at i:23870 original size:20 final size:20
Alignment explanation
Indices: 23803--23891 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
23793 TTTCATTTCT
**
23803 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
** *
23822 CGTTGCGATTTTCATTTCTCT
1 CGTTGCGATAGTCATTTC-CG
23843 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
23863 CTTTGCGATAGTCA-TTCTCT
1 CGTTGCGATAGTCATTTC-CG
23883 CGTTGCGAT
1 CGTTGCGAT
23892 TTTCATTTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
19 20 0.33
20 23 0.38
21 17 0.28
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:23897 original size:20 final size:19
Alignment explanation
Indices: 23786--23900 Score: 133
Period size: 19 Copynumber: 5.8 Consensus size: 19
23776 CAAAATCGCA
23786 TTGCGATTTTCATTTCTCG
1 TTGCGATTTTCATTTCTCG
*
23805 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
23824 TTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCA-TT-TCTCG
**
23845 TTGCGATAGTCATTTC-CG
1 TTGCGATTTTCATTTCTCG
**
23863 CTTTGCGATAGTCATTCTCTCG
1 --TTGCGATTTTCATT-TCTCG
23885 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
23901 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.02
19 34 0.40
20 30 0.36
21 16 0.19
22 2 0.02
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:25748 original size:94 final size:94
Alignment explanation
Indices: 25587--25966 Score: 665
Period size: 94 Copynumber: 4.1 Consensus size: 94
25577 TAGATTGCTT
* *
25587 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
25652 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
25681 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTATTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
25746 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
25775 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
25840 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
25869 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
25934 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
25962 AGTAA
1 AGTAA
25967 TGCAATCCAT
Statistics
Matches: 276, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 26 0.09
94 250 0.91
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:26079 original size:19 final size:19
Alignment explanation
Indices: 26054--26152 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
26044 AAAAATGGCT
26054 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
26073 ATTGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
26087 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
26106 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
26120 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
26139 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
26153 CTATAATCGC
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.51
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:26095 original size:14 final size:14
Alignment explanation
Indices: 26076--26128 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
26066 AATGAAAATT
26076 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
26090 GCAACGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
26109 GCAACGAGAGAATC
1 GCAACGAGAGAATC
26123 GCAACG
1 GCAACG
26129 CGAAACTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:26096 original size:33 final size:33
Alignment explanation
Indices: 26054--26147 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
26044 AAAAATGGCT
*
26054 ATCGCAACGCGAAATGAAAATTGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
26087 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
26120 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAACGCGAAA-TGAAAATCGCAACG
26148 CGAAACTATA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 58 0.98
34 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:26169 original size:19 final size:19
Alignment explanation
Indices: 26119--26162 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
26109 GCAACGAGAG
26119 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
26138 AATCGCAACGCGAAACTAT
1 AATCGCAACGCGAAACTAA
26157 AATCGC
1 AATCGC
26163 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:26181 original size:19 final size:19
Alignment explanation
Indices: 26159--26298 Score: 120
Period size: 19 Copynumber: 7.8 Consensus size: 19
26149 GAAACTATAA
26159 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
26178 TCGCATTACGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
26192 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26211 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
26225 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26244 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
26263 TCGTGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
26284 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
26299 AAGTTCTAGA
Statistics
Matches: 94, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.19
16 6 0.06
17 6 0.06
19 51 0.54
21 13 0.14
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26204 original size:33 final size:33
Alignment explanation
Indices: 26162--26256 Score: 172
Period size: 33 Copynumber: 2.9 Consensus size: 33
26152 ACTATAATCG
* *
26162 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
26195 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
26228 CGTTGCGATTTTCATTTCGCGTTGCGATT
1 CGTTGCGATTTTCATTTCGCGTTGCGATT
26257 TTCATTTCGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:26221 original size:52 final size:52
Alignment explanation
Indices: 26159--26274 Score: 139
Period size: 52 Copynumber: 2.2 Consensus size: 52
26149 GAAACTATAA
* *
26159 TCGCGTTGCGATT-T-TCATTTCGCA-TTACGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCATTGCG-ATTTAC-ATT-TCGCGTTGCGATTTTCATT
* *
26211 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCATTGCGATTTACATTTCGCGTTGCGATTTTCATT
*
26263 TCGTGTTGCGAT
1 TCGCGTTGCGAT
26275 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 42 0.75
53 5 0.09
54 9 0.16
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (52 bp):
TCGCGTTGCGATTCTCTCATTGCGATTTACATTTCGCGTTGCGATTTTCATT
Found at i:26233 original size:14 final size:14
Alignment explanation
Indices: 26186--26237 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
26176 TTTCGCATTA
26186 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
26200 CGATTTTCATTTCGCGTTG
1 CGA--TTC---TCTCGTTG
26219 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
26233 CGATT
1 CGATT
26238 TTCATTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
16 3 0.10
17 3 0.10
19 10 0.32
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:26775 original size:21 final size:21
Alignment explanation
Indices: 26751--26817 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
26741 TCATTCCTCG
26751 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
26772 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
26793 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
26814 AGAG
1 AGAG
26818 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:26775 original size:42 final size:42
Alignment explanation
Indices: 26699--26817 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
26689 GACTCGCCTG
* * * * * * *
26699 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
26741 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
26783 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
26818 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:28187 original size:14 final size:14
Alignment explanation
Indices: 28167--28203 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
28157 GATTGTTTAA
28167 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
28180 TATGATTTGTAAAAG
1 T-TGATTTGTAAAAG
28195 TTGATTTGT
1 TTGATTTGT
28204 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:28332 original size:19 final size:19
Alignment explanation
Indices: 28310--28364 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
28300 AAAAATGATT
28310 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
* *
28329 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATAAAA
28343 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
28362 ATC
1 ATC
28365 TCAACGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.44
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATAAAA
Found at i:28352 original size:33 final size:33
Alignment explanation
Indices: 28310--28394 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
28300 AAAAATGATT
*
28310 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATAAAAATCGCAACGAGAAA
* *
28343 ATCGCAATGCGAAATAAAAATCTCAACGATAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGAGAAA
* *
28376 ATCGTAACGCGAAACTAAA
1 ATCGCAATGCGAAA-TAAA
28395 TTCGCGTTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.91
34 4 0.09
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGAGAAA
Found at i:28441 original size:33 final size:33
Alignment explanation
Indices: 28399--28565 Score: 217
Period size: 33 Copynumber: 4.8 Consensus size: 33
28389 ACTAAATTCG
*
28399 CGTTGCGATTTTCATTTCGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
28432 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---TCT
* * *
28470 GCGTTGCGATATTCATATTCGCATTGCGATTTTCA
1 -CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
*
28505 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
28538 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
28566 AGACATTAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
33 69 0.59
34 14 0.12
35 3 0.03
38 3 0.03
39 14 0.12
40 13 0.11
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:28496 original size:20 final size:19
Alignment explanation
Indices: 28395--28566 Score: 104
Period size: 19 Copynumber: 9.7 Consensus size: 19
28385 CGAAACTAAA
* *
28395 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATATTCAT
*
28414 TTCGCTTTGCG--ATTC-T
1 TTCGCATTGCGATATTCAT
* *
28430 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATATTCAT
*
28447 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATATTCAT
* *
28466 TTATGCGTTGCGATATTCAT
1 TT-CGCATTGCGATATTCAT
*
28486 ATTCGCATTGCGATTTTCA-
1 -TTCGCATTGCGATATTCAT
*
28505 --CG--TTGCGATTTTCAT
1 TTCGCATTGCGATATTCAT
*
28520 TTCGCATTGTG--ATTC-T
1 TTCGCATTGCGATATTCAT
* *
28536 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATATTCAT
28553 TTCGCATTGCGATA
1 TTCGCATTGCGATA
28567 GACATTAAGA
Statistics
Matches: 116, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
14 21 0.18
16 16 0.14
17 16 0.14
19 34 0.29
20 27 0.23
21 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATATTCAT
Found at i:31035 original size:24 final size:24
Alignment explanation
Indices: 31001--31054 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
30991 CTGAAAAATC
31001 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
31025 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
31049 ATCAAA
1 ATCAAA
31055 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:31068 original size:24 final size:24
Alignment explanation
Indices: 31001--31068 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
30991 CTGAAAAATC
* * *
31001 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
31025 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
31049 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
31069 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:31988 original size:21 final size:20
Alignment explanation
Indices: 31914--32105 Score: 136
Period size: 20 Copynumber: 9.5 Consensus size: 20
31904 GTCAGAATCT
* *
31914 CGTTGCGATTTACGTAATCG
1 CGTTGCGATTTACGGATTCG
*** *
31934 CAACGCGATTTACGTATTCG
1 CGTTGCGATTTACGGATTCG
* *
31954 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATTCG
* **
31974 CGTTGCGATTTTACGTATTTT
1 CGTTGCGA-TTTACGGATTCG
* *
31995 CGTTGCGATTTACGAATACG
1 CGTTGCGATTTACGGATTCG
*
32015 CGTTGCGATTTTACGGATTCT
1 CGTTGCGA-TTTACGGATTCG
* * *
32036 CGTTGCGATAGT-CAGAATCG
1 CGTTGCGAT-TTACGGATTCG
**
32056 CGTTGCGATTTATATG-TTCG
1 CGTTGCGATTTA-CGGATTCG
* **
32076 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATTCG
32096 CGTTGCGATT
1 CGTTGCGATT
32106 CTGGAAAATC
Statistics
Matches: 134, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 98 0.73
21 35 0.26
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATTCG
Found at i:32001 original size:41 final size:41
Alignment explanation
Indices: 31911--32105 Score: 179
Period size: 41 Copynumber: 4.8 Consensus size: 41
31901 ATAGTCAGAA
***
31911 TCTCGTTGCGATTTACGTAAT-CGCAACGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACG-AATACGCGTTGCGATTTTACGTAT
* * *
31951 TCGCATTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* *
31992 TTTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* *
32033 TCTCGTTGCGATAGT-CAGAAT-CGCGTTGCGATTTATA--TGT
1 TCTCGTTGCGAT-TTAC-GAATACGCGTTGCGATTT-TACGTAT
* * *
32073 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATT
1 TCTCGTTGCGATTTACGA-ATACGCGTTGCGATT
32106 CTGGAAAATC
Statistics
Matches: 130, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 47 0.36
41 70 0.54
42 7 0.05
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
Found at i:42631 original size:26 final size:26
Alignment explanation
Indices: 42602--42655 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
42592 CGGCATACAC
* *
42602 ATGATTTTATTTTAGAG-GATGAATTT
1 ATGATTTTATCTTAG-GTGACGAATTT
42628 ATGATTTTATCTTAGGTGACGAATTT
1 ATGATTTTATCTTAGGTGACGAATTT
42654 AT
1 AT
42656 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (26 bp):
ATGATTTTATCTTAGGTGACGAATTT
Found at i:45042 original size:29 final size:29
Alignment explanation
Indices: 44954--45113 Score: 144
Period size: 29 Copynumber: 5.4 Consensus size: 29
44944 GGGTAGGTCG
* **
44954 CCATGCACGCCCAGCGACCTACCAGGTCG-
1 CCATGCACGCCCAACGACCT-CCAGCACGC
* * ** **
44983 CCATGCATGCCCAACAACCTGGTAGGTCG-
1 CCATGCACGCCCAACGACCT-CCAGCACGC
*
45012 CCATGCACGCCCAGCGACCTACCAGCACGC
1 CCATGCACGCCCAACGACCT-CCAGCACGC
*
45042 CCAGAGCACGCCCAACGACCTCCATGCACGC
1 CCA-TGCACGCCCAACGACCTCCA-GCACGC
*
45073 CCATGTACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCA-GCACGC
45103 CCATGCACGCC
1 CCATGCACGCC
45114 AAAGGTCACC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
29 44 0.40
30 41 0.38
31 24 0.22
ACGTcount: A:0.23, C:0.46, G:0.21, T:0.11
Consensus pattern (29 bp):
CCATGCACGCCCAACGACCTCCAGCACGC
Found at i:45082 original size:10 final size:10
Alignment explanation
Indices: 45063--45113 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
45053 CCAACGACCT
45063 CCATGCACGC
1 CCATGCACGC
*
45073 CCATGTACGC
1 CCATGCACGC
*
45083 CCA-ACGAC-C
1 CCATGC-ACGC
45092 TCCATGCACGC
1 -CCATGCACGC
45103 CCATGCACGC
1 CCATGCACGC
45113 C
1 C
45114 AAAGGTCACC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.03
10 30 0.91
11 2 0.06
ACGTcount: A:0.22, C:0.49, G:0.18, T:0.12
Consensus pattern (10 bp):
CCATGCACGC
Found at i:45085 original size:30 final size:30
Alignment explanation
Indices: 45012--45113 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
45002 TGGTAGGTCG
*
45012 CCATGCACGCCCAGCGACCTACCA-GCACGC
1 CCATGCACGCCCAACGACCT-CCATGCACGC
*
45042 CCAGAGCACGCCCAACGACCTCCATGCACGC
1 CCA-TGCACGCCCAACGACCTCCATGCACGC
*
45073 CCATGTACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
45103 CCATGCACGCC
1 CCATGCACGCC
45114 AAAGGTCACC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 41 0.63
31 24 0.37
ACGTcount: A:0.24, C:0.49, G:0.19, T:0.09
Consensus pattern (30 bp):
CCATGCACGCCCAACGACCTCCATGCACGC
Found at i:45765 original size:27 final size:28
Alignment explanation
Indices: 45712--45770 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
45702 TATAAAAAAA
*
45712 TTAATTAGTGTGTTAGTTAGTCTAATAT
1 TTAATTAGTGTGTTAGTTAGTCTAATAG
*
45740 TTAATTAGTTTG-TAGTTAGT-TAAATAG
1 TTAATTAGTGTGTTAGTTAGTCT-AATAG
45767 TTAA
1 TTAA
45771 GTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 16 0.57
28 11 0.39
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (28 bp):
TTAATTAGTGTGTTAGTTAGTCTAATAG
Found at i:45909 original size:18 final size:18
Alignment explanation
Indices: 45886--45940 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
45876 AATAATTATT
45886 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
45904 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
45916 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
45933 TAAATTAG
1 TAAATTAG
45941 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:46249 original size:15 final size:15
Alignment explanation
Indices: 46229--46280 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
46219 TTTAGTTTAA
46229 TTTATTAAAGAATAG
1 TTTATTAAAGAATAG
*** *
46244 TTTATTAGTTAA-CG
1 TTTATTAAAGAATAG
46258 TTATATTAAAGAATAG
1 TT-TATTAAAGAATAG
46274 TTTATTA
1 TTTATTA
46281 GTTGTTTAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
TTTATTAAAGAATAG
Found at i:48603 original size:14 final size:14
Alignment explanation
Indices: 48584--48631 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
48574 TTCAAGTCGT
48584 AAATCATTACTATC
1 AAATCATTACTATC
48598 AAATCATTAC--T-
1 AAATCATTACTATC
* *
48609 AAATTATTAATATC
1 AAATCATTACTATC
48623 AAATCATTA
1 AAATCATTA
48632 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 1 0.04
14 18 0.64
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:48611 original size:25 final size:25
Alignment explanation
Indices: 48583--48631 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
48573 GTTCAAGTCG
*
48583 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
*
48608 TAAATTATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
48632 AATATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:48674 original size:48 final size:48
Alignment explanation
Indices: 48603--48883 Score: 206
Period size: 48 Copynumber: 5.4 Consensus size: 48
48593 CTATCAAATC
* *
48603 ATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACT-AATAATTACTATCAAATCATTAAATATTAATAATAAATTATT
48652 ATTACTAATAATTACTATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACTAATAATTACTATCAAATCATTAAATATTAATAATAAATTATT
* *
48700 ATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTAC---T-A--A-T-A--ATTACTATCAAATCATTAAATATTAATAATAAATT-ATT
* * * *
48759 ATTACTAATCATTACTAAATCATTAAT-ATCAAATCATTAAAAATTAATAATAATTT
1 ATTACTAATAATTACT--ATCA--AATCATTAAAT-ATTAATAA-T-A-AATTA-TT
* * *
48815 CATTATTACTAATCATTACTATCAAATCATTAAA-ATTAATAATAATTTCATT
1 -ATTACTAAT-A--ATTACTATCAAATCATTAAATATTAATAATAAATT-ATT
*
48867 ATTACTAATCATTACTA
1 ATTACTAATAATTACTA
48884 AATCATTAAT
Statistics
Matches: 186, Mismatches: 20, Indels: 53
0.72 0.08 0.20
Matches are distributed among these distances:
48 52 0.28
49 12 0.06
51 12 0.06
52 11 0.06
53 13 0.07
54 3 0.02
55 11 0.06
56 9 0.05
57 12 0.06
58 37 0.20
59 8 0.04
60 6 0.03
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (48 bp):
ATTACTAATAATTACTATCAAATCATTAAATATTAATAATAAATTATT
Found at i:48715 original size:10 final size:10
Alignment explanation
Indices: 48700--48726 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48690 ATAAATTATT
48700 ATTACTAATC
1 ATTACTAATC
48710 ATTACTAATC
1 ATTACTAATC
48720 ATTACTA
1 ATTACTA
48727 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:48790 original size:166 final size:167
Alignment explanation
Indices: 48599--49227 Score: 840
Period size: 166 Copynumber: 3.8 Consensus size: 167
48589 ATTACTATCA
* *
48599 AATCATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATAA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACTAATCA
48663 TTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTAT
66 TTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTAT
48728 CAAATCATTAAAAATTAATAATAATTTCATTATTACT
131 CAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
48765 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACTAATCA
* *
48830 TTACTATCAAATCATTAAA-ATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAAT
66 TTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCATTACT-AATCATTACT
*
48894 ATCAAATCATTAAATATTAATAAT--TTTCATTATTACT
129 ATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
48931 AATCATTACTAAATCATTAATATCAAATCATT-AA-ATTAATAAT-AATTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACTAATCA
* * * *
48993 TTAC--T-AAATCATT-AATATCAAATCATTAAA-TATTAATAATAATTTCATTATTACTAATCA
66 TTACTATCAAATCATTAAATAT-TAAT-AATAAATTATTATTACTAA--TC---ATTACTAATCA
49053 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
124 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* * *
49097 AATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 AATCATTACTAAATCATTAATATCAAATCATTAAAT-ATTAATAATAAATTCATTATTACTAATC
* * * * *
49161 ATTACAATCAAATTACTATTAAATCATTAA-ATATTAATAATAATT--TCATCATTACTAATCAT
65 ATTACTATCAAA-T-C-ATTAAAT-ATTAATA-ATAAATTATTATTACTAATCATTACTAATCAT
49223 TACTA
125 TACTA
49228 AATCTTATAA
Statistics
Matches: 411, Mismatches: 25, Indels: 51
0.84 0.05 0.10
Matches are distributed among these distances:
159 2 0.00
160 19 0.05
161 5 0.01
162 6 0.01
163 22 0.05
164 41 0.10
165 9 0.02
166 148 0.36
167 51 0.12
168 41 0.10
169 39 0.09
171 1 0.00
172 5 0.01
173 1 0.00
174 4 0.01
175 6 0.01
176 9 0.02
177 2 0.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (167 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACTAATCA
TTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTAT
CAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:48795 original size:25 final size:25
Alignment explanation
Indices: 48765--48846 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
48755 CATTATTACT
48765 AATCATTACTAAATCATTAATATCA
1 AATCATTACTAAATCATTAATATCA
* * * **
48790 AATCATTA-AAAATTAATAATAATTT
1 AATCATTACTAAATCATTAAT-ATCA
* * *
48815 CATTATTACT-AATCATTACTATCA
1 AATCATTACTAAATCATTAATATCA
48839 AATCATTA
1 AATCATTA
48847 AAATTAATAA
Statistics
Matches: 40, Mismatches: 15, Indels: 5
0.67 0.25 0.08
Matches are distributed among these distances:
24 17 0.43
25 23 0.57
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (25 bp):
AATCATTACTAAATCATTAATATCA
Found at i:48797 original size:60 final size:59
Alignment explanation
Indices: 48652--49228 Score: 762
Period size: 60 Copynumber: 10.1 Consensus size: 59
48642 ATAAATTATT
* * *
48652 ATTACTAATAATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
48710 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
48769 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
48819 ATTACTAATCATTACTATCAAATCATT-AAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
48877 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT--TTTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
48935 ATTACTAAATCATTAATATCAAATCATT--AAATTAATAATAA-TTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
48992 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTC------A-T--T-
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
49042 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
49101 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
* * *
49161 ATTAC-AATCAAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
49221 ATTACTAA
1 ATTACTAA
49229 ATCTTATAAA
Statistics
Matches: 468, Mismatches: 16, Indels: 67
0.85 0.03 0.12
Matches are distributed among these distances:
48 18 0.04
49 58 0.12
50 12 0.03
51 2 0.00
53 2 0.00
54 3 0.01
55 2 0.00
56 11 0.02
57 45 0.10
58 98 0.21
59 59 0.13
60 154 0.33
61 4 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:48902 original size:14 final size:14
Alignment explanation
Indices: 48883--49021 Score: 51
Period size: 14 Copynumber: 9.7 Consensus size: 14
48873 AATCATTACT
48883 AAATCATTAATATC
1 AAATCATTAATATC
*
48897 AAATCATTAAATATTA
1 AAATCATT-AATA-TC
*
48913 ATAATTTTCATTATTA-C
1 A-AA---TCATTAATATC
* *
48930 TAATCATTACTA--
1 AAATCATTAATATC
48942 A-ATCATTAATATC
1 AAATCATTAATATC
*
48955 AAATCATTAAATTAATA
1 AAATCATT-AA-T-ATC
*
48972 ATAATTCATTATTA-C
1 A-AA-TCATTAATATC
* *
48987 TAATCATT-A-CT-
1 AAATCATTAATATC
48998 AAATCATTAATATC
1 AAATCATTAATATC
49012 AAATCATTAA
1 AAATCATTAA
49022 ATATTAATAA
Statistics
Matches: 92, Mismatches: 15, Indels: 36
0.64 0.10 0.25
Matches are distributed among these distances:
11 16 0.17
12 1 0.01
13 15 0.16
14 26 0.28
15 6 0.07
16 6 0.07
17 6 0.07
18 3 0.03
19 8 0.09
20 5 0.05
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:49138 original size:332 final size:337
Alignment explanation
Indices: 48599--49231 Score: 943
Period size: 332 Copynumber: 1.9 Consensus size: 337
48589 ATTACTATCA
*
48599 AATCATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATAAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATAAT
* * *
48664 TACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTATC
66 TAC-ATCAAATCATTAAATATAAATAATAAATTATTAATAATAATCATTACTAATCATTACTATC
48729 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATC
130 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATC
48794 ATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC-T-A-T-C-AAATCATTAAA-ATTA
195 ATTAAAAATTAATAATAATTTCATTATTACTAATCATTACATAATTACTAAATCATTAAATATTA
*
48853 ATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT
260 ATAATAATTTCATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT
48918 TTTCATTATTACT
325 TTTCATTATTACT
*
48931 AATCATTACTAAATCATTAATATCAAATCATT-AA-ATTAATAAT-AATTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATAA
*
48993 TTAC-T-AAATCATT-AATATCAAATCATTAAA-TATTAATAATAATTTCATTATTACTAATCAT
65 TTACATCAAATCATTAAATAT-AAAT-AATAAATTATTAATAATAA--TC---ATTACTAATCAT
*
49054 TACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTA
123 TACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATA
*
49119 TCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATCATTACAATCAAATTACTATTAA
188 TCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATCATTAC-AT--AATTAC---TAA
49183 ATCATTAAATATTAATAATAATTTCATCATTACTAATCATTACTAAATC
246 ATCATTAAATATTAATAATAATTTCATCATTACTAATCATTACTAAATC
49232 TTATAAATAC
Statistics
Matches: 271, Mismatches: 9, Indels: 30
0.87 0.03 0.10
Matches are distributed among these distances:
326 5 0.02
327 21 0.08
328 6 0.02
329 6 0.02
330 26 0.10
331 4 0.01
332 150 0.55
334 1 0.00
337 1 0.00
338 1 0.00
339 1 0.00
343 11 0.04
344 38 0.14
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (337 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATAAT
TACATCAAATCATTAAATATAAATAATAAATTATTAATAATAATCATTACTAATCATTACTATCA
AATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCA
TTAAAAATTAATAATAATTTCATTATTACTAATCATTACATAATTACTAAATCATTAAATATTAA
TAATAATTTCATCATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATT
TTCATTATTACT
Found at i:52327 original size:28 final size:28
Alignment explanation
Indices: 52296--52349 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
52286 ATAATCTAAT
*
52296 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
52324 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
52350 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:52356 original size:28 final size:28
Alignment explanation
Indices: 52292--52356 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
52282 TTATATAATC
*
52292 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
52320 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
52348 TAATTTATA
1 TAATATATA
52357 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:52359 original size:21 final size:21
Alignment explanation
Indices: 52326--52374 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
52316 TTAATATAAT
52326 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
52347 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
52368 ATTAACT
1 A-TAACT
52375 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Done.