Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 40
Found at i:4615505 original size:20 final size:20
Alignment explanation
Indices: 4615482--4615545 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
4615472 TATCGCATTA
4615482 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
* ** *
4615502 CGATTTTGT-ATTATCG-GTTA
1 CGA--TAGTCAGAATCGCGTTG
4615522 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
4615542 CGAT
1 CGAT
4615546 TTACATAGGT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 3 0.09
19 5 0.16
20 16 0.50
21 5 0.16
22 3 0.09
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:4615680 original size:21 final size:21
Alignment explanation
Indices: 4615656--4615714 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
4615646 ATTTTCCAAA
4615656 ATCGCAACGCGAATTTGGACT
1 ATCGCAACGCGAATTTGGACT
* *
4615677 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAATTTGGACT
4615698 ATCGCAA--CGAATTTGGA
1 ATCGCAACGCGAATTTGGA
4615715 AAATCGCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.24
21 26 0.76
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGAATTTGGACT
Found at i:4615720 original size:19 final size:19
Alignment explanation
Indices: 4615653--4615722 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 19
4615643 GCGATTTTCC
4615653 AAAATCGCAACGCGAATTTGG
1 AAAATCGCAA--CGAATTTGG
** *
4615674 ACTATCGCAACGTGAACTTGG
1 AAAATCGCAAC--GAATTTGG
**
4615695 ACTATCGCAACGAATTTGG
1 AAAATCGCAACGAATTTGG
4615714 AAAATCGCA
1 AAAATCGCA
4615723 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 15 0.37
21 26 0.63
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
AAAATCGCAACGAATTTGG
Found at i:4615787 original size:46 final size:46
Alignment explanation
Indices: 4615720--4615854 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
4615710 TTGGAAAATC
4615720 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
*
4615766 GCATTGCGATTTTGTATTATCGCATTGAGATAGTCAGAATCGC---
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
** *
4615809 G--TTGCGATTTTGTATTATCGTGTTACGATAGTCAGAATCGCGTT
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
4615853 GC
1 GC
4615855 GATTTACATA
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
41 36 0.45
43 1 0.01
44 1 0.01
46 42 0.52
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (46 bp):
GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
Found at i:4615792 original size:21 final size:21
Alignment explanation
Indices: 4615766--4615828 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
4615756 GAATCGCGTT
4615766 GCATTGCGATTTTGTATTATC
1 GCATTGCGATTTTGTATTATC
* * **
4615787 GCATTGAGA--TAGTCAGAATC
1 GCATTGCGATTTTGT-ATTATC
*
4615807 GCGTTGCGATTTTGTATTATC
1 GCATTGCGATTTTGTATTATC
4615828 G
1 G
4615829 TGTTACGATA
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 3 0.10
20 11 0.37
21 13 0.43
22 3 0.10
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (21 bp):
GCATTGCGATTTTGTATTATC
Found at i:4615826 original size:41 final size:41
Alignment explanation
Indices: 4615716--4615859 Score: 191
Period size: 41 Copynumber: 3.4 Consensus size: 41
4615706 GAATTTGGAA
* *
4615716 AATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCATTGAGATAGTCAG
4615757 AATCGCGTTGCATTGCGATTTTGTATTATCGCATTGAGATAGTCAG
1 AATCGC---G--TTGCGATTTTGTATTATCGCATTGAGATAGTCAG
**
4615803 AATCGCGTTGCGATTTTGTATTATCGTGTT-ACGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCATTGA-GATAGTCAG
4615844 AATCGCGTTGCGATTT
1 AATCGCGTTGCGATTT
4615860 ACATATTTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
40 1 0.01
41 52 0.56
43 1 0.01
46 39 0.42
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCATTGAGATAGTCAG
Found at i:4615857 original size:20 final size:20
Alignment explanation
Indices: 4615784--4615857 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
4615774 ATTTTGTATT
* *
4615784 ATCGCATTGAGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* **
4615804 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGA
* *
4615825 ATCGTGTTACGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
4615845 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
4615858 TTACATATTT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:4615859 original size:312 final size:312
Alignment explanation
Indices: 4615097--4615864 Score: 1372
Period size: 311 Copynumber: 2.5 Consensus size: 312
4615087 AACTTAGACT
4615097 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGA-TTTGTA
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
* *
4615161 TTATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCGTT---ATAGTTAGAAT
66 TTATCGCATTGAGATAGTCAGAATCGCGTTGCGATTTTGTATTATCG-GTTACGATAGTCAGAAT
*
4615223 CGCGTTGCGATTTACATAGGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCGGATACTATCTT
130 CGCGTTGCGATTTACATAGGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCAGATACTATCTT
*
4615288 TTTAGAGAAATTTCTTAAGAAACAAATGCAATGCCACCATCGTTGCGATTTTCCAAAATCGCAAC
195 TTTAGAGAAATTTCTTAAGAAACAAATGCAATACCACCATCGTTGCGATTTTCCAAAATCGCAAC
*
4615353 GCGATCTTGGACTATCGCAACGTGAACTTGGACTATTACAACGAATTTGGAAA
260 GCGATCTTGGACTATCGCAACGTGAACTTGGACTATCACAACGAATTTGGAAA
*
4615406 ATCACATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
4615471 TTATCGCATT-ACGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGGTTACGATAGTCAGAAT
66 TTATCGCATTGA-GATAGTCAGAATCGCGTTGCGATTTTGTATTATCGGTTACGATAGTCAGAAT
4615535 CGCGTTGCGATTTACATAGGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCAGATACTATC-T
130 CGCGTTGCGATTTACATAGGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCAGATACTATCTT
4615599 TTTAGAG-AATTTCTTAAGAAACAAATGCAATACCACCAGTCGTTGCGATTTTCCAAAATCGCAA
195 TTTAGAGAAATTTCTTAAGAAACAAATGCAATACCACCA-TCGTTGCGATTTTCCAAAATCGCAA
*
4615663 CGCGAAT-TTGGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
259 CGCG-ATCTTGGACTATCGCAACGTGAACTTGGACTATCACAACGAATTTGGAAA
4615717 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
4615782 TTATCGCATTGAGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGTGTTACGATAGTCAGAAT
66 TTATCGCATTGAGATAGTCAGAATCGCGTTGCGATTTTGTATTATCG-GTTACGATAGTCAGAAT
4615847 CGCGTTGCGATTTACATA
130 CGCGTTGCGATTTACATA
4615865 TTTATAGGGT
Statistics
Matches: 442, Mismatches: 8, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
309 60 0.14
310 81 0.18
311 191 0.43
312 110 0.25
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (312 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTA
TTATCGCATTGAGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGGTTACGATAGTCAGAATC
GCGTTGCGATTTACATAGGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCAGATACTATCTTT
TTAGAGAAATTTCTTAAGAAACAAATGCAATACCACCATCGTTGCGATTTTCCAAAATCGCAACG
CGATCTTGGACTATCGCAACGTGAACTTGGACTATCACAACGAATTTGGAAA
Found at i:4617826 original size:3 final size:3
Alignment explanation
Indices: 4617818--4617868 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
4617808 GGTTGGGTTC
4617818 TCT TCT TCT TCT TCT TCT TC- TCT TCT TCT TC- TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
4617864 TCT TC
1 TCT TC
4617869 GTTCCCCCCG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:4617841 original size:17 final size:17
Alignment explanation
Indices: 4617815--4617866 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
4617805 AAAGGTTGGG
4617815 TTCTCTTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
4617832 -T-TCTTC-TCTTCTTC
1 TTCTCTTCTTCTTCTTC
4617846 TTCTCTTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
4617863 TTCT
1 TTCT
4617867 TCGTTCCCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.25
15 6 0.19
16 6 0.19
17 12 0.38
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTCTTCTTCTTCTTC
Found at i:4618418 original size:21 final size:19
Alignment explanation
Indices: 4618386--4618424 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
4618376 TGAAGAAATA
4618386 TGATGAATAGTATCGATAC
1 TGATGAATAGTATCGATAC
4618405 TGATGCAATTAGTATCGATA
1 TGATG-AA-TAGTATCGATA
4618425 ATAATGTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
TGATGAATAGTATCGATAC
Found at i:4618990 original size:52 final size:52
Alignment explanation
Indices: 4618886--4619219 Score: 296
Period size: 51 Copynumber: 6.5 Consensus size: 52
4618876 GTGTGTAATT
*
4618886 TAAGAAATTCAT-ATAAGTTTATGAA---CGT-TTGGCACTGTGTGTGCAACT
1 TAAGAAATTCATAATAAGTTTATGAATTTCGTATTGGCACT-TGTGTGCAACC
* * * *
4618934 TAAGAAATTCATAATAAGTTTATGAATTTCCATATTGACAC-TCTGTGCAACT
1 TAAGAAATTCATAATAAGTTTATGAATTT-CGTATTGGCACTTGTGTGCAACC
* * *
4618986 TAAGAAAATC-TAATAAGTTTATGAATTTTGTA-TGGCACTGTGTGTGGAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCGTATTGGCACT-TGTGTGCAACC
* *
4619037 TAAG-AATTAATAATAAGTTTATGAATTT-GTATTGGCACTATGTGTGGAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCGTATTGGCACT-TGTGTGCAACC
* * *
4619088 TAAGAAATTCATAATTAGTTTATGAATTCCGTATTGGCACTATGTGTGCACCC
1 TAAGAAATTCATAATAAGTTTATGAATTTCGTATTGGCACT-TGTGTGCAACC
* * * * * * ** *
4619141 CATGTAA-TCATAATGAGTTTGTGAATTACCGTATCAGCACTAAGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATT-TCGTATTGGCACT-TGTGTGCAACC
* * *
4619194 CACG-AATTCATATTAAGTTTATGAAT
1 TAAGAAATTCATAATAAGTTTATGAAT
4619220 GACCGTATCG
Statistics
Matches: 241, Mismatches: 31, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
48 12 0.05
49 18 0.07
50 8 0.03
51 70 0.29
52 60 0.25
53 67 0.28
54 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (52 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCGTATTGGCACTTGTGTGCAACC
Found at i:4619127 original size:53 final size:53
Alignment explanation
Indices: 4618886--4619259 Score: 317
Period size: 53 Copynumber: 7.3 Consensus size: 53
4618876 GTGTGTAATT
* *
4618886 TAAGAAATTCAT-ATAAGTTTATGAA---CGT-TTGGCACTGTGTGTGCAACT
1 TAAGAAATTCATAATAAGTTTATGAATTCCGTATTGGCACTATGTGTGCAACC
* * * *
4618934 TAAGAAATTCATAATAAGTTTATGAATTTCCATATTGACAC--TCTGTGCAACT
1 TAAGAAATTCATAATAAGTTTATGAA-TTCCGTATTGGCACTATGTGTGCAACC
* ** * *
4618986 TAAGAAAATC-TAATAAGTTTATGAATTTTGTA-TGGCACTGTGTGTGGAACC
1 TAAGAAATTCATAATAAGTTTATGAATTCCGTATTGGCACTATGTGTGCAACC
* * *
4619037 TAAG-AATTAATAATAAGTTTATGAATT-TGTATTGGCACTATGTGTGGAACC
1 TAAGAAATTCATAATAAGTTTATGAATTCCGTATTGGCACTATGTGTGCAACC
* *
4619088 TAAGAAATTCATAATTAGTTTATGAATTCCGTATTGGCACTATGTGTGCACCC
1 TAAGAAATTCATAATAAGTTTATGAATTCCGTATTGGCACTATGTGTGCAACC
* * * * * ** *
4619141 CATGTAA-TCATAATGAGTTTGTGAATTACCGTATCAGCACTAAGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATT-CCGTATTGGCACTATGTGTGCAACC
* * * * * * *
4619194 CACG-AATTCATATTAAGTTTATGAATGACCGTATCGACACTA-GTGTTCAACC
1 TAAGAAATTCATAATAAGTTTATGAAT-TCCGTATTGGCACTATGTGTGCAACC
* * *
4619246 CATGGAATTCATAA
1 TAAGAAATTCATAA
4619260 CGAGCTTATT
Statistics
Matches: 272, Mismatches: 38, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
48 12 0.04
49 18 0.07
50 11 0.04
51 66 0.24
52 72 0.26
53 87 0.32
54 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (53 bp):
TAAGAAATTCATAATAAGTTTATGAATTCCGTATTGGCACTATGTGTGCAACC
Found at i:4619248 original size:105 final size:106
Alignment explanation
Indices: 4619093--4619287 Score: 243
Period size: 106 Copynumber: 1.8 Consensus size: 106
4619083 GAACCTAAGA
* * * * * *
4619093 AATTCATAATTAGTTTATGAATTCCGTATTGGCACTATGTGTGCACCCCATGTAA-TCATAATGA
1 AATTCATAATTAGTTTATGAATACCGTATCGACACTATGTGTGCAACCCATGGAATTCATAACGA
* * *
4619157 GTTTGTGAATTACCGTATCAGCACTAAGTGTGCAACCCACG
66 GCTTATGAATGACCGTATCAGCACTAAGTGTGCAACCCACG
*
4619198 AATTCAT-ATTAAGTTTATGAATGACCGTATCGACACTA-GTGTTCAACCCATGGAATTCATAAC
1 AATTCATAATT-AGTTTATGAAT-ACCGTATCGACACTATGTGTGCAACCCATGGAATTCATAAC
* *
4619261 GAGCTTATTAATGACCGTATCGGCACT
64 GAGCTTATGAATGACCGTATCAGCACT
4619288 GCGTGTGTGC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
104 3 0.04
105 32 0.43
106 40 0.53
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (106 bp):
AATTCATAATTAGTTTATGAATACCGTATCGACACTATGTGTGCAACCCATGGAATTCATAACGA
GCTTATGAATGACCGTATCAGCACTAAGTGTGCAACCCACG
Found at i:4619274 original size:53 final size:53
Alignment explanation
Indices: 4619162--4619287 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 53
4619152 AATGAGTTTG
* ** *
4619162 TGAATTACCGTATC-AGCACTAAGTGTGCAACCCACGAATTCATATTAAGTTTA
1 TGAATGACCGTATCGA-CACTAAGTGTGCAACCCACGAATTCATAACAAGCTTA
* * *
4619215 TGAATGACCGTATCGACACT-AGTGTTCAACCCATGGAATTCATAACGAGCTTA
1 TGAATGACCGTATCGACACTAAGTGTGCAACCCA-CGAATTCATAACAAGCTTA
* *
4619268 TTAATGACCGTATCGGCACT
1 TGAATGACCGTATCGACACT
4619288 GCGTGTGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 12 0.19
53 49 0.79
54 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (53 bp):
TGAATGACCGTATCGACACTAAGTGTGCAACCCACGAATTCATAACAAGCTTA
Found at i:4624914 original size:52 final size:53
Alignment explanation
Indices: 4624789--4625110 Score: 339
Period size: 50 Copynumber: 6.2 Consensus size: 53
4624779 TACCGAATGA
* *
4624789 CACTATGTGTGCAATTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGG
1 CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTC-GTATTGG
*
4624843 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTA-GAATTTCGTATTGG
1 CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCGTATTGG
* * *
4624895 CACTGCGTGTGCAACTTAAGAAA--C-TCATAAGTTTATGAATTTCGTATTGA
1 CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCGTATTGG
* * *
4624945 CACTGTTTGTGCAACTTAAGAAATTCATAAT-AGTTTATGAACTTCCGAATT-G
1 CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATTGG
* **
4624997 -ACAGTGTGTGCAACTTAAG-AATTCATAA-AAGTTTATG-ATTTCCGTATTAA
1 CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT-CGTATTGG
* * **
4625047 CAC--TATGTGCAACCTGAA-AAATTCATAATTTG-TTATGAATTTCCGTATTGG
1 CACTGTGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATTT-CGTATTGG
* *
4625098 CATTATGTGTGCA
1 CACTGTGTGTGCA
4625111 CCCCATGTAA
Statistics
Matches: 227, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
48 2 0.01
49 24 0.11
50 70 0.31
51 33 0.15
52 39 0.17
53 24 0.11
54 35 0.15
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
CACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCGTATTGG
Found at i:4624975 original size:102 final size:102
Alignment explanation
Indices: 4624795--4625099 Score: 313
Period size: 102 Copynumber: 3.0 Consensus size: 102
4624785 ATGACACTAT
* * * * *
4624795 GTGTGCAATTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCATTGTGTGTGCAACTT
1 GTGTGCAACTTAAGAAA--C-TCATAAGTTTATGAATTTC-GTATTGACACTGTATGTGCAACTT
*
4624860 AAGAAATTCATAATAAGTTTA-GAATTTCGTATTGGCACTGC
62 AAGAAATTCATAAT-AGTTTATGAATTTCGTATTGGCACAGC
*
4624901 GTGTGCAACTTAAGAAACTCATAAGTTTATGAATTTCGTATTGACACTGTTTGTGCAACTTAAGA
1 GTGTGCAACTTAAGAAACTCATAAGTTTATGAATTTCGTATTGACACTGTATGTGCAACTTAAGA
* * *
4624966 AATTCATAATAGTTTATGAACTTCCGAATT-G-ACAGT
66 AATTCATAATAGTTTATGAA-TTTCGTATTGGCACAGC
* * *
4625002 GTGTGCAACTTAAG-AATTCATAAAAGTTTATG-ATTTCCGTATTAACAC--TATGTGCAACCTG
1 GTGTGCAACTTAAGAAACTCAT--AAGTTTATGAATTT-CGTATTGACACTGTATGTGCAA-CTT
*
4625063 AA-AAATTCATAAT-TTGTTATGAATTTCCGTATTGGCA
62 AAGAAATTCATAATAGT-TTATGAATTT-CGTATTGGCA
4625100 TTATGTGTGC
Statistics
Matches: 173, Mismatches: 16, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
99 3 0.02
100 37 0.21
101 32 0.18
102 59 0.34
103 25 0.14
104 1 0.01
106 16 0.09
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (102 bp):
GTGTGCAACTTAAGAAACTCATAAGTTTATGAATTTCGTATTGACACTGTATGTGCAACTTAAGA
AATTCATAATAGTTTATGAATTTCGTATTGGCACAGC
Found at i:4625261 original size:52 final size:51
Alignment explanation
Indices: 4625119--4625261 Score: 135
Period size: 53 Copynumber: 2.7 Consensus size: 51
4625109 CACCCCATGT
* * * *
4625119 AATTCATAATGAGTTTGTGAATTAACATATCGCCACTAAGTGTGCAACCCACAG
1 AATTCATAATGAG-TTATGAA-TGACGTATCGACACTAAGTGTGCAA-CCACAG
* * * * *
4625173 AATCCATAATAAGTTATGAACGACCGTATCGACACTAAGTGTGCAA-CTCGG
1 AATTCATAATGAGTTATGAATGA-CGTATCGACACTAAGTGTGCAACCACAG
*
4625224 AATTCATAATGAGCTTATGAATGACTGTATCGGCACTA
1 AATTCATAATGAG-TTATGAATGAC-GTATCGACACTA
4625262 TGTTGCACCC
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
51 15 0.21
52 21 0.29
53 26 0.36
54 11 0.15
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (51 bp):
AATTCATAATGAGTTATGAATGACGTATCGACACTAAGTGTGCAACCACAG
Found at i:4632320 original size:35 final size:36
Alignment explanation
Indices: 4632274--4632361 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
4632264 TTGTTAAAAG
* *
4632274 TTTCAAAGTTTGG-CAAC-CAACTTTGGAAAATGTTT
1 TTTCAAAGTTTGGTAAACGCAACTTTGAAAAATG-TT
***
4632309 TTTCAAAGTTTGGTAAACGTTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGTAAACGCAACTTTGAAAAATGTT
4632345 TTTCAAAGTTTGGTAAA
1 TTTCAAAGTTTGGTAAA
4632362 ATTTTGGTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 13 0.28
36 22 0.48
37 11 0.24
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (36 bp):
TTTCAAAGTTTGGTAAACGCAACTTTGAAAAATGTT
Found at i:4633923 original size:8 final size:7
Alignment explanation
Indices: 4633908--4633951 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
4633898 CATTACATTT
*
4633908 TTAAAAT
1 TTAAAAA
4633915 TTAAAAA
1 TTAAAAA
4633922 TTAAAAA
1 TTAAAAA
4633929 TTAAAAA
1 TTAAAAA
4633936 -TAATAAA
1 TTAA-AAA
4633943 TATAAAAA
1 T-TAAAAA
4633951 T
1 T
4633952 ATGTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
6 3 0.09
7 23 0.70
8 4 0.12
9 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:4650553 original size:26 final size:26
Alignment explanation
Indices: 4650494--4650553 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
4650484 CTGCAAGATA
*
4650494 ATTTTTTAACTTCATTTATTTAACTT
1 ATTTTTTAACTTCATTTAATTAACTT
* * *
4650520 TTTTTTTAATTTGATTTAATTAA-TT
1 ATTTTTTAACTTCATTTAATTAACTT
4650545 ATTTATTTA
1 ATTT-TTTA
4650554 TAGTATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTTTTAACTTCATTTAATTAACTT
Found at i:4659970 original size:34 final size:34
Alignment explanation
Indices: 4659897--4659973 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
4659887 GGATTATATT
* * *
4659897 TATTATTTTATTAGGAATTAAGAAAGATTTAAAA
1 TATTATCTTATTAGGAATTAAGAAAGAATCAAAA
*
4659931 CATTATCTTATTAGGAATT-AGAATAGAATCAAAA
1 TATTATCTTATTAGGAATTAAGAA-AGAATCAAAA
4659965 TATTATCTT
1 TATTATCTT
4659974 TAGTTTATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (34 bp):
TATTATCTTATTAGGAATTAAGAAAGAATCAAAA
Found at i:4667735 original size:2 final size:2
Alignment explanation
Indices: 4667728--4667769 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4667718 TATTCCATTA
4667728 AT AT AT AT AT 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 AT AT AT AT AT
4667770 CAGCAATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4670448 original size:35 final size:35
Alignment explanation
Indices: 4670409--4670524 Score: 101
Period size: 35 Copynumber: 3.1 Consensus size: 35
4670399 GAGAATTGAC
*
4670409 AGTGTTATGCCTTCTTTCGTTCTACTTGAATCAAA
1 AGTGTTATGCCTTCTTTCGTTCTACTTGAATCGAA
* *
4670444 AGTGTGATG-CTTCCTTCCGTTCTACTTTAGATAAAAATCGAA
1 AGTGTTATGCCTT-CTTTCGTTCTAC-TT-G-----AATCGAA
*
4670486 AGTGTTATGCCTCCGTTT-GTTCTACTTGAATCGAA
1 AGTGTTATGCCTTC-TTTCGTTCTACTTGAATCGAA
4670521 AGTG
1 AGTG
4670525 CGATGCTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
34 3 0.05
35 30 0.46
36 2 0.03
37 1 0.02
40 1 0.02
41 2 0.03
42 22 0.34
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (35 bp):
AGTGTTATGCCTTCTTTCGTTCTACTTGAATCGAA
Found at i:4670456 original size:77 final size:77
Alignment explanation
Indices: 4670319--4670627 Score: 347
Period size: 77 Copynumber: 4.0 Consensus size: 77
4670309 TTCTGTCATC
* * * * * *
4670319 GAGAATCGAAAGTGCTATGCC-TCATTTTGCTCTACTTTAATCGAAAAAAGTACGATGCTTCCTT
1 GAGAATTGAAAGTGTTATGCCTTC-TTTCGTTCTACTTGAATC---AAAAGTGCGATGCTTCCTT
4670383 CCATTCTACTTTAGAT
62 CCATTCTACTTTAGAT
* * *
4670399 GAGAATTGACAGTGTTATGCCTTCTTTCGTTCTACTTGAATCAAAAGTGTGATGCTTCCTTCCGT
1 GAGAATTGAAAGTGTTATGCCTTCTTTCGTTCTACTTGAATCAAAAGTGCGATGCTTCCTTCCAT
4670464 TCTACTTTAGAT
66 TCTACTTTAGAT
* * * * *
4670476 AAAAATCGAAAGTGTTATGCCTCCGTTT-GTTCTACTTGAATCGAAAGTGCGATGCTTCCTTCCA
1 GAGAATTGAAAGTGTTATGCCTTC-TTTCGTTCTACTTGAATCAAAAGTGCGATGCTTCCTTCCA
4670540 TTCTACTTTAGAT
65 TTCTACTTTAGAT
* * * * *
4670553 GAGAATTGAAAGTGCTATACC-TCCTTCTGTTCT-GTCTGAATCGAAAAGTGCGATGCTTCTTTC
1 GAGAATTGAAAGTGTTATGCCTTCTTTC-GTTCTACT-TGAATC-AAAAGTGCGATGCTTCCTTC
4670616 CATTCTACTTTA
63 CATTCTACTTTA
4670628 TTCGCCTTTC
Statistics
Matches: 196, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
75 2 0.01
76 2 0.01
77 124 0.63
78 33 0.17
80 33 0.17
81 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (77 bp):
GAGAATTGAAAGTGTTATGCCTTCTTTCGTTCTACTTGAATCAAAAGTGCGATGCTTCCTTCCAT
TCTACTTTAGAT
Found at i:4670489 original size:42 final size:40
Alignment explanation
Indices: 4670372--4670566 Score: 126
Period size: 42 Copynumber: 5.0 Consensus size: 40
4670362 AAAAAAGTAC
* * *
4670372 GATGCTTCCTTCCATTCTACTTTAGATGAGAATTGACAGTGT
1 GATGCTTCCTTCCGTTCTACTTTAGAT-A-AATCGAAAGTGT
* * *
4670414 TATGCCTT-CTTTCGTTCTAC-TT-G---AATCAAAAGTGT
1 GATG-CTTCCTTCCGTTCTACTTTAGATAAATCGAAAGTGT
4670449 GATGCTTCCTTCCGTTCTACTTTAGATAAAAATCGAAAGTGT
1 GATGCTTCCTTCCGTTCTACTTTAGAT--AAATCGAAAGTGT
* * * *
4670491 TATGCCTCCGTT-TGTTCTAC-TT-G---AATCGAAAGTGC
1 GATGCTTCC-TTCCGTTCTACTTTAGATAAATCGAAAGTGT
* *
4670526 GATGCTTCCTTCCATTCTACTTTAGATGAGAATTGAAAGTG
1 GATGCTTCCTTCCGTTCTACTTTAGAT-A-AATCGAAAGTG
4670567 CTATACCTCC
Statistics
Matches: 117, Mismatches: 18, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
34 5 0.04
35 47 0.40
36 4 0.03
37 2 0.02
40 2 0.02
41 4 0.03
42 48 0.41
43 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (40 bp):
GATGCTTCCTTCCGTTCTACTTTAGATAAATCGAAAGTGT
Found at i:4670553 original size:154 final size:156
Alignment explanation
Indices: 4670322--4670627 Score: 422
Period size: 154 Copynumber: 2.0 Consensus size: 156
4670312 TGTCATCGAG
* *
4670322 AATCGAAAGTGCTATGCCTCATTTTGCTCTACTTTAATCGAAAAAAGTACGATGCTTCCTTCCAT
1 AATCGAAAGTGCTATGCCTCAGTTTGCTCTACTTGAATCG--AAAAGTACGATGCTTCCTTCCAT
* * * * *
4670387 TCTACTTTAGATGAGAATTGACAGTGTTATGCCTTCTT-TCGTTCTACT-TGAATC-AAAAGTGT
64 TCTACTTTAGATGAGAATTGAAAGTGCTATACCTCCTTCT-GTTCT-CTCTGAATCGAAAAGTGC
*
4670449 GATGCTTCCTTCCGTTCTACTTTAGATAAA
127 GATGCTTCCTTCCATTCTACTTTAGATAAA
* * * *
4670479 AATCGAAAGTGTTATGCCTCCGTTTGTTCTACTTGAATCG-AAAGTGCGATGCTTCCTTCCATTC
1 AATCGAAAGTGCTATGCCTCAGTTTGCTCTACTTGAATCGAAAAGTACGATGCTTCCTTCCATTC
*
4670543 TACTTTAGATGAGAATTGAAAGTGCTATACCTCCTTCTGTTCTGTCTGAATCGAAAAGTGCGATG
66 TACTTTAGATGAGAATTGAAAGTGCTATACCTCCTTCTGTTCTCTCTGAATCGAAAAGTGCGATG
*
4670608 CTTCTTTCCATTCTACTTTA
131 CTTCCTTCCATTCTACTTTA
4670628 TTCGCCTTTC
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
153 1 0.01
154 66 0.50
155 30 0.23
157 35 0.27
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (156 bp):
AATCGAAAGTGCTATGCCTCAGTTTGCTCTACTTGAATCGAAAAGTACGATGCTTCCTTCCATTC
TACTTTAGATGAGAATTGAAAGTGCTATACCTCCTTCTGTTCTCTCTGAATCGAAAAGTGCGATG
CTTCCTTCCATTCTACTTTAGATAAA
Found at i:4671421 original size:18 final size:18
Alignment explanation
Indices: 4671392--4671460 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
4671382 CATATTTGTT
*
4671392 CCGAATGACCACTATGTC
1 CCGAAGGACCACTATGTC
* *
4671410 CCAAAGGACCACTGATTGTT
1 CCGAAGGACCACT-A-TGTC
* *
4671430 CCGAAGAACCACCATGTC
1 CCGAAGGACCACTATGTC
4671448 CCGAAGGACCACT
1 CCGAAGGACCACT
4671461 GATAATCCCT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 25 0.62
19 2 0.05
20 13 0.32
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.17
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:4671432 original size:38 final size:38
Alignment explanation
Indices: 4671387--4671463 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
4671377 CACTGCATAT
*
4671387 TTGTTCCGAATG-ACCACTATGTCCCAAAGGACCACTGA
1 TTGTTCCGAA-GAACCACCATGTCCCAAAGGACCACTGA
*
4671425 TTGTTCCGAAGAACCACCATGTCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACCATGTCCCAAAGGACCACTGA
4671463 T
1 T
4671464 AATCCCTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (38 bp):
TTGTTCCGAAGAACCACCATGTCCCAAAGGACCACTGA
Found at i:4672121 original size:64 final size:63
Alignment explanation
Indices: 4672031--4672189 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 63
4672021 ATCCCTTGAT
* * * * *
4672031 GGGTGCATCGATGCAC-AATCTATGCATCGGTACA-TAAATCCCATTCAATGTTTTTATTTTAAG
1 GGGTGCATCGATGCACTACT-TGTGCATCGATACACT-AATCACATTCAATG-TTTTATTTTAAA
4672094 G
63 G
* * *
4672095 GGGTGCATCGATGCACTACTTGTGCATTGATACACTAATGACATTCGATGTTTTATTTTAAAG
1 GGGTGCATCGATGCACTACTTGTGCATCGATACACTAATCACATTCAATGTTTTATTTTAAAG
* * *
4672158 GAGTGCATCGATACACCT-CATGTGCATCGATA
1 GGGTGCATCGATGCA-CTACTTGTGCATCGATA
4672190 GACCTTGAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
63 37 0.46
64 40 0.50
65 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (63 bp):
GGGTGCATCGATGCACTACTTGTGCATCGATACACTAATCACATTCAATGTTTTATTTTAAAG
Found at i:4679678 original size:18 final size:18
Alignment explanation
Indices: 4679655--4679691 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4679645 ACTGAATATT
4679655 TGTCCCGAATGG-CCACTA
1 TGTCCCGAA-GGACCACTA
4679673 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4679691 T
1 T
4679692 ATATGTCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4685408 original size:20 final size:18
Alignment explanation
Indices: 4685365--4685433 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
4685355 AATATTTATC
4685365 CCGAAGGACCACTATGTA
1 CCGAAGGACCACTATGTA
* *
4685383 CCGAAGGACCACTGATTTTT
1 CCGAAGGACCACT-A-TGTA
* *
4685403 CCGAAGAACCACTATGTC
1 CCGAAGGACCACTATGTA
*
4685421 CCGAAAGACCACT
1 CCGAAGGACCACT
4685434 CCTTAAGAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 26 0.62
19 2 0.05
20 14 0.33
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (18 bp):
CCGAAGGACCACTATGTA
Found at i:4685687 original size:24 final size:21
Alignment explanation
Indices: 4685631--4685688 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
4685621 ATATCTTCTC
4685631 ATCACTTTTCATATAAACATGT
1 ATCAC-TTTCATATAAACATGT
4685653 ATTTCAC-TTCATATACACACATGT
1 A--TCACTTTCATATA-A-ACATGT
4685677 GATCACTTTCAT
1 -ATCACTTTCAT
4685689 TATTTCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 15 0.50
25 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (21 bp):
ATCACTTTCATATAAACATGT
Found at i:4685804 original size:2 final size:2
Alignment explanation
Indices: 4685799--4685862 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
4685789 TATATATATA
4685799 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4685841 TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG
4685863 GATGCATGTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4686261 original size:19 final size:19
Alignment explanation
Indices: 4686233--4686283 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
4686223 TGTATTTTAA
4686233 GCATCGATGCACTCCTTAT
1 GCATCGATGCACTCCTTAT
*
4686252 GCATCAATGCACTCCTTAT
1 GCATCGATGCACTCCTTAT
4686271 GCATCGATGCACT
1 GCATCGATGCACT
4686284 AATTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (19 bp):
GCATCGATGCACTCCTTAT
Found at i:4689646 original size:15 final size:17
Alignment explanation
Indices: 4689626--4689657 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4689616 CATAATATAA
4689626 TAAA-TTCAAG-TAGAT
1 TAAATTTCAAGATAGAT
4689641 TAAATTTCAAGATAGAT
1 TAAATTTCAAGATAGAT
4689658 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 6 0.40
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (17 bp):
TAAATTTCAAGATAGAT
Found at i:4691798 original size:25 final size:25
Alignment explanation
Indices: 4691745--4691798 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
4691735 TAGGGTAACT
*
4691745 ATTTTATGAGATTTAATGCAGTATA
1 ATTTTATGAGATTTAATGCACTATA
* * *
4691770 ATTTTATGAGATTTACTGGACTATG
1 ATTTTATGAGATTTAATGCACTATA
4691795 ATTT
1 ATTT
4691799 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (25 bp):
ATTTTATGAGATTTAATGCACTATA
Found at i:4693252 original size:30 final size:30
Alignment explanation
Indices: 4693207--4693269 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4693197 ACGTAGGCAG
* * *
4693207 GTGGTAGCCCTTCAAGATGATATTTTTGAT
1 GTGGTAGCCCCTCAAGATGAGATTTTTAAT
*
4693237 GTGGTATCCCCTCAAGATGAGATTTTTAAT
1 GTGGTAGCCCCTCAAGATGAGATTTTTAAT
4693267 GTG
1 GTG
4693270 CTGGTGAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (30 bp):
GTGGTAGCCCCTCAAGATGAGATTTTTAAT
Found at i:4697960 original size:13 final size:13
Alignment explanation
Indices: 4697930--4697964 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
4697920 GACCGGTTCG
*
4697930 ACCCGACCCGTTG
1 ACCCGACCCGTTA
4697943 A-CCGACCCGTTA
1 ACCCGACCCGTTA
4697955 ACCCGACCCG
1 ACCCGACCCG
4697965 ACCCGGTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.11
Consensus pattern (13 bp):
ACCCGACCCGTTA
Found at i:4699082 original size:25 final size:25
Alignment explanation
Indices: 4699030--4699082 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4699020 AGGGTAACTC
*
4699030 TTTTATGAGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
4699055 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATAA
4699080 TTT
1 TTT
4699083 GTTTAATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:4701002 original size:33 final size:33
Alignment explanation
Indices: 4700936--4701026 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
4700926 TTTCAATATG
* * *
4700936 TTCGGGTTGCTTTTGGGTCAGGTT-AAATTCGA
1 TTCGGGTTGCTTTCGGATCGGGTTAAAATTCGA
*
4700968 TTCGGGTTGCTTTCAGATCGGGTTAAAATTCGA
1 TTCGGGTTGCTTTCGGATCGGGTTAAAATTCGA
* *
4701001 TTCGGGTTTCTTTCGGTTCGGGTTAA
1 TTCGGGTTGCTTTCGGATCGGGTTAA
4701027 TTTTGGATCG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 20 0.39
33 31 0.61
ACGTcount: A:0.15, C:0.14, G:0.30, T:0.41
Consensus pattern (33 bp):
TTCGGGTTGCTTTCGGATCGGGTTAAAATTCGA
Found at i:4701007 original size:17 final size:16
Alignment explanation
Indices: 4700956--4701008 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
4700946 TTTTGGGTCA
4700956 GGTTAAATTCGATTCG
1 GGTTAAATTCGATTCG
***
4700972 GGTTGCTTTCAGA-TCG
1 GGTTAAATTC-GATTCG
4700988 GGTTAAAATTCGATTCG
1 GGTT-AAATTCGATTCG
4701005 GGTT
1 GGTT
4701009 TCTTTCGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (16 bp):
GGTTAAATTCGATTCG
Found at i:4701467 original size:14 final size:14
Alignment explanation
Indices: 4701446--4701487 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4701436 TAGTTCTCTT
4701446 TATA-TATCCATTA
1 TATATTATCCATTA
4701459 TATATTATCCATTA
1 TATATTATCCATTA
* * *
4701473 TCTTTTAACCATTA
1 TATATTATCCATTA
4701487 T
1 T
4701488 TTTTTTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATTATCCATTA
Found at i:4701941 original size:60 final size:60
Alignment explanation
Indices: 4701825--4701942 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 60
4701815 GTCGATGATC
* * *
4701825 ATTTTATAACTTTTAATAGTATGATGACTCAATAAAACAATATTCTAAAATTAAGAGACT
1 ATTTTATAACTTTCAATAGTATGATGACTCAACAAAACAATATTCTAAAATCAAGAGACT
** *
4701885 ATTTTATAACTTTCAATAGTCGA-GA-GACTCAACAAAGTAATA-TCATATAATCAAGAGA
1 ATTTTATAACTTTCAATAGT--ATGATGACTCAACAAAACAATATTC-TAAAATCAAGAGA
4701943 ACATTTGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
59 2 0.04
60 44 0.90
61 2 0.04
62 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (60 bp):
ATTTTATAACTTTCAATAGTATGATGACTCAACAAAACAATATTCTAAAATCAAGAGACT
Found at i:4703430 original size:2 final size:2
Alignment explanation
Indices: 4703423--4703451 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4703413 TTTACCGTTT
4703423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4703452 GTATTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4704770 original size:51 final size:53
Alignment explanation
Indices: 4704672--4704778 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
4704662 TGGTTTGATC
*
4704672 GTGTGCTGTTGCTAGGAGAAGGCGATAGTTGTGGCTAGTTTAACAGAAGGGGT
1 GTGTGATGTTGCTAGGAGAAGGCGATAGTTGTGGCTAGTTTAACAGAAGGGGT
* *
4704725 GTGTGATGTTGCTAGGAGGAGGCGATAGTTTTGG-TA-TTTAACAGAAGGGGT
1 GTGTGATGTTGCTAGGAGAAGGCGATAGTTGTGGCTAGTTTAACAGAAGGGGT
4704776 GTG
1 GTG
4704779 GACAGTTAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 18 0.35
52 2 0.04
53 31 0.61
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.30
Consensus pattern (53 bp):
GTGTGATGTTGCTAGGAGAAGGCGATAGTTGTGGCTAGTTTAACAGAAGGGGT
Found at i:4722780 original size:15 final size:18
Alignment explanation
Indices: 4722752--4722803 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
4722742 GTGAAGTATG
*
4722752 AATGGCGTTGTTGTGGCA
1 AATGGTGTTGTTGTGGCA
4722770 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTTGTGGCA
4722788 AATGGTGTTGTTGTGG
1 AATGGTGTTGTTGTGG
4722804 TAAGTGTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.15, C:0.06, G:0.40, T:0.38
Consensus pattern (18 bp):
AATGGTGTTGTTGTGGCA
Found at i:4728570 original size:17 final size:17
Alignment explanation
Indices: 4728540--4728576 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4728530 AATTAGTAAT
4728540 AAAACAATAACCTCACAC
1 AAAACAATAACCTCAC-C
4728558 AAAACAA-AACCTCACC
1 AAAACAATAACCTCACC
4728574 AAA
1 AAA
4728577 CACTCCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAACAATAACCTCACC
Found at i:4729251 original size:18 final size:18
Alignment explanation
Indices: 4729224--4729275 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
4729214 GTGAAGTATG
* * *
4729224 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTTGTGGAA
4729242 AATGGTGTTGTTGTGGAA
1 AATGGTGTTGTTGTGGAA
4729260 AATGGTGTTGTTGTGG
1 AATGGTGTTGTTGTGG
4729276 TAAGTGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.17, C:0.06, G:0.40, T:0.37
Consensus pattern (18 bp):
AATGGTGTTGTTGTGGAA
Found at i:4740870 original size:2 final size:2
Alignment explanation
Indices: 4740863--4740893 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4740853 TTGATCTAGC
4740863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4740894 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4740898 original size:2 final size:2
Alignment explanation
Indices: 4740893--4740987 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
4740883 ATATATATAT
4740893 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4740935 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4740977 AG AG AG AG AG A
1 AG AG AG AG AG A
4740988 ATCCCACAGC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4744558 original size:18 final size:18
Alignment explanation
Indices: 4744537--4744578 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4744527 CATTCTTTAT
4744537 TACTTGTGCGATTGTGTA
1 TACTTGTGCGATTGTGTA
4744555 TACTTGTGCGATTGTGTA
1 TACTTGTGCGATTGTGTA
4744573 TACTTG
1 TACTTG
4744579 CACATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (18 bp):
TACTTGTGCGATTGTGTA
Found at i:4752431 original size:19 final size:19
Alignment explanation
Indices: 4752407--4752447 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
4752397 CTAGGGAGTC
*
4752407 GAAAAATATTTTATCTTAT
1 GAAAAATATTTTATCTGAT
4752426 GAAAAATATTTTATCTGAT
1 GAAAAATATTTTATCTGAT
4752445 GAA
1 GAA
4752448 TCTGATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (19 bp):
GAAAAATATTTTATCTGAT
Found at i:4753596 original size:24 final size:24
Alignment explanation
Indices: 4753564--4753619 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
4753554 CTATTCTTTC
4753564 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
4753588 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
4753612 GCTTCAAT
1 GCTTCAAT
4753620 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:4753875 original size:30 final size:30
Alignment explanation
Indices: 4753839--4753904 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
4753829 AGTGAACCGG
* *
4753839 CGGTTCAAACCGGTTTTGCCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTCCCGGTTTTAAGC
**
4753869 CGGTTCACCCCGGTTTTCCCGGTTTTAAGC
1 CGGTTCAAACCGGTTTTCCCGGTTTTAAGC
4753899 CGGTTC
1 CGGTTC
4753905 TTCAGGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.11, C:0.30, G:0.26, T:0.33
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTCCCGGTTTTAAGC
Found at i:4756957 original size:16 final size:17
Alignment explanation
Indices: 4756928--4756960 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4756918 TCTTTCTCTT
4756928 AATCTTCTTTATTTTTC
1 AATCTTCTTTATTTTTC
4756945 AATCTTC-TTATTTTTC
1 AATCTTCTTTATTTTTC
4756961 TTGTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
AATCTTCTTTATTTTTC
Found at i:4762018 original size:37 final size:37
Alignment explanation
Indices: 4761969--4762076 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 37
4761959 TTCATCTCTC
*
4761969 GAGACAATTTCTCTCGAAATAGAATTTTATCTTAC-T
1 GAGACAGTTTCTCTCGAAATAGAATTTTATCTTACTT
* * *
4762005 GAGATAGTTTTCTCCTC-AAAT-GTAATTTTCGTCTCACTT
1 GAGACAG-TTTCT-CTCGAAATAG-AATTTT-ATCTTACTT
*
4762044 GAGACAGTTTCTTTCGAAA-ACGAATTTTATCTT
1 GAGACAGTTTCTCTCGAAATA-GAATTTTATCTT
4762077 GAAAATGATC
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
36 6 0.11
37 20 0.36
38 22 0.39
39 8 0.14
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (37 bp):
GAGACAGTTTCTCTCGAAATAGAATTTTATCTTACTT
Found at i:4762022 original size:73 final size:74
Alignment explanation
Indices: 4761933--4762076 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 74
4761923 TTCTCACTTA
4761933 AGATAGTTTCTTCCTCAAAAGTAATTTTCATCT-CTCGAGACAATTTCTCTCGAAATA-GAATTT
1 AGATAGTTTCTTCCTCAAAAGTAATTTTCATCTACTCGAGACAATTTCTCTCGAAA-ACGAATTT
4761996 TATCTTACTG
65 TATCTTACTG
* * * * *
4762006 AGATAGTTT-TCTCCTCAAATGTAATTTTCGTCTCACTTGAGACAGTTTCTTTCGAAAACGAATT
1 AGATAGTTTCT-TCCTCAAAAGTAATTTTCATCT-ACTCGAGACAATTTCTCTCGAAAACGAATT
4762070 TTATCTT
64 TTATCTT
4762077 GAAAATGATC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
72 1 0.02
73 29 0.47
74 1 0.02
75 31 0.50
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (74 bp):
AGATAGTTTCTTCCTCAAAAGTAATTTTCATCTACTCGAGACAATTTCTCTCGAAAACGAATTTT
ATCTTACTG
Found at i:4762598 original size:11 final size:11
Alignment explanation
Indices: 4762582--4762606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4762572 TTTTATTTTA
4762582 TTATTTAAATT
1 TTATTTAAATT
4762593 TTATTTAAATT
1 TTATTTAAATT
4762604 TTA
1 TTA
4762607 AAATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTAAATT
Found at i:4763944 original size:15 final size:15
Alignment explanation
Indices: 4763924--4763995 Score: 53
Period size: 15 Copynumber: 5.0 Consensus size: 15
4763914 ATGATATTAT
4763924 TTAAATATTAAAAAA
1 TTAAATATTAAAAAA
* *
4763939 TTAAATATCAAAATA
1 TTAAATATTAAAAAA
* *
4763954 TCAAA-AAT-AAAAA
1 TTAAATATTAAAAAA
* *
4763967 -TAAAAAAT-AAAAA
1 TTAAATATTAAAAAA
4763980 TTAAATATTATAAAAA
1 TTAAATATTA-AAAAA
4763996 ATTTAAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
12 3 0.07
13 12 0.27
14 7 0.16
15 17 0.39
16 5 0.11
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAATATTAAAAAA
Found at i:4763974 original size:13 final size:13
Alignment explanation
Indices: 4763956--4763980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4763946 TCAAAATATC
4763956 AAAAATAAAAATA
1 AAAAATAAAAATA
4763969 AAAAATAAAAAT
1 AAAAATAAAAAT
4763981 TAAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:4764367 original size:25 final size:25
Alignment explanation
Indices: 4764304--4764369 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
4764294 AGAAAATATA
* *
4764304 GTAAGTTTTGATTAGTTCAAAATTT
1 GTAAGTCTTGATTAATTCAAAATTT
** * *
4764329 GTAAGTCTCAATTAATTTAAATTTT
1 GTAAGTCTTGATTAATTCAAAATTT
*
4764354 GTAGGTCTTGATTAAT
1 GTAAGTCTTGATTAAT
4764370 CCAGTAAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (25 bp):
GTAAGTCTTGATTAATTCAAAATTT
Found at i:4764599 original size:15 final size:14
Alignment explanation
Indices: 4764562--4764610 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
4764552 ATGTATATTC
4764562 AATTTTTTATTAATTT
1 AATTTTTTATT--TTT
4764578 AATTTTTTATTTTT
1 AATTTTTTATTTTT
*
4764592 AATATTTTTATTTTA
1 AAT-TTTTTATTTTT
4764607 AATT
1 AATT
4764611 GTGTGAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 7 0.23
15 13 0.42
16 11 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTTTTTATTTTT
Found at i:4765178 original size:14 final size:13
Alignment explanation
Indices: 4765157--4765194 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
4765147 AATATTTTTA
4765157 AAAAATTAAATAT
1 AAAAATTAAATAT
*
4765170 AAAATATTAAAAAT
1 AAAA-ATTAAATAT
4765184 AAAAATTAAAT
1 AAAAATTAAAT
4765195 TAATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:4765649 original size:25 final size:25
Alignment explanation
Indices: 4765620--4765684 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
4765610 GAAAACATAG
*
4765620 TAAGTTTTGATTAATTTAAAATTTT-
1 TAAGTCTTGATTAATTT-AAATTTTA
** *
4765645 TAAGTCTCAACTAATTTAAATTTTA
1 TAAGTCTTGATTAATTTAAATTTTA
*
4765670 TAAGTCATGATTAAT
1 TAAGTCTTGATTAAT
4765685 CCAGTAAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (25 bp):
TAAGTCTTGATTAATTTAAATTTTA
Found at i:4765853 original size:19 final size:19
Alignment explanation
Indices: 4765825--4765864 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4765815 ATATATATTC
4765825 AAAAAATTTTA-AATTTTT
1 AAAAAATTTTAGAATTTTT
*
4765843 AAAATAATTTTAGTATTTTT
1 AAAA-AATTTTAGAATTTTT
4765863 AA
1 AA
4765865 TACTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
AAAAAATTTTAGAATTTTT
Found at i:4765899 original size:28 final size:27
Alignment explanation
Indices: 4765868--4765925 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
4765858 TTTTTAATAC
4765868 TTATATTTA-ATTTTTAGTAATTCAATTT
1 TTATATTTAGATTTTTA-T-ATTCAATTT
* *
4765896 TTATCTTTAGTATTTTTATATTTAATTT
1 TTATATTTAG-ATTTTTATATTCAATTT
4765924 TT
1 TT
4765926 TTGAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 18 0.69
29 1 0.04
30 7 0.27
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
TTATATTTAGATTTTTATATTCAATTT
Found at i:4765919 original size:21 final size:21
Alignment explanation
Indices: 4765868--4765919 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
4765858 TTTTTAATAC
*
4765868 TTATATTTAATTTTTAGTAATT
1 TTATATTT-ATCTTTAGTAATT
** * *
4765890 CAATTTTTATCTTTAGTATTT
1 TTATATTTATCTTTAGTAATT
4765911 TTATATTTA
1 TTATATTTA
4765920 ATTTTTTTGA
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATATTTATCTTTAGTAATT
Found at i:4765926 original size:15 final size:15
Alignment explanation
Indices: 4765892--4765958 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
4765882 TAGTAATTCA
* *
4765892 ATTTTTATCTTTAGT
1 ATTTTTATATTTAAT
4765907 ATTTTTATATTTAAT
1 ATTTTTATATTTAAT
*
4765922 TTTTTTGAATATTTGAAT
1 ATTTTT--ATATTT-AAT
* *
4765940 AATTTTATATTTAAA
1 ATTTTTATATTTAAT
4765955 ATTT
1 ATTT
4765959 AAAATAACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 23 0.55
16 6 0.14
17 6 0.14
18 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (15 bp):
ATTTTTATATTTAAT
Found at i:4769180 original size:37 final size:36
Alignment explanation
Indices: 4769121--4769240 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
4769111 ATCCCATTAT
* *
4769121 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
4769156 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
4769193 CA-TTTTCAAAAAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
4769228 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4769241 TTGGTTGCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 34 0.45
36 8 0.11
37 33 0.44
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:4769196 original size:21 final size:20
Alignment explanation
Indices: 4769169--4769232 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
4769159 TTTTTCAAAG
4769169 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
4769189 AAACCATTT-TCAAA-----A
1 AAA-CATTTACCAAACTTTGA
4769204 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
4769224 AAATCATTT
1 AAA-CATTT
4769233 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
20 11 0.32
21 10 0.29
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:4772958 original size:12 final size:12
Alignment explanation
Indices: 4772941--4772969 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4772931 CTAGAGAGAG
4772941 CCGCCATAAGAC
1 CCGCCATAAGAC
4772953 CCGCCATAAGAC
1 CCGCCATAAGAC
4772965 CCGCC
1 CCGCC
4772970 GTGGTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.48, G:0.17, T:0.07
Consensus pattern (12 bp):
CCGCCATAAGAC
Found at i:4773332 original size:16 final size:17
Alignment explanation
Indices: 4773304--4773337 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4773294 CGTATCGCCG
4773304 ACAAAATTTCACTATTC
1 ACAAAATTTCACTATTC
4773321 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
4773337 A
1 A
4773338 TATGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:4773805 original size:36 final size:37
Alignment explanation
Indices: 4773734--4773818 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
4773724 ATCCCATTAT
*
4773734 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
4773770 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
4773806 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4773819 TTGGTTGCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:4781052 original size:12 final size:12
Alignment explanation
Indices: 4781029--4781065 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4781019 GCCCCGATTA
4781029 CCCGATTACCCGG
1 CCCGA-TACCCGG
*
4781042 CCCGATACCCGA
1 CCCGATACCCGG
4781054 CCCGATACCCGG
1 CCCGATACCCGG
4781066 GTATTCATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.19, C:0.49, G:0.22, T:0.11
Consensus pattern (12 bp):
CCCGATACCCGG
Found at i:4783225 original size:29 final size:29
Alignment explanation
Indices: 4783193--4783249 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
4783183 TGTTTAATCA
4783193 GTTTCTAATTTGTATCTTGTATTTATTTG
1 GTTTCTAATTTGTATCTTGTATTTATTTG
*
4783222 GTTTCTAATTTGTATGTTGTATTTATTT
1 GTTTCTAATTTGTATCTTGTATTTATTT
4783250 CAGTCTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.63
Consensus pattern (29 bp):
GTTTCTAATTTGTATCTTGTATTTATTTG
Found at i:4784501 original size:20 final size:20
Alignment explanation
Indices: 4784476--4784513 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4784466 CTATATGAGT
4784476 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
*
4784496 TTGTTTTATTTATGTTTT
1 TTGTTTTATTTATCTTTT
4784514 AAATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:4794494 original size:12 final size:12
Alignment explanation
Indices: 4794477--4794505 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4794467 ATTTATCATT
4794477 TTAAAAACACAC
1 TTAAAAACACAC
4794489 TT-AAAACACAC
1 TTAAAAACACAC
4794500 TTAAAA
1 TTAAAA
4794506 CATCTCCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
TTAAAAACACAC
Found at i:4794496 original size:11 final size:11
Alignment explanation
Indices: 4794480--4794507 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4794470 TATCATTTTA
4794480 AAAACACACTT
1 AAAACACACTT
4794491 AAAACACACTT
1 AAAACACACTT
4794502 AAAACA
1 AAAACA
4794508 TCTCCCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAACACACTT
Found at i:4796734 original size:21 final size:21
Alignment explanation
Indices: 4796708--4796747 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4796698 CAGAACCCCA
*
4796708 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4796729 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4796748 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:4796782 original size:20 final size:21
Alignment explanation
Indices: 4796728--4796790 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
4796718 GATTCCCCTG
4796728 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
4796752 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
4796772 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
4796791 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:4803258 original size:27 final size:26
Alignment explanation
Indices: 4803224--4803311 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 26
4803214 TATCTTATGT
*
4803224 TAAAATATTTTAAAATTAAGATAAGAA
1 TAAAATATTTAAAAATTAAGATAA-AA
* *
4803251 TAAAATATATTCAATAATTTAAAATAATAA
1 TAAAATAT-TT-AA-AAATTAAGATAA-AA
4803281 TATAATATATTTAATAAATTAAGATAAAA
1 TA-AA-ATATTTAA-AAATTAAGATAAAA
4803310 TA
1 TA
4803312 TATACTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 8 0.16
28 2 0.04
29 5 0.10
30 27 0.54
31 4 0.08
32 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (26 bp):
TAAAATATTTAAAAATTAAGATAAAA
Found at i:4803290 original size:30 final size:29
Alignment explanation
Indices: 4803236--4803313 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 29
4803226 AAATATTTTA
*
4803236 AAATTAAGATAAGAATAAAATATATTCAAT
1 AAATTAAGATAA-AATATAATATATTCAAT
* * *
4803266 AATTTAAAATAATAATATAATATATTTAAT
1 AAATTAAGATAA-AATATAATATATTCAAT
4803296 AAATTAAGATAAAATATA
1 AAATTAAGATAAAATATA
4803314 TACTTTGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 6 0.15
30 35 0.85
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (29 bp):
AAATTAAGATAAAATATAATATATTCAAT
Found at i:4804415 original size:21 final size:21
Alignment explanation
Indices: 4804391--4804430 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4804381 GGGGAGTTAG
*
4804391 GTGATGAAGTCAGTGCTTTGC
1 GTGATGAAGTCAGTACTTTGC
*
4804412 GTGATGAGGTCAGTACTTT
1 GTGATGAAGTCAGTACTTT
4804431 ATGTGACAAC
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:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (21 bp):
GTGATGAAGTCAGTACTTTGC
Found at i:4804436 original size:21 final size:21
Alignment explanation
Indices: 4804391--4804436 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4804381 GGGGAGTTAG
* *
4804391 GTGATGAAGTCAGTGCTTTGC
1 GTGATGAAGTCAGTACTTTAC
* *
4804412 GTGATGAGGTCAGTACTTTAT
1 GTGATGAAGTCAGTACTTTAC
4804433 GTGA
1 GTGA
4804437 CAACAATGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.35
Consensus pattern (21 bp):
GTGATGAAGTCAGTACTTTAC
Found at i:4804667 original size:4 final size:4
Alignment explanation
Indices: 4804658--4804703 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
4804648 TTTTTCTGCA
* * * *
4804658 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
4804704 TTAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:4804877 original size:21 final size:21
Alignment explanation
Indices: 4804849--4804944 Score: 131
Period size: 21 Copynumber: 4.6 Consensus size: 21
4804839 TTCATTTGTC
4804849 ATCGTTCAAGAGGCCCCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
4804870 ATCATTCAAGAGGCTCCTCCA
1 ATCGTTCAAGAGGCCCCTCCT
4804891 ATCGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
*
4804911 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
4804933 ACCGTTCAAGAG
1 ATCGTTCAAGAG
4804945 CCCAATTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:4806354 original size:16 final size:16
Alignment explanation
Indices: 4806333--4806368 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4806323 TGTAAATAAG
*
4806333 AATTGTTTTTTTATTT
1 AATTGTTTTGTTATTT
*
4806349 AATTGTTTTGTTGTTT
1 AATTGTTTTGTTATTT
4806365 AATT
1 AATT
4806369 ACAATATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (16 bp):
AATTGTTTTGTTATTT
Found at i:4809027 original size:24 final size:24
Alignment explanation
Indices: 4809000--4809053 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4808990 CTGAAACATC
*
4809000 ATCAAAATCCGAGTATTTACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
4809024 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
4809048 ATCAAA
1 ATCAAA
4809054 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4810015 original size:20 final size:20
Alignment explanation
Indices: 4809990--4810054 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
4809980 AAATAAAAGT
4809990 TGTTGCAAAATTAAAATTCG
1 TGTTGCAAAATTAAAATTCG
*
4810010 TGTTGC-GAATTCGAAAA-TCG
1 TGTTGCAAAATT--AAAATTCG
* **
4810030 AGTTGCAAAAACAAAATTCG
1 TGTTGCAAAATTAAAATTCG
4810050 TGTTG
1 TGTTG
4810055 TGATTTAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 8 0.23
20 21 0.60
21 6 0.17
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTTGCAAAATTAAAATTCG
Found at i:4810075 original size:40 final size:40
Alignment explanation
Indices: 4809989--4810080 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
4809979 AAAATAAAAG
** *
4809989 TTGTTGCAAAATTAAAATTCGTGTTGCGAATTCGAAAATC
1 TTGTTGCAAAAACAAAATTCGTGTTGCGAATTAGAAAATC
** * *
4810029 GAGTTGCAAAAACAAAATTCGTGTTGTGATTTAGAAAATC
1 TTGTTGCAAAAACAAAATTCGTGTTGCGAATTAGAAAATC
*
4810069 TTGTTGCGAAAA
1 TTGTTGCAAAAA
4810081 GGAAACTTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (40 bp):
TTGTTGCAAAAACAAAATTCGTGTTGCGAATTAGAAAATC
Found at i:4810127 original size:21 final size:20
Alignment explanation
Indices: 4810101--4810161 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4810091 GTAGTGAAAA
*
4810101 AGAAATTCGCGTTGCGAATT
1 AGAAATTCGAGTTGCGAATT
*
4810121 CAGAAA-TCAAGTTGCGAATT
1 -AGAAATTCGAGTTGCGAATT
* *
4810141 TGAAATTTCGTGTTGCGAATT
1 AGAAA-TTCGAGTTGCGAATT
4810162 TGGAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
21 17 0.52
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
AGAAATTCGAGTTGCGAATT
Found at i:4810197 original size:41 final size:39
Alignment explanation
Indices: 4810098--4810208 Score: 100
Period size: 41 Copynumber: 2.7 Consensus size: 39
4810088 TGTGTAGTGA
*
4810098 AAAAGAAATTCGCGTTGCGAATTCAGAAATCAAGTTGCG
1 AAAAGAAATTCGCGTTGCGAATTCAGAAATCAAGTTGTG
** * **
4810137 AATTTGAAATTTCGTGTTGCGAATTTGGAAAAT-AACGTTGTG
1 AA-AAGAAA-TTCGCGTTGCGAATTCAG-AAATCAA-GTTGTG
4810179 AGAAAGAAATTCGCGTTGCG-ATTGCAGAAA
1 A-AAAGAAATTCGCGTTGCGAATT-CAGAAA
4810209 CTGAGTTACG
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
39 2 0.04
40 10 0.18
41 28 0.51
42 14 0.25
43 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (39 bp):
AAAAGAAATTCGCGTTGCGAATTCAGAAATCAAGTTGTG
Found at i:4810517 original size:21 final size:21
Alignment explanation
Indices: 4810484--4810532 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
4810474 GCGAATATGT
*
4810484 AAATT-GCTTTGCGATTTTCA
1 AAATTCGCGTTGCGATTTTCA
*
4810504 AAATTCGCGTTGCGATTTTCC
1 AAATTCGCGTTGCGATTTTCA
4810525 AAATTCGC
1 AAATTCGC
4810533 AACGCCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (21 bp):
AAATTCGCGTTGCGATTTTCA
Found at i:4810554 original size:20 final size:20
Alignment explanation
Indices: 4810529--4810575 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4810519 TTTTCCAAAT
4810529 TCGCAACGCCAATATGTAAA
1 TCGCAACGCCAATATGTAAA
* *
4810549 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCCAATATGTAAA
4810569 TCGCAAC
1 TCGCAAC
4810576 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCCAATATGTAAA
Found at i:4810592 original size:20 final size:19
Alignment explanation
Indices: 4810569--4810768 Score: 215
Period size: 20 Copynumber: 10.0 Consensus size: 19
4810559 AATTTGTAAA
*
4810569 TCGCAACACAGAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
*
4810589 TCGCAACGCGGTAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
* *
4810609 TCGTAACGCGATAGTTAAAT
1 TCGCAACGCGA-AGTCAAAT
4810629 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
4810649 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
* *
4810669 TCGCAACACAAAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
4810689 TCGCAACGCGAATTTGT-AAA-
1 TCGCAACGCGAA---GTCAAAT
*
4810709 TCGCAACACAGAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
4810729 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
4810749 TCGCAACGCGAAAGTCAAAT
1 TCGCAACGCG-AAGTCAAAT
4810769 GTTTTTACGC
Statistics
Matches: 156, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.01
19 8 0.05
20 136 0.87
21 8 0.05
22 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAGTCAAAT
Found at i:4810629 original size:40 final size:40
Alignment explanation
Indices: 4810524--4810768 Score: 254
Period size: 40 Copynumber: 6.1 Consensus size: 40
4810514 TGCGATTTTC
* *
4810524 CAAATTCGCAACGCCAATATGT-AAA-TCGCAACGCGAATTTGT
1 CAAATTCGCAACG-CGATA-GTCAAATTCGCAACGCGAA--AGT
* **
4810566 -AAA-TCGCAACACAGA-AGTCAAATTCGCAACGCGGTAGT
1 CAAATTCGCAACGC-GATAGTCAAATTCGCAACGCGAAAGT
* * *
4810604 CAAATTCGTAACGCGATAGTTAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
* *
4810644 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
* *
4810684 CAAATTCGCAACGCGAATTTGT-AAA-TCGCAACAC-AGAAGT
1 CAAATTCGCAACGCG-A-TAGTCAAATTCGCAACGCGA-AAGT
4810724 CAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
4810764 CAAAT
1 CAAAT
4810769 GTTTTTACGC
Statistics
Matches: 174, Mismatches: 17, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
38 7 0.04
39 15 0.09
40 141 0.81
41 8 0.05
42 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
Found at i:4811279 original size:20 final size:19
Alignment explanation
Indices: 4811244--4811297 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
4811234 AATTCGCAAC
4811244 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
4811263 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
4811283 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
4811298 ATAAACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:4813447 original size:21 final size:21
Alignment explanation
Indices: 4813423--4813494 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
4813413 CTTATCATCA
*
4813423 TTCAAGAGGCACCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
4813444 TTCAAGAGGCCCCT-CTCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * *
4813464 ATCGAAGAAGCCCCTCCTACCG
1 TTC-AAGAGGCCCCTCCTATCG
4813486 TTCAAGAGG
1 TTCAAGAGG
4813495 TCTCACCCAC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:4815004 original size:66 final size:62
Alignment explanation
Indices: 4814837--4815009 Score: 197
Period size: 66 Copynumber: 2.7 Consensus size: 62
4814827 TGGGGTACAC
*
4814837 TTTTTTTGCTTTGTTTAATTGAATTTTACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGC-TTGTTTAATTG-A-TTT--A-TAAAAGTTGATTTGTTTAATTGATGAGGAAATAA
4814902 GAT
60 GAT
* * * *
4814905 TTATTTT--TTGATTAATTGATTTATAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTATAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAG-A-T
4814968 ATTTTTTTGCTTGTTTAATTGATTTATAAAAGTTGATTTGTT
1 -TTTTTTTGCTTGTTTAATTGATTTATAAAAGTTGATTTGTT
4815010 GTTTCTAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
60 18 0.20
61 15 0.16
62 1 0.01
63 4 0.04
64 7 0.08
65 10 0.11
66 31 0.34
68 6 0.07
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (62 bp):
TTTTTTTGCTTGTTTAATTGATTTATAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAT
Found at i:4815418 original size:39 final size:39
Alignment explanation
Indices: 4815364--4815450 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
4815354 TCAAGTTGTA
4815364 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
4815403 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
4815442 GATTTTGAT
1 GATTTTGAT
4815451 GAGCATCAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:4816253 original size:20 final size:19
Alignment explanation
Indices: 4816218--4816267 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
4816208 AAATAATGTA
*
4816218 CAACGCGATATCAAATTCG
1 CAACGCGAAATCAAATTCG
*
4816237 CAACGCGAAAGTCAAATTTG
1 CAACGCGAAA-TCAAATTCG
4816257 CAACGCGAAAT
1 CAACGCGAAAT
4816268 AAGTGTTGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (19 bp):
CAACGCGAAATCAAATTCG
Found at i:4819133 original size:12 final size:12
Alignment explanation
Indices: 4819112--4819145 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4819102 GGTTGTGGGT
*
4819112 TTTGAGATTGTG
1 TTTGATATTGTG
4819124 TTTGATATTGTG
1 TTTGATATTGTG
*
4819136 TTTGGTATTG
1 TTTGATATTG
4819146 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:4819956 original size:20 final size:20
Alignment explanation
Indices: 4819914--4819959 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4819904 TTCGCGTTGT
* *
4819914 GAATTTGACTATCGTATTGC
1 GAATTTGACTATCGCATTAC
*
4819934 GAATTTGACTATCGCGTTAC
1 GAATTTGACTATCGCATTAC
4819954 GAATTT
1 GAATTT
4819960 ATTGATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (20 bp):
GAATTTGACTATCGCATTAC
Found at i:4822149 original size:31 final size:31
Alignment explanation
Indices: 4822112--4822179 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
4822102 TTAAAAAAAA
* **
4822112 TAAGATATGGTCACTTTTGTTTTTATTTAAT
1 TAAGATATGATCACTTTCATTTTTATTTAAT
4822143 TAAGATATGATCACTTTCATTTTTATTTAAT
1 TAAGATATGATCACTTTCATTTTTATTTAAT
4822174 TAAGAT
1 TAAGAT
4822180 TTAGTCATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
TAAGATATGATCACTTTCATTTTTATTTAAT
Found at i:4822615 original size:39 final size:37
Alignment explanation
Indices: 4822530--4822616 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 37
4822520 TAGAGTGACA
*
4822530 TTCTAAAATTCTAATTTCTTAAATTTTGATATCATAATG
1 TTCT-AAATTCTAATTTCTTAAATTTT-ATATCATAACG
*
4822569 TTTTAAATTCTTAATTTCTTAAATTATT-TCA-CATTAACG
1 TTCTAAATTC-TAATTTCTTAAATT-TTAT-ATCA-TAACG
4822608 TTCTAAATT
1 TTCTAAATT
4822617 ATTTTTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
38 9 0.22
39 30 0.73
40 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (37 bp):
TTCTAAATTCTAATTTCTTAAATTTTATATCATAACG
Found at i:4826922 original size:60 final size:54
Alignment explanation
Indices: 4826819--4826946 Score: 193
Period size: 60 Copynumber: 2.3 Consensus size: 54
4826809 AATATTATAC
4826819 ATCGGAGATGAAAATTGATGACCCCCCCAGCACACACACACACATACCCATGCA
1 ATCGGAGATGAAAATTGATGACCCCCCCAGCACACACACACACATACCCATGCA
*
4826873 ATCGGAGATGAAAATTGATGACCCCCCCCCCCCCAGCACACACACACACATACCCTTGCA
1 ATCGGAGATGAAAATTGATGA------CCCCCCCAGCACACACACACACATACCCATGCA
4826933 ATCGGAGATGAAAA
1 ATCGGAGATGAAAA
4826947 AGATTCTTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
54 21 0.31
60 46 0.69
ACGTcount: A:0.36, C:0.35, G:0.16, T:0.13
Consensus pattern (54 bp):
ATCGGAGATGAAAATTGATGACCCCCCCAGCACACACACACACATACCCATGCA
Found at i:4830665 original size:2 final size:2
Alignment explanation
Indices: 4830611--4830648 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4830601 TTCTATTATT
4830611 TA TA -A 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 TA TA T
4830649 TTAATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4830905 original size:51 final size:52
Alignment explanation
Indices: 4830779--4830909 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 52
4830769 AGATGTACAT
* * * * *
4830779 ACTTACACTAATGTAAGTATGTGTTAAGTGCTACATTTTTCTTATTTTATTC
1 ACTTACACTAGTGTAAATATGTGTTAAGTGCTACAGTTGTCTTATTTTATTA
* * *
4830831 ACTTACA-TCGGTGT-AATAAGTGTTAAGTGTTACAGTTGT-TTATTTTATTA
1 ACTTACACT-AGTGTAAATATGTGTTAAGTGCTACAGTTGTCTTATTTTATTA
*
4830881 ATTTACACTAGTGTAAATATGTGTTAAGT
1 ACTTACACTAGTGTAAATATGTGTTAAGT
4830910 ACTATATTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
50 20 0.31
51 35 0.54
52 10 0.15
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (52 bp):
ACTTACACTAGTGTAAATATGTGTTAAGTGCTACAGTTGTCTTATTTTATTA
Found at i:4832278 original size:20 final size:19
Alignment explanation
Indices: 4832233--4832282 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
4832223 AAAATAATTA
*
4832233 AAAAAAC-AAATGTTAAAT
1 AAAAAACAAAACGTTAAAT
*
4832251 AAATAAACAAAACGTTAACTT
1 AAA-AAACAAAACGTTAA-AT
4832272 AAAAAACAAAA
1 AAAAAACAAAA
4832283 AGAAACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 4 0.15
20 16 0.59
21 4 0.15
ACGTcount: A:0.68, C:0.10, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAAACAAAACGTTAAAT
Found at i:4834564 original size:106 final size:106
Alignment explanation
Indices: 4834379--4834864 Score: 855
Period size: 106 Copynumber: 4.6 Consensus size: 106
4834369 AAATTGGCTC
4834379 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
4834444 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTAAAATTGGG
66 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
4834485 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
4834550 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
4834591 AAATTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
** *
4834656 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
4834697 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
4834762 ATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * *
4834803 AAATTGTTTATTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGT
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
4834865 AGCACGATAT
Statistics
Matches: 363, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 363 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGG
Found at i:4839037 original size:20 final size:19
Alignment explanation
Indices: 4838992--4839041 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
4838982 AAAATAGTTA
*
4838992 AAAAAAC-AAATGTTAAAT
1 AAAAAACAAAACGTTAAAT
*
4839010 AAATAAACAAAACGTTAACTT
1 AAA-AAACAAAACGTTAA-AT
4839031 AAAAAACAAAA
1 AAAAAACAAAA
4839042 AGAAACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 4 0.15
20 16 0.59
21 4 0.15
ACGTcount: A:0.68, C:0.10, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAAACAAAACGTTAAAT
Found at i:4843262 original size:21 final size:22
Alignment explanation
Indices: 4843212--4843263 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
4843202 GTCGAGGGTT
4843212 CTATGTGGTCCTTCGGAACAAA
1 CTATGTGGTCCTTCGGAACAAA
4843234 CCTATGTGGTCCTTCGGGAA-AAA
1 -CTATGTGGTCCTTC-GGAACAAA
4843257 -TATGTGG
1 CTATGTGG
4843264 CACTTTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.25
23 17 0.61
24 4 0.14
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGAACAAA
Found at i:4846606 original size:85 final size:85
Alignment explanation
Indices: 4846274--4846606 Score: 370
Period size: 85 Copynumber: 3.9 Consensus size: 85
4846264 CGACTTAAGC
* * * * *
4846274 TATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTATTGATAGATAACCCTTCTCGTCTT
1 TATGTCCTTGAGCTGAATGTAATCGAACTCAAAAGTTTTTATTGACAGATAACCCTTCTCGCCTT
* *
4846339 GAGTTTTGCTGTAAATTTGA
66 GAGCTATGCTGTAAATTTGA
* * * * * * **
4846359 TATGTCCTTGAGCTTAATGTAATCAAACT-AGAAGGTTTTAGTTGACAGATAGCCCTTATCGTGT
1 TATGTCCTTGAGCTGAATGTAATCGAACTCAAAAGTTTTTA-TTGACAGATAACCCTTCTCGCCT
* *
4846423 AT-AACTATGTTGTAAATTTG-
65 -TGAGCTATGCTGTAAATTTGA
* * *
4846443 -ATGTCCTTGAGCTGAATGTAATCGAACTCGAATGTTTTT-TGCTGACATATAACCCTTCTCGCC
1 TATGTCCTTGAGCTGAATGTAATCGAACTCAAAAGTTTTTAT--TGACAGATAACCCTTCTCGCC
*
4846506 TTGAGCTATGTTGTAAATTTGA
64 TTGAGCTATGCTGTAAATTTGA
* **
4846528 TATGTCCTTGAGCTGAATGTAATTGAACTCAAAAGTTTTTATTGACAGATAACTATTCTCGCCTT
1 TATGTCCTTGAGCTGAATGTAATCGAACTCAAAAGTTTTTATTGACAGATAACCCTTCTCGCCTT
*
4846593 GAGCTATACTGTAA
66 GAGCTATGCTGTAA
4846607 TACGCTAGGA
Statistics
Matches: 204, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.00
83 27 0.13
84 47 0.23
85 91 0.45
86 37 0.18
87 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (85 bp):
TATGTCCTTGAGCTGAATGTAATCGAACTCAAAAGTTTTTATTGACAGATAACCCTTCTCGCCTT
GAGCTATGCTGTAAATTTGA
Found at i:4849146 original size:16 final size:17
Alignment explanation
Indices: 4849116--4849148 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4849106 ATTTTCAATC
4849116 AAGTTTTCAACAAGTCA
1 AAGTTTTCAACAAGTCA
*
4849133 AAGTTTTGAA-AAGTCA
1 AAGTTTTCAACAAGTCA
4849149 GTGTGACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
AAGTTTTCAACAAGTCA
Found at i:4850599 original size:24 final size:24
Alignment explanation
Indices: 4850567--4850630 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
4850557 GATTCCTTTC
*
4850567 GGTCCCATCGCCTTCCGACTACTT
1 GGTCCCATCACCTTCCGACTACTT
*
4850591 GGTCCCATCACCTTTCGACTACTT
1 GGTCCCATCACCTTCCGACTACTT
* *
4850615 GGTCCCACCCCCTTCC
1 GGTCCCATCACCTTCC
4850631 TCGAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.12, C:0.45, G:0.14, T:0.28
Consensus pattern (24 bp):
GGTCCCATCACCTTCCGACTACTT
Found at i:4853608 original size:111 final size:111
Alignment explanation
Indices: 4853419--4853672 Score: 358
Period size: 111 Copynumber: 2.3 Consensus size: 111
4853409 TGGTGGTTGT
* * * * * *
4853419 TCAACTTCACAGCGAA-GGG-G-C-GACTGT-CAACAAATAACTTTTTAGTTTCATTCAGAGTAA
1 TCAACTTCACAGCGAATGGGCGACTGACTGTAAAAAAAAGAACTTTTGAGTTTCATTCAAAGCAA
* *
4853479 ATTTCAACTTCATAGCG-AATGATATTGGACTCGAGGCAACACAAGC
66 ATTTCAACTTCACAGCGAAAT-ATATTGGACTCGAGACAACACAAGC
* *
4853525 TCAACTTCACAGCGAATGGGCGACTGACTGTAAAAAAAAGAACTTTTGAGTTTCATTTAAAGCCA
1 TCAACTTCACAGCGAATGGGCGACTGACTGTAAAAAAAAGAACTTTTGAGTTTCATTCAAAGCAA
4853590 ATTTCAACTTCACAGCGAAATATATTGGACTCGAGACAACACAAGC
66 ATTTCAACTTCACAGCGAAATATATTGGACTCGAGACAACACAAGC
*
4853636 TCAACTTCACAGTGAATGGGCGACTGACTGTAAAAAA
1 TCAACTTCACAGCGAATGGGCGACTGACTGTAAAAAA
4853673 TGACTTTTCA
Statistics
Matches: 131, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
106 16 0.12
107 3 0.02
108 1 0.01
109 1 0.01
110 6 0.05
111 101 0.77
112 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (111 bp):
TCAACTTCACAGCGAATGGGCGACTGACTGTAAAAAAAAGAACTTTTGAGTTTCATTCAAAGCAA
ATTTCAACTTCACAGCGAAATATATTGGACTCGAGACAACACAAGC
Found at i:4854575 original size:63 final size:64
Alignment explanation
Indices: 4854461--4854604 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 64
4854451 AAATTGTTCA
* * *
4854461 AGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATACACAAG-T
1 AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATACCATCAGTGTATCGATACA-AAGAT
* ** * * *
4854525 AGTGCATCGATGCACCCCCTT-AAATACAAACATCGAATATGATTTA-TGTATCGATGCATAGAT
1 AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATACCA-TCAGTGTATCGATACAAAGAT
4854588 AGTGCATCGATGCACCC
1 AGTGCATCGATGCACCC
4854605 GTCAAGGGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.03
63 46 0.67
64 21 0.30
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATACCATCAGTGTATCGATACAAAGAT
Found at i:4854643 original size:20 final size:20
Alignment explanation
Indices: 4854614--4854662 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4854604 CGTCAAGGGA
*
4854614 TGCATTGATACATGGTGTAG
1 TGCATCGATACATGGTGTAG
*
4854634 TGCATCGATATATGGTGTAG
1 TGCATCGATACATGGTGTAG
4854654 TGCATCGAT
1 TGCATCGAT
4854663 GCATACCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (20 bp):
TGCATCGATACATGGTGTAG
Found at i:4855299 original size:23 final size:23
Alignment explanation
Indices: 4855266--4855325 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
4855256 AACCTTATAT
* *
4855266 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACAC
*
4855289 GGCACTTCGGTGCAATTCTACAT
1 GGCACTTCGGTGCAATTCTACAC
4855312 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
4855326 TTTATACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACAC
Done.