Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002882.1 Hibiscus syriacus cultivar Beakdansim tig00005944_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: 139026
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:29 original size:20 final size:20
Alignment explanation
Indices: 1--39 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
21 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
40 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:2689 original size:21 final size:22
Alignment explanation
Indices: 2628--2705 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 22
2618 CATGGCCTTG
2628 TGCATCGATGCACATTCAAGGCGA
1 TGCATCGATGCACATTCAA-G-GA
* *
2652 -GCATC-AGTGCACCTTCATGG-
1 TGCATCGA-TGCACATTCAAGGA
*
2672 TGTATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
2694 TGCATCGATGCA
1 TGCATCGATGCA
2706 ATGTTAGGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 16 0.36
22 14 0.32
23 14 0.32
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:6554 original size:22 final size:21
Alignment explanation
Indices: 6512--6551 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6502 AAGACTATTT
6512 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
6533 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
6552 ATAGAGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:8606 original size:45 final size:46
Alignment explanation
Indices: 8526--8616 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
8516 TTGAAAAAGT
* * *
8526 CTGAGTGCATCGATGCATAGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAATGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
*
8572 CTGAATGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAATGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
8617 TTCGATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 22 0.54
46 19 0.46
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (46 bp):
CTGAATGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
Found at i:8664 original size:20 final size:20
Alignment explanation
Indices: 8636--8674 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8626 CAAGAAATTA
8636 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
8656 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
8675 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:12958 original size:5 final size:5
Alignment explanation
Indices: 12948--12982 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
12938 TGGAAGCCCT
12948 AGTTG AGTTG AGTTG AGTTG AGTTG AGTTG AGTTG
1 AGTTG AGTTG AGTTG AGTTG AGTTG AGTTG AGTTG
12983 GACTTCTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
AGTTG
Found at i:13695 original size:20 final size:21
Alignment explanation
Indices: 13670--13721 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13660 TTTTCCCAAT
*
13670 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
13690 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAGAAAA
13711 TCGCAATGCGA
1 TCGCAATGCGA
13722 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:13734 original size:41 final size:41
Alignment explanation
Indices: 13689--13783 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
13679 GAATAAGTAA
* * * *
13689 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAACGAGATACTGACT
* *
13730 ATCGCAATGCTATAATACAAAATCGCAACGAGATACTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACT
*
13771 TTCGCAACGCGAT
1 ATCGCAACGCGAT
13784 TCTGACTTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACT
Found at i:13735 original size:20 final size:20
Alignment explanation
Indices: 13710--13804 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
13700 AATTGAGAAA
*
13710 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
13730 ATCGCAATGCTATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
13751 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
13771 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
13791 TTCGCAACGCGATA
1 ATCGCAACGCGATA
13805 ATACATAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.73
21 12 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:14020 original size:22 final size:22
Alignment explanation
Indices: 13992--14035 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
13982 CACTCTCTCA
13992 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
14014 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
14036 TATCTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:14352 original size:20 final size:20
Alignment explanation
Indices: 14298--14356 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
14288 GCGATTCTCT
**
14298 CGTTGCGATTGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
*
14318 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
14338 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
14357 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:14546 original size:25 final size:24
Alignment explanation
Indices: 14492--14546 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
14482 TGTTTATTAT
* *
14492 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
14516 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
14542 TGTTT
1 TGTTT
14547 ATTGTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:15694 original size:18 final size:18
Alignment explanation
Indices: 15673--15717 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
15663 TCCACTTTGG
*
15673 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
15691 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
15709 GAGCCATCA
1 GAGCCATCA
15718 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:16222 original size:20 final size:20
Alignment explanation
Indices: 16197--16249 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
16187 TAGTTTACTT
16197 TCGCAACACGAAAATAACTA
1 TCGCAACACGAAAATAACTA
* * **
16217 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATAACTA
*
16237 TCGCAATACGAAA
1 TCGCAACACGAAA
16250 TGAAAATCGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATAACTA
Found at i:16271 original size:14 final size:14
Alignment explanation
Indices: 16252--16309 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
16242 ATACGAAATG
16252 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
16266 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
16282 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
16298 AAAATCGCAACG
1 AAAATCGCAACG
16310 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:16294 original size:32 final size:33
Alignment explanation
Indices: 16236--16326 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
16226 GGAAATGGCT
*
16236 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
16269 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
16301 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
16327 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:16433 original size:33 final size:33
Alignment explanation
Indices: 16343--16435 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
16333 TTGTGTTTCG
* *
16343 CGTTGCGA-TTTCATTTCGCGTTGCAATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
16375 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
*
16408 TGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
16436 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 8 0.14
33 49 0.86
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:16454 original size:20 final size:19
Alignment explanation
Indices: 16420--16475 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
16410 TTGCGATTTT
*
16420 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
16439 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
16459 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
16476 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:16936 original size:41 final size:41
Alignment explanation
Indices: 16840--16927 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
16830 GACTCACCTG
* * *
16840 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
16882 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
16923 TCATC
1 TCATC
16928 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:18355 original size:14 final size:14
Alignment explanation
Indices: 18336--18371 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18326 ATTGTTTAAT
18336 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
18350 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
18364 TGATTTGT
1 TGATTTGT
18372 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:18520 original size:19 final size:19
Alignment explanation
Indices: 18498--18561 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
18488 AAAAATGGCT
18498 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
18517 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
18536 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
18550 ATCGCAATGCGA
1 ATCGCAATGCGA
18562 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.28
15 1 0.03
16 2 0.05
17 2 0.05
19 24 0.60
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:18603 original size:20 final size:20
Alignment explanation
Indices: 18587--18674 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
18577 GCATTTTCTA
18587 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
18607 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
18627 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
18647 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
18667 GTTGCGAT
1 GTTGCGAT
18675 TTCCCCGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:18913 original size:20 final size:20
Alignment explanation
Indices: 18888--18979 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
18878 TTGAAGATGA
18888 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
18908 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
18928 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
18949 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
18969 TTGCGATTTTC
1 TTGCGATTTTC
18980 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:19009 original size:19 final size:20
Alignment explanation
Indices: 18962--19014 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
18952 CGATAGTCAG
*
18962 TATCGCATTGCGATTTTCCA
1 TATCGCATTGCGATTTTACA
* *
18982 AATTCGCATTGCGA-TTTACT
1 TA-TCGCATTGCGATTTTACA
19002 TATCGCATTGCGA
1 TATCGCATTGCGA
19015 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 11 0.39
20 6 0.21
21 11 0.39
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (20 bp):
TATCGCATTGCGATTTTACA
Found at i:22253 original size:26 final size:27
Alignment explanation
Indices: 22210--22267 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
22200 AATGCGAAAT
*
22210 GAAATCGCAACGAGAGAATCGCAATGC
1 GAAATCGCAACGAGAGAATCGCAACGC
*
22237 GAAATCG-AATGAGAGAATCGCAACGC
1 GAAATCGCAACGAGAGAATCGCAACGC
22263 GAAAT
1 GAAAT
22268 GAAAATCGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (27 bp):
GAAATCGCAACGAGAGAATCGCAACGC
Found at i:22255 original size:13 final size:14
Alignment explanation
Indices: 22212--22259 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
22202 TGCGAAATGA
*
22212 AATCGCAACGAGAG
1 AATCGCAATGAGAG
*
22226 AATCGCAATGCGA-
1 AATCGCAATGAGAG
22239 AATCG-AATGAGAG
1 AATCGCAATGAGAG
22252 AATCGCAA
1 AATCGCAA
22260 CGCGAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 6 0.21
13 10 0.34
14 13 0.45
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAATGAGAG
Found at i:22276 original size:19 final size:19
Alignment explanation
Indices: 22176--22313 Score: 69
Period size: 19 Copynumber: 7.5 Consensus size: 19
22166 CTTAATGTCT
* **
22176 ATCGCAACGCGAAATTACT
1 ATCGCAACGCGAAATGAAA
*
22195 ATCGCAATGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
* *
22213 ATCGCAACGAGAGAATCG-CA
1 ATCGCAACGCGA-AAT-GAAA
**
22233 AT-GCGAAATCG-AATGAGAGA
1 ATCGC-AACGCGAAATGA-A-A
22253 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
22272 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
*
22286 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
22305 ATCGCAACG
1 ATCGCAACG
22314 TGAATTTAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 3 0.03
18 14 0.16
19 37 0.42
20 15 0.17
21 7 0.08
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:22289 original size:33 final size:33
Alignment explanation
Indices: 22238--22313 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
22228 TCGCAATGCG
*
22238 AAATCG-AATGAGAGAATCGCAACGCGAAATGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
* *
22270 AAATCGCAACGAGGGAATCGCAATGCGAAATGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
22303 AAATCGCAACG
1 AAATCGCAACG
22314 TGAATTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 6 0.15
33 34 0.85
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (33 bp):
AAATCGCAACGAGAGAATCGCAACGCGAAATGA
Found at i:22344 original size:19 final size:19
Alignment explanation
Indices: 22322--22388 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
22312 CGTGAATTTA
22322 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
22341 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
22358 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
22374 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
22389 AGTACTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
16 3 0.08
17 3 0.08
19 24 0.60
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:22514 original size:14 final size:14
Alignment explanation
Indices: 22495--22531 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22485 CATCAATTAA
22495 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
22509 ACAAATCACCTTTT
1 ACAAATCAACTTTT
22523 ACAAATCAA
1 ACAAATCAA
22532 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:24399 original size:91 final size:90
Alignment explanation
Indices: 24224--24408 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
24214 ATTTCAAACT
*
24224 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
24289 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
24317 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
24381 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
24408 T
1 T
24409 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:26157 original size:14 final size:14
Alignment explanation
Indices: 26138--26238 Score: 62
Period size: 14 Copynumber: 6.6 Consensus size: 14
26128 GGAAATAACT
26138 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
26152 ATCGCAACGCGA-A
1 ATCGCAACGAGAGA
* *
26165 AT-GAAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
26181 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
26197 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
26216 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
26230 ATCGCAACG
1 ATCGCAACG
26239 CGAAATGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.04
13 3 0.04
14 33 0.49
15 1 0.01
16 5 0.07
17 6 0.09
18 3 0.04
19 13 0.19
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:26184 original size:45 final size:46
Alignment explanation
Indices: 26103--26215 Score: 174
Period size: 45 Copynumber: 2.4 Consensus size: 46
26093 TTGAAATGAA
* *
26103 AATCGCAACGAGATAATGAGAATGCGGAAATAACTATCGCAACGAGAG
1 AATCGCAACGCGA-AATGA-AACGCGGAAATAACTATCGCAACGAGAG
*
26151 AATCGCAACGCGAAATGAAACGC-GAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAACGCGGAAATAACTATCGCAACGAGAG
26196 AATCGCAACGCGAAATGAAA
1 AATCGCAACGCGAAATGAAA
26216 ATCGCAACGA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.66
46 4 0.06
47 5 0.08
48 12 0.19
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (46 bp):
AATCGCAACGCGAAATGAAACGCGGAAATAACTATCGCAACGAGAG
Found at i:26210 original size:33 final size:33
Alignment explanation
Indices: 26151--26255 Score: 160
Period size: 33 Copynumber: 3.2 Consensus size: 33
26141 GCAACGAGAG
* * *
26151 AATCGCAACGCGA-AAT-GAAACGCGAAATGAC
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
26182 TATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
26215 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
26248 AATCGCAA
1 AATCGCAA
26256 TGCGATTTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
31 11 0.16
32 3 0.04
33 53 0.79
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:26220 original size:19 final size:19
Alignment explanation
Indices: 26196--26260 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
26186 GCAACGAGAG
26196 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
26215 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
26229 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
26248 AATCGCAATGCGA
1 AATCGCAACGCGA
26261 TTTTATAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:26293 original size:19 final size:19
Alignment explanation
Indices: 26256--26324 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
26246 AAAATCGCAA
26256 TGCGATTTTATAGTTTCGCGT
1 TGCGATTTT-TA-TTTCGCGT
26277 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
26296 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
26316 TGCGATTTT
1 TGCGATTTT
26325 CATTCTCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 20 0.47
20 14 0.33
21 9 0.21
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:26942 original size:61 final size:61
Alignment explanation
Indices: 26844--26960 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
26834 CGCTATGTAA
* * * *
26844 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* *
26905 ATCGCATTGC-AATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAA-AGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
26961 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 2 0.04
61 47 0.96
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:26955 original size:20 final size:20
Alignment explanation
Indices: 26844--26957 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
26834 CGCTATGTAA
* * *
26844 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
26864 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
26884 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
26905 ATCGCATTGCAATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
26925 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
26945 ATCGCATTGCGAT
1 ATCGCATTGCGAT
26958 TTTCCCAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.80
21 11 0.14
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:27068 original size:21 final size:21
Alignment explanation
Indices: 27028--27068 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27018 ACTGTAGACC
**
27028 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
27049 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
27069 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:29341 original size:22 final size:22
Alignment explanation
Indices: 29316--29402 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
29306 CGTCGTCCGG
*
29316 TTCTTCCGACCGGTCGAACCGA
1 TTCTTCCGACCGGTCGGACCGA
29338 TTCTTCCGACCGGTCGGACCGA
1 TTCTTCCGACCGGTCGGACCGA
29360 TTCTTCCGACCGGTCGGACCGA
1 TTCTTCCGACCGGTCGGACCGA
29382 TTCTTCCGACCGGTCGGACCG
1 TTCTTCCGACCGGTCGGACCG
29403 GTTCGACCTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.14, C:0.37, G:0.26, T:0.23
Consensus pattern (22 bp):
TTCTTCCGACCGGTCGGACCGA
Found at i:29882 original size:6 final size:6
Alignment explanation
Indices: 29848--29879 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
29838 GTTGTTTTAT
*
29848 ACGGCA ACGGCA ACGGCA ACGGCA ACAGCA AC
1 ACGGCA ACGGCA ACGGCA ACGGCA ACGGCA AC
29880 AGCTTCATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.34, G:0.28, T:0.00
Consensus pattern (6 bp):
ACGGCA
Found at i:32160 original size:24 final size:24
Alignment explanation
Indices: 32111--32162 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32101 GGGTTTTGAA
* *
32111 CTTGCTCAGTAGAGGCAGAATGTT
1 CTTGCTCAGCAGAGGCAGAATATT
**
32135 CTTGCTCAGCAGAGGCAGGCTATT
1 CTTGCTCAGCAGAGGCAGAATATT
32159 CTTG
1 CTTG
32163 TTGAGAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (24 bp):
CTTGCTCAGCAGAGGCAGAATATT
Found at i:38700 original size:16 final size:17
Alignment explanation
Indices: 38666--38700 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38656 CAATAATTTC
38666 TTTTAAAAAAATTCATT
1 TTTTAAAAAAATTCATT
*
38683 TTTTCAAAAAATTC-TT
1 TTTTAAAAAAATTCATT
38699 TT
1 TT
38701 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTAAAAAAATTCATT
Found at i:41344 original size:44 final size:45
Alignment explanation
Indices: 41181--41392 Score: 270
Period size: 45 Copynumber: 4.8 Consensus size: 45
41171 TATAAAATTT
* *
41181 CTTATCATTT-TTCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
* * * * *
41226 CTTACAATTTATTCTATAAGCTCATAAGCTTATTTTATCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
41271 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
41316 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
41360 CTT-GCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
41393 GCATGGTTAC
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
43 28 0.19
44 38 0.26
45 78 0.53
46 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:45385 original size:11 final size:10
Alignment explanation
Indices: 45362--45467 Score: 70
Period size: 11 Copynumber: 9.7 Consensus size: 10
45352 TCATCTCTCA
45362 TTTTTTTTGTC
1 TTTTTTTT-TC
45373 TTTTTCTTTTC
1 TTTTT-TTTTC
*
45384 TTATATTTTTC
1 TT-TTTTTTTC
45395 TATATTTTTTTC
1 T-T-TTTTTTTC
*
45407 ATTTTCTTTTTG
1 -TTTT-TTTTTC
45419 TTCTTTCTTTT-
1 TT-TTT-TTTTC
* *
45430 TTGTTCTTTC
1 TTTTTTTTTC
45440 TTTTTTTGTTC
1 TTTTTTT-TTC
*
45451 TTCTTTTTTC
1 TTTTTTTTTC
45461 TTTTTTT
1 TTTTTTT
45468 ATATAATGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
9 3 0.04
10 16 0.21
11 31 0.40
12 26 0.34
13 1 0.01
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:45429 original size:18 final size:15
Alignment explanation
Indices: 45413--45459 Score: 80
Period size: 14 Copynumber: 3.3 Consensus size: 15
45403 TTTCATTTTC
45413 TTTTTGTTCTTTC-T
1 TTTTTGTTCTTTCTT
45427 TTTTTGTTCTTTCTT
1 TTTTTGTTCTTTCTT
45442 TTTTTGTTC-TTCTT
1 TTTTTGTTCTTTCTT
45456 TTTT
1 TTTT
45460 CTTTTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (15 bp):
TTTTTGTTCTTTCTT
Found at i:45431 original size:29 final size:28
Alignment explanation
Indices: 45399--45459 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45389 TTTTTCTATA
45399 TTTTT-TTCATTT-TCTTTTTGTTCTTTCT
1 TTTTTGTTC-TTTCTCTTTTTGTTC-TTCT
*
45427 TTTTTGTTCTTTCTTTTTTTGTTCTTCT
1 TTTTTGTTCTTTCTCTTTTTGTTCTTCT
45455 TTTTT
1 TTTTT
45460 CTTTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.80
Consensus pattern (28 bp):
TTTTTGTTCTTTCTCTTTTTGTTCTTCT
Found at i:45464 original size:18 final size:18
Alignment explanation
Indices: 45419--45466 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
45409 TTTCTTTTTG
*
45419 TTCTTTCTTTTTTGTTCT
1 TTCTTTCTTTTTTCTTCT
45437 TTCTTT-TTTTGTTCTTCT
1 TTCTTTCTTTT-TTCTTCT
45455 TT-TTTCTTTTTT
1 TTCTTTCTTTTTT
45467 TATATAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (18 bp):
TTCTTTCTTTTTTCTTCT
Found at i:48387 original size:45 final size:43
Alignment explanation
Indices: 48310--48521 Score: 253
Period size: 45 Copynumber: 4.8 Consensus size: 43
48300 TATAAAATTT
* * *
48310 CTTATCATTTTTCCTATAAGCTCGTAAGCTTATTCTACTAATATA
1 CTTA-CATTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
* ** *
48355 CTTACAATTTATTCTATAAGCTCGTAAGCTTATTTTATAAATACA
1 CTTAC-A-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
48400 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTA-CA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
48445 CTTGTCATTATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTT-ACATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
48489 CTTGCATTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACATTATTCCATAAGCTCGTAAGCTTATTT
48522 GCATGGTTAC
Statistics
Matches: 148, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
43 29 0.20
44 40 0.27
45 73 0.49
46 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (43 bp):
CTTACATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:48441 original size:25 final size:25
Alignment explanation
Indices: 48413--48486 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
48403 ACCATTTGTT
48413 CCATAAGCTCGTAAGCTTATTTTAC
1 CCATAAGCTCGTAAGCTTATTTTAC
* *
48438 CCATATA-CTTGTCA--TTA--TT--
1 CCATA-AGCTCGTAAGCTTATTTTAC
48457 CCATAAGCTCGTAAGCTTATTTTAC
1 CCATAAGCTCGTAAGCTTATTTTAC
48482 CCATA
1 CCATA
48487 TACTTGCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
21 5 0.14
23 5 0.14
25 15 0.41
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.38
Consensus pattern (25 bp):
CCATAAGCTCGTAAGCTTATTTTAC
Found at i:48673 original size:40 final size:40
Alignment explanation
Indices: 48629--48787 Score: 282
Period size: 40 Copynumber: 4.0 Consensus size: 40
48619 GTAGTGCTAT
* * *
48629 ACATAAGGTCGAGCCCACTATATAAACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
48669 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
48709 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
*
48749 ACATAAGGTCGTGCCCACCATATACACCAAAGTGTATTA
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTA
48788 TAAACCTGCA
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
Found at i:52309 original size:21 final size:21
Alignment explanation
Indices: 52285--52337 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
52275 TATAGTCTGC
*
52285 CACGTCAATACCATAAATTGT
1 CACGTCAACACCATAAATTGT
* *
52306 CACGTCAACACCGTGAATTGT
1 CACGTCAACACCATAAATTGT
52327 CACGTCAACAC
1 CACGTCAACAC
52338 TGTAACGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (21 bp):
CACGTCAACACCATAAATTGT
Found at i:52419 original size:39 final size:40
Alignment explanation
Indices: 52360--52436 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
52350 CGATAAAAAA
* *
52360 ATGTTGGTTAAAGGATCACATTATA-TTATATTCTGAAAC
1 ATGTTGGTTAAAGGACCACATTAAACTTATATTCTGAAAC
*
52399 ATGTTGGTTAAAGGACCACATTAAACTTTTATTCTGAA
1 ATGTTGGTTAAAGGACCACATTAAACTTATATTCTGAA
52437 TTAAAGGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (40 bp):
ATGTTGGTTAAAGGACCACATTAAACTTATATTCTGAAAC
Found at i:59147 original size:3 final size:3
Alignment explanation
Indices: 59139--59194 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
59129 CCATCTCTTC
59139 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59187 TAT TAT TA
1 TAT TAT TA
59195 GTTTAGGGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:59916 original size:27 final size:29
Alignment explanation
Indices: 59886--59941 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
59876 AATATACTTT
59886 TAATA-AATTCTAATTT-TTATTTAATAG
1 TAATACAATTCTAATTTATTATTTAATAG
* *
59913 TAATACAATTTTTATTTCATTATTTAATA
1 TAATACAATTCTAATTT-ATTATTTAATA
59942 TAGAGTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 9 0.38
30 10 0.42
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
TAATACAATTCTAATTTATTATTTAATAG
Found at i:64656 original size:20 final size:20
Alignment explanation
Indices: 64631--64675 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
64621 TTATCCGAAA
*
64631 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
64651 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
64671 AAAAA
1 AAAAA
64676 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:65399 original size:48 final size:48
Alignment explanation
Indices: 65343--65447 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
65333 TTGTTTTTGG
65343 GTGAGAGAAAAGCAGGGGAGATGTGGGGTTTTATAGGTGAGATCTTGT
1 GTGAGAGAAAAGCAGGGGAGATGTGGGGTTTTATAGGTGAGATCTTGT
65391 GTGAGAGAAAAGCAGGGGAGATGTGGGGTTTTATAGGTGAGATCTTGT
1 GTGAGAGAAAAGCAGGGGAGATGTGGGGTTTTATAGGTGAGATCTTGT
65439 GTGAGAGAA
1 GTGAGAGAA
65448 GAAGTAGAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.29, C:0.04, G:0.42, T:0.26
Consensus pattern (48 bp):
GTGAGAGAAAAGCAGGGGAGATGTGGGGTTTTATAGGTGAGATCTTGT
Found at i:70876 original size:68 final size:68
Alignment explanation
Indices: 70789--71121 Score: 396
Period size: 68 Copynumber: 4.9 Consensus size: 68
70779 TAGGGATTTT
* * *
70789 TTTAGGGTAAACTACCTATTTGGTCACTCATATATTATCTAATTTATGTTTTGATCATTTGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATCACTCGATTA
70854 TTA
66 TTA
* * * *
70857 TTTAGGGTAAACTATCTATTTGGTTACTTATTTATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATCACTCGATTA
70922 TTA
66 TTA
* *
70925 TTTAGGGTAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATCACTCGATTA
70990 TTA
66 TTA
* **
70993 TTTAGGGTAAACTACTAAACTACCTATTTGGTCAC-T-TATATTATCTAATATAAT-TCAT-AT-
1 TTTAGGG--------TAAACTACCTATTTGGTCACTTATATATTATCTAAT-TTATGTTTTGATC
71053 A-T--ATCT-TTA
57 ACTCGAT-TATTA
*
71062 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATCACTC
71122 TATTTTTTTT
Statistics
Matches: 229, Mismatches: 19, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
61 20 0.09
62 4 0.02
63 15 0.07
64 1 0.00
65 1 0.00
66 1 0.00
68 133 0.58
69 12 0.05
70 1 0.00
71 1 0.00
72 1 0.00
73 1 0.00
74 15 0.07
75 4 0.02
76 19 0.08
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (68 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATCACTCGATTA
TTA
Found at i:70923 original size:31 final size:31
Alignment explanation
Indices: 70888--70993 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 31
70878 GGTTACTTAT
70888 TTATTATCTAATTTATGTTTTGGTCACTCGA
1 TTATTATCTAATTTATGTTTTGGTCACTCGA
* ** ** *
70919 TTATTATTTAGGGTAAACTAACTATTTGGTCACT-TA
1 TTATTA--T---CTAATTTATGT-TTTGGTCACTCGA
70955 TATATTATCTAATTTATGTTTTGGTCACTCGA
1 T-TATTATCTAATTTATGTTTTGGTCACTCGA
70987 TTATTAT
1 TTATTAT
70994 TTAGGGTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 16
0.66 0.14 0.19
Matches are distributed among these distances:
31 22 0.40
32 8 0.15
33 1 0.02
35 1 0.02
36 8 0.15
37 15 0.27
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (31 bp):
TTATTATCTAATTTATGTTTTGGTCACTCGA
Found at i:70949 original size:37 final size:36
Alignment explanation
Indices: 70905--71006 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 36
70895 CTAATTTATG
70905 TTTTGGTCACTCGATTATTATTTAGGGTAAACTAAC
1 TTTTGGTCACTCGATTATTATTTAGGGTAAACTAAC
* ** ** **
70941 TATTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATG
1 T-TTTGGTCACTCGATTATTATTTAGGGTAAACTAAC
70973 TTTTGGTCACTCGATTATTATTTAGGGTAAACTA
1 TTTTGGTCACTCGATTATTATTTAGGGTAAACTA
71007 CTAAACTACC
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
31 10 0.21
32 7 0.15
33 5 0.10
34 4 0.08
35 5 0.10
36 7 0.15
37 10 0.21
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (36 bp):
TTTTGGTCACTCGATTATTATTTAGGGTAAACTAAC
Found at i:72939 original size:3 final size:3
Alignment explanation
Indices: 72927--72976 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
72917 ATAACAGATG
72927 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
72971 AAT AAT
1 AAT AAT
72977 GAATTAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:75143 original size:64 final size:65
Alignment explanation
Indices: 75034--75167 Score: 180
Period size: 64 Copynumber: 2.1 Consensus size: 65
75024 AGATGAAAAA
* * * * * * **
75034 TTATTGTTATACTGATTTGAGTGATTGGAAAAATGAATCCTAAGTTTAAGATGGTAAGAATAAAT
1 TTATCGTTATACTAATTTGAGTAATTGGAAAAACGAATCCCAAGTTAAAGATAATAAGAATAAAT
*
75099 TTATCGTT-TACTAATTTGAGTAATTGGAAAAACGAGTCCCAAGTTAAAGATAATAAGAATAAAT
1 TTATCGTTATACTAATTTGAGTAATTGGAAAAACGAATCCCAAGTTAAAGATAATAAGAATAAAT
75163 TTATC
1 TTATC
75168 ATTTTCCTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 53 0.88
65 7 0.12
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (65 bp):
TTATCGTTATACTAATTTGAGTAATTGGAAAAACGAATCCCAAGTTAAAGATAATAAGAATAAAT
Found at i:77658 original size:2 final size:2
Alignment explanation
Indices: 77651--77678 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77641 CGTTATTTGG
77651 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
77679 TTTAGTTTAA
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:82357 original size:106 final size:105
Alignment explanation
Indices: 82083--82345 Score: 348
Period size: 106 Copynumber: 2.5 Consensus size: 105
82073 GACGAAGGGG
* * *
82083 CTTCCCAGTTTCAGAGCCAATTTTAACCTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
1 CTTCCCAGTTTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGGACTCAAGACAATACAAGC
* * **
82148 TCAACTTCACAACGAATGGGTGACTGGTTGTCAACAAACAA
65 TCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAA
* *
82189 CTTCCCAGTTTCAGAGCAAATTTCAACTTCACA-GTAAAGGATATTGGACTCAAGACAGTACAAG
1 CTTCCCAGTTTCAGAGCCAATTTCAACTTCACACG--AAGGATATTGGACTCAAGACAATACAAG
** *
82253 CTCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAA
64 CTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAA
* * *
82295 TTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGAAGGATATTGGACTC
1 CTTCCCAGTTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGGACTC
82346 GGAGCAATAC
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
106 134 0.98
107 1 0.01
108 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (105 bp):
CTTCCCAGTTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGGACTCAAGACAATACAAGCT
CAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAA
Found at i:83019 original size:124 final size:124
Alignment explanation
Indices: 82616--83023 Score: 350
Period size: 124 Copynumber: 3.3 Consensus size: 124
82606 CGCAATTTAC
*
82616 TTGGATTTCAACTTCACGACGAAAGATATCCAATTCCAGGCTCAACTTCACGACGAATGGGCCAC
1 TTGGATTTCAACTTCACGACGAAAGATATCCAATTTCAGGCTCAACTTCACGACGAATGGGCCAC
** *
82681 CCGCAATTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
66 CCGCGGTTTCAACTTCACGATGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
* * * **** * * * * ***
82740 TTGGATTTCAACTTCACGACGAAGGATATCCAA-CTCAAAGAAGGAGTGTCTGTCAACAAATTTT
1 TTGGATTTCAACTTCACGACGAAAGATATCCAATTTC-AGGCTCAACT-TC--ACGACGAATGGG
**** * * * * *
82804 CCAGTTTCAGAGTCAATTCAACTTCACGGTGAAGGATAT--TAGC-CTCGGAA-CAGC-GCAAT-
62 CCACCCGC-G-GT---TTCAACTTCACGATGAAGGAAATCGT-GCACAC--AAGCAGCATCCATC
82863 T---TA
119 TCCATA
*
82866 CTTGGATTTCAACTTCACGACGAAAGATATCCAATTTCAGGCTCAACTTCACGACGAAGGGGCCA
1 -TTGGATTTCAACTTCACGACGAAAGATATCCAATTTCAGGCTCAACTTCACGACGAATGGGCCA
* *
82931 CCCGCGGTTTTAACTTCATGATGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
65 CCCGCGGTTTCAACTTCACGATGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
*
82991 TTGGATTTCAACTTCACGACGAATGATATCCAA
1 TTGGATTTCAACTTCACGACGAAAGATATCCAA
83024 CTCAAATAAT
Statistics
Matches: 207, Mismatches: 54, Indels: 46
0.67 0.18 0.15
Matches are distributed among these distances:
119 21 0.10
120 6 0.03
121 6 0.03
122 3 0.01
123 2 0.01
124 77 0.37
125 4 0.02
126 4 0.02
127 46 0.22
128 2 0.01
129 2 0.01
130 6 0.03
131 6 0.03
132 22 0.11
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (124 bp):
TTGGATTTCAACTTCACGACGAAAGATATCCAATTTCAGGCTCAACTTCACGACGAATGGGCCAC
CCGCGGTTTCAACTTCACGATGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
Found at i:83177 original size:251 final size:252
Alignment explanation
Indices: 82293--83142 Score: 1342
Period size: 251 Copynumber: 3.4 Consensus size: 252
82283 GTCAACAAAC
* * ** ** * * * ***
82293 AATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGAAGGATATTGGACTCGGAGCAATACAA
1 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
* * * *
82358 CTTACTCGGATTTCAACTTCACGACGAAGGATATCCAATTCTTAGGCTCAACTTCACGACGAAGG
66 TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTC-CAGGCTCAACTTCACGACGAAGG
* * *
82423 GGCCACCTGTGGTTTCAACTTCACGACGAAGGAAATCGTGCATACAAGCAGCATCCATCTCCATA
130 GGCCACCCGCGGTTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATA
** *
82488 TTGGATTTCAACTTCATTACAAAGGATATCCAACTCAAAGAATGAGTGTCTGTCAACA
195 TTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAATGAGTGTCTGTCAACA
*
82546 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTGGCCTCGGAACAGCGCAA
1 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
*
82611 TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTCCAGGCTCAACTTCACGACGAATGG
66 TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTCCAGGCTCAACTTCACGACGAAGGG
**
82676 GCCACCCGCAATTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATAT
131 GCCACCCGCGGTTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATAT
*
82741 TGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTCTGTCAACA
196 TGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAATGAGTGTCTGTCAACA
82798 AATTTTCCAGTTTCAGAGTCAA-TTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
1 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
*
82862 TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTTCAGGCTCAACTTCACGACGAAGGG
66 TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTCCAGGCTCAACTTCACGACGAAGGG
* * *
82927 GCCACCCGCGGTTTTAACTTCATGATGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATAT
131 GCCACCCGCGGTTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATAT
* *
82992 TGGATTTCAACTTCACGACGAATGATATCCAACTCAAATAATGAGTGTCTGTCAACA
196 TGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAATGAGTGTCTGTCAACA
* *
83049 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGCCTCGGAACAGCGCAA
1 AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
* *
83114 CTTACATTGGATTTCAACTTCACAACGAA
66 TTTAC-TTGGATTTCAACTTCACGACGAA
83143 GGGGCCATCC
Statistics
Matches: 555, Mismatches: 40, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
251 240 0.43
252 201 0.36
253 114 0.21
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (252 bp):
AATTTTCCAGTTTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGCCTCGGAACAGCGCAA
TTTACTTGGATTTCAACTTCACGACGAAAGATATCCAATTCCAGGCTCAACTTCACGACGAAGGG
GCCACCCGCGGTTTCAACTTCACGACGAAGGAAATCGTGCACACAAGCAGCATCCATCTCCATAT
TGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAATGAGTGTCTGTCAACA
Found at i:84851 original size:2 final size:2
Alignment explanation
Indices: 84844--84875 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
84834 CGTTATTTGG
84844 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
84876 TTTAGTTTAA
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:86537 original size:19 final size:19
Alignment explanation
Indices: 86513--86549 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
86503 ATGACCAATA
*
86513 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
86532 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
86550 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:86640 original size:21 final size:21
Alignment explanation
Indices: 86594--86647 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
86584 GATTTTGACT
86594 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAA
* * **
86615 TTCGCGTTGCGATTTTGTAAA
1 ATCGCATTGCGATTTTCCAAA
*
86636 ATCGCAATGCGA
1 ATCGCATTGCGA
86648 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCAAA
Found at i:86679 original size:20 final size:20
Alignment explanation
Indices: 86656--86766 Score: 143
Period size: 20 Copynumber: 5.5 Consensus size: 20
86646 GAATATGTAA
86656 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
86676 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* **
86696 ATCGCAACACGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
* *
86716 AATCACAACGTGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
86737 ATCACAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
86757 ATCGCAACGC
1 ATCGCAACGC
86767 AATAATAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:86725 original size:61 final size:61
Alignment explanation
Indices: 86654--86791 Score: 204
Period size: 61 Copynumber: 2.3 Consensus size: 61
86644 GCGAATATGT
* * *
86654 AAATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACACGATAATACA
1 AAATCGCAACGCGATTCTGACTATCACAACGCGATTCTGACTATCGCAACACAATAATAAA
* * * *
86715 TAATCACAACGTGATTCTGACTATCACAACGCGATTCTGACTATCGCAACGCAATAATAAA
1 AAATCGCAACGCGATTCTGACTATCACAACGCGATTCTGACTATCGCAACACAATAATAAA
*
86776 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
86792 TTCAAAGCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (61 bp):
AAATCGCAACGCGATTCTGACTATCACAACGCGATTCTGACTATCGCAACACAATAATAAA
Found at i:87376 original size:19 final size:19
Alignment explanation
Indices: 87338--87439 Score: 96
Period size: 20 Copynumber: 5.2 Consensus size: 19
87328 AAAATCGCAA
*
87338 CGATAGTCAAATTCGCGTTG
1 CGATAGTC-ATTTCGCGTTG
* *
87358 CAATAGTCATTTCGTGTTG
1 CGATAGTCATTTCGCGTTG
* **
87377 TGATTTTCATTTCGCGTTG
1 CGATAGTCATTTCGCGTTG
* *
87396 TGATAGTCAAATTCGCGTTG
1 CGATAGTC-ATTTCGCGTTG
*
87416 CGATAGTCATTTTCGTGTTG
1 CGATAGTCA-TTTCGCGTTG
87436 CGAT
1 CGAT
87440 TTTAAGTTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
19 30 0.45
20 36 0.55
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.40
Consensus pattern (19 bp):
CGATAGTCATTTCGCGTTG
Found at i:89377 original size:20 final size:20
Alignment explanation
Indices: 89352--89420 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
89342 CGAAACTTAA
*
89352 ATCGCAACGCGAAAATGATT
1 ATCGCAACGCGAAAATGACT
*
89372 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
89392 ATCGCAACGCGAAGTTGACT
1 ATCGCAACGCGAAAATGACT
*
89412 ATCACAACG
1 ATCGCAACG
89421 GGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:89509 original size:19 final size:19
Alignment explanation
Indices: 89487--89611 Score: 93
Period size: 19 Copynumber: 6.7 Consensus size: 19
89477 CTATCGCAAC
*
89487 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
89506 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
89525 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGCGTT
*
89544 GCGA--TTA---TCTCGTT
1 GCGATTTTAGTTTCGCGTT
* *
89558 GCGATAGTCA-TTTCCGCGTT
1 GCGAT-TTTAGTTT-CGCGTT
* *
89578 GCGATTTAAGTTTCGTGTT
1 GCGATTTTAGTTTCGCGTT
89597 GCGATTTTAAGTTTC
1 GCGATTTT-AGTTTC
89612 AGAAACTATT
Statistics
Matches: 85, Mismatches: 12, Indels: 17
0.75 0.11 0.15
Matches are distributed among these distances:
14 9 0.11
16 3 0.04
17 2 0.02
19 48 0.56
20 23 0.27
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:89591 original size:20 final size:21
Alignment explanation
Indices: 89568--89611 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
89558 GCGATAGTCA
89568 TTTCCGCGTTGCGA-TTTAAG
1 TTTCCGCGTTGCGATTTTAAG
*
89588 TTT-CGTGTTGCGATTTTAAG
1 TTTCCGCGTTGCGATTTTAAG
89608 TTTC
1 TTTC
89612 AGAAACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.48
Consensus pattern (21 bp):
TTTCCGCGTTGCGATTTTAAG
Found at i:90117 original size:21 final size:21
Alignment explanation
Indices: 90089--90187 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
90079 GACTTACCTG
*
90089 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
90109 TCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * *
90131 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * *
90152 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTA
*
90173 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
90188 TCTCTCCCAC
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:90186 original size:42 final size:42
Alignment explanation
Indices: 90085--90207 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
90075 GCCCGACTTA
* * * *
90085 CCTGTCATCGTTCAAGAGGCCTCTTCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
* ** *
90127 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
* * * * *
90169 CCTGTCATCGTTGAAGAGGTCTCTCCCACCATTTAAGAG
1 CCTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAG
90208 CTCGATTCAT
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:91783 original size:20 final size:20
Alignment explanation
Indices: 91758--91811 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
91748 AGGTACACTT
*
91758 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
91778 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
*
91798 TCGCAATGCGAAAG
1 TCGCAACGCGAAAG
91812 TCAATTCGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:91865 original size:34 final size:34
Alignment explanation
Indices: 91822--92064 Score: 148
Period size: 34 Copynumber: 6.8 Consensus size: 34
91812 TCAATTCGCG
* * *
91822 TTGCGATAGTCTAGTACGCTTTGCGATTTTCTCA
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
* * *
91856 TTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATACGCGTTGCGAT--T----TTCTCA
* *
91896 TTGCGATAGTCAAATTCGCGTTGTGATTTTCTCA
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
* *
91930 TTGCGATAGTCAAATTCGCGTTGCGATTTT-TGCG
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCT-CA
* * * * * *
91964 TTGCGATAGTCATATTCACGTTGAGAAAGTCATATTCACG
1 TTGCGATAGTCAAATACGCGTTGCG--A-T--T-TTCTCA
* * *
92004 TTGCGATAGTCATATTCGCGTTGCGATTTT-TGA
1 TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
* **
92037 GTTGCGATAATCAAATTTGCGTTGCGAT
1 -TTGCGATAGTCAAATACGCGTTGCGAT
92065 AGTCAAATTC
Statistics
Matches: 169, Mismatches: 25, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
33 1 0.01
34 105 0.62
35 1 0.01
36 2 0.01
37 2 0.01
38 2 0.01
39 1 0.01
40 55 0.33
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (34 bp):
TTGCGATAGTCAAATACGCGTTGCGATTTTCTCA
Found at i:91898 original size:74 final size:74
Alignment explanation
Indices: 91814--91956 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 74
91804 TGCGAAAGTC
* * *
91814 AATTCGCGTTGCGATAGTCTAGTACGCTTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
91879 CGATAATCA
66 CGATAATCA
* * * *
91888 AATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTCTCATTGCGATAGTCAAATTCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
91953 CGAT
66 CGAT
91957 TTTTGCGTTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
CGATAATCA
Found at i:91911 original size:20 final size:20
Alignment explanation
Indices: 91856--92092 Score: 168
Period size: 20 Copynumber: 12.8 Consensus size: 20
91846 GATTTTCTCA
* *
91856 TTGCGATAGTCAAATACCCG
1 TTGCGATAGTCAAATTCGCG
*
91876 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
91896 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* * *
91916 TTGTGAT--T----TTCTCA
1 TTGCGATAGTCAAATTCGCG
91930 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
91950 TTGCGAT--T----TTTGCG
1 TTGCGATAGTCAAATTCGCG
* *
91964 TTGCGATAGTCATATTCACG
1 TTGCGATAGTCAAATTCGCG
* * * *
91984 TTGAGAAAGTCATATTCACG
1 TTGCGATAGTCAAATTCGCG
*
92004 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
92024 TTGCGAT--T----TTTGAG
1 TTGCGATAGTCAAATTCGCG
* *
92038 TTGCGATAATCAAATTTGCG
1 TTGCGATAGTCAAATTCGCG
*
92058 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCG
*
92078 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
92093 GAATGTGTAA
Statistics
Matches: 174, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
14 33 0.19
16 3 0.02
18 3 0.02
20 135 0.78
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:92008 original size:74 final size:74
Alignment explanation
Indices: 91928--92092 Score: 222
Period size: 74 Copynumber: 2.2 Consensus size: 74
91918 GTGATTTTCT
* * *
91928 CATTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCATATTCACGTTGAGAAAG
1 CATTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCACGTTGAGAAAG
*
91993 TCATATTCA
66 TCAAATTCA
* * ** * *
92002 CGTTGCGATAGTCATATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTTGCGTTGCGATAG
1 CATTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCACGTTGAGAAAG
*
92067 TCAAATTCG
66 TCAAATTCA
*
92076 CATTGCGATATTCAAAT
1 CATTGCGATAGTCAAAT
92093 GAATGTGTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (74 bp):
CATTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCACGTTGAGAAAG
TCAAATTCA
Found at i:92082 original size:54 final size:54
Alignment explanation
Indices: 91875--92084 Score: 202
Period size: 54 Copynumber: 3.9 Consensus size: 54
91865 TCAAATACCC
*
91875 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTCTCA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TCA
* *
91930 -TTGCGATAGTCAAATTCGCGTTGCGAT--T----TTTGCGTTGCGATAGTCATATTCA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T--T-TTCA
* * * * *
91982 CGTTGAGA-AAGTCATATTCACGTTGCGATAGTCATATTCGCGTTGCGATTTTTGA
1 -GTTGCGATAA-TCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTCA
* *
92037 GTTGCGATAATCAAATTTGCGTTGCGATAGTCAAATTCGCATTGCGAT
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
92085 ATTCAAATGA
Statistics
Matches: 125, Mismatches: 15, Indels: 31
0.73 0.09 0.18
Matches are distributed among these distances:
48 11 0.09
50 1 0.01
52 5 0.04
53 2 0.02
54 86 0.69
55 5 0.04
56 2 0.02
58 1 0.01
60 12 0.10
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTCA
Found at i:92315 original size:140 final size:140
Alignment explanation
Indices: 92063--92332 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
92053 TTGCGTTGCG
*
92063 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
92128 TAGCAATGTTCAAACTCAAGTTACTAATATATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
92193 AATACACATA
131 AATACACATA
* *
92203 ATAGTCAAATTCGCGTTGCTATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
92268 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
92333 TACAACGTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:95401 original size:41 final size:39
Alignment explanation
Indices: 95355--95483 Score: 134
Period size: 41 Copynumber: 3.2 Consensus size: 39
95345 ACTAAAACCT
* *
95355 GTTGCGAATTTGAAATTCAGTGTTGTGACAGTCAGAATCGC
1 GTTGCG-ATTTGAAATTC-GTGTTGCGATAGTCAGAATCGC
* * *
95396 GTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGC
1 GTTGCGATT-TGAAAT-TCGTGTTGCGATAGTCAGAATCGC
* *
95437 GTTGCGATTT-ACATATTCGTATTGCGATAGTCAAAATCGC
1 GTTGCGATTTGA-A-ATTCGTGTTGCGATAGTCAGAATCGC
95477 GTTGCGA
1 GTTGCGA
95484 ATCTGGAAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
40 33 0.45
41 39 0.53
42 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (39 bp):
GTTGCGATTTGAAATTCGTGTTGCGATAGTCAGAATCGC
Found at i:95437 original size:20 final size:20
Alignment explanation
Indices: 95384--95483 Score: 87
Period size: 20 Copynumber: 5.0 Consensus size: 20
95374 GTGTTGTGAC
95384 AGTCAGAATCGCGTTGCGATT
1 AGTCAGAATCGCGTTGCGA-T
**
95405 ATGT-ATTATCGCGTTGCGAT
1 A-GTCAGAATCGCGTTGCGAT
95425 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
* * * **
95445 -TTACATATTCGTATTGCGAT
1 AGT-CAGAATCGCGTTGCGAT
*
95465 AGTCAAAATCGCGTTGCGA
1 AGTCAGAATCGCGTTGCGA
95484 ATCTGGAAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
19 3 0.05
20 41 0.67
21 15 0.25
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAT
Found at i:95533 original size:19 final size:19
Alignment explanation
Indices: 95509--95545 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95499 TGTGATACTG
*
95509 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
95528 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
95546 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:96475 original size:24 final size:24
Alignment explanation
Indices: 96448--96502 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
96438 AGTTCATTTA
*
96448 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
* **
96472 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
*
96496 CATTCAT
1 CGTTCAT
96503 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (24 bp):
CGTTCATGAACGTTCGGTTATGTT
Found at i:96486 original size:14 final size:14
Alignment explanation
Indices: 96469--96509 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
96459 GTTCGGTTAT
96469 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
96483 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
* *
96497 ATTCATTTATGTT
1 GTTCGTTTATGTT
96510 TAACCCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:97953 original size:70 final size:70
Alignment explanation
Indices: 97872--98012 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
97862 TTTTTTTGGA
97872 TTAGTTACTTGAAAATTTTACTTAAATTTCGTATTAATATATGTTAGCTCACTTTAAAAAAAAAC
1 TTAGTTACTTGAAAATTTTACTTAAATTTCGTATTAATATATGTTAGCTCACTTTAAAAAAAAAC
97937 TGAGT
66 TGAGT
97942 TTAGTTACTTGAAAATTTTACTTAAATTTCGTATTAATATATGTTAGCTCACTTTAAAAAAAAAC
1 TTAGTTACTTGAAAATTTTACTTAAATTTCGTATTAATATATGTTAGCTCACTTTAAAAAAAAAC
98007 TGAGT
66 TGAGT
98012 T
1 T
98013 CGTCACTGAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (70 bp):
TTAGTTACTTGAAAATTTTACTTAAATTTCGTATTAATATATGTTAGCTCACTTTAAAAAAAAAC
TGAGT
Found at i:100268 original size:14 final size:14
Alignment explanation
Indices: 100249--100276 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100239 ATGTTGTTAG
100249 TAAATATTGATATT
1 TAAATATTGATATT
100263 TAAATATTGATATT
1 TAAATATTGATATT
100277 CTTTTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TAAATATTGATATT
Found at i:101576 original size:39 final size:39
Alignment explanation
Indices: 101532--101638 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 39
101522 AAAAATAATT
101532 TAGAATGTTAATGTGAAATAATTTAAGAAATTAAGAATA
1 TAGAATGTTAATGTGAAATAATTTAAGAAATTAAGAATA
* * *
101571 TAGAATGTT-ATGGTGGTAA-AATTTAAGAAATTAGGAATT
1 TAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAAGAATA
* * *
101610 TTGAATGATAGA-GTGAAATAATTTGAGAA
1 TAGAATGTTA-ATGTGAAATAATTTAAGAA
101639 TTATAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
38 5 0.09
39 47 0.84
40 3 0.05
41 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.34
Consensus pattern (39 bp):
TAGAATGTTAATGTGAAATAATTTAAGAAATTAAGAATA
Found at i:102597 original size:21 final size:21
Alignment explanation
Indices: 102571--102644 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
102561 GTGTTCCATT
102571 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
102592 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
102612 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
102633 TCGCGTTGCGAT
1 TCGCGTTGCGAT
102645 TTTCCATTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:102609 original size:41 final size:41
Alignment explanation
Indices: 102564--102667 Score: 199
Period size: 41 Copynumber: 2.5 Consensus size: 41
102554 CAAATTCGTG
102564 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATT
1 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATT
*
102605 TTCCATTTCGCGTTACGATAGTTGAAAATCGCGTTGCGATT
1 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATT
102646 TTCCATTTCGCGTTGCGATAGT
1 TTCCATTTCGCGTTGCGATAGT
102668 CTACAGTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATT
Found at i:102702 original size:41 final size:41
Alignment explanation
Indices: 102656--102747 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
102646 TTCCATTTCG
*
102656 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
1 CGTTGCGATAGTCAACAGTTGTCGTTACGATTTTCCAAATT
* * *
102697 TGTTGCGATAGTCAATAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCAACAGTTGTCGTTACGATTTTCCAAATT
102738 CGTTGCGATA
1 CGTTGCGATA
102748 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTCAACAGTTGTCGTTACGATTTTCCAAATT
Found at i:102725 original size:22 final size:21
Alignment explanation
Indices: 102656--102727 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
102646 TTCCATTTCG
*
102656 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTC-AAAGTTGT
* **
102678 CGTTACGATTTTCCAAA-TT-T
1 CGTTGCGATAGT-CAAAGTTGT
102698 -GTTGCGATAGTCAATAGTTGT
1 CGTTGCGATAGTCAA-AGTTGT
102719 CGTTGCGAT
1 CGTTGCGAT
102728 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 3 0.08
21 3 0.08
22 19 0.50
23 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.39
Consensus pattern (21 bp):
CGTTGCGATAGTCAAAGTTGT
Found at i:102742 original size:19 final size:19
Alignment explanation
Indices: 102677--102746 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
102667 TCTACAGTTG
*
102677 TCGTTACGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* **
102696 TTGTTGCGATAGT-CAATAGTT
1 TCGTTGCGATTTTCCAA-A--T
102717 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
102737 TCGTTGCGAT
1 TCGTTGCGAT
102747 ATTTAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.08
19 20 0.51
20 1 0.03
21 1 0.03
22 11 0.28
23 3 0.08
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:102838 original size:6 final size:6
Alignment explanation
Indices: 102827--102851 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102817 GACACGCATT
102827 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
102852 GACGAGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:103620 original size:21 final size:21
Alignment explanation
Indices: 103557--103620 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
103547 ACAACTGTAG
* *
103557 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAATGCGAAATGCA
* ** *
103578 A-AATCGCAATGCGATTTTCA
1 ACTATCGCAATGCGAAATGCA
103598 ACTATCGCAATGCGAAATGCA
1 ACTATCGCAATGCGAAATGCA
103619 AC
1 AC
103621 GCGAATTTAC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (21 bp):
ACTATCGCAATGCGAAATGCA
Found at i:105653 original size:19 final size:18
Alignment explanation
Indices: 105623--105668 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
105613 AATATGACAT
105623 TTAAAT-AATAAAAAATGA
1 TTAAATAAAT-AAAAATGA
*
105641 TTAAATAAATAAAAGTGA
1 TTAAATAAATAAAAATGA
105659 TTAAAGTAAA
1 TTAAA-TAAA
105669 AATAAGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (18 bp):
TTAAATAAATAAAAATGA
Found at i:109840 original size:18 final size:17
Alignment explanation
Indices: 109809--109851 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
109799 AGATTTAAAT
109809 AGTAAAAAAATGATTAA
1 AGTAAAAAAATGATTAA
109826 A-TAAATAAAAGTGATTAA
1 AGTAAA-AAAA-TGATTAA
109844 AGTAAAAA
1 AGTAAAAA
109852 TAAAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 10 0.43
19 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (17 bp):
AGTAAAAAAATGATTAA
Found at i:111939 original size:7 final size:7
Alignment explanation
Indices: 111927--111957 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
111917 TGTTGGCTAG
111927 TGGATTA
1 TGGATTA
111934 TGGATTA
1 TGGATTA
111941 TGGATTA
1 TGGATTA
111948 TGGATTA
1 TGGATTA
111955 TGG
1 TGG
111958 CTAGTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (7 bp):
TGGATTA
Found at i:111953 original size:21 final size:21
Alignment explanation
Indices: 111927--111974 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
111917 TGTTGGCTAG
* *
111927 TGGATTATGGATTA-TGGATTA
1 TGGATTATGG-CTAGTGAATTA
111948 TGGATTATGGCTAGTGAATTA
1 TGGATTATGGCTAGTGAATTA
111969 TGGATT
1 TGGATT
111975 TAAGAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (21 bp):
TGGATTATGGCTAGTGAATTA
Found at i:113132 original size:6 final size:6
Alignment explanation
Indices: 113121--113359 Score: 208
Period size: 6 Copynumber: 39.2 Consensus size: 6
113111 TGGTATACAC
* * * * * * * *
113121 TATATG TATATG TATACG TATACATA TACATA TACATA TACATG TACATG
1 TATATG TATATG TATATG TAT--ATG TATATG TATATG TATATG TATATG
* * ** * *
113171 TACATG TATATG TATATG TATACG TATACA TATACG TATACG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * * * *
113219 TATACG TATACG TATACG TATACG TATACG TATATG TATACG TATACG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * *
113267 TATACG TATACG TATACGTA TATATA TATATG TATATG TACATG TATATG
1 TATATG TATATG TATA--TG TATATG TATATG TATATG TATATG TATATG
113317 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
113360 TTACATATGA
Statistics
Matches: 211, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
6 204 0.97
8 7 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (6 bp):
TATATG
Found at i:113148 original size:18 final size:18
Alignment explanation
Indices: 113121--113356 Score: 238
Period size: 18 Copynumber: 12.9 Consensus size: 18
113111 TGGTATACAC
113121 TATATGTATATGTATACG
1 TATATGTATATGTATACG
** ** *
113139 TATACATATACATATACA
1 TATATGTATATGTATACG
* * *
113157 TATACATGTACATGTACATG
1 TAT--ATGTATATGTATACG
113177 TATATGTATATGTATACG
1 TATATGTATATGTATACG
** *
113195 TATACATATACGTATACG
1 TATATGTATATGTATACG
*
113213 TATATGTATACGTATACG
1 TATATGTATATGTATACG
* *
113231 TATACGTATACGTATACG
1 TATATGTATATGTATACG
*
113249 TATATGTATACGTATACG
1 TATATGTATATGTATACG
* *
113267 TATACGTATACGTATACG
1 TATATGTATATGTATACG
* *
113285 TATATATATATATGTATATG
1 --TATATGTATATGTATACG
* *
113305 TACATGTATATGTATATG
1 TATATGTATATGTATACG
*
113323 TATATGTATATGTATATG
1 TATATGTATATGTATACG
113341 TATATGTATATGTATA
1 TATATGTATATGTATA
113357 TGTTTACATA
Statistics
Matches: 183, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
18 159 0.87
20 24 0.13
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (18 bp):
TATATGTATATGTATACG
Found at i:117313 original size:7 final size:7
Alignment explanation
Indices: 117303--117398 Score: 183
Period size: 7 Copynumber: 13.7 Consensus size: 7
117293 AGGCAAGGGG
*
117303 GAAGGTT
1 GAAGGTA
117310 GAAGGTA
1 GAAGGTA
117317 GAAGGTA
1 GAAGGTA
117324 GAAGGTA
1 GAAGGTA
117331 GAAGGTA
1 GAAGGTA
117338 GAAGGTA
1 GAAGGTA
117345 GAAGGTA
1 GAAGGTA
117352 GAAGGTA
1 GAAGGTA
117359 GAAGGTA
1 GAAGGTA
117366 GAAGGTA
1 GAAGGTA
117373 GAAGGTA
1 GAAGGTA
117380 GAAGGTA
1 GAAGGTA
117387 GAAGGTA
1 GAAGGTA
117394 GAAGG
1 GAAGG
117399 GACTTGTGGA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
7 88 1.00
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
GAAGGTA
Found at i:120929 original size:11 final size:12
Alignment explanation
Indices: 120902--120944 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
120892 TGTGTAAAAA
*
120902 TAAATATTTAAAT
1 TAAATATAT-AAT
120915 TAAATATAT-AT
1 TAAATATATAAT
120926 TAAATATATAAT
1 TAAATATATAAT
120938 TAAATAT
1 TAAATAT
120945 GGGTCGAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 9 0.32
13 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:128122 original size:13 final size:13
Alignment explanation
Indices: 128104--128142 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
128094 GCAGCTCTTC
128104 CTTAAATTGTTCT
1 CTTAAATTGTTCT
128117 CTTAAATTGTTCT
1 CTTAAATTGTTCT
128130 CTTAAATTGTTCT
1 CTTAAATTGTTCT
128143 TGGTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
CTTAAATTGTTCT
Found at i:129377 original size:2 final size:2
Alignment explanation
Indices: 129370--129404 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
129360 ATTACAAAAT
129370 TA TA 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 TA TA T
129405 TTTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130263 original size:16 final size:16
Alignment explanation
Indices: 130245--130399 Score: 247
Period size: 16 Copynumber: 9.7 Consensus size: 16
130235 TAGTTGGACT
*
130245 GAAAGCAACCCGAACT
1 GAAAGCAACCCGAACC
* *
130261 GAAAGAAACTCGAACC
1 GAAAGCAACCCGAACC
130277 GAAAGCAACCCGAACC
1 GAAAGCAACCCGAACC
* *
130293 GAAAGTAACTCGAACC
1 GAAAGCAACCCGAACC
130309 GAAAGCAACCCGAACC
1 GAAAGCAACCCGAACC
* *
130325 GAAAGCAACTCGAACT
1 GAAAGCAACCCGAACC
130341 GAAAGCAACCCGAACC
1 GAAAGCAACCCGAACC
130357 GAAAGCAACCCGAACC
1 GAAAGCAACCCGAACC
130373 GAAAGCAACCCGAACC
1 GAAAGCAACCCGAACC
130389 GAAAGCAACCC
1 GAAAGCAACCC
130400 AAATTTAGTT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 126 1.00
ACGTcount: A:0.45, C:0.33, G:0.19, T:0.04
Consensus pattern (16 bp):
GAAAGCAACCCGAACC
Found at i:130888 original size:20 final size:20
Alignment explanation
Indices: 130865--130926 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
130855 GATTGGCCTA
*
130865 AAAATATAAAGATTTGCCCG
1 AAAATATAAAGATTAGCCCG
* * *
130885 AAAATATTAAGGTTAACCCG
1 AAAATATAAAGATTAGCCCG
* * *
130905 AAAATCTAAAGACTGGCCCG
1 AAAATATAAAGATTAGCCCG
130925 AA
1 AA
130927 TTGAAAAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (20 bp):
AAAATATAAAGATTAGCCCG
Found at i:131387 original size:18 final size:18
Alignment explanation
Indices: 131364--131413 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
131354 TTTTTGTTTG
131364 GTTGTTCATATTCTTCTA
1 GTTGTTCATATTCTTCTA
131382 GTTGTTCATATTCTTCTA
1 GTTGTTCATATTCTTCTA
*
131400 GTTGTTCATTTTCT
1 GTTGTTCATATTCT
131414 ATGGATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (18 bp):
GTTGTTCATATTCTTCTA
Found at i:133217 original size:12 final size:12
Alignment explanation
Indices: 133200--133225 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
133190 CATTACTGAT
133200 GTATTATATCAA
1 GTATTATATCAA
133212 GTATTATATCAA
1 GTATTATATCAA
133224 GT
1 GT
133226 TTTGCAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (12 bp):
GTATTATATCAA
Found at i:133372 original size:15 final size:15
Alignment explanation
Indices: 133352--133391 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
133342 GTGAAAAGAA
133352 TGAATTAAATGTTCT
1 TGAATTAAATGTTCT
133367 TGAATTAAATGTTCT
1 TGAATTAAATGTTCT
133382 TGAATTAAAT
1 TGAATTAAAT
133392 ATACAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (15 bp):
TGAATTAAATGTTCT
Done.